ALBERT

Description: This chapter gives an overview of the general biogeochemistry in the Mediterranean Sea explaining the particularities of the main biogeochemical variables and the physical, biological, and geochemical processes driving their distribution in the main basins of this marginal sea. Each subsection focuses on one essential variable, starting from dissolved oxygen and following inorganic nutrients, dissolved organic carbon and the CO2 system. A brief overview on the utility of those biogeochemical variables to identify water masses is also given. The chapter concludes with a summary of the projections and threats on biogeochemistry in the Mediterranean Sea under different future climate change scenarios.

Description: In our previous study, a β-N-acetylhexosaminidase (HaHex74) from Haloferula sp. showing high human milk oligosaccharides (HMOs) synthesis ability was identified and characterized. In this study, HaHex74 was further engineered by directed evolution and site-saturation mutagenesis to improve its transglycosylation activity for HMOs synthesis. A mutant (mHaHex74) with improved transglycosylation activity (HaHex74-Asn401Ile/His394Leu) was obtained and characterized. mHaHex74 exhibited maximal activity at pH 5.5 and 35 °C, respectively, which were distinct from that of HaHex74 (pH 6.5 and 45 °C). Moreover, mHaHex74 showed the highest LNT2 conversion ratio of 28.2% from N,N’-diacetyl chitobiose (GlcNAc2), which is 2.2 folds higher than that of HaHex74. A three-enzyme cascade reaction for the synthesis of LNT2 and LNnT from chitin was performed in a 5–L reactor, and the contents of LNT2 and LNnT reached up to 15.0 g Lsingle bond1 and 4.9 g Lsingle bond1, respectively. Therefore, mHaHex74 maybe a good candidate for enzymatic synthesis of HMOs.

Description: Harmful marine bacteria, such as Vibrio or Aeromonas species, typically exist at low abundance in ocean environments but represent a reservoir from which epidemics can arise. Particularly, Vibrio strains and their associated infections are on the rise globally due to increasing sea surface temperature representing an emergent threat for human and animal health also being responsible for large economic losses in the aquaculture industry worldwide. New technological approaches are needed to improve strategies targeting these pathogens. This review discusses new approaches based on improved sampling strategies and novel analytical methods offering increased accuracy, high throughput, and informativeness to study and detect microbial pathogens in the marine environment. Detecting and characterizing ultra-low-abundance pathogenic strains can serve as a critical tool in risk management and outbreak prevention of diseases caused by emerging marine pathogens.

Description: As tropical seagrass meadows decline throughout the tropics, propagule transplantation is being used as an effective restoration method. This technique promotes genetic diversity in the restored seagrass meadows. Although many environmental factors, especially temperature and burial, can influence the success of seed/seedling transplantation success, little is known about these effects on transplanted tropical seagrass propagules. To address this knowledge gap, we conducted a 92-day laboratory incubation experiment to test the effects of representive temperatures (20 °C and 30 °C) and burial status (with and without burial) on germination and seedling growth of the tropical seagrass Enhalus acoroides. Results showed that germination rate was 3-fold higher in the treatment without burial (75%) than in the treatment with burial (25%). The germination success rate in the 30 °C treatment was about two times higher than that of the 20 °C treatment. When burial and temperature were tested in combination, germination success was highest in the 30 °C without burial treatment while the lowest rates were obtained in the 20 °C and burial treatment. Further, the temperature of 30 °C benefited leaf and root growth as well. These results illustrate that burial decreased E. acoroides germination, while high temperature enhanced both germination and seedling growth. Thus, transplantation of E. acoroides propagules for tropical seagrass restoration should be conducted when seawater temperature is warm, and the seeds should be fixed on the sediment surface rather than buried.

Description: The Southern Ocean is a key region for analyzing environmental drivers that regulate sea-air CO2 exchanges. These CO2 fluxes are influenced by several mesoscale structures, such as meanders, eddies and other mechanisms responsible for energy dissipation. Aiming to better understand sea-air CO2 dynamics in the northern Antarctica Peninsula, we investigated an anticyclonic stationary eddy located south of Clarence Island, in the eastern basin of Bransfield Strait – named the Antarctica Slope Front bifurcation (ASFb) eddy. Physical, chemical and biological data were sampled, and remote sensing measurements taken, in the region during late summer conditions in February 2020. The eddy’s core consisted of cold (0.31 °C), salty (34.38) and carbon-rich (2247 μmol kg−1) waters with dissolved oxygen depletion (337 μmol kg−1). The core retains a mixture of local surface waters with waters derived from Circumpolar Deep Water (i.e., Warm Deep Water from the Weddell Sea and modified Circumpolar Deep Water from the Bransfield Strait) and Dense Shelf Water. The ASFb eddy acts as a CO2 outgassing structure that reaches a CO2 emission to the atmosphere of ∼1.5 mmol m−2 d–1 in the eddy’s core, mostly due to enhanced dissolved inorganic carbon (DIC). The results suggest that surface variation in DIC in the eddy’s core is modulated by (i) the entrainment of CO2-rich intermediate waters at ∼500 m, (ii) low primary productivity, associated with small phytoplankton cells such as cryptophytes and green flagellates, and (iii) respiration processes caused by heterotrophic organisms (i.e., zooplankton community). By providing a comprehensive view of these physical and biogeochemical properties of this stationary eddy, our results are key to adding new insights to a better understanding of the behavior of mesoscale features influencing sea-air CO2 exchanges in polar environments.

Description: Yak shanks and flanks are often used as food ingredients, but the lipid composition of these two parts may differ significantly. These meat parts were subjected to a lipidomics analysis using UHPLC-Q-Obitrap. Several computational tools, including feature-based molecular networks, ms-dial, and lipidone, were used to perform deep mining on the entire dataset. The analysis annotated 355 lipid species from 20 subclasses. Lipid chains have a length distribution of 16 to 20 carbons, with unsaturation ranging from 0 to 5. The results revealed that 71 lipids were significantly different in these muscles, including phosphatidylethanolamines (PEs) (16:0/20:4), PEs (18:0/19:1), PEs (18:1/22:5), sphingomyelins (SMs) (36:2; 3O), and carnitines (CARs) (22:0). Furthermore, the metabolic pathways of glycerophospholipids and sphingolipids act as important roles in the differences of these lipid components. This study obtained a comprehensive lipid profile, which is critical for understanding the precise nutritional differences in different yak meat sections.

Description: Photosynthetic microorganisms like microalgae and cyanobacteria are quickly gaining recognition for their financial potential and have recently been subjected to research into metabolic manipulation to produce biofuels and different bio-based chemicals from CO2 and sunlight. CRISPR-Cas systems are presently the centre of attraction in synthetic biology research. Various cyanobacteria and algae species have been successfully edited using CRISPR-Cas9. However, many technical difficulties, such as chassis-organism-specific Cas9 toxicity, have delayed the progress of this tool for editing the genomes of diverse species of microalgae and cyanobacteria. CRISPR-Cas9 technology has enormous promises, and it has been employed to alter the metabolism of many algae and cyanobacteria. Advances in CRISPR-Cas9 technology and applications, as well as progress in CRISPR-based multiplex genome editing, the importance of traditional molecular tools in CRISPR biology, challenges in developing high-throughput mutant screening, and further improvements in genome-editing methods, have all been thoroughly discussed in order to make the genome engineering of algae and cyanobacteria more feasible. This review identifies important issues, suggests solutions, and highlights recent advances in genome editing in algae and cyanobacteria with the CRISPR-Cas9 system.

Description: This study examined the phytochemical profiles (mainly phenolics, carotenoids, and organosulfur compounds) and biological effects of hydroalcoholic extracts of Allium flavum (AF), a species of the Allium genus commonly known as small yellow onion. Unsupervised and supervised statistical approaches revealed clear differences between extracts prepared with samples collected from different areas of Romania. Overall, the AFFF (AF flowers collected from Făget) extract was the best source of polyphenols, also showing the highest antioxidant capacity evaluated through both in vitro DPPH, FRAP, and TEAC anti-radical scavenging assays and cell-based OxHLIA and TBARS assays. All the tested extracts exhibited α-glucosidase inhibition potential, while only the AFFF extract exhibited anti-lipase inhibitory activity. The phenolic subclasses annotated were positively correlated with the assessed antioxidant and enzyme inhibitory activities. Our findings suggested that A. flavum has bioactive properties worth exploring further, being a potential edible flower with health-promoting implications.

Description: If the umbilical of Remote Operated Vehicle (ROV) allows the transmission of information in real time or the supply of energy to the robot, it also has many disadvantages such as entanglement or the difficulty of predicting its shape, which raises the question of being able to do without it. In order to turn these constraints into advantages, this paper proposes a method to estimate the position of an ROV by observing the shape of its umbilical. The umbilical is equipped with moving ballasts and buoys to give it a predictable shape with straight lines: simple mathematical models of the umbilical can thus be defined. Using these models and measuring the angles at the ends of the cable, the position of the ROV can be found. Three umbilical models with different equipment are proposed. The methods were tested in a pool and the estimated position of the ROV was compared with its actual position measured using a motion capture system.

Description: Sponges are known to harbour an exceptional diversity of uncultured microorganisms, including members of the phylum Actinobacteriota. While members of the actinobacteriotal class Actinomycetia have been studied intensively due to their potential for secondary metabolite production, the sister class of Acidimicrobiia is often more abundant in sponges. However, the taxonomy, functions, and ecological roles of sponge-associated Acidimicrobiia are largely unknown. Here, we reconstructed and characterized 22 metagenome-assembled genomes (MAGs) of Acidimicrobiia from three sponge species. These MAGs represented six novel species, belonging to five genera, four families, and two orders, which are all uncharacterized (except the order Acidimicrobiales) and for which we propose nomenclature. These six uncultured species have either only been found in sponges and/or corals and have varying degrees of specificity to their host species. Functional gene profiling indicated that these six species shared a similar potential to non-symbiotic Acidimicrobiia with respect to amino acid biosynthesis and utilization of sulfur compounds. However, sponge-associated Acidimicrobiia differed from their non-symbiotic counterparts by relying predominantly on organic rather than inorganic sources of energy, and their predicted capacity to synthesise bioactive compounds or their precursors implicated in host defence. Additionally, the species possess the genetic capacity to degrade aromatic compounds that are frequently found in sponges. The novel Acidimicrobiia may also potentially mediate host development by modulating Hedgehog signalling and by the production of serotonin, which can affect host body contractions and digestion. These results highlight unique genomic and metabolic features of six new acidimicrobiial species that potentially support a sponge-associated lifestyle.