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  • 1
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    Mycoplankton diversity in the Elbe River (2021)
    PANGAEA
    Details
    Publication Date: 2024-02-24
    Description: Rivers are important transport systems for nutrients and organic material and thus influence biogeochemical cycles and food web structures. Microorganismal biodiversity is an important parameter for the ecological balance of river ecosystems. Despite the knowledge that freshwater fungi perform important ecological functions, there is scarcely any fungal data available for river systems. In this study, we address the fundamental question of how mycoplankton communities are structured and assembled over a longer river section with strong environmental gradients and anthropogenic pressure and what variables control on it. The mycoplankton communities from the shallow freshwater to the coastal-oceanic transition zone were analyzed based on 18S rRNA gene tag-sequencing and the observed patterns were related to environmental and spatial factors by multivariate statistics. Finally, the underlying assembly processes were revealed by Quantitative Process Estimates (QPE) method. The partitioning of mycoplankton communities deviated from the previously described patterns of fluvial microbial communities, triggered by a strong influence of local environmental conditions, which were partly under spatial control. The deepening of the Elbe River for improved navigation purpose seemed to have a strong secondary effect. The salinity gradient was the most explaining variable and zoosporic fungi showed higher sensitivity to high salinity levels. Consequently, none of the zoosporic taxon groups occurred solely in the marine environment. Significant differences were found in the assemblage processes with a dominance of environmental selection in the upstream region compared to undominated processes in downstream and coastal transition regions. The results suggest that fungi play various ecological roles along the diverse river sections and that their biotic interactions become more complex in the estuary. These results provide an important framework to help predict the functional consequences of changes in mycoplankton community structure and to help conserve microbial biodiversity in river ecosystems.
    Keywords: Ammonium; brackish; Carbon, organic, dissolved; Chlorophyll a; Date/Time of event; Elbe; Elbe_mycoplankton_1; Elbe_mycoplankton_10; Elbe_mycoplankton_11; Elbe_mycoplankton_12; Elbe_mycoplankton_13; Elbe_mycoplankton_14; Elbe_mycoplankton_15; Elbe_mycoplankton_16; Elbe_mycoplankton_17; Elbe_mycoplankton_18; Elbe_mycoplankton_19; Elbe_mycoplankton_2; Elbe_mycoplankton_20; Elbe_mycoplankton_21; Elbe_mycoplankton_22; Elbe_mycoplankton_23; Elbe_mycoplankton_24; Elbe_mycoplankton_3; Elbe_mycoplankton_4; Elbe_mycoplankton_5; Elbe_mycoplankton_6; Elbe_mycoplankton_7; Elbe_mycoplankton_8; Elbe_mycoplankton_9; Elbe river; Estuary; Event label; freshwater; Fungi; Latitude of event; Longitude of event; marine; Nitrate; Nitrite; Optional event label; pH; Phosphate; Salinity; Sample1; Sample10; Sample11; Sample12; Sample13; Sample14; Sample15; Sample16; Sample17; Sample18; Sample19; Sample2; Sample20; Sample21; Sample22; Sample23; Sample24; Sample3; Sample4; Sample5; Sample6; Sample7; Sample8; Sample9; Silicate; Temperature, water
    Type: Dataset
    Format: text/tab-separated-values, 232 data points
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    DATA PANGAEA
  • 2
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    The Seismic Electromagnetic Emissions During the 2010 Mw 7.8 Northern Sumatra Earthquake Revealed by DEMETER Satellite (2021)
    Frontiers
    Details
    Publication Date: 2021-01-29
    Description: The abnormal electromagnetic emissions recorded by DEMETER (the Detection of Electro-Magnetic Emissions Transmitted from Earthquake Regions) satellite associated with the April 6, 2010 Mw 7.8 northern Sumatra earthquake are examined in this study. The variations of wave intensities recorded through revisiting orbits from August 2009 to May 2010 indicate that some abnormal enhancements at Extremely Low Frequency range of 300–800 Hz occurred from 10 to 3 days before the main shock, while they remained a relatively smooth trend during the quiet seismic activity times. The perturbation amplitudes relative to the background map which were built by using the same-time seasonal window (February 1 to April 30) data from 2008 to 2010 further suggest strong enhancements of wave intensities during the period prior to the earthquake. We further computed the wave propagation parameters for the electromagnetic field waveform data by using the Singular Value Decomposition method, and results show that there are certain portions of the Extremely Low Frequency emissions obliquely propagating upward from the Earth toward outer space direction at 10 and 6 days before the main shock. The potential energy variation of acoustic-gravity wave suggests the possible existence of acousticgravity wave stability with wavelengths roughly varying from 5.5 to 9.5 km in the atmosphere at the time of the main shock. In this study, we comprehensively investigated the link between the electromagnetic emissions and the earthquake activity through a convincing observational analysis, and preliminarily explored the seismic-ionospheric disturbance coupling mechanism, which is still not fully understood at present by the scientific community.
    Description: Published
    Description: 572393
    Description: 7T. Variazioni delle caratteristiche crostali e precursori sismici
    Description: JCR Journal
    Keywords: earthquake precursors ; ionospheric precursors ; 01.02. Ionosphere ; 04.05. Geomagnetism ; 04.06. Seismology
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 3
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    MYCOPLANKTON BIOME STRUCTURE AND ASSEMBLAGE PROCESSES ALONG A TRANSECT FROM THE SHALLOW FRESHWATER AREA OF THE ELBE RIVER DOWN TO THE ADJACENT MARINE WATERS (2021)
    In:  EPIC3ASLO, 2021-06
    Details
    Publication Date: 2021-03-24
    Description: Understanding the relative importance of dispersal and environmental selection in shaping aquatic mycoplankton communities can help to predict fungus-driven ecological processes such as mycoflux or mycoloop and to maintain biodiversity in river ecosystems. In the presented study, a transect of the Elbe River (7th stream order number) that extended from the shallow freshwater zone through the estuary up to the river plume, and to the adjacent ocean waters, was sampled. Mycoplankton community structure and underlying assemblage processes were investigated using tag sequencing and Quantitative Process Estimates (QPE) analysis. Mycoplankton communities formed three significantly different biomes, by which the most structuring factor of salinity was superimposed by secondary effects of the Elbe deepening works. The underlying processes differed drastically: migrations of taxa played only a minor role. Instead, the species present in upstream sections responded to the strong physico-chemical environmental changes and a change from an autotrophic to a heterotrophic system was observed. Downstream, neither selection nor dispersal dominated but microbial features such as the cell tolerance to salinity variability, host dependency, and life strategy could help to explain the observed patterns. The results showed that the assemblage processes can change over relatively short distances. It indicates that the processes are not static and that the relative importance of a process can vary under different conditions and between members of a community.++
    Repository Name: EPIC Alfred Wegener Institut
    Type: Conference , notRev
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  • 4
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    Initial scalar lithospheric magnetic anomaly map of China and surrounding regions derived from CSES satellite data (2022)
    Springer
    Details
    Publication Date: 2022-03-21
    Description: The China Seismo-Electromagnetic Satellite (CSES), China’s first satellite to measure geophysical fields with scientific goals in both space and solid earth physics, was launched successfully in February 2018. It carries high-precision magnetometers to measure the geomagnetic field. In this study, the CSES magnetic data were used to extract the signal of the lithospheric magnetic field caused by magnetized rocks in the crust and uppermost mantle. First, an along-track analysis of the CSES magnetic data was undertaken near the Bangui magnetic anomaly in central Africa and the Tarim magnetic anomaly in China, demonstrating that the CSES magnetic data are indeed sensitive to the lithospheric magnetic anomaly field. Then a lithospheric magnetic anomaly map over China and surrounding regions was derived. This map is consistent with the lithospheric part of the CHAOS-7 model. In particular, it clearly reveals four major magnetic anomalies containing long-wavelength signals at the altitude of Low-Earth-Orbiting satellites. Three magnetic highs are located over the Tarim, Sichuan and Songliao basin, the origins of which could be related to large-scale tectonic-magmatic activities during geological history. A prominent magnetic low is otherwise found in the southern Himalayan-Tibetan plateau, possibly caused by the shallow Curie depth in this region. To further improve the precision of the lithospheric magnetic field model, more detailed data processing and multi-source data merging are needed.
    Description: Published
    Description: 1118–1126
    Description: 1A. Geomagnetismo e Paleomagnetismo
    Description: JCR Journal
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 5
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    Mycoplankton Biome Structure and Assemblage Processes Differ Along a Transect From the Elbe River Down to the River Plume and the Adjacent Marine Waters (2021)
    Frontiers
    In:  EPIC3Frontiers in Microbiology, Frontiers
    Details
    Publication Date: 2022-11-01
    Description: Rivers are transport systems and supply adjacent ecosystems with nutrients. They also serve human well-being, for example as a source of food. Microorganismic biodiversity is an important parameter for the ecological balance of river ecosystems. Despite the knowledge that fungi are key players in freshwater nutrient cycling and food webs, data on planktonic fungi of streams with higher stream order is scarce. This study aims to fill this knowledge gap by a fungi-specific 18S rRNA gene tag sequencing approach, investigating mycoplankton diversity in the Elbe River along a transect from shallow freshwater, to the estuary and river plume down to the adjacent marine waters (sections of 7th stream order number). Using multivariate analyses and the Quantitative Process Estimates (QPE) method, the questions of how mycoplankton communities as part of the river continuum change along the transect, what factors, spatial and environmental, play a role, and what assembly processes, such as selection or dispersion, operate along the transect were addressed. The partitioning of mycoplankton communities into three significant distant biomes was mainly driven by local environmental conditions that were partly under spatial control. The assembly processes underlying the biomes also differed significantly. Thus, variable selection dominated the upstream sections, while undominated processes like ecological drift dominated the sections close to the river mouth and beyond. Dispersal played a minor role. The results suggest that the ecological versatility of the mycoplankton communities changes along the transect as response for example to a drastic change from an autotrophic to a heterotrophic system caused by an abrupt increase in the river depth. Furthermore, a significant salinity-dependent occurrence of diverse basal fungal groups was observed, with no clade found exclusively in marine waters. These results provide an important framework to help understand patterns of riverine mycoplankton communities and serve as basis for a further in-depth work, so that fungi as an important ecological organism group can be integrated into models of e.g. usage-balance considerations of rivers
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev
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  • 6
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    A global lithospheric magnetic field model between ± 65° latitude derived from CSES satellite scalar data (2024)
    Elsevier
    Details
    Publication Date: 2024-05-16
    Description: The China Seismo-Electromagnetic Satellite (CSES) was launched successfully in February 2018. It is China's first satellite to measure geophysical fields with scientific goals in both space and solid earth physics. In this work, we used CSES scalar magnetic data to derive a global lithospheric magnetic field model between ±65° geographic latitudes. The nightside data from March 2018 to November 2022 under quiet space weather conditions were selected. Then, the core and external fields were removed with the CHAOS-7 model. After further data quality control, the data were used to build a lithospheric magnetic field model using a spherical harmonic analysis. The obtained CSES model was compared with the CHAOS-7, CM6, and MF7 models in terms of power spectra and anomaly details, which confirmed that the CSES scalar data had good quality and could provide a reliable lithospheric magnetic field model up to degree 42.
    Description: Published
    Description: 107036
    Description: OSA1: Variazioni del campo magnetico terrestre, imaging crostale e sicurezza del territorio
    Description: JCR Journal
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 7
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    Human genome-wide repair map of DNA damage caused by the cigarette smoke carcinogen benzo[a]pyrene (2017)
    National Academy of Sciences
    Details
    Publication Date: 2017-06-12
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 8
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    Mammalian Period represses and de-represses transcription by displacing CLOCK–BMAL1 from promoters in a Cryptochrome-dependent manner (2016)
    National Academy of Sciences
    Details
    Publication Date: 2016-09-29
    Description: The mammalian circadian clock is based on a transcription-translation feedback loop (TTFL) consolidated by secondary loops. In the primary TTFL, the circadian locomotor output cycles kaput (CLOCK)–brain and muscle Arnt-like protein-1 (BMAL1) heterodimer acts as the transcriptional activator, and Cryptochrome (CRY) and Period (PER) proteins function as repressors. PER represses by displacing CLOCK–BMAL1 from promoters in a CRY-dependent manner. Interestingly, genes with complex promoters may either be repressed or de-repressed by PER, depending on the particular promoter regulatory elements. Here, using mouse cell lines with defined knockout mutations in clock genes, RNA-seq, ChIP-seq, and reporter gene assays coupled with measurements of DNA–protein interactions in nuclear extracts, we elucidate the dual functions of PER as repressor and de-repressor in a context-dependent manner.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 9
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    Single-nucleotide resolution dynamic repair maps of UV damage in Saccharomyces cerevisiae genome (2018)
    National Academy of Sciences
    Details
    Publication Date: 2018-03-26
    Description: We have adapted the eXcision Repair-sequencing (XR-seq) method to generate single-nucleotide resolution dynamic repair maps of UV-induced cyclobutane pyrimidine dimers and (6-4) pyrimidine–pyrimidone photoproducts in the Saccharomyces cerevisiae genome. We find that these photoproducts are removed from the genome primarily by incisions 13–18 nucleotides 5′ and 6–7 nucleotides 3′ to the UV damage that generate 21- to 27-nt-long excision products. Analyses of the excision repair kinetics both in single genes and at the genome-wide level reveal strong transcription-coupled repair of the transcribed strand at early time points followed by predominantly nontranscribed strand repair at later stages. We have also characterized the excision repair level as a function of the transcription level. The availability of high-resolution and dynamic repair maps should aid in future repair and mutagenesis studies in this model organism.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 10
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    Cisplatin-DNA adduct repair of transcribed genes is controlled by two circadian programs in mouse tissues (2018)
    National Academy of Sciences
    Details
    Publication Date: 2018-05-07
    Description: Cisplatin is a major cancer chemotherapeutic drug. It kills cancer cells by damaging their DNA, mainly in the form of Pt-d(GpG) diadducts. However, it also has serious side effects, including nephrotoxicity and hepatotoxicity that limit its usefulness. Chronotherapy is taking circadian time into account during therapy to improve the therapeutic index, by improving efficacy and/or limiting toxicity. To this end, we tested the impact of clock time on excision repair of cisplatin-induced DNA damage at single-nucleotide resolution across the genome in mouse kidney and liver. We found that genome repair is controlled by two circadian programs. Repair of the transcribed strand (TS) of active, circadian-controlled genes is dictated by each gene’s phase of transcription, which falls across the circadian cycle with prominent peaks at dawn and dusk. In contrast, repair of the nontranscribed strand (NTS) of all genes, repair of intergenic DNA, and global repair overall peaks at Zeitgeber time ZT08, as basal repair capacity, which is controlled by the circadian clock, peaks at this circadian time. Consequently, the TS and NTS of many genes are repaired out of phase. As most cancers are thought to have defective circadian rhythms, these results suggest that future research on timed dosage of cisplatin could potentially reduce damage to healthy tissue and improve its therapeutic index.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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