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  • QR1-502  (148)
  • General Chemistry
  • Humans
  • Life and Medical Sciences
  • Frontiers Media SA  (153)
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  • 1
    Publication Date: 2024-04-05
    Description: Virus-caused asthma, we now call a phenotype of asthma. Regardless of the significance and popularity of this disease, the etiology of the virus-induced asthma have not well understood. In addition, a few effective vaccines have been applied to prevent respiratory virus infection. To solve the issues, it is essential to clarify and delineate both aspects of the virus and host defense systems including acute/chronic inflammation and airway tissue remodeling. To deeply review and discuss pathophysiology and epidemiology of virus-induced asthma, this topics includes new findings of the host immunity, pathology, epidemiology, and virology of asthma/chronic obstructive pulmonary disease (COPD). We believe that these works are well summarized and informative to glimpse the field of virus- associated asthma and COPD, and may help understanding the basic and clinical aspects of the diseases.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; virus-induced asthma ; Pathology ; respiratory virus ; human immunity ; Epidemiology ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 2
    Publication Date: 2023-12-21
    Description: Aflatoxins are a group of polyketide mycotoxins that are produced mainly by members of the genus Aspergillus. Production of these toxic secondary metabolites is closely related to fungal development (Keller et al., 2005; Jamali et al., 2012). Contamination of food, feed and agricultural commodities by aflatoxins poses enormous economic and serious health concerns because these chemicals are highly carcinogenic and can directly influence the structure of DNA. The resulting genetic defects can lead to fetal misdevelopment and miscarriages; aflatoxins are also known to suppress immune systems (Razzaghi-Abyaneh et al., 2013). In a global context, aflatoxin contamination is a constant concern between the 35N and 35S latitude where developing countries are mainly situated. With expanding boundaries of developing countries, aflatoxin contamination has become a persistent problem to those emerging areas (Shams-Ghahfarokhi et al., 2013). The continuing threat by aflatoxin contamination of food, feed and agricultural commodities to the world population has made aflatoxin research one of the most exciting and rapidly developing study areas of microbial toxins. The present research topic includes six review articles, three mini reviews and four original research articles. Contributors highlight current global health issues arising from aflatoxins and aflatoxigenic fungi and cover important aspects of aflatoxin research including contamination of crops, epidemiology, molecular biology and management strategies. Special attention is given to fungus-plant host interactions, biodiversity and biocontrol, sexual recombination in aflatoxigenic aspergilli, potential biomarkers for aflatoxin exposure in humans and safe storage programs.
    Keywords: R5-920 ; QR1-502 ; Q1-390 ; TX341-641 ; genetic diversity ; Public Health ; Aspergillus flavus ; Genomics ; MicroRNAs ; Fungus host interactions ; biological control ; aflatoxin ; agricultural crops ; bic Book Industry Communication::M Medicine
    Language: English
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  • 3
    Publication Date: 2024-04-05
    Description: This e-book summarizes recent advances in the young and rapidly developing field of microbial volatiles. Articles included here reveal novel information about the chemical diversity of bacterial and fungal volatiles, their functions, their roles in inter-specific and inter-kingdom interactions and the metabolic and physiological changes their exposure causes in the target organisms. The e-book is divided in three chapters: (1) Natural Functions of Microbial Volatiles; (2) Volatile Production and Ecosystem Functioning and (3) Volatile Detection and Identification.
    Keywords: QR1-502 ; Q1-390 ; microorganisms ; infochemicals ; natural functions ; induced systemic resistance ; Plants ; antimicrobials ; plant growth promotion ; volatiles ; interactions ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 4
    Publication Date: 2024-04-05
    Description: Igneous oceanic crust is one of the largest potential habitats for life on earth, and microbial activity supported by rock-water-microbe reactions in this environment can impact global biogeochemical cycles. However, our understanding of the microbiology of this system, especially the subsurface “deep biosphere” component of it, has traditionally been limited by sample availability and quality. Over the past decade, several major international programs (such as the Center for Dark Energy Biosphere Investigations, the current International Ocean Discovery Program and its predecessor Integrated Ocean Drilling Program, and the Deep Carbon Observatory) have focused on advancing our understanding of life in this cryptic, yet globally relevant, biosphere. Additionally, many field and laboratory research programs are examining hydrothermal vent systems –a seafloor expression of seawater that has been thermally and chemically altered in subseafloor crust – and the microbial communities supported by these mineral-rich fluids. The Frontiers in Microbiology 3 September 2017 | Recent Advances in Geomicrobiology of the Ocean Crust papers in this special issue bring together recent discoveries of microbial presence, diversity and activity in these dynamic ocean environments. Cumulatively, the articles in this special issue serve as a tribute to the late Dr. Katrina J. Edwards, who was a pioneer and profound champion of studying microbes that “rust the crust”. This special issue volume serves as a foundation for the continued exploration of the subsurface ocean crust deep biosphere.
    Keywords: QR1-502 ; Q1-390 ; IODP ; deep biosphere ; hydrothermal vents ; Geomicrobiology ; ocean crust ; iron oxidation ; sulfate reduction ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 5
    Publication Date: 2024-04-05
    Description: Water is usually referred to as the ‘Molecule of Life’. It constitutes the most abundant molecule in living (micro)organisms and is also essential for critical biochemical reactions, both for the global functioning and maintenance of Ecosystems (e.g., Photosynthesis) and individual (microbial) cells (e.g., ATP hydrolysis). However, most of Earth’s terrestrial environments present deficiencies in bioavailable water. Arid environments cover around a third of the land’s surface, are found on the six continents and, with the anthropogenic desertification phenomenon, will increase. Commonly defined by having a ratio of precipitation to potential evapotranspiration (P/PET) below 1, arid environments, being either hot or cold, are characterized by scant and erratic plant growth and low densities in macro-fauna. Consequently, these ecosystems are microbially mediated with microbial communities particularly driving the essential Na and C biogeochemical cycles. Due to the relatively simple trophic structure of these biomes, arid terrestrial environments have subsequently been used as ideal ecosystems to capture and model interactions in edaphic microbial communities. To date, we have been able to demonstrate that edaphic microorganisms (i.e., Fungi, Bacteria, Archaea, and Viruses) in arid environments are abundant, highly diverse, different from those of other terrestrial systems (both in terms of diversity and function), and are important for the stability and productivity of these ecosystems. Moreover, arid terrestrial systems are generally considered Mars-like environments. Thus, they have been the favored destination for astro(micro)biologists aiming to better understand life’s potential distribution and adaptation strategies in the Universe and develop terraforming approaches. Altogether, these points demonstrate the importance of significantly improving our knowledge in the microbial community composition (particularly for Fungi, Archaea and Viruses), assembly processes and functional potentials of arid terrestrial systems, as well as their adaptation mechanisms to aridity (and generally to various other environmental stresses). This Research Topic was proposed to provide further insights on the microbial ecology of hot and cold arid edaphic systems. We provide a detailed review and nine research articles, spanning hot and cold deserts, edaphic, rhizospheric, BSC and endolithic environments as well as culture-dependent and -independant approaches.
    Keywords: QR1-502 ; Q1-390 ; xeric stress ; Arid environment ; desert ; Nitrogen ; environmental gradients ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 6
    Publication Date: 2024-04-05
    Description: The transmission route used by many bacterial pathogens of clinical importance includes a step outside the host; thereafter refer to as the non-clinical environment (NCE). Obvious examples include foodborne and waterborne pathogens and also pathogens that are transmitted by hands or aerosols. In the NCE, pathogens have to cope with the presence of toxic compounds, sub-optimal temperature, starvation, presence of competitors and predators. Adaptation of bacterial pathogens to such stresses affects their interaction with the host. This Research Topic presents important concept to understand the life of bacterial pathogens in the NCE and provides the reader with an overview of the strategies used by bacterial pathogens to survive and replicate outside the host.
    Keywords: QR1-502 ; Q1-390 ; Persistence ; Clostridium botulinum ; Listeria ; Escherichia coli ; Biofilm ; packaging ; Legionella ; Viable but non culturable ; Pseudomonas ; protozoa ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 7
    Publication Date: 2024-04-05
    Description: Fungal infections represent nowadays a significant burden on the healthcare system of most of the countries, and are among the infections with the highest mortality rates. This has fostered the study of the interaction of these organisms with the human host. The outer most layer of a fungal cell is the cell wall, and together with the secreted components into the extracellular compartment, are the first lines of contact with the host cells. This interaction is critical for tissue adhesion, colonization and damage. In addition, these fungal extracellular components will define the outcome of the interaction with the host immune cells, leading either to the establishment of a protective antifungal immune response or to an immune-evasive mechanism by the fungal cell. On the other hand, our immune system has effectively evolved to deal with fungal pathogens, developing strategies for cell eradication, burden control, or antigen presentation from the innate branch to the adaptive immune response. Here, we provide a series of comprehensive review papers dealing with both aspect of the interaction fungus-immune cells: the role of virulence factors and cell wall components during such interaction, and the recent advances in the study of cellular receptors in the establishment of a protective anti-fungal immune response.
    Keywords: QR1-502 ; Q1-390 ; Candida albicans ; Cell Wall ; Aspergillus ; Histoplasma ; melanin ; Paraccocidioides ; Cryptococcus ; Dermatophytes ; host-fungus interaction ; Candida parapsilosis ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 8
    Publication Date: 2024-04-05
    Description: Historically, the first observation of a transmissible lytic agent that is specifically active against a bacterium (Bacillus anthracis) was by a Russian microbiologist Nikolay Gamaleya in 1898. At that time, however, it was too early to make a connection to another discovery made by Dmitri Ivanovsky in 1892 and Martinus Beijerinck in 1898 on a non-bacterial pathogen infecting tobacco plants. Thus the viral world was discovered in two of the three domains of life, and our current understanding is that viruses represent the most abundant biological entities on the planet. The potential of bacteriophages for infection treatment have been recognized after the discoveries by Frederick Twort and Felix d’Hérelle in 1915 and 1917. Subsequent phage therapy developments, however, have been overshadowed by the remarkable success of antibiotics in infection control and treatment, and phage therapy research and development persisted mostly in the former Soviet Union countries, Russia and Georgia, as well as in France and Poland. The dramatic rise of antibiotic resistance and especially of multi-drug resistance among human and animal bacterial pathogens, however, challenged the position of antibiotics as a single most important pillar for infection control and treatment. Thus there is a renewed interest in phage therapy as a possible additive/alternative therapy, especially for the infections that resist routine antibiotic treatment. The basis for the revival of phage therapy is affected by a number of issues that need to be resolved before it can enter the arena, which is traditionally reserved for antibiotics. Probably the most important is the regulatory issue: How should phage therapy be regulated? Similarly to drugs? Then the co-evolving nature of phage-bacterial host relationship will be a major hurdle for the production of consistent phage formulae. Or should we resort to the phage products such as lysins and the corresponding engineered versions in order to have accurate and consistent delivery doses? We still have very limited knowledge about the pharmacodynamics of phage therapy. More data, obtained in animal models, are necessary to evaluate the phage therapy efficiency compared, for example, to antibiotics. Another aspect is the safety of phage therapy. How do phages interact with the immune system and to what costs, or benefits? What are the risks, in the course of phage therapy, of transduction of undesirable properties such as virulence or antibiotic resistance genes? How frequent is the development of bacterial host resistance during phage therapy? Understanding these and many other aspects of phage therapy, basic and applied, is the main subject of this Topic.
    Keywords: QR1-502 ; Q1-390 ; lysins ; bacteriophage therapy ; bacterial infection treatment ; biofilms ; immunology ; biocontrol ; regulatory issues ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 9
    Publication Date: 2022-01-31
    Description: Biodegradation mediated by indigenous microbial communities is the ultimate fate of the majority of oil hydrocarbon that enters the marine environment. The aim of this Research Topic is to highlight recent advances in our knowledge of the pathways and controls of microbially-catalyzed hydrocarbon degradation in marine ecosystems, with emphasis on the response of microbial communities to the Deepwater Horizon oil spill in the Gulf of Mexico. In this Research Topic, we encouraged original research and reviews on the ecology of hydrocarbon-degrading bacteria, the rates and mechanisms of biodegradation, and the bioremediation of discharged oil under situ as well as near in situ conditions.
    Keywords: GC1-1581 ; QR1-502 ; Q1-390 ; Biodegradation ; Metagenomics ; oil spill ; metatran ; bacterioplankton ; Bacteria ; Gulf of Mexico ; microbial communities ; hydrocarbon ; Deepwater Horizon
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  • 10
    Publication Date: 2024-04-05
    Description: Phage biology is one of the most significant and fundamental aspects of biological research and is often used as a platform for model studies relating to more complex biological entities. For this reason, phage biology has enjoyed focused attention and significant advances have been made in the areas of phage genomics, transcriptomics and the development and characterisation of phage-resistance mechanisms. In recent years, considerable research has been performed to increase our understanding of the interactions of these phages with their hosts using genomic, biochemical and structural approaches. Such multidisciplinary approaches are core to developing a full understanding of the processes that govern phage infection, information that may be harnessed to develop anti-phage strategies that may be applied in food fermentations or applied in a positive sense in phage therapy applications. The co-evolutionary processes of these phages and their hosts have also been a considerable focus of research in recent years. Such data has promoted a deeper understanding of the means by which these phages attach to and infect their hosts and permitted the development of effective anti-phage strategies. Furthermore, the presence and activity of host-encoded phage-resistance systems that operate at various stages of the phage cycle and the potential for the application of such systems consolidates the value of research in this area. Conversely, phages and their components have been applied as therapeutic agents against a number of pathogens including, among others, Clostridium difficile, Lactococcus garviae, Mycobacterium spp., Listeria spp. and the possibilities and limitations of these systems will be explored in this topic. Additionally, phage therapeutic approaches have been applied to the prevention of development of food spoilage organisms in the brewing and beverage sectors and exhonorate the positive applications of phages in the industrial setting. This research topic is aimed to address the most current issues as well as the most recent advances in the research of phages infecting Gram-positive bacteria covering areas such as phages in food fermentations, their impact in industry, phage ecology, genomics, evolution, structural analysis, phage-host interactions and the application of phages and components thereof as therapeutic agents against human and animal pathogens.
    Keywords: QR1-502 ; Q1-390 ; Lactic acid bacteria ; food fermentation ; phage therapy ; Phage-host interactions ; phages ; dairy industry ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 11
    Publication Date: 2024-04-05
    Description: The nature is a generous source of a number of compounds with potential application for the treatment of several diseases including the infectious diseases, which is of utmost concern for the modern medicine due to the observed striding antimicrobial resistance. A number of sources of natural compounds with valuable and clinical antimicrobial activity can be listed, comprising medicinal plants, marine and terrestrial organisms, which includes fungi and bacteria. Nevertheless, there is still a vast fauna and flora that, once systematically explored, could provide additional antimicrobial leads and drugs. Investigators were invited to contribute with original research and/or review articles on this area, specifically with studies exploiting the mechanism of action and the structure-activity aspects of natural compounds with antimicrobial activity that provides insights on potential ways to overcome the antimicrobial resistance. Therefore, thanks to the contribution of active researchers in the field, several scientific studies mainly focused on natural products with antimicrobial activity are presented in this Research Topic Ebook.
    Keywords: QR1-502 ; Q1-390 ; antimicrobial ; natural compounds ; antiseptic ; preservation ; Peptides ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 12
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    Frontiers Media SA
    Publication Date: 2024-03-31
    Description: Echolocation has evolved in different groups of animals, from bats and cetaceans to birds and humans, and enables localization and tracking of objects in a dynamic environment, where light levels may be very low or absent. Nature has shaped echolocation, an active sense that engages audiomotor feedback systems, which operates in diverse environments and situations. Echolocation production and perception vary across species, and signals are often adapted to the environment and task. In the last several decades, researchers have been studying the echolocation behavior of animals, both in the air and underwater, using different methodologies and perspectives. The result of these studies has led to rich knowledge on sound production mechanisms, directionality of the sound beam, signal design, echo reception and perception. Active control over echolocation signal production and the mechanisms for echo processing ultimately provide animals with an echoic scene or image of their surroundings. Sonar signal features directly influence the information available for the echolocating animal to perceive images of its environment. In many echolocating animals, the information processed through echoes elicits a reaction in motor systems, including adjustments in subsequent echolocation signals. We are interested in understanding how echolocating animals deal with different environments (e.g. clutter, light levels), tasks, distance to targets or objects, different prey types or other food sources, presence of conspecifics or certain predators, ambient and anthropogenic noise. In recent years, some researchers have presented new data on the origins of echolocation, which can provide a hint of its evolution. Theoreticians have addressed several issues that bear on echolocation systems, such as frequency or time resolution, target localization and beam-forming mechanisms. In this Research Topic we compiled recent work that elucidates how echolocation – from sound production, through echolocation signals to perception- has been shaped by nature functioning in different environments and situations. We strongly encouraged comparative approaches that would deepen our understanding of the processes comprising this active sense.
    Keywords: QP1-981 ; Q1-390 ; bats ; Biosonar ; Humans ; marine mammals ; sensory biology ; Birds ; Behavior ; Communication ; thema EDItEUR::M Medicine and Nursing::MF Pre-clinical medicine: basic sciences::MFG Physiology
    Language: English
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  • 13
    Publication Date: 2024-04-05
    Description: Bacteria are always present in foods, either as initial contamination or as technological agents. In solid foods, they are immobilized and develop as colonies. So far, there is a lack of knowledge about the bacteria in colonies, growth and physiology. Non-destructive and resolute techniques, such as fluorescent microscopy, now allow investigating the world of bacteria in colonies and their surroundings in food, at the microscopic scale.
    Keywords: QR1-502 ; Q1-390 ; modeling ; Growth ; Non-destructive techniques ; Bacterial colonies ; Physiology ; solid foods ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 14
    Publication Date: 2024-04-05
    Description: Over the last decades, nitric oxide (NO) has emerged as an essential player in redox signalling. Reactive oxygen species (ROS) also act as signals throughout all stages of plant life. Because they are potentially harmful for cellular integrity, ROS and NO levels must be tightly controlled, especially by the classical antioxidant system and additional redox-active metabolites and proteins. Recent work provided evidence that NO and ROS influence each other’s biosynthesis and removal. Moreover, novel signalling molecules resulting from the chemical reaction between NO, ROS and plant metabolites have been highlighted, including N2O3, ONOO-, NO2, S-nitrosoglutathione and 8-NO2 cGMP. They are involved in diverse plant physiological processes, the best characterized being stomata regulation and stress defense. Taken together, these new data demonstrate the complex interactions between NO, ROS signalling and the antioxidant system. This Frontiers in Plant Science Research Topic aims to provide an updated and complete overview of this important and rapidly expanding area through original article and detailed reviews.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; plant development ; Reactive Oxygen Species ; plant defense ; antioxidant system ; Nitric Oxide ; Biotic and abiotic stress ; signalling ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 15
    Publication Date: 2024-04-05
    Description: Bacterial spore formers have been the focus of intense study for almost half a century centered primarily on Bacillus subtilis. This research has given us a detailed picture of the genetic, physiological and biochemical mechanisms that allow bacteria to survive harsh environmental conditions by forming highly robust spores. Although, many basic aspects of this process are now understood in great detail, bacterial sporulation still continues to be a highly attractive model for studying various cell processes at a molecular level. There are several reasons for such scientific interest. First, some of the complex steps in sporulation are not fully understood and/or only are only described by 'controversial' models. Second, intensive research on unicellular development of a single microorganism, B. subtilis, left us largely unaware of the multitude of diverse sporulation mechanisms in many other Gram-positive endospore and exospore formers. This diversity would likely increase if we were to include sporulation processes in the Gram-negative spore formers. In addition, spore formers have great potential in applied research. Spore forming bacteria are becoming increasingly important in the areas of probiotics, vaccine technology and biotechnology. This Research Topic in Frontiers in Microbiology details the most recent advances in basic science of spore research and cover also emerging areas of scientific importance involving the use of spores.
    Keywords: QR1-502 ; Q1-390 ; germination ; Clostridium sp. ; Bacillus cereus ; Bacillus subtilis ; spore coat ; exosporium ; sporulation ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 16
    Publication Date: 2024-04-05
    Description: Many of the most prevalent and devastating human and animal pathogens have part of their lifecycle out-with the animal host. These pathogens have a remarkably wide capacity to adapt to a range of quite different environments: physical, chemical and biological, which is part of the key to their success. Many of the well-known pathogens that are able to jump between hosts in different biological kingdoms are transmitted through the faecal-oral and direct transmission pathways, and as such have become important food-borne pathogens. Some high-profile examples include fresh produce-associated outbreaks of Escherichia coli O157:H7 and Salmonella enterica. Other pathogens may be transmitted via direct contact or aerosols are include important zoonotic pathogens. It is possible to make a broad division between those pathogens that are passively transmitted via vectors and need the animal host for replication (e.g. virus and parasites), and those that are able to actively interact with alternative hosts, where they can proliferate (e.g. the enteric bacteria). This research topic will focus on plants as alternative hosts for human pathogens, and the role of plants in their transmission back to humans. The area is particularly exciting because it opens up new aspects to the biology of some microbes already considered to be very well characterised. One aspect of cross-kingdom host colonisation is in the comparison between the hosts and how the microbes are able to use both common and specific adaptations for each situation. The area is still in relative infancy and there are far more questions than answers at present. We aim to address important questions underlying the interactions for both the microbe and plant host in this research topic.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; Salmonella enterica ; Escherichia coli ; fresh produce ; Effectors ; Plant hosts ; PAMP triggered immunity ; Organic vegetable ; microbiome ; Arabidposis thaliana ; mRNA extraction ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 17
    Publication Date: 2024-04-05
    Description: Actinobacteria are highly diverse prokaryotes that are ubiquitous in soil, freshwater and marine ecosystems. Although various studies have focused on the ecology of this phylum, data are still scant on the diversity, abundance and ecology of actinobacteria endemic to special and extreme environments, such as gut, plant, alkaline saline soil, deep sea sediments, hot springs and other habitats. Actinobacteria are well-known producers of a vast array of secondary metabolites, many of which have useful applications in medicine and agriculture. Furthermore, actinobacteria also have diverse functions in different environments apart from antibiotic production. For example, actinobacteria are reported to contribute to the break-down and recycling of organic compounds. They play a significant role in fixation of nitrogen, improvement plant growth, biodegradation, bioremediation and environmental protection. Therefore, understanding the actinobacterial diversity and distribution in such special environments is important in deciphering the ecological roles of these microorganisms and for biotechnological bioprospecting. Recent advances in cultivation, DNA sequencing technologies and -omics (metagenomics, metaproteomics etc) methods have greatly contributed to the rapid advancement of our understanding of microbial diversity, function and they interactions with environment. Furthermore, comparative genomic studies can provide overall information about actinobacterial speciation, evolution, metabolism and environment adaptation mechanisms. This research topic comprising reviews and original articles highlights the recent advances regarding the unexpectedly diverse/rare group of actinobacteria with special selective isolation methods or culture-independent methods, as well as their biological activities, ecophysiologica function and mechanisms from diverse special and extreme environments.
    Keywords: QR1-502 ; Q1-390 ; omics technologies ; Activities ; diversity ; Actinobacteria ; special and extreme environments ; environmental adaptation ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 18
    Publication Date: 2024-04-05
    Description: Advances in next generation sequencing technologies, omics, and bioinformatics are revealing a tremendous and unsuspected diversity of microbes, both at a compositional and functional level. Moreover, the expansion of ecological concepts into microbial ecology has greatly advanced our comprehension of the role microbes play in the functioning of ecosystems across a wide range of biomes. Super-imposed on this new information about microbes, their functions and how they are organized, environmental gradients are changing rapidly, largely driven by direct and indirect human activities. In the context of global change, understanding the mechanisms that shape microbial communities is pivotal to predict microbial responses to novel selective forces and their implications at the local as well as global scale. One of the main features of microbial communities is their ability to react to changes in the environment. Thus, many studies have reported changes in the performance and composition of communities along environmental gradients. However, the mechanisms underlying these responses remain unclear. It is assumed that the response of microbes to changes in the environment is mediated by a complex combination of shifts in the physiological properties, single-cell activities, or composition of communities: it may occur by means of physiological adjustments of the taxa present in a community or selecting towards more tolerant/better adapted phylotypes. Knowing whether certain factors trigger one, many, or all mechanisms would greatly increase confidence in predictions of future microbial composition and processes. This Research Topic brings together studies that applied the latest molecular techniques for studying microbial composition and functioning and integrated ecological, biogeochemical and/or modeling approaches to provide a comprehensive and mechanistic perspective of the responses of micro-organisms to environmental changes. This Research Topic presents new findings on environmental parameters influencing microbial communities, the type and magnitude of response and differences in the response among microbial groups, and which collectively deepen our current understanding and knowledge of the underlying mechanisms of microbial structural and functional responses to environmental changes and gradients in both aquatic and terrestrial ecosystems. The body of work has, furthermore, identified many challenges and questions that yet remain to be addressed and new perspectives to follow up on.
    Keywords: QR1-502 ; Q1-390 ; microbial community composition ; ecosystem functioning ; next-generation sequencing ; micro-organism ; environmental change ; microbial diversity ; microbial ecology ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 19
    Publication Date: 2022-01-31
    Description: Marine and freshwater polar environments are characterized by intense physical forces and strong seasonal variations. The persistent cold and sometimes inhospitable conditions create unique ecosystems and habitats for microbial life. Polar microbial communities are diverse productive assemblages, which drive biogeochemical cycles and support higher food-webs across the Arctic and over much of the Antarctic. Recent studies on the biogeography of microbial species have revealed phylogenetically diverse polar ecotypes, suggesting adaptation to seasonal darkness, sea-ice coverage and high summer irradiance. Because of the diversity of habitats related to atmospheric and oceanic circulation, and the formation and melting of ice, high latitude oceans and lakes are ideal environments to investigate composition and functionality of microbial communities. In addition, polar regions are responding more dramatically to climate change compared to temperate environments and there is an urgent need to identify sensitive indicators of ecosystem history, that may be sentinels for change or adaptation. For instance, Antarctic lakes provide useful model systems to study microbial evolution and climate history. Hence, it becomes essential and timely to better understand factors controlling the microbes, and how, in turn, they may affect the functioning of these fragile ecosystems. Polar microbiology is an expanding field of research with exciting possibilities to provide new insights into microbial ecology and evolution. With this Research Topic we seek to bring together polar microbiologists studying different aquatic systems and components of the microbial food web, to stimulate discussion and reflect on these sensitive environments in a changing world perspective.
    Keywords: GC1-1581 ; QR1-502 ; Q1-390 ; polar ; microeukaryotes ; bacteria ; microbiology ; phytoplankton ; Antarctica ; Arctic ; aquatic ; archaea ; climate change
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  • 20
    Publication Date: 2024-04-05
    Description: The flexible filamentous plant viruses are responsible for more than half of all agricultural loss worldwide. Potexvirus is one of the two most important flexible filamentous plant viruses. Bamboo mosaic virus (BaMV), a single-stranded positive-sense RNA virus, is a member of the Potexvirus genus of Alphaflexiviridae. It can infect at least 12 species of bamboo, causing a huge economic impact on the bamboo industry in Taiwan. The study of BaMV did not start extensively until the completion of the full-length sequencing of genomic RNA of BaMV and generation of the BaMV infectious cDNA clone in the early 1990s. Since then, BaMV has been extensively studied at the molecular, cellular and ecological level, covering both basic and applied researches, by a group of researchers in Taiwan. In this eBook, the content comprises 6 reviews and 4 articles. Seven of them are involved in the infection of BaMV covering viral RNA replication, viral RNA trafficking, and the host factors. Two of them are related to the vector transmission and the ecology of BaMV. The last one is the application of using BaMV as a viral vector to produce vaccines in plants.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; host proteins ; replicase ; plant hormone ; bamboo mosaic virus ; insect transmission ; viral trafficking and movement ; viral RNA replication ; viral vector vaccine ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 21
    Publication Date: 2022-01-31
    Description: With the advent of recombinant DNA technology, expressing heterologous proteins in microorganisms rapidly became the method of choice for their production at laboratory and industrial scale. Bacteria, yeasts and other hosts can be grown to high biomass levels efficiently and inexpensively. Obtaining high yields of recombinant proteins from this material was only feasible thanks to constant research on microbial genetics and physiology that led to novel strains, plasmids and cultivation strategies. Despite the spectacular expansion of the field, there is still much room for progress. Improving the levels of expression and the solubility of a recombinant protein can be quite challenging. Accumulation of the product in the cell can lead to stress responses which affect cell growth. Buildup of insoluble and biologically inactive aggregates (inclusion bodies) lowers the yield of production. This is particularly true for obtaining membrane proteins or high-molecular weight and multi-domain proteins. Also, obtaining eukaryotic proteins in a prokaryotic background (for example, plant or animal proteins in bacteria) results in a product that lack post-translational modifications, often required for functionality. Changing to a eukaryotic host (yeasts or filamentous fungi) may not be a proper solution since the pattern of sugar modifications is different than in higher eukaryotes. Still, many advances in the last couple of decades have provided to researchers a wide variety of strategies to maximize the production of their recombinant protein of choice. Everything starts with the careful selection of the host. Be it bacteria or yeast, a broad list of strains is available for overcoming codon use bias, incorrect disulfide bond formation, protein toxicity and lack of post-translational modifications. Also, a huge catalog of plasmids allows choosing for different fusion partners for improving solubility, protein secretion, chaperone co-expression, antibiotic resistance and promoter strength. Next, controlling culture conditions like temperature, inducer and media composition can bolster recombinant protein production. With this Research Topic, we aim to provide an encyclopedic account of the existing approaches to the expression of recombinant proteins in microorganisms, highlight recent discoveries and analyze the future prospects of this exciting and ever-growing field.
    Keywords: GE1-350 ; TP248.13-248.65 ; TA1-2040 ; QR1-502 ; Q1-390 ; Inclusion Bodies ; Escherichia coli ; Filamentous fungi ; Microalgae ; Recombinant Proteins ; Microorganism ; fusion tags ; yeast
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  • 22
    Publication Date: 2023-12-21
    Description: Biological engagement programs are a set of projects or activities between partner countries that strengthen global health security to achieve mutually beneficial outcomes. Engagement programs are an effective way to work collaboratively towards a common threat reduction goal, usually with a strong focus on strengthening health systems and making the world a safer place. Cooperative programs are built upon trust and sharing of information and resources to increase the capacity and capabilities of partner countries. Biological engagement programs reduce the threat of infectious disease with a focus on pathogens of security concern, such as those pathogens identified by the U.S. Government as Biological Select Agent and Toxins. These programs seek to develop technical or scientific relationships between countries to combat infectious diseases both in humans and animals. Through laboratory biorisk management, diagnostics, pathogen detection, biosurveillance and countermeasure development for infectious diseases, deep relationships are fostered between countries. Biological engagement programs are designed to address dual-use issues in pathogen research by promoting responsible science methodologies and cultures. Scientific collaboration is a core mechanism for engagement programs are designed to strengthen global health security, including prevention of avoidable epidemics; detection of threats as early as possible; and rapid and effective outbreak response. This Research Topic discusses Biological Engagement Programs, highlighting the successes and challenges of these cooperative programs. Articles in this topic outlined established engagement programs as well as described what has been learned from historical cooperative engagement programs not focused on infectious diseases. Articles in this topic highlighted selected research, trainings, and programs in Biological Engagement Programs from around the world. This Topic eBook first delves into Policies and Lessons Learned; then describes Initiatives in Biosafety & Biosecurity; the core of this work documents Cooperative Research Results from the field; then lastly the Topic lays out potential Future Directions to the continued success of the World’s cooperative science in reducing the threat of infectious diseases.
    Keywords: R5-920 ; RA1-1270 ; QR1-502 ; Q1-390 ; Infectious disease ; biosecurity ; Cooperative Biological Engagement ; select agents ; biosafety ; bic Book Industry Communication::M Medicine
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  • 23
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    Frontiers Media SA
    Publication Date: 2023-12-21
    Description: Trypanosoma cruzi is a pathogenic protozoan of the Trypanosomatidade Family, which is the etiological agent of Chagas’ disease. Chagas’ disease stands out for being endemic among countries in Latin America, affecting about 15 million people. Recently, Chagas has become remarkable in European countries as well due to cases of transmission via infected blood transfusion. An important factor that has exacerbated the epidemiological picture in Brazil, Colombia and Venezuela is infection after the oral intake of contaminated foods such as sugar cane, açai and bacaba juices. Trypanosoma cruzi is an intracellular protozoan that exhibits a complex life cycle, involving multiple developmental stages found in both vertebrate and invertebrate hosts. In vertebrate hosts, the trypomastigote form invades a large variety of nucleated cells using multiple mechanisms. The invasion process involves several steps: (a) attraction of the protozoan to interact with the host cell surface; (b) parasite-host cell recognition; (c) adhesion of the parasite to the host cell surface; (d) cell signalling events that culminate in the internalization of the parasite through endocytic processes; (e) biogenesis of a large vacuole where the parasite is initially located, and is also known as parasitophorous vacuole (PV); (f) participation of endocytic pathway components in the internalization process; (g) participation of cytoskeleton components in the internalization process; (h) transformation of the trypomastigote into the amastigote form within the PV; (i) lysis of the membrane of the PV; (j) multiplication of amastigotes within the host cell in direct contact with cell structures and organelles; (k) transformation of amastigotes into trypomastigotes, and (l) rupture of the host cell releasing trypomastigotes into the extracellular space. The kinetics of the interaction process and even the fate of the parasite within the cell vary according to the nature of the host cell and its state of immunological activation.
    Keywords: R5-920 ; RC581-607 ; QR1-502 ; Q1-390 ; Chagas Disease ; Parasite-host cell interaction ; cell-to-cell recognition ; Parasitic protozoa ; Trypanosoma cruzi ; bic Book Industry Communication::M Medicine
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  • 24
    Publication Date: 2024-04-05
    Description: Filamentous phage (genus Inovirus) infect almost invariably Gram-negative bacteria. They are distinguished from all other bacteriophage not only by morphology, but also by the mode of their assembly, a secretion-like process that does not kill the host. “Classic” Escherichia coli filamentous phage Ff (f1, fd and M13) are used in display technology and bio/nano/technology, whereas filamentous phage in general have been put to use by their bacterial hosts for adaptation to environment, pathogenesis, biofilm formation, horizontal gene transfer and modulating genome stability. Many filamentous phage have a “symbiotic” life style that is often manifested by inability to form plaques, preventing their identification by standard phage-hunting techniques; while the absence or very low sequence conservation between phage infecting different species often complicates their identification through bioinformatics. Nevertheless, the number of discovered filamentous phage is increasing rapidly, along with realization of their significance. “Temperate” filamentous phage whose genomes are integrated into the bacterial chromosome of pathogenic bacteria often modulate virulence of the host. The Vibrio cholerae phage CTXf genome encodes cholera toxin, whereas many filamentous prophage influence virulence without encoding virulence factors. The nature of their effect on the bacterial pathogenicity and overall physiology is the next frontier in understanding intricate relationship between the filamentous phage and their hosts. Phage display has been widely used as a combinatorial technology of choice for discovery of therapeutic antibodies and peptide leads that have been applied in the vaccine design, diagnostics and drug development or targeting over the past thirty years. Virion proteins of filamentous phage are integral membrane proteins prior to assembly; hence they are ideal for display of bacterial surface and secreted proteins. The use of this technology at the scale of microbial community has potential to identify host-interacting proteins of uncultivable or low-represented community members. Recent applications of Ff filamentous phage extend into protein evolution, synthetic biology and nanotechnology. In many applications, phage serves as a monodisperse long-aspect nano-scaffold of well-defined shape. Chemical or chenetic modifications of this scaffold are used to introduce the necessary functionalities, such as fluorescent labels, ligands that target specific proteins, or peptides that promote formation of inorganic or organic nanostructures. We anticipate that the future holds development of new strategies for particle assembly, site-specific multi-functional modifications and improvement of existing modification strategies. These improvements will render the production of filamentous-phage-templated materials safe and affordable, allowing their applications outside of the laboratory.
    Keywords: QR1-502 ; Q1-390 ; pathogenic bacteria ; filamentous bacteriophage ; phage display ; Glioblastoma ; Liposome ; Vaccine ; microbial communities ; dip-stick ; chemical modification ; Nanorods ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 25
    Publication Date: 2024-04-05
    Description: Multiresistant bacterial pathogens pose a serious problem worldwide making the appropriate treatment of patients with healthcare-associated infections a challenge. The spread of antibiotic resistance is either mediated by mobile genetic elements (MGEs) or the dissemination of genetically-related groups of pathogens, “high-risk clonal complexes”. Interestingly most multiresistant healthcare-associated bacteria command just a few dominant international clonal complexes causing infections in various geographical areas. It is of utmost importance to identify the determinants associated with and promoting the spread of antibiotic resistance and the dissemination of these multiresistant pathogens. The Topic comprises mostly of population and epidemiological studies investigating antibiotic resistance mechanisms, MGEs and the impact of antibiotic resistance, and the production of virulence factors on the clonal dynamics of a diverse range of bacterial species. Though, the exploration of the mechanisms governing clonal dynamics and the dissemination of antibiotic resistance will remain a salient issue for a considerable time to come we believe that the papers published in the Topic have usefully contributed to the better understanding of some of the processes involved and supplement papers investigating the “non-bacterial” constituents of clonal mobility, like proper medical practice and compliance with hygienic standards.
    Keywords: QR1-502 ; Q1-390 ; antibiotic resistance ; dissemination ; pathogen ; Clone ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 26
    Publication Date: 2024-04-05
    Description: A significant increase in the prevalence of campylobacteriosis cases has been observed over the past years. Campylobacter has emerged as the leading cause of bacterial foodborne disease worldwide with a significant impact on human health and an associated economic burdens. Campylobacteriosis human cases have been generally correlated with the handling, preparation and consumption of poultry. In 2017, the European Commission regulation has amended Regulation (EC) No 2073/2005 on the hygiene of foodstuffs as regards Campylobacter on broiler carcasses stating a limit of 1000 cfu/g. Campylobacter is also present in other farm animals and is frequently found on a range of foodstuffs due to cross contamination. Among the pathogenic species, C. jejuni is the most prevalent species followed by C. coli. Current guidelines highlight the importance of biosecurity but these measures are failing to mitigate the risk of pathogenic Campylobacter. As an obligate microaerophile, Campylobacter does not multiply under atmospheric oxygen concentration at ambient temperatures. It therefore constitutes a puzzle as to how it can survive from farm to retail outlets. The underlying molecular mechanisms of persistence, survival and pathogenesis appear to be unique to this pathogen. Recent research has indicated how genomic polymorphism, restricted catabolic capacity, self regulation or deregulation of genes, bacterial cooperation and unknown contamination routes may be connected to this specificity.This book includes original studies on both C. jejuni and C. coli species dealing with epidemiology and animal carriage, host interaction, control strategies, metabolism and regulation specificities of these two pathogenic species, methodology to improve cultural techniques and chicken gut microbiota challenged with Campylobacter.
    Keywords: QR1-502 ; Q1-390 ; RC109-216 ; Gut microbiota ; Oxidative stress ; Host interaction ; Control Strategies ; Growth ; Foodborne pathogen ; Regulation ; Survival ; Animal carriage ; Campylobacter ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 27
    Publication Date: 2022-01-31
    Description: Understanding the link between microbial diversity and ecosystem processes is a fundamental goal of microbial ecologists, yet we still have a rudimentary knowledge of how changes in diversity affect nutrient cycling and energy transfer in ecosystems. Due to the complexity of the problem, many published studies on this topic have been conducted in artificial or manipulated systems. Although researchers have begun to expose some possible mechanisms using these approaches, most have not yet been able to produce conclusive results that relate directly to natural systems. The few studies that have explored the link between diversity and activity in natural systems have typically focused on specific nutrient cycles or processes, such as nitrification, denitrification, and organic carbon degradation pathways, and the microbes that mediate them. What we have learned from these studies is that there are often strong associations between the physical and chemical features of the environment, the composition of the microbial communities, and their activities, but the rules that govern these associations have not been fully elucidated. These earlier studies of microbial diversity and processes in natural systems provide a framework for additional studies to broaden our understanding of the role of microbial diversity in ecosystem function. The problem is complex, but with recent advances in sequencing technology, -omics, and in-situ measurements of ecosystem processes and their applications to microbial communities, making direct connections between ecosystem function and microbial diversity seems more tractable than ever.
    Keywords: GC1-1581 ; QR1-502 ; Q1-390 ; Metagenomics ; diversity ; ecosystem ; Methane Seeps ; Nitrification ; stable isotope probing ; DNRA ; Nitrogen ; Microbialites ; metacommunity
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  • 28
    Publication Date: 2024-04-05
    Description: During spontaneous food/beverage fermentations, the microbiota associated with the raw material has a considerable importance: this microbial consortium evolves in reason of the nutrient content and of the physical, chemical, and biological determinants present in the food matrix, shaping fermentation dynamics with significant impacts on the ‘qualities’ of final productions. The selection from the indigenous micro-biodiversity of ‘virtuous’ ecotypes that coupled pro-technological and biotechnological aptitudes provide the basis for the formulation of ‘tailored’ starter cultures. In the fermenting food and beverage arena, the wine sector is generally characterized by the generation of a high added value. Together with a pronounced seasonality, this feature strongly contributes to the selection of a large group of starter cultures. In the last years, several studies contributed to describe the complexity of grapevine-associated microbiota using both culture-dependent and culture-independent approaches. The grape-associated microbial communities continuously change during the wine-making process, with different dominances that correspond to the main biotechnological steps that take place in wine. In order to simplify, following a time trend, four major dominances can be mainly considered: non-Saccharomyces, Saccharomyces, lactic acid bacteria (LAB), and spoilage microbes. The first two dominances come in succession during the alcoholic fermentation: the impact of Saccharomyces (that are responsible of key enological step of ethanol production) can be complemented/integrated by the contributions of compatible non-Saccharomyces strains. Lactic acid bacteria constitute the malolactic consortium responsible of malolactic fermentation, a microbial bioconversion often desired in wine (especially in red wine production). Finally, the fourth dominance, the undesired microbiota, represents a panel of microorganisms that, coupling spoilage potential to the resistance to the harsh conditions typical of wine environment, can cause important economic losses. In each of these four dominances a complex microbial biodiversity has been described. The studies on the enological significance of the micro-biodiversity connected with each of the four dominances highlighted the presence of a dichotomy: in each consortia there are species/strains that, in reason of their metabolisms, are able to improve wine ‘qualities’ (resource of interest in starter cultures design), and species/strains that with their metabolism are responsible of depreciation of wine. Articles describing new oenological impacts of yeasts and bacteria belonging to the four main categories above mentioned (non-Saccharomyces, Saccharomycetes, lactic acid bacteria, and spoilage microbes) are welcome. Moreover, in this Research Topic, we encourage mini-review submissions on topics of immediate interest in wine microbiology that link microbial biodiversity with positive/negative effects in wine.
    Keywords: QR1-502 ; Q1-390 ; Wine ; Yeasts ; Microbial Diversity ; Bacteria ; Safety ; alcoholic fermentation ; malolactic fermentation ; grapes ; quality ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 29
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    Frontiers Media SA
    Publication Date: 2022-01-31
    Description: Vibrios are Gram-negative bacilli that occur naturally in marine, estuarine, and freshwater systems. Some species include human and animal pathogens capable of causing gastroenteritis, wound infections, cholera, and fatal septicemia. Over the past decades, cutting edge research on Vibrio genomics has promoted a tremendous advance in our knowledge of these pathogens. Significant developments include the discovery of emerging epidemic clones, tracking the spread of new strain variants, and an intensified appreciation of the role of mobile genetic elements in antibiotic resistance spread as well as pathogenesis. Furthermore, improved understanding of the interaction of Vibrios with a variety of living organisms in the aquatic environment has documented the significant role of environmental reservoirs in their seasonal cycle favoring persistence of the pathogen during inter-epidemic periods and enhancing disease transmission. This Research Topic is dedicated to our current understanding in these areas and will bring together leading experts in the field to provide a deep overview of Vibrios ecology and evolution, and will suggest the pathway of future research in this field.
    Keywords: GC1-1581 ; QR1-502 ; Q1-390 ; Pathogenesis ; Ecology ; evolution ; Genome ; Vibrio
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  • 30
    Publication Date: 2024-04-01
    Description: The considerable number of viral infectious disease threats that have emerged since the beginning of the 21st century have shown the need to dispose global and coordinated responses to fight properly and efficiently against them. Severe acute respiratory syndrome (2003), avian influenza in humans (2005), A(H1N1) pandemic influenza (2009), Middle East respiratory syndrome coronavirus (MERS-CoV) (2012 onward) and Ebola virus disease (2014-2015) are some of the most important examples. The latest emerging and devastating threat was Zika virus, an arbovirus that provoked more than 500,000 suspicious cases in the Americas in 2016 and notable processes of social and medical alarms due to the evidence of a causal link between Zika virus and several congenital injuries, like microcephaly, as well as due to its association with neurological disorders such as Guillain-Barré syndrome in adults (PAHO, 2017). In the framework of this global response and multistrategic approach, the purpose of this Research Topic is to provide updated information and novel researches about control strategies, encompassing virological, entomological and epidemiological data, in order to reach the triad of protagonists of transmission cycles (virus, mosquitoes and humans).
    Keywords: RC346-429 ; R5-920 ; RA1-1270 ; QR1-502 ; Q1-390 ; RC109-216 ; Public Health ; Mosquitoes ; Zika virus ; Arbovirus ; Microcephaly ; Epidemiology ; Flavivirus ; Guillain-Barre Syndrome ; thema EDItEUR::M Medicine and Nursing::MK Medical specialties, branches of medicine::MKJ Neurology and clinical neurophysiology
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  • 31
    Publication Date: 2024-04-05
    Description: Rivers, lakes and the ocean receive antibiotic resistance genes from human environments. The aquatic environments are a huge reservoir and exchange stage of antibiotic resistance genes.
    Keywords: QR1-502 ; Q1-390 ; Gene reservoir ; aquatic environment ; Resistance enhancement factor ; horizontal gene transfer ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 32
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    Frontiers Media SA
    Publication Date: 2024-03-30
    Description: In the ancient past, cocoa has been appreciated as a high-calorie food to boost energy in soldiers and for its undefined medicinal and mystical properties. During other times, chocolate has been considered as the forbidden “food of God”: a treasure of pleasure for the mind and the soul. The overall perception of the consumer for chocolate was of a “charming” and appealing food with lots of negative aspects related to high sugar content leading to consider chocolate as “junk food” for its “obesigen” calories. Recently, in association with the renewed interest of nutrition science in alternative source of health-promoting foods and ingredients, a large body of research has been conducted to unravel the pro and cons of cocoa in relation to human health. Epidemiological evidences indicate that cocoa consumption helps preventing cardiovascular disease for its high content in bioactive flavonoids. Clinical trials show that chocolate consumption might improve vascular function, decreasing platelet aggregation and display an antioxidant and anti-inflammatory effect. The putative protective action of cocoa seems to be multi-factorial and involving different aspects of vascular, antioxidant and endothelial function. However, the mechanism(s) that account for the benefits of cocoa it is still unclear. The aim of this Research Topic is therefore to provide the reader with an objective picture of the state of art on the association between cocoa and health, mainly through the evidences of human trials; overwhelmingly considered the golden standard for nutritional science. The Research Topic will cover the analysis of the manufacturing processes of the chocolate and the antioxidant effects in humans as well as the majority of the putative health effects of chocolate and cocoa, such as anti-inflammatory properties, effect on immunity, platelet aggregation, blood pressure, endothelial function and cognitive behavior. Unraveling the functional properties of cocoa will help to understand if the 'food of God' is a primordial gift for the health of mankind.
    Keywords: R5-920 ; RC581-607 ; TX341-641 ; Antioxidants ; Obesity ; Flavonoids ; Humans ; Chocolate ; Blood pressure ; Inflammation ; Cognitive function ; Cocoa ; Immunity
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  • 33
    Publication Date: 2024-04-05
    Description: Bacteria are among the earliest forms of life on Earth. Notwithstanding their small size and primitive origin, bacteria still have a tremendous impact on everyday human life. Over the centuries, research into bacteria have provided and enriched the fundamental biological knowledge due to their readily measured processes and effects on higher organisms. Although molecular genetics and microbiology were among the scientific fields that have mostly benefited from the discoveries made in bacteria, our current state of knowledge has gone beyond what anyone could have ever imagined. The present Research Topic aims to cover new and exciting broad aspects of the importance of bacteria to human life, both positive and negative influences. Regulation of bacterial gene expression, replication and segregation control mechanisms, cell to cell communication via quorum sensors, and the relatively recent finding of bacterial immunity via CRISPR, have led to the development of many, and very important new tools in biotechnology and the emerging field of molecular medicine. The battle against infectious diseases has also benefited from the genetic approaches that have been developed in the quest for finding new targets and novel drugs against pathogenic bacteria. At the next level, the human microbiome project has opened up new avenues in understanding the role of bacteria in human health and wellbeing. Finally, the relationship between bacterial infections and human cancers will also be covered, a subject that is still under verification through rigorous experimental approaches. Special emphasis will be given to the bacterial accessory genome, i.e the mobilome, as the primary cause of health-threatening antimicrobial resistance and the production of toxins and virulence factors. Taking into account the evolutionary importance of horizontal gene transfer and the additional beneficial roles of certain bacterial mobile genetic elements, they help project best “the Good, the Bad and the Ugly” outline of this topic. At the time this eBook is about to be published, our Research Topic has registered nearly 55, 000 views.
    Keywords: QR1-502 ; Q1-390 ; bacteria and cancer ; virulence ; antimicrobial resistance ; infectious diseases ; horizontal gene spread ; mobile genetic elements ; bacterial immunity ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 34
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    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: Proteins suffer many conformational changes and interactions through their life, from their synthesis at ribosomes to their controlled degradation. Only folded and soluble proteins are functional. Thus, protein folding and solubility are controlled genetically, transcriptionally, and at the protein sequence level. In addition, a well-conserved cellular machinery assists the folding of polypeptides to avoid misfolding and ensure the attainment of soluble and functional structures. When these redundant protective strategies are overcome, misfolded proteins are recruited into aggregates. Recombinant protein production is an essential tool for the biotechnology industry and also supports expanding areas of basic and biomedical research, including structural genomics and proteomics. Although bacteria still represent a convenient production system, many recombinant polypeptides produced in prokaryotic hosts undergo irregular or incomplete folding processes that usually result in their accumulation as insoluble aggregates, narrowing thus the spectrum of protein-based drugs that are available in the biotechnology market. In fact, the solubility of bacterially produced proteins is of major concern in production processes, and many orthogonal strategies have been exploited to try to increase soluble protein yields. Importantly, contrary to the usual assumption that the bacterial aggregates formed during protein production are totally inactive, the presence of a fraction of molecules in a native-like structure in these assemblies endorse them with a certain degree of biological activity, a property that is allowing the use of bacteria as factories to produce new functional materials and catalysts. The protein embedded in intracellular bacterial deposits might display different conformations, but they are usually enriched in beta-sheet-rich assemblies resembling the amyloid fibrils characteristic of several human neurodegenerative diseases. This makes bacterial cells simple, but biologically relevant model systems to address the mechanisms behind amyloid formation and the cellular impact of protein aggregates. Interestingly, bacteria also exploit the structural principles behind amyloid formation for functional purposes such as adhesion or cytotoxicity. In the present research topic we collect papers addressing all the issues mentioned above from both the experimental and computational point of view.
    Keywords: QR1-502 ; Q1-390 ; protein aggregation ; bacterial chaperones ; Bacteria ; Functional amyloids ; protein expression ; Protein Folding ; Prion-like proteins ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 35
    Publication Date: 2024-04-05
    Description: Viruses are widely present in nature, and numerous viral species with a variety of unique characteristics have been identified so far. Even now, new emerging or re-emerging viruses are being found or re-found as novel viral classes or as quasi-species. Indeed, viruses are everywhere. Of note, viruses are pivotal as targets and tools of basic and applied sciences. On one hand, portions of the viruses are infectious for animals including humans, and cause various diseases in infected hosts by distinct mechanisms and at a different level of severity. While many of viruses are known to co-exist quietly with their hosts, pathogenic viruses certainly affect and threaten our society as well as individuals to provoke serious medical or economic attention. We should act against certain dreadful and highly infectious viruses as a global problem. Animal RNA viruses can readily mutate to adapt themselves in their hostile environments for their survival. Resultant viruses may sometimes show essentially altered phenotypes from the original parental strains. This fundamental and general property of animal RNA viruses represents major extensive issues of scientific, medical, and/or economic importance. In this Research Topic, we have focused on the high mutability of animal RNA viruses, and selected relevant articles on animal viruses of broad-ranges such as primate lentiviruses, influenza viruses, paramyxoviruses, flaviviruses, rabies virus, norovirus, picornaviruses, and picobirnavirus. Each article has taken up intriguing aspects of the subject viruses. We are sure that readers acquire important information on virus mutation, adaptation, diversification, and evolution, and hope that researchers in the field related to virology gain some solid hints from the reported articles for further virological and /or medical studies. Finally, we thank all the contributing researchers in this Research Topic, entitled “Highly Mutable Animal RNA Viruses: Adaptation and Evolution”, for their elegant and interesting works.
    Keywords: QR1-502 ; Q1-390 ; mutation ; phylogenetic trees ; animal RNA viruses ; adaptation ; diversification ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 36
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    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: Mycorrhizal symbiosis is a mutualistic association of plant roots and fungi that plays a major role in ecosystem function and diversification, as well as its stability and productivity. It also plays a key role in the biology and ecology of forest trees, affecting growth, water and nutrient absorption and protection against soil-borne pathogens. However, the mycorrhizal research in tropical and neotropical ecosystems remains largely unexplored despite its importance in tropical and neotropical ecosystems. These ecosystems represent more than 0.6% of the total land ecosystems and they have a crucial role in the Earth’s biogeochemical cycling and climate. Threats to tropical forest biodiversity should therefore encourage investigations and inventories of mycorrhizal diversity, function and ecology in tropical latitudes because they concern ecologically and economically important plant species. This Research Topic aims to provide an overview of the knowledge of mycorrhizal symbioses in tropical and neotropical ecosystems. For this Research Topic, we welcome articles that address the diversity, ecology and function of mycorrhiza associated with plants, the impacts of mycorrhiza on plant diversity and composition, the regeneration and dynamics of ecosystems, and biomass production in ecosystems.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; ectomycorrhiza ; mycorrhizal fungal communities ; biofertilizer in field conditions ; arbuscular mycorrhiza ; abiotic stress ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 37
    Publication Date: 2024-04-05
    Description: Bacterial Physiology was inaugurated as a discipline by the seminal research of Maaløe, Schaechter and Kjeldgaard published in 1958. Their work clarified the relationship between cell composition and growth rate and led to unravel the temporal coupling between chromosome replication and the subsequent cell division by Helmstetter et al. a decade later. Now, after half a century this field has become a major research direction that attracts interest of many scientists from different disciplines. The outstanding question how the most basic cellular processes - mass growth, chromosome replication and cell division - are inter-coordinated in both space and time is still unresolved at the molecular level. Several particularly pertinent questions that are intensively studied follow: (a) what is the primary signal to place the Z-ring precisely between the two replicating and segregating nucleoids? (b) Is this coupling related to the structure and position of the nucleoid itself? (c) How does a bacterium determine and maintain its shape and dimensions? Possible answers include gene expression-based mechanisms, self-organization of protein assemblies and physical principles such as micro-phase separations by excluded volume interactions, diffusion ratchets and membrane stress or curvature. The relationships between biochemical reactions and physical forces are yet to be conceived and discovered. This e-book discusses the above mentioned and related questions. The book also serves as an important depository for state-of-the-art technologies, methods, theoretical simulations and innovative ideas and hypotheses for future testing. Integrating the information gained from various angles will likely help decipher how a relatively simple cell such as a bacterium incorporates its multitude of pathways and processes into a highly efficient self-organized system. The knowledge may be helpful in the ambition to artificially reconstruct a simple living system and to develop new antibacterial drugs.
    Keywords: QR1-502 ; Q1-390 ; Chromosome replication ; Bacterial growth ; divisome ; Chromosome Segregation ; Cell Cycle ; Cell Division ; Cell envelope ; size control ; model system Escherichia coli ; nucleoid ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 38
    Publication Date: 2024-04-05
    Description: Since its inception, the Deep Carbon Observatory (DCO) has coalesced a multidisciplinary and international group of researchers focused on understanding and quantifying Earth’s deep carbon budget. Carbon is the fourth most abundant element in the universe, and understanding carbon chemistry under a variety of environmental conditions impacts all aspects of planetary sciences, including planet formation, the form and function of planetary interiors, and the origin and diversity of life. DCO recognizes that is integrating and promoting the contributions of early career scientists are integral to the advancement of knowledge regarding the quantities, movements, origins, and forms of Earth’s deep carbon through field, experimental, analytical, and computational research. Early career scientists represent the future of deep carbon science and contribute substantially to ongoing research by implementing innovative ideas, challenging traditional working schemes, and bringing a globally interconnected perspective to the scientific community. This research topic highlights the contributions at the forefront of deep carbon research by DCO Early Career Scientist community. The manuscripts of this Frontiers e-volume bear evidence of the rapid advances in deep carbon science, and highlights the importance of approaching this field from a plethora of different angles integrating disciplines as diverse as mineralogy, geochemistry and microbiology. This integration is fundamental in understanding the movements and transformations of carbon across its deep cycle.
    Keywords: QD1-999 ; GE1-350 ; GB3-5030 ; QR1-502 ; Q1-390 ; geomicrobiology ; geochemistry ; deep carbon ; carbon minerals ; high temperature high pressure ; volcanism ; thema EDItEUR::P Mathematics and Science::PN Chemistry
    Language: English
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  • 39
    Publication Date: 2024-04-05
    Description: The 16S ribosomal RNA gene commonly serves as a molecular marker for investigating microbial community composition and structure. Vast amounts of 16S rRNA amplicon data generated from environmental samples thanks to the recent advances in sequencing technologies allowed microbial ecologists to explore microbial community dynamics over temporal and spatial scales deeper than ever before. However, widely used methods for the analysis of bacterial communities generally ignore subtle nucleotide variations among high-throughput sequencing reads and often fail to resolve ecologically meaningful differences between closely related organisms in complex microbial datasets. Lack of proper partitioning of the sequencing data into relevant units often masks important ecological patterns. Our research topic contains articles that use oligotyping to demonstrate the importantance of high-resolution analyses of marker gene data, and providides further evidence why microbial ecologists should open the "black box" of OTUs identified through arbitrary sequence similarity thresholds.
    Keywords: QR1-502 ; Q1-390 ; high-resolution ; oligotyping ; Minimum Entropy Decomposition ; microbiome ; 16S rRNA gene ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 40
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    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: Microbial electrochemical systems (MESs, also known as bioelectrochemical systems (BESs) are promising technologies for energy and products recovery coupled with wastewater treatment, and have attracted increasing attention. Many studies have been conducted to expand the application of MESs for contaminants degradation and bioremediation, and increase the efficiency of electricity production by optimizing architectural structure of MESs, developing new electrode materials, etc. However, one of the big challenges for researchers to overcome, before MESs can be used commercially, is to improve the performance of the biofilm on electrodes so that ‘electron transfer’ can be enhanced. This would lead to greater production of electricity, energy or other products. Electrochemically active microorganisms (EAMs) are a group of microorganisms which are able to release electrons from inside their cells to an electrode or accept electrons from an electron donor. The way in which EAMs do this is called ‘extracellular electron transfer’ (EET). So far, two EET mechanisms have been identified: direct electron transfer from microorganisms physically attached to an electrode, and indirect electron transfer from microorganisms that are not physically attached to an electrode. 1) Direct electron transfer between microorganisms and electrode can occur in two ways: a) when there is physical contact between outer membrane structures of the microbial cell and the surface of the electrode, b) when electrons are transferred between the microorganism and the electrode through tiny projections (called pili or nanowires) that extend from the outer membrane of the microorganism and attach themselves to the electrode. 2) Indirect transfer of electrons from the microorganisms to an electrode occurs via long-range electron shuttle compounds that may be naturally present (in wastewater, for example), or may be produced by the microorganisms themselves. The electrochemically active biofilm, which degrades contaminants and produces electricity in MESs, consists of diverse community of EAMs and other microorganisms. However, up to date only a few EAMs have been identified, and most studies on EET have focused on the two model species of Shewanella oneidensis and Geobacter sulfurreducens.
    Keywords: QR1-502 ; Q1-390 ; extracellular electron transfer ; bioelectrochemical systems (BESs) ; Microbial electrochemical systems (MESs) ; Electrochemically active microorganisms (EAMs) ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 41
    Publication Date: 2024-04-05
    Description: According to the World Health Organization (WHO), in 2012 infectious diseases and related conditions account for more than 70% of premature deaths across 22 African countries and estimated 450 000 people worldwide developed multi-drug resistant tuberculosis. This alarming situation, of great public health concern, calls for the urgent development of novel and efficient responding strategies. The employment of important research platforms, such as genomics and proteomics, has contributed significant insight into the mechanisms underlying microbial infection and microbe-host interaction. In this Frontiers Research Topic, we aim to produce a timely and pertinent discussion regarding the current status of “Proteomics of microbial Human pathogens” and the role of proteomics in combating the challenges posed by microbial infection and indeed acquired anti-microbial resistance. As the field of proteomics progressed from 2-DE gel based approaches to modern LC-MS/MS based workflows, remarkable advances have been reported in terms of data quantity and quality. Given the immediate and enormous advantages that high resolution and accurate mass spectrometers have brought to the field, proteomics has now evolved into a robust platform capable of generating large amounts of comprehensive data comparable to that reported previously in genomics studies. For example, detection of the complete yeast proteome has been reported and other small proteomes, such as those of bacteria, are within reach. Mass spectrometry-based proteomics has become an essential tool for biologists and biochemists, and is now considered by many as an essential component of modern structural biology. Additionally, the introduction of high-resolution mass spectrometers has driven the development of various different strategies aimed at accurate quantification of absolute and relative amount of protein(s) of interest. Emerging targeted mass spectrometry methodologies such as; Selected Reaction Monitoring (SRM), Parallel Reaction Monitoring (PRM) and SWATH, are perhaps the latest breakthrough within the proteomics community. Indeed, through a label free approach, targeted mass spectrometry offers an unequalled capability to characterize and quantify a specific set of proteins reproducibility, in any biological sample. Usefully, Aebersold and colleagues have recently generated and validated a number of assays to quantify 97% of the 4,012 annotated Mycobacterium tuberculosis (Mtb) proteins by SRM. As such, the Mtb Proteome library represents a valuable experimental resource that will undoubtedly bring new insight to the complex life cycle of Mtb. Finally, as reviewed recently in Frontiers Research Topic, mass spectrometry-based proteomics has had a tremendous impact on our current understanding of post translational modification (PTM) in bacteria including the key role of PTMs during interaction of pathogenic bacteria and host interactions. We believe that our understanding of microbial Human pathogens has benefited enormously from both 2-DE gel and modern LC-MS/MS based proteomics. It is our wish to produce an integrated discussion surrounding this topic to highlight the existing synergy between these research fields. We envisage this Research Topic as a window to expert opinions and perspectives on the realistic practicalities of proteomics as an important tool to address healthcare problems caused by microbial pathogens.
    Keywords: QR1-502 ; Q1-390 ; Mass Spectrometry ; Proteomics ; infectious diseases ; Bacteria ; pathogen ; Microbes ; Protein posttranslational modifications ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 42
    Publication Date: 2022-01-31
    Description: Sulfur has many redox states and is a major metabolite in suboxic and anaerobic environments including, but not restricted to, marine and marginal marine sediments, the water column of oxygen minimum zones, salt marshes and oil wells. Microbially mediated redox cycling of sulfur typically comprises dissimilatory sulfate reduction (MSR), sulfide reoxidation, disproportionation and the oxidation and reduction of sulfur redox intermediates. These processes contribute to the degradation of organic matter, link the cycles of sulfur and carbon, control the production and consumption of methane and are critical for the long term budget of O2 in the atmosphere. Microbial and abiotic processes at redox interfaces also connect the sulfur cycle to the redox cycles of nitrogen, iron and other elements, producing distinctive geochemical and molecular signatures. Studies that couple microbiology with stable isotope geochemistry have informed interpretations of microbial sulfur cycling in modern and past environments. Laboratory-based studies and models of MSR have sought to understand the physiological and environmental controls of the magnitude of sulfur isotope fractionation. The fractionations of stable sulfur and oxygen isotopes during MSR are also used to track enzymatic activity during MSR and processes that oxidize sulfide in the presence of environmental oxidants. Outstanding questions in the field concern the importance of oxidative processes within the natural environment, the delivery of oxidants and carbon sources to the zones of sulfate reduction and the ability to detect or reconstruct oxidative processes from the chemical, isotopic, metagenomic, transcriptomic, proteomic and metabolomics profiles in the environment. Recent studies have emphasized the complex connections between sulfur and methane, iron, nitrogen and other elements. These links may involve the redox cycling of species that occur at concentrations difficult to detect by standard geochemical techniques or that are cycled at very rapid rates (cryptic cycles). Of particular interest is the use of isotope geochemistry to quantify links among various electron acceptors, including sulfate, ferric iron, and nitrate, during the anaerobic methane oxidation. For example, recent geochemical measurements have hinted that microbial sulfate reduction coupled to organic matter oxidation is mechanistically different to when sulfate reduction is coupled to methane oxidation. Recent studies have also suggested a possible contribution of a number of previously uncultured microbial groups in sulfur cycling in sulfidic environments, inspiring further studies of these organisms and their partnerships in anaerobic environments. This Research Topic highlights studies of microbial interactions, processes and communities that couple the sulfur cycle to the cycles of other elements in aphotic environments.
    Keywords: GB3-5030 ; QR1-502 ; Q1-390 ; issimilatory sulfate reduction (MSR) ; subsurface sulfur cycle ; sulfur
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  • 43
    Publication Date: 2024-04-05
    Description: Marine bacteria and archaea are key players in the biogeochemical cycling of nitrogen, carbon, and other elements. One important lineage of marine bacteria is the Roseobacter group. Members of this clade are the most abundant bacteria in marine ecosystems constituting up to 25% of the marine bacterioplankton. They have been detected in various marine habitats from coastal regions to deep-sea sediments and from polar regions to tropical latitudes. These bacteria are physiologically and genetically very versatile. Utilization of several organic and inorganic compounds, sulfur oxidation, aerobic anoxygenic photosynthesis, carbon monoxide oxidation, DMSP demethylation, and production of secondary metabolites are some of the important functional traits found in this clade. Moreover, several isolates are available allowing in-depth analysis of physiological and genetic characteristics. Although the Roseobacter group has been intensively studied in recent years, our understanding of its ecological contributions and the evolutionary processes shaping the genomes of this clade is still rather limited.
    Keywords: QR1-502 ; Q1-390 ; marine microbiology ; molecular ecology ; microbial evolution ; microbial diversity ; microbial ecology ; Roseobacter clade ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 44
    facet.materialart.
    Unknown
    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: Unfolded protein response (UPR) is a cellular adaptive response for restoring endoplasmic reticulum (ER) homeostasis in response to ER stress. Perturbation of the UPR and failure to restore ER homeostasis inevitably leads to diseases. It has now become evident that perturbation of the UPR is the cause of many important human diseases such as neurodegenerative diseases, cystic fibrosis, diabetes and cancer. It has recently emerged that virus infections can trigger the UPR but the relationship between virus infections and host UPR is intriguing. On one hand, UPR is harmful to the virus and virus has developed means to subvert the UPR. On the other hand, virus exploits the host UPR to assist in its own infection, gene expression, establishment of persistence, reactivation from latency and to evade the immune response. When this delicate balance of virus-host UPR interaction is broken down, it may cause diseases. This is particularly challenging for viruses that establish a chronic infection to maintain this balance. Each virus interacts with the host UPR in a different way to suit their life style and how the virus interacts with the host UPR can define the characteristic of a particular virus infection. Understanding how a particular virus interacts with the host UPR may pave the way to the design of a new class of anti-viral that targets this particular pathway to skew the response towards anti-virus. This knowledge can also be translated into the clinics to help re-design oncolytic virotherapy and gene therapy. In this research topic we aimed to compile a collection of focused review articles, original research articles, commentary, opinion, hypothesis and methods to highlight the current advances in this burgeoning area of research, in an attempt to provide an in-depth understanding of how viruses interact with the host UPR, which may be beneficial to the future combat of viral and human diseases.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; ERAD ; virus-host interaction ; innate immunity ; Gene Therapy ; Pathogenesis ; Endoplasmic Reticulum Stress ; Unfolded Protein Response ; Autophagy ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 45
    Publication Date: 2023-12-21
    Description: The ability of pathogens, such as parasites, bacteria, fungi and viruses to invade, persist and adapt in both invertebrate and vertebrate hosts is multifactorial and depends on both pathogen and host fitness. Communication between a pathogen and its host relies on a wide and dynamic array of molecular interactions. Through this constant communication most pathogens evolved to be relatively benign, whereas killing of its host by a pathogen represents a failure to adapt. Pathogens are lethal to their host when their interaction has not been long enough for adaptation. Evolution has selected conserved immune receptors that recognize signature patterns of pathogens as non-self elements and initiate host innate responses aimed at eradicating infection. Conversely, pathogens evolved mechanisms to evade immune recognition and subvert cytokine secretion in order to survive, replicate and cause disease. The cell signaling machinery is a critical component of the immune system that relays information from the receptors to the nucleus where transcription of key immune genes is activated. Host cells have developed signal transduction systems to maintain homeostasis with pathogens. Most cellular processes and cell signaling pathways are tightly regulated by protein phosphorylation in which protein kinases are key protagonists. Pathogens have developed multiple mechanisms to subvert important signal transduction pathways such as the mitogen activated protein kinase (MAPK) and the nuclear factor kB (NF-kB) pathways. Pathogens also secrete effectors that manipulate actin cytoskeleton and its regulators, hijack cell cycle machinery and alter vesicular trafficking. This research topic focuses on the cellular signaling mechanisms that are essential for host immunity and their subversion by pathogens.
    Keywords: R5-920 ; RC581-607 ; QR1-502 ; Q1-390 ; host-pathogen interaction ; Protein Kinases ; innate immunity ; immune signaling ; host response to microorganisms ; Cell signaling ; bic Book Industry Communication::M Medicine
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  • 46
    Publication Date: 2024-04-05
    Description: Gases with a mixing ratio of less than one percent in the lower atmosphere (i.e. the troposphere) are considered as trace gases. Numerous of these trace gases originate from biological processes in marine and terrestrial ecosystems. These gases are of relevance for the climate as they contribute to global warming or to the troposphere’s chemical reactive system that builds the ozone layer or they impact on the stability of aerosols, greenhouse, and pollutant gases. These reactive trace gases include methane, a multitude of volatile organic compounds of biogenic origin (bVOCs) and inorganic gases such as nitrogen oxides or ozone. The regulatory function of microorganisms for trace gas cycling has been intensively studied for the greenhouse gases nitrous oxide and methane, but is less well understood for microorganisms that metabolize molecular hydrogen, carbon monoxide, or bVOCs. The studies compiled in this Research Topic reflect this very well. While a number of articles focus on nitrous oxide and methane or carbon monoxide oxidation, only a few articles address conversion processes of further bVOCs. The Research Topic is complemented by three review articles about the consumption of methane and monoterpenes, as well as the role of the phyllosphere as a particular habitat for trace gas-consuming microorganisms, and point out future research directions in the field. The presented scientific work illustrates that the field of microbial regulation of trace glas fluxes is still in its infancy when one broadens the view on gases beyond methane and nitrous oxide. However, there is a societal need to better predict global dynamics of trace gases that impact on the functionality and warming of the troposphere. Upcoming modelling approaches will need further information on process rates, features and distribution of the driving microorganisms to fulfill this demanding task.
    Keywords: QR1-502 ; Q1-390 ; methanotroph ; nitrous oxide ; volatile organic compounds ; bVOCs ; methane ; carbon monoxide ; phyllosphere ; trace gases ; denitrification ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 47
    Publication Date: 2024-04-05
    Description: Bioechnology of microalgae takes much attention because of their ability to utilize light energy and fix CO2. Research in biotechnology of microalgae including eukaryotic algae and cyanobacteria is an important and attractive topic which attracts the interests of the public widely. This Research Topic aims to create a collection approaching biotechnology and biology of eukaryotic algae and cyanobacteria. Basic science of molecular biology and biochemistry is indispensable for proceeding future application of microalgae, and hence, the title includes "molecular biology" and "biochemistry". Broad range of basic and applied science of microalgae is appreciated in this special topic.
    Keywords: QR1-502 ; Q1-390 ; Metabolic Engineering ; Chlorella ; triacylglycerol ; Cyanobacteria ; photoreceptor ; Microalgae ; Synechocystis ; Chlamydomonas ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 48
    Publication Date: 2024-04-05
    Description: Vibrio parahaemolyticus is a gram negative, halophilic bacterium that occurs in the coastal and estuarine environments worldwide and is implicated in several cases of seafood-born gastroenteritis around the globe. However, not all strains of V. parahaemolyticus are pathogenic. Clinical isolates of V. parahaemolyticus most often produce either the thermostable direct haemolysin (TDH) or TDH-related haemolysin (TRH) encoded by tdh and trh genes, respectively. A pandemic clone of O3:K6 which was first detected in Kolkata (India), has been responsible for many outbreaks in Asia and the USA. With the emergence of pandemic clone of V. parahaemolyticus, this organism has assumed significance. Although most of the V. parahaemolyticus outbreaks are invariably related to seafood consumption, pathogenic strains are rarely isolated from seafood. Virulent strains producing TDH or TRH and the pandemic clone, which is responsible for most of the outbreaks (that have occurred after 1996) have been rarely isolated from seafood and other environmental samples. This could be due to the occurrence of pathogenic strains in the estuarine environment at a lower level compared to non-pathogenic strains. Another reason can be that the pathogenic stains are more sensitive to dystropic conditions in the aquatic environment and rapidly become non-culturable. Similarity in growth kinetics between virulent and non-virulent strains also made the isolation of virulent strains from the aquatic environment difficult. Several studies were done to determine the factors responsible for an increased virulence and persistance of pandemic clone. However, none of those studies were conclusive. Several researchers have proposed various genetic markers for specific detection of pandemic clone of V. parahaemolyticus. But many of those genetic markers were found to be unreliable. Recently, seven genomic islands (VPaI-1 to VPaI-7) unique to pandemic clone were identified. This Research Topic is dedicated to improve our current understanding of ecology, pathogenesis and detection of pathogenic and pandemic clone of V. parahaemolyticus, and will also strive to identify areas of future development.
    Keywords: QR1-502 ; Q1-390 ; Virulence ; Vibrio parahaemolyticus ; Genomic Islands ; tdh ; trh ; pandemic clone ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 49
    Publication Date: 2024-04-05
    Description: Aquatic microorganisms are tidily related to the carbon cycle in aquatic systems, especially in respect to its accumulation and emission to atmosphere. In one hand, the autotrophs are responsible for the carbon input to the ecosystems and trophic chain. On the other hand, the heterotrophs traditionally play a role in the carbon mineralization and, since microbial loop theory, may play a role to carbon flow through the organisms. However, it is not yet clear how the heterotrophs contribute to carbon retention and emission especially from tropical aquatic ecosystems. Most of the studies evaluating the role of microbes to carbon cycle in inland waters were performed in high latitudes and only a few studies in the tropical area. In the prospective of global changes where the warm tropical lakes and rivers become even warmer, it is important to understand how microorganisms behave and interact with carbon cycle in the Earth region with highest temperature and light availability. This research topic documented microbial responses to natural latitudinal gradients, spatial within and between ecosystems gradients, temporal approaches and temperature and nutrient manipulations in the water and in the sediment.
    Keywords: QR1-502 ; Q1-390 ; Microbial metabolism ; heterotrophs ; Lagoons ; biomass production ; Rivers ; microbial ecology ; Autotrophs ; Latitudinal gradients ; Tropical freshwaters ; Carbon Cycle ; Plankton ; microorganisms ; Lakes ; Respiration ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 50
    Publication Date: 2024-04-05
    Description: Next Generation Sequencing technologies are increasingly revealing that microbial taxa likely to be parasites or symbionts are probably much more prevalent and diverse than previously thought. Every well studied free-living species has parasites; parasites themselves can be parasitized. As a rule of thumb, there is an estimated 4 parasitic species for any given host, and the better a host is studied the more parasites are known to infect it. Therefore, parasites and other symbionts should represent a very large number of species and may far outnumber those with 'free-living' lifestyles. Paradoxically, free-living hosts, which form the bulk of our knowledge of biology, may be a minority! Microbial parasites typically are characterized by their small size, short generation time, and high rates of reproduction, with simple life cycle occurring generally within a single host. They are diverse and ubiquitous in the environment, comprising viruses, prokaryotes and eukaryotes. This Frontiers Research Topic sought to provide a broad overview but concise, comprehensive, well referenced and up-to-date state of the art for everyone involved with microbial parasites in aquatic microbial ecology.
    Keywords: QR1-502 ; Q1-390 ; Foodweb dynamics ; pathogens ; Viruses ; Parasites ; aquatic ecosystems ; microbial ecology ; Emerging diseases ; microbiome ; Parasite host interactions ; Aquaculture ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 51
    Publication Date: 2023-12-21
    Description: Despite continuous progress in the development of anti-viral and anti-bacterial/parasite drugs, the high cost of medicines and the potential for re-infection, especially in high risk groups, suggest that protective vaccines to some of the most dangerous persistent infections are still highly desirable. There are no vaccines available for HIV, HCV and Malaria, and all attempts to make a broadly effective vaccine have failed so far. In this Research Topic we look into why vaccines have failed over the years, and what we have learn from these attempts. Rather than only showing positive results, this issue aims to reflect on failed efforts in vaccine development. Coming to understand our limitations will have theoretical and practical implications for the future development of vaccines to these major global disease burdens.
    Keywords: R5-920 ; RC581-607 ; QR1-502 ; Q1-390 ; influenza ; HIV ; Malaria ; Infectious Disease ; Genetics ; Vaccine ; HCV ; immunology ; bic Book Industry Communication::M Medicine
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  • 52
    Publication Date: 2024-04-05
    Description: Ecological stoichiometry concerns the way that the elemental composition of organisms shapes their ecology. It deals with the balance or imbalance of elemental ratios and how that affects organism growth, nutrient cycling, and the interactions with the biotic and abiotic worlds. The elemental composition of organisms is a set of constraints through which all the Earth’s biogeochemical cycles must pass. All organisms consume nutrients and acquire compounds from the environment proportional to their needs. Organismal elemental needs are determined in turn by the energy required to live and grow, the physical and chemical constraints of their environment, and their requirements for relatively large polymeric biomolecules such as RNA, DNA, lipids, and proteins, as well as for structural needs including stems, bones, shells, etc. These materials together constitute most of the biomass of living organisms. Although there may be little variability in elemental ratios of many of these biomolecules, changing the proportions of different biomolecules can have important effects on organismal elemental composition. Consequently, the variation in elemental composition both within and across organisms can be tremendous, which has important implications for Earth’s biogeochemical cycles. It has been over a decade since the publication of Sterner and Elser’s book, Ecological Stoichiometry (2002). In the intervening years, hundreds of papers on stoichiometric topics ranging from evolution and regulation of nutrient content in organisms, to the role of stoichiometry in populations, communities, ecosystems and global biogeochemical dynamics have been published. Here, we present a collection of contributions from the broad scientific community to highlight recent insights in the field of Ecological Stoichiometry.
    Keywords: QR1-502 ; Q1-390 ; ecological scaling ; Biological stoichiometry ; ecological theory ; C:N:P ; Homeostasis ; Elemental composition ; Nutrient recycling ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 53
    Publication Date: 2022-01-31
    Description: Global biogeochemical cycles of carbon and nutrients are increasingly affected by human activities. So far, modeling has been central for our understanding of how this will affect ecosystem functioning and the biogeochemical cycling of carbon and nutrients. These models have been forced to adopt a reductive approach built on the flow of carbon and nutrients between pools that are difficult or even impossible to verify with empirical evidence. Furthermore, while some of these models include the response in physiology, ecology and biogeography of primary producers to environmental change, the microbial part of the ecosystem is generally poorly represented or lacking altogether. The principal pool of carbon and nutrients in soil is the organic matter. The turnover of this reservoir is governed by microorganisms that act as catalytic converters of environmental conditions into biogeochemical cycling of carbon and nutrients. The dependency of this conversion activity on individual environmental conditions such as pH, moisture and temperature has been frequently studied. On the contrary, only rarely have the microorganisms involved in carrying out the processes been identified, and one of the biggest challenges for advancing our understanding of biogeochemical processes is to identify the microorganisms carrying out a specific set of metabolic processes and how they partition their carbon and nutrient use. We also need to identify the factors governing these activities and if they result in feedback mechanisms that alter the growth, activity and interaction between primary producers and microorganisms. By determining how different groups of microorganisms respond to individual environmental conditions by allocating carbon and nutrients to production of biomass, CO2 and other products, a mechanistic as well as quantitative understanding of formation and decomposition of organic matter, and the production and consumption of greenhouse gases, can be achieved. In this Research Topic, supported by the Swedish research councils' programme "Biodiversity and Ecosystem Services in a Changing Landscape" (BECC), we intend to promote this alternative framework to address how cycling of carbon and nutrients will be altered in a changing environment from the first-principle mechanisms that drive them – namely the ecology, physiology and biogeography of microorganisms – and on up to emerging global biogeochemical patterns. This novel and unconventional approach has the potential to generate fresh insights that can open up new horizons and stimulate rapid conceptual development in our basic understanding of the regulating factors for global biogeochemical cycles. The vision for the research topic is to facilitate such progress by bringing together leading scientists as proponents of several disciplines. By bridging Microbial Ecology and Biogeochemistry, connecting microbial activities at the micro-scale to carbon fluxes at the ecosystem-scale, and linking above- and belowground ecosystem functioning, we can leap forward from the current understanding of the global biogeochemical cycles.
    Keywords: GB3-5030 ; QR1-502 ; Q1-390 ; stoichiometry ; Climate Change ; Soil Microbiology ; elemental fluxes ; aquatic microbiology ; microbial ecology ; Respiration ; biogeochemistry
    Language: English
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  • 54
    Publication Date: 2024-04-05
    Description: This eBook comprises s series of original research and review articles dealing with the anatomical, genetic, and physiological organization of the auditory system from humans to monkeys and mice.
    Keywords: RC321-571 ; Q1-390 ; audition ; monkeys ; gens ; translational ; Humans ; Rodents ; Memory ; Perception ; Physiology ; functional imaging ; Anatomy ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSA Life sciences: general issues::PSAN Neurosciences
    Language: English
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  • 55
    Publication Date: 2024-04-05
    Description: A thorough understanding of pathogenic microorganisms and their interactions with host organisms is crucial to prevent infectious threats due to the fact that Pathogen-Host Interactions (PHIs) have critical roles in initiating and sustaining infections. Therefore, the analysis of infection mechanisms through PHIs is indispensable to identify diagnostic biomarkers and next-generation drug targets and then to develop strategic novel solutions against drug-resistance and for personalized therapy. Traditional approaches are limited in capturing mechanisms of infection since they investigate hosts or pathogens individually. On the other hand, the systems biology approach focuses on the whole PHI system, and is more promising in capturing infection mechanisms. Here, we bring together studies on the below listed sections to present the current picture of the research on Computational Systems Biology of Pathogen-Host Interactions: - Computational Inference of PHI Networks using Omics Data - Computational Prediction of PHIs - Text Mining of PHI Data from the Literature - Mathematical Modeling and Bioinformatic Analysis of PHIs Computational Inference of PHI Networks using Omics Data Gene regulatory, metabolic and protein-protein networks of PHI systems are crucial for a thorough understanding of infection mechanisms. Great advances in molecular biology and biotechnology have allowed the production of related omics data experimentally. Many computational methods are emerging to infer molecular interaction networks of PHI systems from the corresponding omics data. Computational Prediction of PHIs Due to the lack of experimentally-found PHI data, many computational methods have been developed for the prediction of pathogen-host protein-protein interactions. Despite being emerging, currently available experimental PHI data are far from complete for a systems view of infection mechanisms through PHIs. Therefore, computational methods are the main tools to predict new PHIs. To this end, the development of new computational methods is of great interest. Text Mining of PHI Data from Literature Despite the recent development of many PHI-specific databases, most data relevant to PHIs are still buried in the biomedical literature, which demands for the use of text mining techniques to unravel PHIs hidden in the literature. Only some rare efforts have been performed to achieve this aim. Therefore, the development of novel text mining methods specific for PHI data retrieval is of key importance for efficient use of the available literature. Mathematical Modeling and Bioinformatic Analysis of PHIs After the reconstruction of PHI networks experimentally and/or computationally, their mathematical modeling and detailed computational analysis is required using bioinformatics tools to get insights on infection mechanisms. Bioinformatics methods are increasingly applied to analyze the increasing amount of experimentally-found and computationally-predicted PHI data. Acknowledgements: We, editors of this e-book, acknowledge Emrah Nikerel (Yeditepe University, Turkey) and Arzucan Özgür (Bogaaziçi University, Turkey) for their contributions during the initiation of the Research Topic.
    Keywords: QR1-502 ; Q1-390 ; Image-based Systems Biology ; Network Inference ; OMICS data ; Computational Biology ; bioinformatics ; protein-protein interaction ; text mining ; Constraint-based modeling ; gene regulatory network ; pathogen-host interaction ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 56
    Publication Date: 2024-04-05
    Description: The ingestion of food containing pathogenic microorganisms (i.e. bacteria and their toxins, fungi, viruses) and parasites can cause food-borne diseases in humans. A growing number of emerging pathogens, changes of virulence of known pathogens and appearance of antibiotic resistance has recently exposed consumers to a major risk of illness. Also infected people and the environment can spread microorganisms on raw or processed food. Outbreaks of food-borne diseases are often unrecognized, unreported, or not investigated and particularly in developing countries their agents and sources are mostly unknown. Surveillance and analytical methods aiming at their detection are to be hoped, as well as good strategies to struggle against these threats. This E-book is subdivided in chapters regarding to pathogenic and spoiling microorganisms, chemical hazards produced by biological agents and food safety management systems.
    Keywords: QR1-502 ; Q1-390 ; Food-borne diseases ; pathogens ; food spoilage ; Management systems ; Food Safety ; Biofilm ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 57
    Publication Date: 2024-04-05
    Description: Health and safety of food and feed are the most important criteria for their quality. The quality of feed is in turn important for animal health, the environment and for the safety of food from animal origin. Fungi belonging to the Fusarium genus are widespread in crops causing plant diseases and producing toxic metabolites. Fusarium species can colonize plants during their growth on the field and cause serious damage in terms of yield and quality of harvested grains. One of the most important fungal diseases of wheat and other cereals in the world is Fusarium head blight caused by the fungal pathogens Fusarium graminearum and Fusarium culmorum and others. In addition, these fungi produce mycotoxins, contaminating food and feed. The most important Fusarium mycotoxins include trichothecenes, zearalenone and fumonisins, primarily because of their prevalence, but also because of the toxic effect to humans and animals. However, these fungi produce also other mycotoxins such as moniliformin, beauvericin, enniantin or fusarins. Food and feed can be contaminated with mycotoxins at various stages in the production chain resulting in serious problems with health, safety and economic losses. It is estimated that 25% of the crop in the world each year are contaminated with these metabolites, the problem affects both industrialized countries and developing countries. The aim of this Research Topic of Frontiers in Microbiology is to publish state of the art research about occurrence and genomics of Fusarium species and their mycotoxins in the whole food and feed chain starting from the crops as well as implications for health and economic aspects. This research topic highlights the current knowledge on the plant diseases caused by Fusarium fungi as well as all aspects of Fusarium mycotoxin contamination of crops, food and feed, taking into account decontamination methods.
    Keywords: QR1-502 ; Q1-390 ; food contamination ; decontamination ; zearalenone ; disease resistance ; mycotoxins ; fumonisins ; Fusarium ; cereals ; trichothecenes ; breeding ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 58
    Publication Date: 2024-04-05
    Description: Antibiotics represent one of the most successful forms of therapy in medicine. But the efficiency of antibiotics is compromised by the growing number of antibiotic-resistant pathogens. Antibiotic resistance, which is implicated in elevated morbidity and mortality rates as well as in the increased treatment costs, is considered to be one of the major global public health threats (www.who.int/drugresistance/en/) and the magnitude of the problem recently prompted a number of international and national bodies to take actions to protect the public (http://ec.europa.eu/dgs/health_consumer/docs/road-map-amr_en.pdf: http://www.who.int/drugresistance/amr_global_action_plan/en/; http://www.whitehouse.gov/sites/default/files/docs/carb_national_strategy.pdf). Understanding the mechanisms by which bacteria successfully defend themselves against the antibiotic assault represent the main theme of this eBook published as a Research Topic in Frontiers in Microbiology, section of Antimicrobials, Resistance, and Chemotherapy. The articles in the eBook update the reader on various aspects and mechanisms of antibiotic resistance. A better understanding of these mechanisms should facilitate the development of means to potentiate the efficacy and increase the lifespan of antibiotics while minimizing the emergence of antibiotic resistance among pathogens.
    Keywords: QR1-502 ; Q1-390 ; Metagenomics ; Antibiotic resistance mechanisms ; combination therapy ; antibiotics ; antibiotic resistance reservoirs ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 59
    Publication Date: 2024-04-05
    Description: Modern molecular -omics tools (metagenomics, metaproteomics etc.) have greatly contributed to the rapid advancement of our understanding of microbial diversity and function in the world’s oceans. These tools are now increasingly applied to host-associated environments to describe the symbiotic microbiome and obtain a holistic view of marine host-microbial interactions. Whilst all eukaryotic hosts are likely to benefit from their microbial associates, marine sessile eukaryotes, including macroalgae, seagrasses and various invertebrates (sponges, acidians, corals, hydroids etc), rely in particular on the function of their microbiome. For example, marine sessile eukaryotes are under constant grazing, colonization and fouling pressure from the millions of micro- and macroorganisms in the surrounding seawater. Host-associated microorganisms have been shown to produce secondary metabolites as defense molecules against unwanted colonization or pathogens, thus having an important function in host health and survival. Similarly microbial symbionts of sessile eukaryotes are often essential players in local nutrient cycling thus benefiting both the host and the surrounding ecosystem. Various research fields have contributed to generating knowledge of host-associated systems, including microbiology, biotechnology, molecular biology, ecology, evolution and biotechnology. Through a focus on model marine sessile host systems we believe that new insight into the interactions between host and microbial symbionts will be obtained and important areas of future research will be identified. This research topic includes original research, review and opinion articles that bring together the knowledge from different aspects of biology and highlight advances in our understanding of the diversity and function of the microbiomes on marine sessile hosts.
    Keywords: QR1-502 ; Q1-390 ; Symbiosis ; marine diseases ; marine microbiology ; oysters ; macroalgae ; Microbial Diversity ; seaweeds ; Sponges ; Microbial Interactions ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 60
    Publication Date: 2024-04-05
    Keywords: QR1-502 ; Q1-390 ; Hyperthermophile ; Thermozyme ; Comparative genomics ; extremophile ; Metagenome ; hot spring ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 61
    Publication Date: 2024-04-05
    Description: The broad host range pathogenic bacterium Agrobacterium tumefaciens has been widely studied as a model system to understand horizontal gene flow, secretion of effector proteins into host cells, and plant-pathogen interactions. Agrobacterium-mediated plant transformation also is the major method for generating transgenic plants for research and biotechnology purposes. Agrobacterium species have the natural ability to conduct interkingdom genetic transfer from bacteria to eukaryotes, including most plant species, yeast, fungi, and even animal cells. In nature, A. tumefaciens causes crown gall disease resulting from expression in plants of auxin and cytokinin biosynthesis genes encoded by the transferred (T-) DNA. Gene transfer from A. tumefaciens to host cells requires virulence (vir) genes that reside on the resident tumor-inducing (Ti) plasmid. In addition to T-DNA, several Virulence (Vir) effector proteins are also translocated to host cells through a bacterial type IV secretion system. These proteins aid in T-DNA trafficking through the host cell cytoplasm, nuclear targeting, and T-DNA integration. Genes within native T-DNAs can be replaced by any gene of interest, making Agrobacterium species important tools for plant research and genetic engineering. In this research topic, we provided updated information on several important areas of Agrobacterium biology and its use for biotechnology purposes.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; Agrobacterium ; crown gall ; Quorum Sensing ; plant defense ; T DNA ; Virulence ; Biofilm ; Attachment ; genetic transformation ; Membrane lipid ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 62
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    Unknown
    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: Nowadays, most of Western consumers are aware that a targeted diet could be an important tool for fighting ageing and diseases such as hypertension, diabetes, and obesity. Microorganisms may be exploited for setting up novel foods that, beside their nutritional value, may positively impact on consumers’ health. Some microorganisms may benefit host when ingested as viable cells carried by food and beverages. This falls in the intriguing field of probiotics, recently brought forward by the numerous probiotic claims rejected by the European Food Safety Authority. This research topic includes research articles and reviews/perspectives that (i) contribute to understand the mechanism underlying the health effects of probiotic microorganisms; (ii) show integrated approaches for selecting new probiotics; (iii) report about non-dairy food items as novel carriers of probiotics; and (iv) deal with biologically active compounds from microorganisms.
    Keywords: QR1-502 ; Q1-390 ; probiotic ; gut microbiome ; lactobacilli ; Fermentation ; Health claim ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 63
    Publication Date: 2024-04-05
    Description: Throughout the food processing chain and after ingestion by the host, food associated bacteria have to cope with a range of stress factors such as thermal and/or non-thermal inactivation treatments, refrigeration temperatures, freeze-drying, high osmolarity, acid pH in the stomach or presence of bile salts in the intestine, that threaten bacterial survival. The accompanying plethora of microbial response and adaptation phenomena elicited by these stresses has important implications for food technology and safety. Indeed, while resistance development of pathogenic and spoilage microorganisms may impose health risks for the consumer and impart great economic losses to food industries, reduced survival of probiotic bacteria may strongly compromise their claimed health benefit attributes. As a result, substantial research efforts have been devoted in the last decades to unravel the mechanisms underlying stress response and resistance development in food associated microorganisms in order to better predict and improve (i) the inactivation of foodborne pathogens and spoilage microorganisms on the one hand and (ii) the robustness and performance of beneficial microorganisms on the other. Moreover, the recent implementation of system-wide omics and (single-)cell biology approaches is greatly boosting our insights into the modes of action underlying microbial inactivation and survival. This Research Topic aims to provide an avenue for dissemination of recent advances within the field of microbial stress response and adaptation, with a particular focus not only on food spoilage and pathogenic microorganisms but also on beneficial microbes in foods.
    Keywords: QR1-502 ; Q1-390 ; food safety ; stress response ; pathogens ; spoilage bacteria ; bacterial stress response ; food quality ; food microbiology ; food preservation ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 64
    Publication Date: 2023-12-20
    Description: Anaerobic digestion (AD) is a naturally-occurring biological process in soils, sediments, ruminants, and several other anoxic environments, that cycles carbon and other nutrients, and converts organic matter into a methane-rich gas. As a biotechnology, AD is now well-established for the treatment of the organic fraction of various waste materials, including wastewaters, but is also increasingly applied for an expanding range of organic feedstocks suitable for biological conversion to biogas. AD applications are classified in various ways, including on the basis of bioreactor design; and operating parameters, such as retention time, temperature, pH, total solids (TS) and volatile solids (VS) contents, and biodegradability of substrates. AD is an attractive bioenergy and waste / wastewater treatment technology. The advantages of AD for waste treatment include: production of a useable fuel (biogas/methane); possibility of high organic loading; reduced carbon footprint; and suitability for integration into a wide variety of process configurations and scales. Specifically, two important, and developing, applications exemplify the potential of AD technologies: (1) the integration of AD as the basis of the core technologies underpinning municipal wastewater, and sewage, treatment, to displace less sustainable, and more energy-intensive, aerobic biological treatment systems in urban water infrastructures; and (2) technical innovations for higher-rate conversions of high-solids wastestreams, and feedstocks, for the production of energy carriers (i.e. methane-biogas, but possibly also biohydrogen) and other industrially-relevant intermediates, such as organic acids. Internationally, the research effort to maximize AD biogas yield has increased ten-fold over the past decade. Depending on the feedstocks, bioreactor design and process parameters, fundamental and applied knowledge are still required to improve conversion rates and biogas yields. This Research Topic cover aspects related to AD processes, such as the effect of feedstock composition, as well as the effect of feedstock pre-treatment, bioreactor design and operating modes, on process efficiency; microbial community dynamics and systems biology; influence of macro- and micro-nutrient concentrations and availability; process control; upgrading and calibration of anaerobic digestion models (e.g. ADM1) considering the biochemical routes as well as the hydrodynamics in such ecosystems; and novel approaches to process monitoring, such as the development, and application, of novel, and rapid diagnostic assays, including those based on molecular microbiology. Detailed full-scale application studies were also particularly welcomed.
    Keywords: GE1-350 ; TA1-2040 ; TP248.13-248.65 ; QR1-502 ; Q1-390 ; Wastewater treatment technology ; Anaerobic digestion (AD) ; bic Book Industry Communication::K Economics, finance, business & management::KC Economics::KCN Environmental economics
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  • 65
    Publication Date: 2024-04-05
    Description: Productive HIV infection requires completion of all the steps of the replication cycle, the success of which largely relying on the multiple interactions established by viral proteins with cellular partners. Indeed, cellular and viral fates are intertwined and this interplay may involve rerouting of cellular factors/pathways to the benefit of the viral life cycle. To gain a foothold into host cells, HIV has to take advantage of available cellular factories and overcome the numerous potential blocks opposed to its replication while ensuring cellular survival. Viral auxiliary proteins are a perfect paradigm to illustrate the complexity of the relationship between HIV and its host. Although these accessory proteins are mostly unnecessary for viral replication in permissive cells in vitro, they play a crucial role in regulating viral spread ex vivo in non-permissive cells and in vivo in hosts. Most accessory proteins are pleiotropic and instrumental in the counteraction of restriction factors and proteins involved in innate immune response. Several proteins of the "intrinsic" immune system that detect the presence of the assailant and initiate a subsequent immune response, as well as restriction factors that are directly devoted to arresting the replication cycle at precise steps have been characterized. Despite the numerous cellular mechanisms dedicated to preventing viral replication, HIV is able to efficiently replicate in humans. Indeed, as a master regulator of cellular machineries and processes, not only has HIV evolved strategies to avoid triggering of pattern recognition receptors, but HIV has also elaborated ways to counteract host restriction factors, thereby overcoming the hurdles that oppose efficient replication. This review collection is dedicated to the manipulation of host cells by HIV-1 and HIV-2, with a particular focus on viral accessory proteins.
    Keywords: QR1-502 ; Q1-390 ; HIV ; intracellular sensors ; restriction factors ; intrinsic immune system ; Viral accessory proteins ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 66
    facet.materialart.
    Unknown
    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: Fungal natural products are friends and foes of humans such as deleterious mycotoxins, cytotoxic, carcinogenic compounds or beneficial compounds such as antibiotics, fungicides, insecticides, antiviral and antitumor metabolites. Understanding fungal diversity and estimation of fungal species on our planet poses a great challenge to researchers. This complexity is further multiplied by secondary metabolite diversity of fungi, which requires interdisciplinary studies. It is extremely important to understand the fungal secondary metabolism to stop human, animal and plant diseases caused by fungi and harvest their valuable metabolites. Furthermore, many secondary metabolite gene clusters are silenced under laboratory conditions. It is vital to develop effective methods to activate those clusters in order to discover novel potent metabolites. This e-book is a compilation of original review articles contributed by leading fungal secondary metabolite researchers with a wide range of expertise. Important aspects of fungal secondary metabolism, including regulation, genome mining, evolution, synthetic biology and novel methods have been discussed. This book will be a great source to those people, who are interested in understanding overall structure, diversity and regulation of production of these tiny but precious chemicals.
    Keywords: QR1-502 ; Q1-390 ; Fungi ; mushrooms ; Natural Products ; silent clusters ; Gene clusters ; secondary metabolism ; Mycotoxins ; Molds ; antibiotics ; genome mining ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 67
    Publication Date: 2024-04-05
    Description: Plants are typically colonized by numerous endophyte species symbiotically without any noticeable disease symptoms. These microbes are abundant, diverse and play critical ecological roles across natural and agricultural ecosystems. Endophytes have attracted the attention of researchers due to their various beneficial effects on plants, especially in agricultural crop species. Genomic tools will enhance our understanding on the growth and nutrition requirements of this host-symbiont relationship. Recent advances in DNA sequencing technologies and bioinformatic pipelines have allowed analyzing the plant microbiome and host-endophyte interaction more effectively with limited bias. Furthermore, various studies have employed and utilized transcriptomic and genomic tools to understand the role of endophytes and their interaction with plant hosts. This electronic book covers various research articles highlighting the important developments on endophytes using transcriptomics, next generation sequencing and genomic tools.
    Keywords: QR1-502 ; Q1-390 ; next-generation sequencing ; symbiosis ; Transcriptome ; plant-microbe interaction ; Endophyte ; Genome ; microbiome ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 68
    Publication Date: 2024-04-05
    Description: Fungal infections such as candidoses can range from superficial mucous membrane infection to life-threatening systemic mycoses. Candida infections are a significant clinical problem globally due to rapid rise in compromised host populations including HIV/AIDS, organ transplant recipients and patients on chemotherapy. In addition, sharp increase in aging populations which are susceptible to fungal infections is expected in next few decades. Antifungal drugs are relatively difficult to develop compared to the antibacterial drugs owing to the eukaryotic nature of the cells. Therefore, only a handful of antifungal agents are currently available to treat the myriad of fungal infections. Moreover, rising antifungal resistance and host-related adverse reactions have limited the antifungal arsenal against fungal pathogens. In this research topic, we tried to update the theoretical aspects pertaining to the antifungal drug discovery i.e. proposed novel mechanisms, new drug targets and pathways. In addition, invited authors explored the new antifungal drugs derived from natural and synthetic sources which are currently under development. Contributors were encouraged to bring new insight into the antifungal drug discovery. We hope the reader may arrive at a general consensus on the possible strategies to combat ever increasing ubiquitous fungal infection in this new century.
    Keywords: QR1-502 ; Q1-390 ; Resistance ; Antimycotics ; Candida ; Mycoses ; antifungals ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 69
    Publication Date: 2024-04-05
    Description: Advances in next-generation sequencing technologies (NGS) are revolutionizing the field of food microbiology. Microbial whole genome sequencing (WGS) can provide identification, characterization, and subtyping of pathogens for epidemiological investigations at a level of precision previously not possible. This allows for connections and source attribution to be inferred between related isolates that may be overlooked by traditional techniques. The archiving and global sharing of genome sequences allow for retrospective analysis of virulence genes, antimicrobial resistance markers, mobile genetic elements and other novel genes. The advent of high-throughput 16S rRNA amplicon sequencing, in combination with the advantages offered by massively parallel second-generation sequencing for metagenomics, enable intensive studies on the microbiomes of food products and the impact of foods on the human microbiome. These studies may one day lead to the development of reliable culture-independent methods for food monitoring and surveillance. Similarly, RNA-seq has provided insights into the transcriptomes and hence the behaviour of bacterial pathogens in food, food processing environments, and in interaction with the host at a resolution previously not achieved through the use of microarrays and/or RT-PCR. The vast un-tapped potential applications of NGS along with its rapidly declining costs, give this technology the ability to contribute significantly to consumer protection, global trade facilitation, and increased food safety and security. Despite the rapid advances, challenges remain. How will NGS data be incorporated into our existing global food safety infrastructure? How will massive NGS data be stored and shared globally? What bioinformatics solutions will be used to analyse and optimise these large data sets? This Research Topic discusses recent advances in the field of food microbiology made possible through the use of NGS.
    Keywords: QR1-502 ; Q1-390 ; Salmonella ; Norovirus ; Foodborne ; Listeria ; Food Safety ; Food Microbiology ; Next Generation Sequencing ; Whole Genome Sequencing ; Microbiome ; Vibrio ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 70
    Publication Date: 2024-04-05
    Description: The World population will reach 9 billion by 2050, with the majority of this growth occurring in developing countries. On the other hand, one in nine of the World's population suffers from chronic hunger, the vast majority of which live in developing countries. We therefore need to find new and sustainable solutions to feed this increasing population and alleviate the predicted negative impact of global changes on crop production. This e-Book deals with new strategies to improve food security and livelihoods in rural communities, reduce vulnerability, increase resilience and mitigate lthe impact of climate change and land degradation on agriculture. This collection of 18 articles addresses the major abiotic factors limiting crop production worldwide, how to characterize and exploit the available plant biodiversity to increase production and sustainability in agrosystems, and the use of beneficial microbes to improve production and reduce the use of fertilizers and pesticides.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; biofertilizer ; Ecological intensification ; Inoculation ; Climate Change ; intercropping ; drought ; Breeding ; Salinization ; Biodiversity ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 71
    Publication Date: 2024-04-05
    Description: Ruminants were domesticated in the Middle East about 10,000 years ago and have since become an inseparable part of human diet, society, and culture. Ruminants can transform inedible plant fiber and non-protein nitrogen into meat, milk, wool and traction, thus allowing human utilization of non-tillable land and industrial by-products. The nutritional flexibility of ruminants is conferred by the rumen´s complex microbial community. Driven by rising income and population growth in emergent economies, the global demand for livestock products, including milk and meat from ruminants, has been increasingly growing, and is predicted to continue growing in the next few decades. The increase in production necessary to satisfy this rising demand is putting much pressure on already dwindling natural resources. There are also concerns about the emissions of methane and nitrous oxide, potent greenhouse gases associated to ruminant production. The need to make ruminant production more efficient in the use of natural resources poses a big challenge to ruminant science, and within it, rumen microbiology. Recent years have seen important advances in basic and applied rumen microbiology and biochemistry. The knowledge generated has significant implications for the efficiency and sustainability of ruminant production and the quality of ruminant products for human health. The present compilation is an update of recent advances in rumen microbiology and ruminant digestion and fermentation, including original research, reviews, and hypothesis and theory articles. We hope that the experimental results, discussion, models and ideas presented herein are useful to foster future research contributing to sustainable ruminant production.
    Keywords: QR1-502 ; Q1-390 ; Microbiology ; Rumen ; Biochemistry ; Fermentation ; Metabolism ; Ruminants ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 72
    Publication Date: 2024-04-05
    Description: All parts of our body having communication with the external environment such as the skin, vagina, the respiratory tract or the gastrointestinal tract are colonized by a specific microbial community. The colon is by far the most densely populated organ in the human body. The pool of microbes inhabiting our body is known as “microbiota” and their collective genomes as “microbiome”. These microbial ecosystems regulate important functions of the host, and their functionality and the balance among the diverse microbial populations is essential for the maintenance of a “healthy status”. The impressive development in recent years of next generation sequencing (NGS) methods have made possible to determine the gut microbiome composition. This, together with the application of other high throughput omic techniques and the use of gnotobiotic animals has greatly improved our knowledge of the microbiota acting as a whole. In spite of this, most members of the human microbiota are largely unknown and remain still uncultured. The final functionality of the microbiota is depending not only on nutrient availability and environmental conditions, but also on the interrelationships that the microorganisms inhabiting the same ecological niche are able to establish with their partners, or with their potential competitors. Therefore, in such a competitive environment microorganisms have had to develop strategies allowing them to cope, adapt, or cooperate with their neighbors, which may imply notable changes at metabolic, physiological and genetic level. The main aim of this Research Topic was to contribute to better understanding complex interactions among microorganisms residing in human microbial habitats.All parts of our body having communication with the external environment such as the skin, vagina, the respiratory tract or the gastrointestinal tract are colonized by a specific microbial community. The colon is by far the most densely populated organ in the human body. The pool of microbes inhabiting our body is known as “microbiota” and their collective genomes as “microbiome”. These microbial ecosystems regulate important functions of the host, and their functionality and the balance among the diverse microbial populations is essential for the maintenance of a “healthy status”. The impressive development in recent years of next generation sequencing (NGS) methods have made possible to determine the gut microbiome composition. This, together with the application of other high throughput omic techniques and the use of gnotobiotic animals has greatly improved our knowledge of the microbiota acting as a whole. In spite of this, most members of the human microbiota are largely unknown and remain still uncultured. The final functionality of the microbiota is depending not only on nutrient availability and environmental conditions, but also on the interrelationships that the microorganisms inhabiting the same ecological niche are able to establish with their partners, or with their potential competitors. Therefore, in such a competitive environment microorganisms have had to develop strategies allowing them to cope, adapt, or cooperate with their neighbors, which may imply notable changes at metabolic, physiological and genetic level. The main aim of this Research Topic was to contribute to better understanding complex interactions among microorganisms residing in human microbial habitats.
    Keywords: QR1-502 ; Q1-390 ; bacterial-pathogen infection ; Quorum Sensing ; Bifidobacterium ; Short Chain Fatty Acids ; Biofilm ; gnotobiotic mice ; breast milk ; human microbiota ; Bacteroides ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 73
    Publication Date: 2024-04-05
    Description: The global population aged over 60 is set to rise dramatically in the coming decades. In many countries, the older population now faces the prospect of spending a quarter of their lives aged over 65, and a significant proportion will have to cope with cognitive decline associated with normal ageing or with dementia disorders. Given that these fundamental demographic changes will pose a significant challenge to health care systems, a detailed understanding of age-related cognitive and neurobiological changes is essential in helping elderly populations maintain cognitive performance. In addition, developing sensitive biomarkers to identify those at risk of developing dementia is crucial for early and effective interventions. To make inferences about the ageing process from the animal model back to the human, rigorous behavioral paradigms must be used to ensure that the same function is being examined across species. Given that similar navigational paradigms can easily be applied to humans and animals, recent years have seen an expansion of studies attempting to bridge the gap between age-related changes in animal and human spatial cognition. These studies begin to suggest that disruptions in spatial computations are among the earliest indicators of impending cognitive decline. In addition, although many animal studies have identified pathological mechanisms with paradigms involving spatial navigation, these mechanisms support many nonspatial cognitive functions as well. As a consequence, a successful characterization of how spatial processing changes in the ageing brain could reveal fundamental effects of cognitive ageing that could inform about general mechanisms underlying decline in perception, mnemonic processing and multisensory integration.
    Keywords: RC321-571 ; Q1-390 ; Neuroscience ; spatial navigation ; Humans ; Aging ; Animal Models ; Dementia ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSA Life sciences: general issues::PSAN Neurosciences
    Language: English
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  • 74
    Publication Date: 2024-03-30
    Description: The term “immunobiotics” has been proposed to define microbial strains able to beneficially regulate the mucosal immune system. Research in immunobiotics has significantly evolved as researchers employed cutting-edge technologies to investigate the complex interactions of these beneficial microorganisms with the immune system. During the last decade, our understanding of immunobiotics-host interaction was profoundly transformed by the discovery of microbial molecules and host receptors involved in the modulation of gut associated immune system, as well as the systemic and distant mucosal immune systems. In recent years, there has been a substantial increase in the number of reports describing the beneficial effects of immunobiotics in diseases such as intestinal and respiratory infections, allergy, inflammatory bowel disease, obesity, immunosuppression, and several other immune-mediated conditions. Evidence is also emerging of immunobiotics related molecules with immunomodulatory functions leading to the production of pharmabiotics, which may positively influence human or animal health. Therefore, research in immunobiotics continue to contribute not only to food but also medical and pharmaceutical fields. The compilation of research articles included in this ebook should help reader to have an overview of the recent advances in immunobiotics.
    Keywords: R5-920 ; RC581-607 ; QR1-502 ; Q1-390 ; infection ; inflammation ; mucosal immune system ; beneficial microbes ; Immunobiotics ; lactic acid bacteria ; probiotics
    Language: English
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  • 75
    Publication Date: 2024-04-05
    Description: The causes and consequences of differences in microbial community structure, defined here as the relative proportions of rare and abundant organisms within a community, are poorly understood. Articles in "The Causes and Consequences of Microbial Community Structure", use empirical or modeling approaches as well as literature reviews to enrich our mechanistic understanding of the controls over the relationship between community structure and ecosystem processes. Specifically, authors address the role of trait distributions and tradeoffs, species-species interactions, evolutionary dynamics, community assembly processes and physical controls in affecting ‘who’s there’ and ‘what they are doing’.
    Keywords: QR1-502 ; Q1-390 ; species-species interactions ; Trait-based approahes ; ecological trade-offs ; microbial community assembly ; Biodiversity-ecosystem function ; Structure-function ; trait distributions ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 76
    Publication Date: 2022-01-31
    Description: The microbial community in the oligotrophic North Pacific Subtropical Gyre is dominated by unicellular microorganisms less than a few micrometers in size. Despite the persistent low nutrient concentrations, phytoplankton growth rates appear near maximal, sustained by the recycling of nutrients with plankton population sizes regulated by processes such as zooplankton grazing and viral lysis. Seasonal pulses of particle export to the deep sea and increases in phytoplankton abundance occur during the summer months; however, the factors that result in these imbalances in growth and loss processes are not well understood. Nonetheless, as a result of persistent fieldwork and development of sensitive methodologies, the biogeochemical and ecological dynamics occurring over timescales ranging from diel to interannual are being revealed. This Research Topic covers multiple aspects of microbial oceanography in the oligotrophic North Pacific Subtropical Gyre including identification and isolation of microorganisms, quantification of microbial biomass and turnover, metabolism and physiological activities, and microbial-mediated biogeochemical cycling. All of the papers use field data collected by either the Hawaii Ocean Time-series (HOT) program, the Center for Microbial Oceanography: Research and Education (C-MORE) or the Simons Collaboration on Ocean Processes and Ecology (SCOPE). These three programs have greatly increased our understanding of microbial ecology and biogeochemical cycling in the NPSG, in part by providing unparalleled access to the NPSG on oceanographic research vessels.
    Keywords: GC1-1581 ; QR1-502 ; Q1-390 ; Ocean biogeochemistry ; Microbiology ; productivity ; diazotroph ; Oligotrophic ; export ; nutrients
    Language: English
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  • 77
    Publication Date: 2024-04-05
    Description: Prokaryotes have a complex cell envelope which has several important functions, including providing a barrier that protects the cytoplasm from the environment. Along with its associated proteinaceous structures, it also ensures cell stability, facilitates motility, mediates adherence to biotic and abiotic surfaces, and facilitates communication with the extracellular environment. Viruses have evolved to take advantage of cell envelope constituents to gain access to the cellular interior as well as for egress from the cell. While many aspects of the biosynthesis and structure of the cell envelope are similar across domains, archaeal cell envelopes have several unique characteristics including, among others, an isoprenoid lipid bilayer, a non-murein-based cell wall, and a unique motility structure, (important features that give archaeal cell envelopes characteristics that are significantly different from those of bacterial cell envelopes – possibly out). Recent analyses have revealed that the cell envelopes of distantly related archaea also display an immense diversity of characteristics. For instance, while many archaea have an S-layer, the subunits of S-layers of various archaeal species, as well as their posttranslational modifications, vary significantly. Moreover, like gram-negative bacteria, recent studies have shown that some archaeal species also have an outer membrane. In this collection of articles, we include contributions that focus on research that has expanded our understanding of the mechanisms underlying the biogenesis and functions of archaeal cell envelopes and their constituent surface structures.
    Keywords: QR1-502 ; Q1-390 ; pili ; membrane ; Biofilms ; hami ; Archaea ; S-layer ; Cytochromes ; Surface structures ; Flagella ; archaella ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 78
    Publication Date: 2024-04-05
    Description: Antimicrobial peptides, commonly isolated from several organisms, have been considered part of innate immune system and also as potential antimicrobial drugs. Besides its antimicrobial activity, some AMPs also have antifungal activity, inmmunomodulatory and antitumural activities. Lately not only nature has become a source of AMPs. Besides isolation of natural organisms, antimicrobial peptides might be improved or created using computational tools. This opens even more this so amazing field by creating infinite novel and remarkable possibilities. Overall the current issue highlights the relevance of such Research Topic with perspectives to develop entirely new molecules with vast application within health and agricultural field with higher affinity for its target with concomitant reduction of side effects.
    Keywords: QR1-502 ; Q1-390 ; pathogenic bacteria ; Fungi ; natural ; peptide design ; proteinase inhibitors ; Bacterial resistance ; virus ; antimicrobial peptides ; self-assembled structures ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 79
    Publication Date: 2024-04-05
    Description: Microbial polysaccharides represent an attractive alternative to those from plants or macro algae. They can be produced from renewable sources including lignocellulosic waste streams. Their production does not depend on geographical constraints and/or seasonal limitations. Additionally the manipulation of biosynthetic pathways to enhance productivity or to influence the chemi-cal polysaccharide composition is comparatively easy in bacteria. Microbial exopolysaccharides represents a valuable resource of biogenic and biodegradable polymers, suitable to replace petro based polymers in various technical applications. Furthermore, biocompatible exopolysaccha-rides are very attractive in medical applications, such as drug delivery systems, use as vaccines or nanoparticles. This research topic will depict the status quo, as well as the future needs in the field of EPS and biofilm research. Starting from the unexplored diversity of microbial polysaccharide producers to production processes and possibilities for modifications, to enhance the already high number of functionalities based on the chemical structures. An overview of the recent and future applications will be given, and the necessity in unravelling the biosynthesis of microbial exopolysaccharide producers is depicted, highlighting the future trend of tailor made polymers. Constraints in structure analysis of these highly complex biogenic polymers are described and different approaches to solve the restrictions in imaging and NMR analysis will be given. Therefore; this research topic comprises the whole process from genes to applications.
    Keywords: QR1-502 ; Q1-390 ; alginate ; screening for microbial exopolysaccharide producers ; polysaccharide applications ; structural analysis of polysaccharides ; polysaccharide modifying enzymes ; biofilm ; rare sugars ; exopolysaccharide biosynthesis ; Microbial polysaccharides ; tailor made exopolysaccharides ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 80
    Publication Date: 2024-04-05
    Description: Enterobacteriaceae are spread worldwide and the diseases they cause may be fatal especially in immunocompromised patients. Moreover, the high prevalence of ESBL producing Salmonella and Shigella species diseases worldwide suggests major underlying safety issues. According to the World Health Organization (WHO), 2015, approximately 220 million children contract diarrhoeal diseases every year and 96 000 die. As a result, the increase in single or multi drug-resistant foodborne bacterial pathogens is of major public health concern. Moreover, resistance to antimicrobials was found among Salmonella spp and Campylobacter spp from animals and food, and since fluoroquinolones became licensed for use in animal foods, especially for poultry, the rate of fluoroquinolone resistant Salmonella spp and Campylobacter spp in animals and human food, and then in human infections, rapidly increased. To that purpose, the findings of the conducted studies in the book chapters, 1) highlight surveillance studies reporting the occurrence and distribution of resistance to antimicrobial agents, namely, to third generation cephalosporins, carbapenems and fluoroquinolones, 2) describe the mechanisms of transmission of resistance determinants from animals, food products and clinical specimens, that allow implementation of appropriate measures to control their spread and adopt appropriate therapeutic measures, and 3) provide treatment options, useful to medical practice.
    Keywords: QR1-502 ; Q1-390 ; Resistance ; Treatment ; ESBLs ; surveillance ; carbapenemases ; Enterobacteriaceae ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 81
    Publication Date: 2024-04-05
    Description: Viruses infect numerous microorganisms including, predominantly, Bacteria (bacteriophages or phages) but also Archaea, Protists, and Fungi. They are the most abundant and ubiquitous biological entities on Earth and are important drivers of ecosystem functioning. Little is known, however, about the vast majority of these viruses of microorganisms, or VoMs. Modern techniques such as metagenomics have enabled the discovery and description of more presumptive VoMs than ever before, but also have exposed gaps in our understanding of VoM ecology. Exploring the ecology of these viruses – which is how they interact with host organisms, the abiotic environment, larger organisms, and even other viruses across a variety of environments and conditions – is the next frontier. Integration of a growing molecular understanding of VoMs with ecological studies will expand our knowledge of ecosystem dynamics. Ecology can be studied at multiple levels including individual organisms, populations, communities, whole ecosystems, and the entire biosphere. Ecology additionally can consider normal, equilibrium conditions or instead perturbations. Perturbations are of particular interest because measuring the effect of disturbances on VoM-associated communities provides important windows into how VoMs contribute to ecosystem dynamics. These disturbances in turn can be studied through in vitro, in vivo, and in situ experimentation, measuring responses by VoM-associated communities to changes in nutrient availability, stress, physical disruption, seasonality, etc., and could apply to studies at all ecological levels. These are considered here across diverse systems and environments.
    Keywords: QR1-502 ; Q1-390 ; metaviromes ; environmental disturbance ; phage ecology ; bacteriophages ; phage therapy ; aquatic microbiology ; evolution ; microarrays ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 82
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    Unknown
    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: The deep subsurface is, in addition to space, one of the last unknown frontiers to human kind. A significant part of life on Earth resides in the deep subsurface, hiding great potential of microbial life of which we know only little. The conditions in the deep terrestrial subsurface are thought to resemble those of early Earth, which makes this environment an analog for studying early life in addition to possible extraterrestrial life in ultra-extreme conditions. Early microorganisms played a great role in shaping the conditions on the young Earth. Even today deep subsurface microorganisms interact with their geological environment transforming the conditions in the groundwater and on rock surfaces. Essential elements for life are richly present but in difficultly accessible form. The elements driving the microbial deep life is still not completely identified. Most of the microorganisms detected by novel molecular techniques still lack cultured representatives. Nevertheless, using modern sequencing techniques and bioinformatics the functional roles of these microorganisms are being revealed. We are starting to see the differences and similarities between the life in the deep subsurface and surface domains. We may even begin to see the function of evolution by comparing deep life to life closer to the surface of Earth. Deep life consists of organisms from all known domains of life. This Research Topic reveals some of the rich diversity and functional properties of the great biomass residing in the deep dark subsurface.
    Keywords: QR1-502 ; Q1-390 ; Nitrogen Cycle ; Methane ; Eukaryotes ; Iron oxidation ; cave ; Groundwater ; Terrestrial deep biosphere ; MINE ; Heavy metal resistance ; microbiome ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 83
    Publication Date: 2022-01-31
    Description: Exponentially increasing information on biological organisms coupled with increasing computational power in the past decade have broadened the perspective of fundamental biological research, bringing about considerable promise and unprecedented potential for practical applications in biotechnology. As one emergent discipline, synthetic biology aims to design and engineer novel biologically-based parts, devices, and systems, in addition to redesigning existing, natural biological systems. Although previously relegated to demonstration studies, more recent research in synthetic biology has focused on the rational engineering of industrial microorganisms with the potential to address many of society’s critical challenges. Within the realm of industrial microbiology, progress in the field of synthetic biology has enabled the development of, for example, new biosynthetic pathways for the production of renewable fuels and chemicals, programmable logic controls to regulate and optimize cell function, and robust microbes for the destruction of harmful environmental contaminants. Some of the exciting examples included producing anti-malarial drug, anti- cancer taxol precursor and various biofuel molecules in E. coli and yeast. In addition, these researches have also greatly enhanced our understanding of the cellular machinery and its regulation in some of the industry important microbes, laying an important foundation for further design and engineering of biological function for even greater application. For these reasons, we present here a collection of articles from the leading edge of the field of synthetic biology, with a specific focus on the development in industrial microorganisms. It is the intent of this collection to reach a wide audience whose interests and expertise spans from development of novel synthetic biology methodologies and theories (both experimental and computational) to practical applications seeking to address issues facing the world today.
    Keywords: GE1-350 ; TP248.13-248.65 ; TA1-2040 ; QR1-502 ; Q1-390 ; Industrial Microbiology ; Biotechnology ; Synthetic Biology ; microbial systems ; chemicals
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  • 84
    Publication Date: 2024-04-05
    Description: Development and spread of antimicrobial resistance is the result of an evolutionary process by which microorganisms adapt to antibiotics through several mechanisms including alteration of drug target by mutation and horizontal transfer of resistance genes. The concomitant occurrence of independent antimicrobial resistance mechanisms is a serious threat to human health and has appeared in several emerging epidemic clones over the past decade in humans and also in animals. The increasing prevalence of antimicrobial drug resistance among animal and zoonotic foodborne pathogens is of particular concern for public health. In this Ebook, we gathered a collection of articles which deal with the most important aspects of the genetics of acquired antimicrobial resistance extending from medically-important resistance, emerging epidemic resistant clones, main mobile genetic elements spreading resistance, resistomes, dissemination between animals and humans, to the “One Health” concept.
    Keywords: QR1-502 ; Q1-390 ; mutation ; Antimicrobial resistance gene ; Integron ; integrative element ; plasmid ; resistome ; food-producing animal ; pet ; One Health ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 85
    Publication Date: 2024-04-05
    Description: Multiple relationships exist between antimicrobial resistance and bacterial virulence, and the spread of clones combining multiple antibiotic resistance and a high virulence level is an increasing problem. It was previously described how mutation-driven or horizontally acquired resistance mechanisms can also have effects on virulence. It was also reported that mobile genetic elements often carry both resistance determinants and virulence-modulating genes, which favors the co-selection of both traits. In the present volume, we present a collection of articles which document additional aspects of the interactions between antimicrobial resistance and virulence in bacteria, and describe their potential therapeutic consequences.
    Keywords: QR1-502 ; Q1-390 ; Antimicrobial resistance mechanisms ; Biofilms ; Virulence ; Fitness costs ; Co-Evolution ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 86
    Publication Date: 2024-04-05
    Description: Materials and equipment in food processing industries are colonized by surface-associated microbial communities called biofilms. In these biostructures microorganisms are embedded in a complex organic matrix composed essentially of polysaccharides, nucleic acids and proteins. This organic shield contributes to the mechanical biofilm cohesion and triggers tolerance to environmental stresses such as dehydratation or nutrient deprivation. Notably, cells within a biofilm are more tolerant to sanitation processes and the action of antimicrobial agents than their free living (or planktonic) counterparts. Such properties make conventional cleaning and disinfection protocols normally not effective in eradicating these biocontaminants. Biofilms are thus a continuous source of persistent microorganisms, including spoilage and pathogenic microorganisms, leading to repeated contamination of processed food with important economic and safety impact. Alternatively, in some particular settings, biofilm formation by resident or technological microorganisms can be desirable, due to possible enhancement of food fermentations or as a means of bioprotection against the settlement of pathogenic microorganisms. In the last decades substantial research efforts have been devoted to unravelling mechanisms of biofilm formation, deciphering biofilm architecture and understanding microbial interactions within those ecosystems. However, biofilms present a high level of complexity and many aspects remain yet to be fully understood. A lot of attention has been also paid to the development of novel strategies for preventing or controlling biofilm formation in industrial settings. Further research needs to be focused on the identification of new biocides effective against biofilm-associated microorganisms, the development of control strategies based on the inhibition of cell-to-cell communication, and the potential use of bacteriocins, bacteriocin-producing bacteria, phage, and natural antimicrobials as anti-biofilm agents, among others. This Research Topic aims to provide an avenue for dissemination of recent advances within the “biofilms” field, from novel knowledge on mechanisms of biofilm formation and biofilm architecture to novel strategies for biofilm control in food industrial settings.
    Keywords: QR1-502 ; Q1-390 ; Biofilms ; Biofilm formation ; food quality ; Food Safety ; Biofilm architecture ; biocontrol ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 87
    Publication Date: 2024-04-05
    Description: Growing demographic trends require sustainable technologies to improve quality and yield of future food productions. However, there is uncertainty about plant protection strategies in many agro-ecosystems. Pests, diseases, and weeds are overwhelmingly controlled by chemicals which pose health risks and cause other undesirable effects.Therefore, an increasing concern on control measures emerged in recent years. Many chemicals became questioned with regard to their sustainability and are (or will be) banned. Alternative management tools are studied, relying on biological, and low impact solutions. This ResearchTopic concerns microbial biocontrol agents, root-associated microbiomes, and rhizosphere networks. Understanding how they interact or respond to (a)biotic environmental cues is instrumental for an effective and sustainable impact. The rhizosphere is in this regard a fundamental object of study, because of its role in plant productivity. This e-book provides a polyhedral perspective on many issues in which beneficial microorganisms are involved. Data indeed demonstrate that they represent an as yet poorly-explored resource, whose exploitation may actively sustain plant protection and crop production. Given the huge number of microbial species present on the planet, the microorganisms studied represent just the tip of an iceberg. Data produced are, however, informative enough about their genetic and functional biodiversity, as well as about the ecosystem services they provide to underp in crop production. Challenges for future research work concern not only the biology of these species, but also the practices required to protect their biodiversity and to extend their application in the wide range of agricultural soils and systems present in the world. Agriculture cannot remain successfully and sustainable unless plant germplasm and useful microbial species are integrated, a goal for which new knowledge and information-based approaches are urgently needed.Growing demographic trends require sustainable technologies to improve quality and yield of future food productions. However, there is uncertainty about plant protection strategies in many agro-ecosystems. Pests, diseases, and weeds are overwhelmingly controlled by chemicals which pose health risks and cause other undesirable effects.Therefore, an increasing concern on control measures emerged in recent years. Many chemicals became questioned with regard to their sustainability and are (or will be) banned. Alternative management tools are studied, relying on biological, and low impact solutions. This ResearchTopic concerns microbial biocontrol agents, root-associated microbiomes, and rhizosphere networks. Understanding how they interact or respond to (a)biotic environmental cues is instrumental for an effective and sustainable impact. The rhizosphere is in this regard a fundamental object of study, because of its role in plant productivity. This e-book provides a polyhedral perspective on many issues in which beneficial microorganisms are involved. Data indeed demonstrate that they represent an as yet poorly-explored resource, whose exploitation may actively sustain plant protection and crop production. Given the huge number of microbial species present on the planet, the microorganisms studied represent just the tip of an iceberg. Data produced are, however, informative enough about their genetic and functional biodiversity, as well as about the ecosystem services they provide to underp in crop production. Challenges for future research work concern not only the biology of these species, but also the practices required to protect their biodiversity and to extend their application in the wide range of agricultural soils and systems present in the world. Agriculture cannot remain successfully and sustainable unless plant germplasm and useful microbial species are integrated, a goal for which new knowledge and information-based approaches are urgently needed.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; induced resistance ; omics ; Soil Microbiology ; Rhizosphere Microbiology ; endophyte ; symbosis ; biocontrol ; plant growth promotion ; Plant Microbe Interaction ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 88
    Publication Date: 2023-12-21
    Description: Emerging from the protective environment of the uterus, the newborn is exposed to a myriad of microbes, and quickly establishes a complex microbiome that shapes the infant’s biology in ways that are only now beginning to come to light. Among these exposures are a number of potential pathogens. The host responses to these pathogens in the neonatal period are unique, reflecting a developing immune system even with delivery at term. Preterm infants are delivered at a time when host defense mechanisms are even less developed and therefore face additional risk. As such, the organisms that cause disease in this period are different from the pathogens that are common in other age groups, or the disease they cause manifests in more severe fashion. Developmental alterations in both innate and adaptive immune responses in neonates have been documented among many cell types and pathways over the last several decades. Contemporary insights into the human immune system and methodologies that allow an “omics” approach to these questions have continued to provide new information regarding the mechanisms that underlie the human neonate as an “immunocompromised host.” This Research Topic highlights studies related to this unique host-pathogen interface. Contributions include those related to the innate or adaptive immune system of neonates, their response to microbial colonization or infection, and/or the pathogenesis of microbes causing disease in neonates.
    Keywords: R5-920 ; RC581-607 ; RJ1-570 ; QR1-502 ; Q1-390 ; Infection ; Neonate ; Candida ; Sepsis ; Necrotizing enterocolitis ; Vaccine ; Immunity ; Microbiome ; bic Book Industry Communication::M Medicine
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  • 89
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    Unknown
    Frontiers Media SA
    Publication Date: 2024-04-05
    Description: RNA enveloped viruses comprise several families belonging to plus and minus strand RNA viruses, such as retroviruses, flavoviruses and orthomyxoviruses. Viruses utilize cellular lipids during critical steps of replication like entry, assembly and egress. Growing evidence indicate important roles for lipids and lipid nanodomains in virus assembly. This special topic covers key aspects of virus-membrane interactions during assembly and egress, especially those of retroviruses and Ebola virus (EBOV). Virus assembly and release involve specific and nonspecific interactions between viral proteins and membrane compartments. Retroviral Gag proteins assemble predominantly on the PM. Despite the great progress in identifying the factors that modulate retroviral Gag assembly on the PM, there are still gaps in our understanding of precise mechanisms of Gag-membrane interactions. Studies over the last two decades have focused on the mechanisms by which other retroviral Gag proteins interact with membranes during assembly. These include human immunodeficiency virus (HIV), Rous sarcoma virus (RSV), equine infectious anemia virus (EIAV), Mason-Pfizer monkey virus (M-PMV), murine leukemia virus (MLV), and human T-lymphotropic virus type (HTLV-1). Additionally, assembly of filoviruses such as EBOV also occurs on the inner leaflet of the PM. The articles published under this special topic highlight the latest understanding of the role of membrane lipids during virus assembly, egress and release.
    Keywords: QR1-502 ; QK1-989 ; Q1-390 ; NMR ; Matrix ; membrane ; Gag ; Ebola ; VP40 ; retroviruses ; HIV 1 ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 90
    Publication Date: 2024-04-05
    Description: There is considerable interest in pure and applied studies of extremophilic microorganisms, including those (acidophiles) that are active in low pH environments. As elsewhere in microbiology, this is a fast-developing field, and the proposed special issue of Frontiers highlights many of the more recent advances that have been made in this area. Authors from leading scientific groups located in North and South America, Australasia and Europe have contributed to this e-book, and the topics covered include advances in molecular, biochemical, biogeochemical and industrial aspects of acidophile microbiology.
    Keywords: QR1-502 ; Q1-390 ; extremophiles ; Genomics ; acidophiles ; Biochemistry ; Biodiversity ; biogeochemistry ; Acidithiobacillus ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 91
    Publication Date: 2024-04-05
    Description: Antibiotics and antibiotic resistance have most commonly been viewed in the context of human use and effects. However, both have co-existed in nature for millennia. Recently the roles of antibiotics and antibiotic resistance genes have started to be discussed in terms of functions other than bacterial inhibition and protection. This special topic will focus on both the traditional role of antibiotics as warfare mechanisms and their alternative roles and uses within nature such as antibiotics as signals or communication mechanisms, antibiotic selection at low concentrations, the non-specific role of resistance mechanisms in nature: e.g. efflux pumps, evolution of antibiotic resistance and the role of persisters in natural antibiotic resistance.
    Keywords: QR1-502 ; Q1-390 ; Water ; environment ; Microbiology ; Plasmids ; Soil ; mobile elements ; risk ; human ; Standards ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 92
    Publication Date: 2024-04-05
    Description: There is a large market demand for new drugs. The existing chronic or common ailments without cures, development of new diseases with unknown causes, and the widespread existence of antibiotic-resistant pathogens, have driven this field of research further by looking at all potential sources of natural products. To date, microbes have made a significant contribution to the health and well-being of people globally. The discoveries of useful metabolites produced by microbes have resulted in a significant proportion of pharmaceutical products in today’s market. Therefore, the investigation and identification of bioactive compound(s) producing microbes is always of great interest to researchers. 〈/p〉〈p〉 〈/p〉〈p〉Actinobacteria are one of the most important and efficient groups of natural metabolite producers. Among the numerous genera, Streptomyces have been recognized as prolific producers of useful natural compounds, as they provide more than half of the naturally-occurring antibiotics isolated to-date and continue to emerge as the primary source of new bioactive compounds. Certainly, these potentials have attracted ample research interest and a wide range of biological activities have been subsequently screened by researchers with the utilization of different In vitro and In vivo model of experiments. Literature evidence has shown that a significant number of interesting compounds produced by Actinobacteria were exhibiting either strong anticancer or neuroprotective activity. The further in depth studies have then established the modulation of apoptotic pathway was involved in those observed bioactivities. These findings indirectly prove the biopharmaceutical potential possessed by Actinobacteria and at the same time substantiate the importance of diverse pharmaceutical evaluations on Actinobacteria. In fact, many novel compounds discovered from Actinobacteria with strong potential in clinical applications have been developed into new drugs by pharmaceutical companies. Together with the advancement in science and technology, it is predicted that there would be an expedition in discoveries of new bioactive compounds producing Actinobacteria from various sources, including soil and marine sources. In light of these current needs, and great interest in the scope of this research, this book seeks to contribute on the investigation of different biological active compound(s) producing actinobacteria which are exhibiting antimicrobial, antioxidant, neuroprotective, anticancer activities and similar.
    Keywords: QR1-502 ; Q1-390 ; actinobacteria ; terrestrial ; drug discovery ; next generation ; Streptomyces ; marine ; bioactive ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 93
    Publication Date: 2024-04-05
    Description: Human T-cell leukemia viruses type 1 and 2 (HTLV-1 and HTLV-2) share a common genetic organization, expression strategy and ability to infect and immortalize T-cells in vitro; however, HTLV-1 and HTLV-2 are strikingly different in terms of clinical impact. HTLV-1 is recognized as the aetiological agent of adult T-cell leukemia/lymphoma (ATLL), and HTLV-associated myeolopathy/tropical spastic paraparesis (HAM/TSP), in contrast, HTLV-2 does not cause hematologic disorders and is only sporadically associated with cases of subacute myelopathy. HTLV-1 and HTLV-2 also exhibit distinct cellular tropisms in vivo: HTLV-1 is mainly found in CD4+T lymphocytes, whereas CD8+T-cells are the preferred target for HTLV-2. The articles contributed in this Research Topic are covering all the different aspects that characterize HTLV-1 and HTLV-2, by highlighting differences in their biology that might provide clues to their distinct pathogenic properties.
    Keywords: QR1-502 ; Q1-390 ; Proteins ; Co-infection ; Expression ; HTLV-1 ; HTLV-2 ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 94
    Publication Date: 2024-04-05
    Description: “How can we develop microbial ecological theory?” The development of microbial ecological theory has a long way to reach its goal. Advances in microbial ecological techniques provide novel insights into microbial ecosystems. Articles in this book are challenging to determine the central and general tenets of the ecological theory that describes the features of microbial ecosystems. Their achievements expand the frontiers of current microbial ecology and propose the next step. Assemblage of these diverse articles hopefully helps to go on this long journey with many avenues for advancement of microbial ecology.
    Keywords: QR1-502 ; Q1-390 ; ecological theory ; self-organization ; complex systems ; simulation ; mathematical modeling ; interspecies interaction ; Microbial ecosystems ; evolution ; resilience ; Dynamic equilibrium ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
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  • 95
    Publication Date: 2024-04-05
    Description: In complex systems, such as our body or a plant, the host is living together with thousands of microbes, which support the entire system in function and health. The stability of a microbiome is influenced by environmental changes, introduction of microbes and microbial communities, or other factors. As learned in the past, microbial diversity is the key and low-diverse microbiomes often mirror out-of-control situations or disease. It is now our task to understand the molecular principles behind the complex interaction of microbes in, on and around us in order to optimize and control the function of the microbial community – by changing the environment or the addition of the right microorganisms. This Research Topic focuses on studies (including e.g. original research, perspectives, mini reviews, and opinion papers) that investigate and discuss: 1) The role of the microbiome for the host/environmental system 2) The exchange and change of microbes and microbial communities (interplay) 3) The influence of external factors toward the stability of a microbiome 4) Methods, possibilities and approaches to change and control a system’s microbiome (e.g. in human or plant disease) 5) Experimental systems and approaches in microbiome research. The articles span the areas: human health and disease, animal and plant microbiomes, microbial interplay and control, methodology and the built environment microbiome.
    Keywords: QR1-502 ; Q1-390 ; mycobiome ; human microbiome ; microbial interplay ; built environment ; animal microbiome ; microbiome control ; plant microbiome ; Microbiome ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 96
    Publication Date: 2023-12-21
    Description: Despite significant progress in the global fight against malaria, this parasitic infection is still responsible for nearly 300 million clinical cases and more than half a million deaths each year, predominantly in African children less than 5 years of age. The infection starts when mosquitoes transmit small numbers of parasites into the skin. From here, the parasites travel with the bloodstream to the liver where they undergo an initial round of replication and maturation to the next developmental stage that infects red blood cells. A vaccine capable of blocking the clinically silent liver phase of the Plasmodium life cycle would prevent the subsequent symptomatic phase of this tropical disease, including its frequently fatal manifestations such as severe anemia, acute lung injury, and cerebral malaria. Parasitologists, immunologists, and vaccinologists have come to appreciate the complexity of the adaptive immune response against the liver stages of this deadly parasite. Lymphocytes play a central role in the elimination of Plasmodium infected hepatocytes, both in humans and animal models, but our understanding of the exact cellular interactions and molecular effector mechanisms that lead to parasite killing within the complex hepatic microenvironment of an immune host is still rudimentary. Nevertheless, recent collaborative efforts have led to promising vaccine approaches based on liver stages that have conferred sterile immunity in humans – the University of Oxford's Ad prime / MVA boost vaccine, the Naval Medical Research Center’s DNA prime / Ad boost vaccine, Sanaria Inc.'s radiation-attenuated whole sporozoite vaccine, and Radboud University Medical Centre’s and Sanaria's derived chemoprophylaxis with sporozoites vaccines. The aim of this Research Topic is to bring together researchers with expertise in malariology, immunology, hepatology, antigen discovery and vaccine development to provide a better understanding of the basic biology of Plasmodium in the liver and the host’s innate and adaptive immune responses. Understanding the conditions required to generate complete protection in a vaccinated individual will bring us closer to our ultimate goal, namely to develop a safe, scalable, and affordable malaria vaccine capable of inducing sustained high-level protective immunity in the large proportion of the world’s population constantly at risk of malaria.
    Keywords: R5-920 ; RC581-607 ; QR1-502 ; Q1-390 ; CD8 T cell ; Plasmodium ; B cell ; antigen-presenting cell ; immune response ; Malaria vaccine ; hepatic microenvironment ; CD4 T cell ; animal model ; adjuvants ; bic Book Industry Communication::M Medicine
    Language: English
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  • 97
    Publication Date: 2024-04-05
    Description: This collection represents certain discoveries that were made in evolutionary and genomic microbiology during the recent ten years. We attempted to shed light on topical issues of microbial evolution and microbiome biology. In our eyes, these articles are of an excellent quality and may be helpful both for casual readers and for specialists in the field.
    Keywords: QR1-502 ; Q1-390 ; Human microbiome ; human mycobiome ; gut microbiome ; domains of life ; brain-gut-microbe axis ; oral microbiome ; Human Ecology ; evolution ; genomic microbiology ; evolutionary microbiology ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 98
    Publication Date: 2024-04-05
    Description: The majority of microbes in many environments are considered “as yet uncultured” and were traditionally considered inaccessible for study through the microbiological gold standard of pure culture. The emergence of metagenomic approaches has allowed researchers to access and study these microbes in a culture-independent manner through DNA sequencing and functional expression of metagenomic DNA in a heterologous host. Metagenomics has revealed an extraordinary degree of diversity and novelty, not only among microbial communities themselves, but also within the genomes of these microbes. This Research Topic aims to showcase the utility of metagenomics to gain insights on the microbial and genomic diversity in different environments by revealing the breadth of novelty that was in the past, largely untapped.
    Keywords: QR1-502 ; Q1-390 ; Human microbiome ; Metagenomics ; metatranscriptomics ; DNA SEQUENCING ; functional metagenomics ; viral metagenomics ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 99
    Publication Date: 2024-04-05
    Description: The most evident aspect of biodiversity is the variety of complex forms and behaviors among organisms, both living and extinct. Comparative molecular and physiological studies show that the evolution of complex phenotypic traits involves multiple levels of biological organization (i.e. genes, chromosomes, organelles, cells, individual organisms, species, etc.). Regardless of the specific molecular mechanisms and details, the evolution of different complex biological organizations share a commonality: cooperation and conflict among the parts of the biological unit under study. The potential for conflict among parts is abundant. How then do complex systems persist, given the necessity of cooperative behavior for their maintenance, when the potential for conflict occurs across all levels of biological organization? In this Research Topic and eBook we present ideas and work on the question, how coexistence of biological components at different levels of organization persists in the face of antagonistic, conflicting or even exploitative behavior of the parts? The goal of this topic is in presenting examples of cooperation and conflict at different levels of biological organization to discuss the consequences that this “tension” have had in the diversification and emergence of novel phenotypic traits. Exemplary cases are studies investigating: the evolution of genomes, formation of colonial aggregates of cells, biofilms, the origin and maintenance of multicellular organisms, and the stable coexistence of multispecies consortia producing a cooperative product. Altogether, we hope that the contributions to this Research Topic build towards mechanistic knowledge of the biological phenomenon of coexistence in the face of conflict. We believe that knowledge on the mechanisms of the origin and evolutionary maintenance of cooperation has implications beyond evolutionary biology such as novel approaches in controlling microbial infections in medicine and the modes by studies in synthetic biology are conducted when designing economically important microbial consortia.The most evident aspect of biodiversity is the variety of complex forms and behaviors among organisms, both living and extinct. Comparative molecular and physiological studies show that the evolution of complex phenotypic traits involves multiple levels of biological organization (i.e. genes, chromosomes, organelles, cells, individual organisms, species, etc.). Regardless of the specific molecular mechanisms and details, the evolution of different complex biological organizations share a commonality: cooperation and conflict among the parts of the biological unit under study. The potential for conflict among parts is abundant. How then do complex systems persist, given the necessity of cooperative behavior for their maintenance, when the potential for conflict occurs across all levels of biological organization? In this Research Topic and eBook we present ideas and work on the question, how coexistence of biological components at different levels of organization persists in the face of antagonistic, conflicting or even exploitative behavior of the parts? The goal of this topic is in presenting examples of cooperation and conflict at different levels of biological organization to discuss the consequences that this “tension” have had in the diversification and emergence of novel phenotypic traits. Exemplary cases are studies investigating: the evolution of genomes, formation of colonial aggregates of cells, biofilms, the origin and maintenance of multicellular organisms, and the stable coexistence of multispecies consortia producing a cooperative product. Altogether, we hope that the contributions to this Research Topic build towards mechanistic knowledge of the biological phenomenon of coexistence in the face of conflict. We believe that knowledge on the mechanisms of the origin and evolutionary maintenance of cooperation has implications beyond evolutionary biology such as novel approaches in controlling microbial infections in medicine and the modes by studies in synthetic biology are conducted when designing economically important microbial consortia.
    Keywords: QR1-502 ; Q1-390 ; Antagonism ; Microbial Interactions ; Mutualism ; cooperation ; conflict ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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  • 100
    Publication Date: 2024-04-05
    Description: Microbial mat communities consist of dense populations of microorganisms embedded in exopolymers and/or biomineralized solid phases, and are often found in mm-cm thick assemblages, which can be stratified due to environmental gradients such as light, oxygen or sulfide. Microbial mat communities are commonly observed under extreme environmental conditions, deriving energy primarily from light and/or reduced chemicals to drive autotrophic fixation of carbon dioxide. Microbial mat ecosystems are regarded as living analogues of primordial systems on Earth, and they often form perennial structures with conspicuous stratifications of microbial populations that can be studied in situ under stable conditions for many years. Consequently, microbial mat communities are ideal natural laboratories and represent excellent model systems for studying microbial community structure and function, microbial dynamics and interactions, and discovery of new microorganisms with novel metabolic pathways potentially useful in future industrial and/or medical applications. Due to their relative simplicity and organization, microbial mat communities are often excellent testing grounds for new technologies in microbiology including micro-sensor analysis, stable isotope methodology and modern genomics. Integrative studies of microbial mat communities that combine modern biogeochemical and molecular biological methods with traditional microbiology, macro-ecological approaches, and community network modeling will provide new and detailed insights regarding the systems biology of microbial mats and the complex interplay among individual populations and their physicochemical environment. These processes ultimately control the biogeochemical cycling of energy and/or nutrients in microbial systems. Similarities in microbial community function across different types of communities from highly disparate environments may provide a deeper basis for understanding microbial community dynamics and the ecological role of specific microbial populations. Approaches and concepts developed in highly-constrained, relatively stable natural communities may also provide insights useful for studying and understanding more complex microbial communities.
    Keywords: QR1-502 ; Q1-390 ; Metagenomics ; Metabolomics ; chemotrophy ; extremophiles ; microbial mats ; Proteomics ; microsensors ; Diel cycling ; Photosynthesis ; Systems Biology ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical)
    Language: English
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