Distinct flavobacterial communities in contrasting water masses of the North Atlantic Ocean

Gómez-Pereira, Paola R; Fuchs, Bernhard M; Alonso, Cecilia; Oliver, Matthew J; van Beusekom, Justus E E; Amann, Rudolf

doi:10.1038/ismej.2009.142

Cited by 165Microbial Community Ecology and PhysiologyMarine Biology and Ecology ResearchMarine and coastal ecosystems

Distinct flavobacterial communities in contrasting water masses of the North Atlantic Ocean

Gómez-Pereira, Paola R, Fuchs, Bernhard M, Alonso, Cecilia, Oliver, Matthew J, van Beusekom, Justus E E, Amann, Rudolf·2010·The ISME Journal

DOI 10.1038/ismej.2009.142

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Abstract

Members of the class Flavobacteria in the phylum Bacteroidetes are among the most abundant picoplankton in coastal and polar oceans. Their diversity is high in marine waters. However, quantitative information about distribution patterns of flavobacterial clades is scarce. We analyzed the diversity and clade-specific abundances of individual Flavobacteria in different oceanic provinces in the North Atlantic Ocean. Samples were taken along the 30 degrees W meridian between the East Greenland current and the North Atlantic subtropical gyre. Comparative sequence analysis of 16S ribosomal RNA (rRNA) gene libraries revealed high diversity and significant spatial variability within the class Flavobacteria. Published and newly designed oligonucleotide probes were used to enumerate eleven flavobacterial clades by catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH). We found that different provinces harbor distinct flavobacterial communities. Clade DE2 accounted for a substantial fraction of total Flavobacteria only in the Polar Biome (BPLR), whereas the VISION clades VIS1 and VIS4 significantly increased in the Arctic (ARCT) province. Members of the genus Polaribacter were the most abundant clade in all the water masses analyzed, with highest absolute numbers in BPLR and ARCT. We improved the CARD-FISH protocol to quantify the rare clades VIS2, VIS3, VIS5 and VIS6, which were present in abundances below 0.5%. They all showed pronounced regional distribution patterns. Microscopic analysis proved a specific enrichment of Flavobacteria in the phycosphere of nanophytoplankton of BPLR and ARCT. Our results suggest that different marine flavobacterial clades have distinct niches and different life strategies.

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OM60 Clade, Sva0996, MB11c04 and NS5 have been identified as crucial communities in the marine environment and found in various ecosystems ranging from marine sediments and surface seawaters to polar and coastal marine ecosystems.
“They have been identified as crucial communities in the marine environment and have been found in various ecosystems ranging from marine sediments and surface seawaters to polar and coastal marine ecosystems (Suzuki et al., 2001; Cho et al., 2007; Gómez-Pereira et al., 2010; Orsi et al., 2016).”
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Vickers, P. S. (2008) · doi:10.1002/9780470745571.ch1 · Cited by 13 · see citing works
Development and evaluation of specific 16S rDNA primers for marine Cytophaga–Flavobacteria cluster
CHEN, X., Zeng, Y., & Jiao, N. (2006) · Molecular Ecology Notes · doi:10.1111/j.1471-8286.2006.01514.x · Cited by 10 · see citing works
Characterization of Cytophaga-Flavobacteria community structure in the Bering Sea by cluster-specific 16S rRNA gene amplification analysis.
Chen, X., Zeng, Y., & Jiao, N. (2008) · PubMed · Cited by 8 · see citing works
New Degenerate Cytophaga-Flexibacter-Bacteroides -Specific 16S Ribosomal DNA-Targeted Oligonucleotide Probes Reveal High Bacterial Diversity in River Taff Epilithon
O’Sullivan, L. A., Weightman, A. J., & Fry, J. C. (2002) · Applied and Environmental Microbiology · doi:10.1128/aem.68.4.2093b-2093b.2002 · Cited by 3 · see citing works
Effects of Combined Water Potential and Temperature Stresses on Oocysts.
Walker, M. N., LEDDY, K. F., & Häger, E. (2002) · Applied and Environmental Microbiology · Cited by 1 · see citing works

Flagged first, then by citations

2 of the 87 references couldn’t be matched to a known paper.

Sorted by citations

Environmental and Gut Bacteroidetes: The Food Connection
Thomas, F., Hehemann, J., Rebuffet, E., Czjzek, M., & Michel, G. (2011) · Frontiers in Microbiology · doi:10.3389/fmicb.2011.00093 · Cited by 1,329 · see citing works
“Concordant with these results, a recent study of the communities of water masses from the North Atlantic Ocean revealed a specific enrichment of Flavobacteria in the space directly surrounding nanophytoplankton (Gomez-Pereira et al., 2010).”
Result
Ecology of marine Bacteroidetes: a comparative genomics approach
Fernández-Gómez, B., Richter, M., Schüler, M., Pinhassi, J., Acinas, S. G., González, J. M., & Pedrós‐Alió, C. (2013) · The ISME Journal · doi:10.1038/ismej.2012.169 · Cited by 735 · see citing works
“Finally, a CARD-FISH study of Bacteroidetes across the North Atlantic Ocean showed Polaribacter to be the most abundant Bacteroidetes in most samples (Gómez-Pereira et al., 2010).”
Background
Local and regional factors influencing bacterial community assembly
Lindström, E. S., & Langenheder, S. (2011) · Environmental Microbiology Reports · doi:10.1111/j.1758-2229.2011.00257.x · Cited by 526 · see citing works
Diversity and Activity of Communities Inhabiting Plastic Debris in the North Pacific Gyre
Bryant, J. A., Clemente, T. M., Viviani, D. A., Fong, A. A., Thomas, K. A., Kemp, P. F., Karl, D. M., White, A., & DeLong, E. F. (2016) · mSystems · doi:10.1128/msystems.00024-16 · Cited by 488 · see citing works
Recurring patterns in bacterioplankton dynamics during coastal spring algae blooms
Teeling, H., Fuchs, B. M., Bennke, C. M., Krüger, K., Chafee, M. E., Kappelmann, L., Reintjes, G., Waldmann, J., Quast, C., Glöckner, F. O., et al. (2016) · eLife · doi:10.7554/elife.11888 · Cited by 469 · see citing works
Two decades of describing the unseen majority of aquatic microbial diversity
Zinger, L., Gobet, A., & Pommier, T. (2011) · Molecular Ecology · doi:10.1111/j.1365-294x.2011.05362.x · Cited by 253 · see citing works
“Gomez-Pereira et al. (2010) provided some insights into the effect of water volume for detecting rare flavobacterial clades by means of FISH, showing that cell abundance variability was reduced by two when using at least 250 mL of water.”
Background
The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901 T Reveals a Broad Potential for Degradation of Algal Polysaccharides
Mann, A. J., Hahnke, R. L., Huang, S., Werner, J., Xing, P., Barbeyron, T., Hüettel, B., Stüber, K., Reinhardt, R., Harder, J., et al. (2013) · Applied and Environmental Microbiology · doi:10.1128/aem.01937-13 · Cited by 236 · see citing works
“They constitute an important part of the marine heterotrophic bacterioplankton in shallow coastal waters (1) and the open ocean (2, 3) and an important part of benthic marine microbial communities in sediments (4).”
Background
Niches of two polysaccharide-degrading Polaribacter isolates from the North Sea during a spring diatom bloom
Xing, P., Hahnke, R. L., Unfried, F., Markert, S., Huang, S., Barbeyron, T., Harder, J., Becher, D., Schweder, T., Glöckner, F. O., et al. (2014) · The ISME Journal · doi:10.1038/ismej.2014.225 · Cited by 227 · see citing works
“Based on in situ detection and 16S rRNA gene sequence analysis, it has been suggested that the Polaribacter genus consists of cold- and warm-water-adapted phylotypes (Gómez-Pereira et al., 2010; Dı́ez-Vives et al., 2013).”
BackgroundMethodInfluential
Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes ‘Gramella forsetii’ KT0803
Kabisch, A., Otto, A., König, S., Becher, D., Albrecht, D., Schüler, M., Teeling, H., Amann, R., & Schweder, T. (2014) · The ISME Journal · doi:10.1038/ismej.2014.4 · Cited by 207 · see citing works
“This supports the assumption that the wealth of naturally occurring algal polysaccharide structures and compositions provides distinct ecological niches for heterotrophic marine bacteria (Grossart et al., 2005; Hehemann et al., 2010; Gomez-Pereira et al., 2010; Gomez-Pereira et al., 2012).”
Background
Extracellular enzymes in terrestrial, freshwater, and marine environments: perspectives on system variability and common research needs
Arnosti, C., Bell, C., Moorhead, D., Sinsabaugh, R. L., Steen, A. D., Stromberger, M. E., Wallenstein, M. D., & Weintraub, M. N. (2013) · Biogeochemistry · doi:10.1007/s10533-013-9906-5 · Cited by 176 · see citing works
“That such differences exist in the ocean, however, is supported by metagenomic investigations in ocean waters showing spatial (Gomez-Pereira et al. 2010, 2012) and temporal (Teeling et al. 2012) differences in polysaccharide hydrolase genes associated with specific phylogenetic groupings, which…”
Background
Strong linkages between DOM optical properties and main clades of aquatic bacteria
Amaral, V., Graeber, D., Calliari, D., & Alonso, C. (2016) · Limnology and Oceanography · doi:10.1002/lno.10258 · Cited by 167 · see citing works
“This might be due to the observation that Flavobacteria are typically composed by several more or less equally abundant populations, which might differ in their eco-physiology and controlling factors (Gomez-Pereira et al. 2010).”
Background
Comparison of Two 16S rRNA Primers (V3–V4 and V4–V5) for Studies of Arctic Microbial Communities
Fadeev, E., Cardozo-Mino, M. G., Rapp, J. Z., Bienhold, C., Salter, I., Salman-Carvalho, V., Molari, M., Tegetmeyer, H. E., Buttigieg, P. L., & Boëtius, A. (2021) · Frontiers in Microbiology · doi:10.3389/fmicb.2021.637526 · Cited by 168 · see citing works
Microbial community and geochemical analyses of trans-trench sediments for understanding the roles of hadal environments
Hiraoka, S., Hirai, M., Matsui, Y., Makabe, A., Minegishi, H., Tsuda, M., Juliarni, Rastelli, E., Danovaro, R., Corinaldesi, C., et al. (2019) · The ISME Journal · doi:10.1038/s41396-019-0564-z · Cited by 162 · see citing works
Genomic content of uncultured Bacteroidetes from contrasting oceanic provinces in the North Atlantic Ocean
Gomez‐Pereira, P., Schüler, M., Fuchs, B. M., Bennke, C. M., Teeling, H., Waldmann, J., Richter, M., Barbe, V., Bataille, E., Glöckner, F. O., et al. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02555.x · Cited by 158 · see citing works
Determining indicator taxa across spatial and seasonal gradients in the Columbia River coastal margin
Fortunato, C. S., Eiler, A., Herfort, L., Needoba, J. A., Peterson, T. D., & Crump, B. C. (2013) · The ISME Journal · doi:10.1038/ismej.2013.79 · Cited by 158 · see citing works
“One study of bacterioplankton communities along a coast to open ocean transect in the North Atlantic Ocean found Polaribacter taxa to be the most prevalent of all Flavobacteria, with higher abundances in coastal samples (Gomez-Pereira et al., 2010).”
Background
Into the deep: Evaluation of SourceTracker for assessment of faecal contamination of coastal waters
Henry, R., Schang, C., Coutts, S. A. J., Kolotelo, P., Prosser, T., Crosbie, N. D., Grant, T., Cottam, D., O'Brien, P., Deletić, A., et al. (2016) · Water Research · doi:10.1016/j.watres.2016.02.029 · Cited by 149 · see citing works
“Previous NGS studies have identified Flavobacteriaceae and Pelagibacteraceae as predominant bacterial constituents inmarine settings (Campbell et al., 2015, G omez-Pereira et al., 2010, Morris et al., 2002,Wang et al., 2015).”
Characterization of the anaerobic microbial community in oil‐polluted subtidal sediments: aromatic biodegradation potential after the Prestige oil spill
Acosta‐González, A., Rossello-Mora, R. A., & Marqués, S. (2012) · Environmental Microbiology · doi:10.1111/j.1462-2920.2012.02782.x · Cited by 148 · see citing works
“Bacteroidetes are generally associated with fermentative metabolism related to labile highmolecular-weight organic matter degradation under conditions of high nutrient concentrations, and could respond to summer upwelling of algal blooms, or to fermentation processes (Rosselló-Mora et al., 1999; Gomez-Pereira et al.,…”
Background
The Family Flavobacteriaceae
McBride, M. J. (2014) · Springer eBooks · doi:10.1007/978-3-642-38954-2_130 · Cited by 143 · see citing works
Deep-sequencing of the bacterial microbiota in commercial-scale recirculating and semi-closed aquaculture systems for Atlantic salmon post-smolt production
Rud, I., Kolarevic, J., Holan, A. B., Berget, I., Calabrese, S., & Terjesen, B. F. (2016) · Aquacultural Engineering · doi:10.1016/j.aquaeng.2016.10.003 · Cited by 131 · see citing works
Metatranscriptomic analysis of autonomously collected and preserved marine bacterioplankton
Ottesen, E. A., Marin, R., Preston, C. M., Young, C. R., Ryan, J. P., Scholin, C. A., & DeLong, E. F. (2011) · The ISME Journal · doi:10.1038/ismej.2011.70 · Cited by 132 · see citing works
Bacterioplankton Dynamics within a Large Anthropogenically Impacted Urban Estuary
Jeffries, T. C., Fontes, M. L. S., Harrison, D. P., van Dongen‐Vogels, V., Eyre, B. D., Ralph, P. J., & Seymour, J. R. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.01438 · Cited by 125 · see citing works
“These taxa are all common in marine habitats (Arahal and Ventosa, 2006; Gómez-Pereira et al., 2010; Brown et al., 2012; Mazard et al., 2012) and showed higher abundances in the eastern seaward regions of the estuary, reflecting the preferences of these organisms for marine salinity and lower…”
Background
Microbial community phylogenetic and trait diversity declines with depth in a marine oxygen minimum zone
Bryant, J. A., Stewart, F. J., Eppley, J. M., & DeLong, E. F. (2012) · Ecology · doi:10.1890/11-1204.1 · Cited by 125 · see citing works
“Furthermore, Flavobacteria tend to cooccur with phytoplankton and are believed to specialize in degrading proteins and other polymers (Gonzáles et al. 2008, Gómez-Pereira et al. 2010), potentially explaining their higher abundance near or in the photic depths.”
Background
Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches
Wemheuer, B., Güllert, S., Billerbeck, S., Giebel, H., Voget, S., Simon, M., & Daniel, R. (2013) · FEMS Microbiology Ecology · doi:10.1111/1574-6941.12230 · Cited by 117 · see citing works
“Bacteroidetes are widespread in marine systems and play an important role in organic matter degradation (Gomez-Pereira et al., 2010).”
Background
Rapid successions affect microbial N ‐acetyl‐glucosamine uptake patterns during a lacustrine spring phytoplankton bloom
Eckert, E. M., Salcher, M. M., Posch, T., Eugster, B., & Pernthaler, J. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02639.x · Cited by 106 · see citing works
Isolation and Complete Genome Sequence of Algibacter alginolytica sp. nov., a Novel Seaweed-Degrading Bacteroidetes Bacterium with Diverse Putative Polysaccharide Utilization Loci
Sun, C., Fu, G., Zhang, C., Hu, J., Xu, L., Wang, R., Su, Y., Han, S., Yu, X., Cheng, H., et al. (2016) · Applied and Environmental Microbiology · doi:10.1128/aem.00204-16 · Cited by 101 · see citing works
A trait based perspective on the biogeography of common and abundant marine bacterioplankton clades
Brown, M. V., Ostrowski, M. D., Grzymski, J. J., & Lauro, F. M. (2014) · Marine Genomics · doi:10.1016/j.margen.2014.03.002 · Cited by 95 · see citing works
Sensing the ocean biological carbon pump from space: A review of capabilities, concepts, research gaps and future developments
Brewin, R. J. W., Sathyendranath, S., Platt, T., Bouman, H. A., Ciavatta, S., Dall’Olmo, G., Dingle, J., Groom, S., Jönsson, B. F., Kostadinov, T. S., et al. (2021) · Earth-Science Reviews · doi:10.1016/j.earscirev.2021.103604 · Cited by 95 · see citing works
The environmental and host‐associated bacterial microbiota of Arctic seawater‐farmed Atlantic salmon with ulcerative disorders
Karlsen, C., Ottem, K. F., Brevik, Ø. J., Davey, M. L., Sørum, H. R., & Winther-Larsen, H. C. (2017) · Journal of Fish Diseases · doi:10.1111/jfd.12632 · Cited by 94 · see citing works
Identification of Carbohydrate Metabolism Genes in the Metagenome of a Marine Biofilm Community Shown to Be Dominated by Gammaproteobacteria and Bacteroidetes
Edwards, J. L., Smith, D., Connolly, J., McDonald, J. E., Cox, M. J., Joint, I. R., Edwards, C., & McCarthy, A. J. (2010) · Genes · doi:10.3390/genes1030371 · Cited by 89 · see citing works
“This is also true of the well established role of Bacteroidetes, formerly known as the Cytophaga/Flavobacteria/Bacteroides group, and their dominance in the marine environment particularly in coastal regions [29,30] and their role in phytoplankton colonization [31] and polysaccharide degradation [30].”
Background
Dynamics of marine bacterial community diversity of the coastal waters of the reefs, inlets, and wastewater outfalls of southeast F lorida
Campbell, A. M., Fleisher, J. M., Sinigalliano, C. D., White, J. R., & Lopez, J. V. (2015) · MicrobiologyOpen · doi:10.1002/mbo3.245 · Cited by 88 · see citing works
“Flavobacteriaceae commonly occurs in marine samples and break down large molecules like chitin, DNA (Giovannoni and Rapp e 2000), and algal degradation products (G omez-Pereira et al. 2010).”
Background
Bacterial community shift is induced by dynamic environmental parameters in a changing coastal ecosystem (northern A driatic, northeastern M editerranean S ea) – a 2‐year time‐series study
Tinta, T., Vojvoda, J., Mozetič, P., Talaber, I., Vodopıvec, M., Malfatti, F., & Turk, V. (2014) · Environmental Microbiology · doi:10.1111/1462-2920.12519 · Cited by 88 · see citing works
Discovery and structural characterization of a novel glycosidase family of marine origin
Rebuffet, E., Groisillier, A., Thompson, A., Jeudy, A., Barbeyron, T., Czjzek, M., & Michel, G. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02426.x · Cited by 87 · see citing works
“This latter phylum, formerly known as Cytophaga–Flavobacteria– Bacteroides (CFB) group, also dominates free-living microbial assemblages associated to phytoplankton blooms (Fandino et al., 2003; Gomez-Pereira et al., 2010).”
Background
Phylogenetic characterisation of picoplanktonic populations with high and low nucleic acid content in the North Atlantic Ocean
Schattenhofer, M., Wulf, J., Kostadinov, I., Glöckner, F. O., Zubkov, M. V., & Fuchs, B. M. (2011) · Systematic and Applied Microbiology · doi:10.1016/j.syapm.2011.01.008 · Cited by 84 · see citing works
The green impact: bacterioplankton response toward a phytoplankton spring bloom in the southern North Sea assessed by comparative metagenomic and metatranscriptomic approaches
Wemheuer, B., Wemheuer, F., Hollensteiner, J., Meyer, F.-D., Voget, S., & Daniel, R. (2015) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.00805 · Cited by 77 · see citing works
Dynamics of Heterotrophic Bacterial Assemblages within Synechococcus Cultures
Zheng, Q., Wang, Y., Xie, R., Lang, A. S., Liu, Y., Lu, J., Zhang, X., Sun, J., Suttle, C. A., & Jiao, N. (2017) · Applied and Environmental Microbiology · doi:10.1128/aem.01517-17 · Cited by 75 · see citing works
Bacterioplankton Biogeography of the Atlantic Ocean: A Case Study of the Distance-Decay Relationship
Milici, M., Tomasch, J., Wos‐Oxley, M. L., Decelle, J., Jáuregui, R., Wang, H., Deng, Z.-L., Plumeier, I., Giebel, H., Badewien, T. H., et al. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.00590 · Cited by 71 · see citing works
“Studies carried out on the phylum Bacteroidetes in the North Atlantic also support the existence of distinct microbial communities in different oceanographic provinces (Gomez-Pereira et al., 2010, 2012).”
Background
Metagenomic insights into zooplankton‐associated bacterial communities
Corte, D. D., Srivastava, A., Koski, M., Garcia, J. A. L., Takaki, Y., Yokokawa, T., Nunoura, T., Elisabeth, N. H., Sintes, E., & Herndl, G. J. (2017) · Environmental Microbiology · doi:10.1111/1462-2920.13944 · Cited by 70 · see citing works
Observational Needs Supporting Marine Ecosystems Modeling and Forecasting: From the Global Ocean to Regional and Coastal Systems
Capotondi, A. M., Jacox, M. G., Bowler, C., Kavanaugh, M. T., Lehodey, P., Barrie, D., Brodie, S. J., Chaffron, S., Cheng, W., Dias, D. F., et al. (2019) · Frontiers in Marine Science · doi:10.3389/fmars.2019.00623 · Cited by 74 · see citing works
“Plankton and bacterioplankton community structure are different across dynamic seascapes (Gomez-Pereira et al., 2010; Kavanaugh et al., 2015), with ongoing efforts to validate seascape patterns at higher trophic levels, including endangered species, such as Atlantic Sturgeon (Breece et al.”
Background
Phylogenetic diversity of Flavobacteria isolated from the North Sea on solid media
Hahnke, R. L., & Harder, J. (2013) · Systematic and Applied Microbiology · doi:10.1016/j.syapm.2013.06.006 · Cited by 67 · see citing works
Biodiversity and Biogeography of the Lower Trophic Taxa of the Pacific Arctic Region: Sensitivities to Climate Change
Nelson, R., Ashjian, C., Bluhm, B., Conlan, K., Gradinger, R., Grebmeier, J., Hill, V., Hopcroft, R., Hunt, B., Joo, H., et al. (2014) · Springer eBooks · doi:10.1007/978-94-017-8863-2_10 · Cited by 57 · see citing works
Ubiquitous Dissolved Inorganic Carbon Assimilation by Marine Bacteria in the Pacific Northwest Coastal Ocean as Determined by Stable Isotope Probing
DeLorenzo, S., Bräuer, S. L., Edgmont, C. A., Herfort, L., Tebo, B. M., & Zuber, P. (2012) · PLoS ONE · doi:10.1371/journal.pone.0046695 · Cited by 58 · see citing works
“Their predominance among DIC assimilating communities is not entirely surprising as the three classes have been identified as dominant in marine waters [28,29].”
Background
Microbial Community Response during the Iron Fertilization Experiment LOHAFEX
Thiele, S., Fuchs, B. M., Ramaiah, N., & Amann, R. (2012) · Applied and Environmental Microbiology · doi:10.1128/aem.01814-12 · Cited by 58 · see citing works
Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus
Howard‐Varona, C., Roux, S., Doré, H., Solonenko, N., Holmfeldt, K., Markillie, L. M., Orr, G., & Sullivan, M. B. (2016) · The ISME Journal · doi:10.1038/ismej.2016.81 · Cited by 58 · see citing works
“This host phylum is abundant in the human gut and the oceans (Kirchman, 2002; Gomez-Pereira et al., 2010), and the phage is the only cultured representative for one of the four globally abundant virus types in the oceans (Roux et al.”
Background
Temporal Variability of Coastal Planctomycetes Clades at Kabeltonne Station, North Sea
Pizzetti, I., Fuchs, B. M., Gerdts, G., Wichels, A., Wiltshire, K. H., & Amann, R. (2011) · Applied and Environmental Microbiology · doi:10.1128/aem.02931-10 · Cited by 56 · see citing works
Polysaccharide utilisation loci of Bacteroidetes from two contrasting open ocean sites in the North Atlantic
Bennke, C. M., Krüger, K., Kappelmann, L., Huang, S., Gobet, A., Schüler, M., Barbe, V., Fuchs, B. M., Michel, G., Teeling, H., et al. (2016) · Environmental Microbiology · doi:10.1111/1462-2920.13429 · Cited by 56 · see citing works
Concurrent jellyfish blooms and tenacibaculosis outbreaks in Northern Norwegian Atlantic salmon (Salmo salar) farms
Småge, S. B., Brevik, Ø. J., Frisch, K., WATANABE, K., Duesund, H., & Nylund, A. (2017) · PLoS ONE · doi:10.1371/journal.pone.0187476 · Cited by 54 · see citing works
Contrasting extracellular enzyme activities of particle-associated bacteria from distinct provinces of the North Atlantic Ocean
Arnosti, C., Fuchs, B. M., Amann, R., & Passow, U. (2012) · Frontiers in Microbiology · doi:10.3389/fmicb.2012.00425 · Cited by 53 · see citing works
“Data from Schattenhofer et al. (2011) and Gomez-Pereira et al. (2010).”
BackgroundMethodResultInfluential
Evaluation of reference genes for real-time quantitative PCR in the marine flavobacterium Zobellia galactanivorans
Thomas, F., Barbeyron, T., & Michel, G. (2010) · Journal of Microbiological Methods · doi:10.1016/j.mimet.2010.10.016 · Cited by 52 · see citing works
“Accumulating evidences indicate that these heterotrophic bacteria play a key role in the mineralization of marine organic matter, and particularly in the degradation of algal polysaccharides (Kirchman, 2002; Gomez-Pereira et al., 2010).”
Background
Mapping glycoconjugate-mediated interactions of marine Bacteroidetes with diatoms
Bennke, C. M., Neu, T. R., Fuchs, B. M., & Amann, R. (2013) · Systematic and Applied Microbiology · doi:10.1016/j.syapm.2013.05.002 · Cited by 51 · see citing works
Coupling of Dimethylsulfide Oxidation to Biomass Production by a Marine Flavobacterium
Green, D. H., Shenoy, D. M., Hart, M. C., & Hatton, A. D. (2011) · Applied and Environmental Microbiology · doi:10.1128/aem.02675-10 · Cited by 51 · see citing works
“Nevertheless, Flavobacteria are ecologically important in productive waters, where they are frequent colonizers of both living and decaying particulate organic matter (1, 9, 11).”
Background
Seasonal assemblages and short‐lived blooms in coastal north‐west A tlantic O cean bacterioplankton
El‐Swais, H., Dunn, K. A., Bielawski, J. P., Li, W. K. W., & Walsh, D. A. (2014) · Environmental Microbiology · doi:10.1111/1462-2920.12629 · Cited by 50 · see citing works
Bacterioplankton diversity and community composition in the Southern Lagoon of Venice
Simonato, F., Gomez‐Pereira, P., Fuchs, B. M., & Amann, R. (2010) · Systematic and Applied Microbiology · doi:10.1016/j.syapm.2009.12.006 · Cited by 46 · see citing works
“VIS6 also comprises phylotypes that have been retrieved from the North Atlantic Ocean [32] as well as during a phytoplankton bloom in naturally iron-fertilized waters [62].”
BackgroundMethod
Patterns of Microbially Driven Carbon Cycling in the Ocean: Links between Extracellular Enzymes and Microbial Communities
Arnosti, C. (2014) · Advances in Oceanography · doi:10.1155/2014/706082 · Cited by 45 · see citing works
“Similar clusters were found for microbial community structure and for metagenomic data about hydrolytic enzymes from these same stations [84, 87, 101].”
Background
Metaproteomics of aquatic microbial communities in a deep and stratified estuary
Colatriano, D., Ramachandran, A., Yergeau, É., Maranger, R. J., Gélinas, Y., & Walsh, D. A. (2015) · PROTEOMICS · doi:10.1002/pmic.201500079 · Cited by 43 · see citing works
Distribution of a consortium between unicellular algae and the N 2 fixing cyanobacterium UCYN ‐ A in the North Atlantic Ocean
Krupke, A., Lavik, G., Halm, H., Fuchs, B. M., Amann, R., & Kuypers, M. M. M. (2014) · Environmental Microbiology · doi:10.1111/1462-2920.12431 · Cited by 43 · see citing works
“This method was applied on samples collected during the VISION cruise (Gómez-Pereira et al., 2010) along the 30°W meridian from 66°N to 34°N in the North Atlantic Ocean, crossing different biogeographical provinces with different physico-chemical properties.”
BackgroundMethodInfluential
Global-scale distributions of marine surface bacterioplankton groups along gradients of salinity, temperature, and chlorophyll: a meta-analysis of fluorescence in situ hybridization studies
Lefort, T., & Gasol, J. M. (2013) · Aquatic Microbial Ecology · doi:10.3354/ame01643 · Cited by 43 · see citing works
“Similarly, the presence of different Flavobacteria clades, such as DE2 in polar biomes and the VISION clades in Arctic provinces, suggests that distinct flavobacterial clades have different niches and could present different life strategies (Gómez-Pereira et al. 2010).”
Background
Evaluation of Marine Bacteroidetes-Specific Primers for Microbial Diversity and Dynamics Studies
Díez‐Vives, C., Gasol, J. M., & Acinas, S. G. (2012) · Microbial Ecology · doi:10.1007/s00248-012-0087-x · Cited by 43 · see citing works
“Facing the dramatic expansion of gene databases, several studies have designed new probes [14, 18, 25, 31, 45] or have modified the available ones [9, 22, 43] to improve the coverage of this phylum and, particularly, to avoid nonspecific binding to other groups.”
Background
Evaluation of water sampling methodologies for amplicon-based characterization of bacterial community structure
Staley, C. M., Gould, T. J., Wang, P., Phillips, J., Cotner, J. B., & Sadowsky, M. J. (2015) · Journal of Microbiological Methods · doi:10.1016/j.mimet.2015.05.003 · Cited by 40 · see citing works
Dynamic seascapes predict the marine occurrence of an endangered species: A tlantic S turgeon A cipenser oxyrinchus oxyrinchus
Breece, M. W., Fox, D. A., Dunton, K. J., Frisk, M. G., Jordaan, A., & Oliver, M. J. (2016) · Methods in Ecology and Evolution · doi:10.1111/2041-210x.12532 · Cited by 42 · see citing works
Proteomic Stable Isotope Probing Reveals Taxonomically Distinct Patterns in Amino Acid Assimilation by Coastal Marine Bacterioplankton
Bryson, S., Li, Z., Pett‐Ridge, J., Hettich, R. L., Mayali, X., Pan, C., & Mueller, R. (2016) · mSystems · doi:10.1128/msystems.00027-15 · Cited by 39 · see citing works
Rapid response of the active microbial community to CO 2 exposure from a controlled sub-seabed CO 2 leak in Ardmucknish Bay (Oban, Scotland)
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Authors: Gómez-Pereira, P. R., Fuchs, B. M., Alonso, C., Oliver, M. J., van Beusekom, J. E. E., & Amann, R.
Affiliations: Department of Molecular Ecology, Max-Planck Institute for Marine Microbiology , Bremen , Germany
Max Planck Institute for Marine Microbiology (DE)
Departamento de Microbiología, Instituto de Investigaciones Biológicas Clemente Estable , Montevideo , Uruguay
University of Delaware (US)
Coastal Ecology Department, Alfred Wegener Institute for Polar and Marine Research , Hafenstrasse, List/Sylt , Germany
ORCID: Fuchs, Bernhard M
Oliver, Matthew J
Amann, Rudolf
Venue: The ISME Journal
Publisher: Oxford University Press (OUP)
Published: 2010-01-07
Volume: 4
Issue: 4
Pages: 472-487
ISSN: 1751-7362 (ISSN-L)
1751-7370
DOI: 10.1038/ismej.2009.142
OpenAlex: W2065569163
Cited by: 165
References: 87
Citations by year: 2026: 1 · 2025: 6 · 2024: 6 · 2023: 11 · 2022: 11 · 2021: 7 · 2020: 7 · 2019: 6 · 2018: 9 · 2017: 12 · 2016: 17 · 2015: 14 · 2014: 14 · 2013: 14 · 2012: 10
FWCI: 12.68
Type: journal article
Language: en
Open access: closed
Licence: academic.oup.com/pages/standard-publication-reuse-rights (vor)
Locations: The ISME Journal (publishedVersion)
PubMed (publishedVersion)
Helmholtz-Zentrum für Polar-und Meeresforschung (Alfred-Wegener-Institut) (submittedVersion)
Max Planck Digital Library (submittedVersion)
MPG.PuRe (Max Planck Society) (submittedVersion)
Funders: National Aeronautics and Space Administration (NNH05ZDA001N)
Max-Planck-Gesellschaft
Topics: Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
Physical Sciences › Earth and Planetary Sciences › Oceanography › Marine Biology and Ecology Research
Physical Sciences › Earth and Planetary Sciences › Oceanography › Marine and coastal ecosystems
Keywords: Flavobacteria, Bacteroidetes, picoplankton, North Atlantic, water masses, spatial distribution, 16S rRNA gene, CARD-FISH, Polaribacter, phycosphere, nanophytoplankton, oligonucleotide probes
MeSH terms: Atlantic Ocean, DNA, Bacterial, DNA, Ribosomal, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S, Seawater, Colony Count, Microbial, Oligonucleotide Probes, Cluster Analysis, In Situ Hybridization, Fluorescence, Sequence Analysis, DNA, Flavobacteriaceae, Biodiversity

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Distinct flavobacterial communities in contrasting water masses of the North Atlantic Ocean

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