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  • 1
    ISSN: 1574-6941
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: Bacterial populations inhabiting the sea surface microlayer from two contrasted Mediterranean coastal stations (polluted vs. oligotrophic) were examined by culturing and genetic fingerprinting methods and were compared with those of underlying waters (50 cm depth), for a period of two years. More than 30 samples were examined and 487 strains were isolated and screened. Proteobacteria were consistently more abundant in the collection from the pristine environment whereas Gram-positive bacteria (i.e., Actinobacteria and Firmicutes) were more abundant in the polluted site. Cythophaga-Flavobacter–Bacteroides (CFB) ranged from 8% to 16% of total strains. Overall, 22.5% of the strains showed a 16S rRNA gene sequence similarity only at the genus level with previously reported bacterial species and around 10.5% of the strains showed similarities in 16S rRNA sequence below 93% with reported species. The CFB group contained the highest proportion of unknown species, but these also included Alpha- and Gammaproteobacteria. Such low similarity values showed that we were able to culture new marine genera and possibly new families, indicating that the sea-surface layer is a poorly understood microbial environment and may represent a natural source of new microorganisms. Genetic fingerprinting showed, however, no consistent differences between the predominant bacterial assemblages from surface microlayer and underlying waters, suggesting that the presence of a stable and abundant neustonic bacterial community is not a common trait of coastal marine environments.
    Type of Medium: Electronic Resource
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  • 2
    ISSN: 1574-6941
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: The 5-cyano-2,3-ditolyl tetrazolium chloride (CTC) staining method is commonly and increasingly used to detect and to enumerate actively respiring cells (CTC+ cells) in aquatic systems. However, this method remains controversial since some authors promote this technique while others pointed out several drawbacks of the method. Using flow cytometry (FCM), we showed that CTC staining kinetics vary greatly from one sample to another. Therefore, there is no universal staining protocol that can be applied to aquatic bacterial communities. Furthermore, using 3H-leucine incorporation, it was shown that the CTC dye has a rapid toxic effect on bacterial cells by inhibiting protein synthesis, a key physiological function. The coupling of radioactive labelling with cell sorting by FCM suggested that CTC+ cells contribute to less than 60% of the whole bacterial activity determined at the community level. From these results, it is clearly demonstrated that the CTC method is not valid to detect active bacteria, i.e. cells responsible for bacterial production.
    Type of Medium: Electronic Resource
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  • 3
    Electronic Resource
    Electronic Resource
    Oxford, UK : Blackwell Publishing Ltd
    FEMS microbiology ecology 22 (1997), S. 0 
    ISSN: 1574-6941
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: The succession of the physiological states of Salmonella typhimurium cells under starvation-survival conditions in artificial seawater was investigated by flow cytometry and epifluorescence microscopy using direct examination of different cell functions. Measurements of substrate responsiveness (DVC method), real and potential respiration (redox dye 5-cyano-2,3-ditolyl tetrazolium chloride, CTC), membrane permeability (BacLight™ kit), as well as DNA content (Hoechst 33342 staining) reveal an important heterogeneity within the population, and suggest a progressive physiological cell alteration throughout the starvation process. The transition steps between culturable and prelytic cells are described.
    Type of Medium: Electronic Resource
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  • 4
    Publication Date: 2024-02-07
    Description: Marine heterotrophic prokaryotes (HP) play a key role in organic matter processing in the ocean; however, the view of HP as dissolved organic matter (DOM) sources remains underexplored. In this study, we quantified and optically characterized the DOM produced by two single marine bacterial strains. We then tested the availability of these DOM sources to in situ Mediterranean Sea HP communities. Two bacterial strains were used: Photobacterium angustum (a copiotrophic gammaproteobacterium) and Sphingopyxis alaskensis (an oligotrophic alphaproteobacterium). When cultivated on glucose as the sole carbon source, the two strains released from 7% to 23% of initial glucose as bacterial derived DOM (B-DOM), the quality of which (as enrichment in humic or protein-like substances) differed between strains. B-DOM induced significant growth and carbon consumption of natural HP communities, suggesting that it was partly labile. However, B-DOM consistently promoted lower prokaryotic growth efficiencies than in situ DOM. In addition, B-DOM changed HP exoenzymatic activities, enhancing aminopeptidase activity when degrading P. angustum DOM, and alkaline phosphatase activity when using S. alaskensis DOM, and promoted differences in HP diversity and composition. DOM produced by HP affects in situ prokaryotic metabolism and diversity, thus changing the pathways for DOM cycling (e.g. respiration over biomass production) in the ocean.
    Type: Article , PeerReviewed
    Format: text
    Format: text
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  • 5
    Publication Date: 2023-08-28
    Description: Climate warming and related drivers of soil thermal change in the Arctic are expected to modify the distribution and dynamics of carbon contained in perennially frozen grounds. Thawing of permafrost in the Mackenzie River watershed of northwestern Canada, coupled with increases in river discharge and coastal erosion, triggers the release of terrestrial organic matter (OMt) from the largest Arctic drainage basin in North America into the Arctic Ocean. While this process is ongoing and its rate is accelerating, the fate of the newly mobilized organic matter as it transits from the watershed through the delta and into the marine system remains poorly understood. In the framework of the European Horizon 2020 Nunataryuk programme, and as part of the Work Package 4 (WP4) Coastal Waters theme, four field expeditions were conducted in the Mackenzie Delta region and southern Beaufort Sea from April to September 2019. The temporal sampling design allowed the survey of ambient conditions in the coastal waters under full ice cover prior to the spring freshet, during ice breakup in summer, and anterior to the freeze-up period in fall. To capture the fluvial-marine transition zone, and with distinct challenges related to shallow waters and changing seasonal and meteorological conditions, the field sampling was conducted in close partnership with members of the communities of Aklavik, Inuvik and Tuktoyaktuk, using several platforms, namely helicopters, snowmobiles, and small boats. Water column profiles of physical and optical variables were measured in situ, while surface water, groundwater, and sediment samples were collected and preserved for the determination of the composition and sources of OMt, including particulate and dissolved organic carbon (POC and DOC), and colored dissolved organic matter (CDOM), as well as a suite of physical, chemical, and biological variables. Here we present an overview of the standardized datasets, including hydrographic profiles, remote sensing reflectance, temperature and salinity, particle absorption, nutrients, dissolved organic carbon, particulate organic carbon, particulate organic nitrogen, CDOM absorption, fluorescent dissolved organic matter intensity, suspended particulate matter, total particulate carbon, total particulate nitrogen, stable water isotopes, radon in water, bacterial abundance, and a string of phytoplankton pigments including total chlorophyll. Datasets and related metadata can be found in (10.1594/PANGAEA.937587).
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev
    Format: application/pdf
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  • 6
    Publication Date: 2024-04-27
    Description: Samples for bacterial abundance (1.5 mL) were preserved with glutaraldehyde (1% final concentration) and stored at -80°C. Samples were stained with SYBRTM Green I (Thermofisher Scientific) and analyzed on a flow cytometer (FACSCanto, BD Biosciences) as previously described (Gasol & Del Giorgio, 2000; doi:10.3989/scimar.2000.64n2197).
    Keywords: 1_STN01; 1_STN020; 1_STN040; 1_STN0a; 1_STN0b; 1_STN140alt; 1_STN150alt; 1_STN340alt; 1_STN350; 1_STN360; 1_STN370alt; 1_STN380alt; 1_STN540alt; 1_STN550; 1_STN740; 1_STN810; 1_STN830; 1_STN840; 1_STN850; 1_STN860; 1_STN870; 2_STN030; 2_STN040; 2_STN1030; 2_STN1040; 2_STN1050; 2_STN1060; 2_STN110; 2_STN120; 2_STN140alt; 2_STN150alt; 2_STN310; 2_STN320; 2_STN330; 2_STN340alt; 2_STN350; 2_STN360; 2_STN370; 2_STN380alt_2; 2_STN420; 2_STN430; 2_STN450; 2_STN530; 2_STN540alt; 2_STN550; 2_STN565; 2_STN620; 2_STN630; 2_STN740; 2_STN800; 2_STN810; 2_STN820; 2_STN830; 2_STN840; 2_STN850; 2_STN860; 2_STN870; 2_STN999; 2_STNxxx; 2_XX2; 2_XX3; 3_STN010; 3_STN020; 3_STN030; 3_STN040; 3_STN1030; 3_STN1040; 3_STN1050; 3_STN1060; 3_STN125; 3_STN130; 3_STN130_5m; 3_STN135; 3_STN140alt; 3_STN150alt; 3_STN330; 3_STN340alt; 3_STN350; 3_STN360; 3_STN370alt; 3_STN380; 3_STN740; 3_STN800; 3_STN810; 3_STN820; 3_STN830; 3_STN840; 3_STN850; 3_STN860; 3_STN870; 3_STNR01; 3_STNR02; 3_STNR02_5m; 3_STNR03; 3_STNR04; 3_STNR05; 3_STNR06; 3_STNR07; 3_STNR08; 3_STNR09; 3_STNR09_20m; 3_STNR10; 3_STNR11; 3_STNR12; 3_STNR13; 3_STNxxx; 4_STN010; 4_STN020; 4_STN030; 4_STN040; 4_STN1030; 4_STN1040; 4_STN1050; 4_STN120; 4_STN125; 4_STN130; 4_STN135; 4_STN140alt; 4_STN140alt_2; 4_STN150alt; 4_STN330; 4_STN340alt; 4_STN350; 4_STN360; 4_STN370; 4_STN380alt; 4_STN740; 4_STN800; 4_STN810; 4_STN820; 4_STN830; 4_STN840; 4_STN840_2; 4_STN850; 4_STN860; 4_STN870; 4_STNR01; 4_STNR03; 4_STNR04; 4_STNR05; 4_STNR08; 4_STNR09; 4_STNR12; 4_STNXX4; 4_STNXX4_2; Bacteria; biogeochemistry; Biooptics; Coastal waters; Cruise/expedition; DATE/TIME; DEPTH, water; Event label; Flow cytometry; hydrographic data; LATITUDE; LONGITUDE; Mackenzie; Mackenzie Delta, Canada; MULT; Multiple investigations; NUNATARYUK; NUNATARYUK, Permafrost thaw and the changing Arctic coast, science for socioeconomic adaptation; NunaWP4Mackenzie19_1_STN01; NunaWP4Mackenzie19_1_STN020; NunaWP4Mackenzie19_1_STN040; NunaWP4Mackenzie19_1_STN0a; NunaWP4Mackenzie19_1_STN0b; NunaWP4Mackenzie19_1_STN140alt; NunaWP4Mackenzie19_1_STN150alt; NunaWP4Mackenzie19_1_STN340alt; NunaWP4Mackenzie19_1_STN350; NunaWP4Mackenzie19_1_STN360; NunaWP4Mackenzie19_1_STN370alt; NunaWP4Mackenzie19_1_STN380alt; NunaWP4Mackenzie19_1_STN540alt; NunaWP4Mackenzie19_1_STN550; NunaWP4Mackenzie19_1_STN740; NunaWP4Mackenzie19_1_STN810; NunaWP4Mackenzie19_1_STN830; NunaWP4Mackenzie19_1_STN840; NunaWP4Mackenzie19_1_STN850; NunaWP4Mackenzie19_1_STN860; NunaWP4Mackenzie19_1_STN870; NunaWP4Mackenzie19_2_STN030; NunaWP4Mackenzie19_2_STN040; NunaWP4Mackenzie19_2_STN1030; NunaWP4Mackenzie19_2_STN1040; NunaWP4Mackenzie19_2_STN1050; NunaWP4Mackenzie19_2_STN1060; NunaWP4Mackenzie19_2_STN110; NunaWP4Mackenzie19_2_STN120; NunaWP4Mackenzie19_2_STN140alt; NunaWP4Mackenzie19_2_STN150alt; NunaWP4Mackenzie19_2_STN310; NunaWP4Mackenzie19_2_STN320; NunaWP4Mackenzie19_2_STN330; NunaWP4Mackenzie19_2_STN340alt; NunaWP4Mackenzie19_2_STN350; NunaWP4Mackenzie19_2_STN360; NunaWP4Mackenzie19_2_STN370; NunaWP4Mackenzie19_2_STN380alt_2; NunaWP4Mackenzie19_2_STN420; NunaWP4Mackenzie19_2_STN430; NunaWP4Mackenzie19_2_STN450; NunaWP4Mackenzie19_2_STN530; NunaWP4Mackenzie19_2_STN540alt; NunaWP4Mackenzie19_2_STN550; NunaWP4Mackenzie19_2_STN565; NunaWP4Mackenzie19_2_STN620; NunaWP4Mackenzie19_2_STN630; NunaWP4Mackenzie19_2_STN740; NunaWP4Mackenzie19_2_STN800; NunaWP4Mackenzie19_2_STN810; NunaWP4Mackenzie19_2_STN820; NunaWP4Mackenzie19_2_STN830; NunaWP4Mackenzie19_2_STN840; NunaWP4Mackenzie19_2_STN850; NunaWP4Mackenzie19_2_STN860; NunaWP4Mackenzie19_2_STN870; NunaWP4Mackenzie19_2_STN999; NunaWP4Mackenzie19_2_STNxxx; NunaWP4Mackenzie19_2_XX2; NunaWP4Mackenzie19_2_XX3; NunaWP4Mackenzie19_3_STN010; NunaWP4Mackenzie19_3_STN020; NunaWP4Mackenzie19_3_STN030; NunaWP4Mackenzie19_3_STN040; NunaWP4Mackenzie19_3_STN1030; NunaWP4Mackenzie19_3_STN1040; NunaWP4Mackenzie19_3_STN1050; NunaWP4Mackenzie19_3_STN1060; NunaWP4Mackenzie19_3_STN125; NunaWP4Mackenzie19_3_STN130; NunaWP4Mackenzie19_3_STN130_5m; NunaWP4Mackenzie19_3_STN135; NunaWP4Mackenzie19_3_STN140alt; NunaWP4Mackenzie19_3_STN150alt; NunaWP4Mackenzie19_3_STN330; NunaWP4Mackenzie19_3_STN340alt; NunaWP4Mackenzie19_3_STN350; NunaWP4Mackenzie19_3_STN360; NunaWP4Mackenzie19_3_STN370alt; NunaWP4Mackenzie19_3_STN380; NunaWP4Mackenzie19_3_STN740; NunaWP4Mackenzie19_3_STN800; NunaWP4Mackenzie19_3_STN810; NunaWP4Mackenzie19_3_STN820; NunaWP4Mackenzie19_3_STN830; NunaWP4Mackenzie19_3_STN840; NunaWP4Mackenzie19_3_STN850; NunaWP4Mackenzie19_3_STN860; NunaWP4Mackenzie19_3_STN870; NunaWP4Mackenzie19_3_STNR01; NunaWP4Mackenzie19_3_STNR02; NunaWP4Mackenzie19_3_STNR02_5m; NunaWP4Mackenzie19_3_STNR03; NunaWP4Mackenzie19_3_STNR04; NunaWP4Mackenzie19_3_STNR05; NunaWP4Mackenzie19_3_STNR06; NunaWP4Mackenzie19_3_STNR07; NunaWP4Mackenzie19_3_STNR08; NunaWP4Mackenzie19_3_STNR09; NunaWP4Mackenzie19_3_STNR09_20m; NunaWP4Mackenzie19_3_STNR10; NunaWP4Mackenzie19_3_STNR11; NunaWP4Mackenzie19_3_STNR12; NunaWP4Mackenzie19_3_STNR13; NunaWP4Mackenzie19_3_STNxxx; NunaWP4Mackenzie19_4_STN010; NunaWP4Mackenzie19_4_STN020; NunaWP4Mackenzie19_4_STN030; NunaWP4Mackenzie19_4_STN040; NunaWP4Mackenzie19_4_STN1030; NunaWP4Mackenzie19_4_STN1040; NunaWP4Mackenzie19_4_STN1050; NunaWP4Mackenzie19_4_STN120; NunaWP4Mackenzie19_4_STN125; NunaWP4Mackenzie19_4_STN130; NunaWP4Mackenzie19_4_STN135; NunaWP4Mackenzie19_4_STN140alt; NunaWP4Mackenzie19_4_STN140alt_2; NunaWP4Mackenzie19_4_STN150alt; NunaWP4Mackenzie19_4_STN330; NunaWP4Mackenzie19_4_STN340alt; NunaWP4Mackenzie19_4_STN350; NunaWP4Mackenzie19_4_STN360; NunaWP4Mackenzie19_4_STN370; NunaWP4Mackenzie19_4_STN380alt; NunaWP4Mackenzie19_4_STN740; NunaWP4Mackenzie19_4_STN800; NunaWP4Mackenzie19_4_STN810; NunaWP4Mackenzie19_4_STN820; NunaWP4Mackenzie19_4_STN830; NunaWP4Mackenzie19_4_STN840; NunaWP4Mackenzie19_4_STN840_2; NunaWP4Mackenzie19_4_STN850; NunaWP4Mackenzie19_4_STN860; NunaWP4Mackenzie19_4_STN870; NunaWP4Mackenzie19_4_STNR01; NunaWP4Mackenzie19_4_STNR03; NunaWP4Mackenzie19_4_STNR04; NunaWP4Mackenzie19_4_STNR05; NunaWP4Mackenzie19_4_STNR08; NunaWP4Mackenzie19_4_STNR09; NunaWP4Mackenzie19_4_STNR12; NunaWP4Mackenzie19_4_STNXX4; NunaWP4Mackenzie19_4_STNXX4_2; Station label
    Type: Dataset
    Format: text/tab-separated-values, 432 data points
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