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The Ocean Gene Atlas: exploring the biogeography of plankton genes online

Emilie Villar, Thomas Vannier, Caroline Vernette, Magali Lescot, Miguelangel Cuenca, Aurélien Alexandre, Paul Bachelerie, Thomas Rosnet, Eric Pelletier, Shinichi Sunagawa, Pascal Hingamp
<span title="2018-05-21">2018</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Ocean Gene Atlas is a web service to explore the biogeography of genes from marine planktonic organisms.  ...  The ease of use enables nonbioinformaticians to explore quantitative and contextualized information on genes of interest in the global ocean ecosystem.  ...  ACKNOWLEDGEMENTS The authors thank N. Terrapon and L. Tichit for the master students co-supervision. This article is contribution number 75 of the Tara Oceans expedition.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gky376">doi:10.1093/nar/gky376</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/29788376">pmid:29788376</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6030836/">pmcid:PMC6030836</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/raoyacej7ja2fkfzbcafnry2ya">fatcat:raoyacej7ja2fkfzbcafnry2ya</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190226045425/http://pdfs.semanticscholar.org/68f7/e9390edcdf8760557a21cd7a8eaba5e6b899.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/68/f7/68f7e9390edcdf8760557a21cd7a8eaba5e6b899.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gky376"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030836" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Ocean Gene Atlas: exploring the biogeography of plankton genes online [article]

Emilie Villar, Thomas Vannier, Caroline Vernette, Magali Lescot, Aurelien Alexandre, Paul Bachelerie, Thomas Rosnet, Eric Pelletier, Shinichi Sunagawa, Pascal Hingamp
<span title="2018-02-26">2018</span> <i title="Cold Spring Harbor Laboratory"> biorxiv/medrxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
The Ocean Gene Atlas is a web service to explore the biogeography of genes from marine planktonic organisms.  ...  Currently the Ocean Gene Atlas is deployed with i) the Ocean Microbial Reference Gene Catalog (OM-RGC) comprising 40 million non-redundant mostly prokaryotic gene sequences, and ii) the Marine Atlas of  ...  ACKNOWLEDGEMENTS The authors thank N. Terrapon and L. Tichit for the master students co-supervision. This article is contribution number 75 of the Tara Oceans expedition.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/271882">doi:10.1101/271882</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fduxszsqnna5fmnrnyhkwzcqqu">fatcat:fduxszsqnna5fmnrnyhkwzcqqu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180719100334/https://hal.sorbonne-universite.fr/hal-01803597/file/gky376.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/dc/fd/dcfd4603cc5286438a8b4d2a71869aee3768dd73.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/271882"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Diversity and evolution of bacterial bioluminescence genes in the global ocean

Thomas Vannier, Pascal Hingamp, Floriane Turrel, Lisa Tanet, Magali Lescot, Youri Timsit
<span title="2020-03-14">2020</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/dhm4lwu4tvbf5dklpg7zonzosa" style="color: black;">NAR Genomics and Bioinformatics</a> </i> &nbsp;
in the global ocean than the canonical CDAB(F)E(G) operon.  ...  Our deep exploration of public marine environmental databases considerably expands this view by providing a catalog of new lux homolog sequences, including 401 previously unknown luciferase-related genes  ...  ACKNOWLEDGEMENTS The authors would like to thank Gérald Grégori for sharing his enthusiasm about bioluminescence.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nargab/lqaa018">doi:10.1093/nargab/lqaa018</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33575578">pmid:33575578</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7671414/">pmcid:PMC7671414</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6hwo4dggs5addikp6htt4tirwa">fatcat:6hwo4dggs5addikp6htt4tirwa</a> </span>
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A global ocean atlas of eukaryotic genes

Quentin Carradec, Eric Pelletier, Corinne Da Silva, Adriana Alberti, Yoann Seeleuthner, Romain Blanc-Mathieu, Gipsi Lima-Mendez, Fabio Rocha, Leila Tirichine, Karine Labadie, Amos Kirilovsky, Alexis Bertrand (+26 others)
<span title="2018-01-25">2018</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/a4wan6l5o5dfzn767kyz7jqevi" style="color: black;">Nature Communications</a> </i> &nbsp;
The catalog is used to unveil functions expressed by eukaryotic marine plankton, and to assess their functional biogeography.  ...  Overall, the resource provides the foundations for exploring the roles of marine eukaryotes in ocean ecology and biogeochemistry. | www.nature.com/naturecommunications * * * Fig. 6 Ratios of differential  ...  This article is contribution number 62 of Tara Oceans. Author contributions E.P. and P.W. designed the study.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41467-017-02342-1">doi:10.1038/s41467-017-02342-1</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/29371626">pmid:29371626</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5785536/">pmcid:PMC5785536</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/32flzpeqwvf3dd54mgpavfvlfa">fatcat:32flzpeqwvf3dd54mgpavfvlfa</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190502094642/https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/236122/1/s41467-017-02342-1.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/b4/13/b413b3b42f7ab0f9acc41ad2b0e5ab3088b0526b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41467-017-02342-1"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> nature.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5785536" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Ocean Barcode Atlas: a web service to explore the biodiversity and biogeography of marine organisms

Caroline Vernette, Nicolas Henry, Julien Lecubin, Colomban de Vargas, Pascal Hingamp, Magali Lescot
<span title="2021-01-12">2021</span> <i title="Wiley (Blackwell Publishing)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ex5d3uqms5godnm5cg675tmsi4" style="color: black;">Molecular Ecology Resources</a> </i> &nbsp;
The Ocean Barcode Atlas (OBA) is a user friendly web service designed for biologists who wish to explore the biodiversity and biogeography of marine organisms locked in otherwise difficult to mine planetary  ...  Currently, the Ocean Barcode Altas is deployed online with the i) Tara Oceans eukaryotic 18S-V9 rDNA metabarcodes, ii) Tara Oceans 16S/18S rRNA mi Tags, and iii) 16S-V4V5 metabarcodes collected during  ...  The previously published OGA, being based on metagenomic sequences, is designed to explore the biogeography of plankton gene functions, enabling users to answer questions such as "where in the marine biome  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/1755-0998.13322">doi:10.1111/1755-0998.13322</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33434383">pmid:33434383</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/x7cucwv2zjdfrcqqpetmxo2dba">fatcat:x7cucwv2zjdfrcqqpetmxo2dba</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210718020211/https://onlinelibrary.wiley.com/doi/pdfdirect/10.1111/1755-0998.13322" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/60/66/606625f12e7f4075d5dde09d3e126b8bd08939c6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/1755-0998.13322"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

Guillem Salazar, Lucas Paoli, Adriana Alberti, Jaime Huerta-Cepas, Hans-Joachim Ruscheweyh, Miguelangel Cuenca, Christopher M. Field, Luis Pedro Coelho, Corinne Cruaud, Stefan Engelen, Ann C. Gregory, Karine Labadie (+59 others)
<span title="2019-11-14">2019</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iwommhyo5bdk7c3u37mhjzexfe" style="color: black;">Cell</a> </i> &nbsp;
Ocean microbial communities strongly influence the biogeochemistry, food webs, and climate of our planet.  ...  We examine gene expression changes and community turnover as the underlying mechanisms shaping community transcriptomes along these axes of environmental variation and show how their individual contributions  ...  ACKNOWLEDGMENTS Tara Oceans (that includes both the Tara Oceans and Tara Oceans Polar Circle expeditions) would not exist without the leadership of the Tara Expeditions Foundation and the continuous support  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2019.10.014">doi:10.1016/j.cell.2019.10.014</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31730850">pmid:31730850</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6912165/">pmcid:PMC6912165</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/lgmu62z42jcufg3xkqggnyhgz4">fatcat:lgmu62z42jcufg3xkqggnyhgz4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201107224155/https://hal.archives-ouvertes.fr/hal-02877702/file/PIIS009286741931164X.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c6/e8/c6e87af04086ae9b11390c321d69deb65bd3a798.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2019.10.014"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6912165" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

ATLAS Deliverable 3.2: Water masses controls on biodiversity and biogeography

Lea-Anne Henry, Patricia Puerta
<span title="2019-11-20">2019</span> <i title="Zenodo"> Zenodo </i> &nbsp;
Synthesis overview report on the influence of water mass properties on the biodiversity and biogeography of deep N Atlantic ecosystems.  ...  In-depth analyses of the influence of water mass identity/properties and organic matter supply on biodiversity and biogeography from (1) the Alboran Sea to the Azores, (2) the UK continental shelf and  ...  Acknowledgements We would like to acknowledge captains, crews and scientists participated in the cruises where data used in the present study were collected (Research Vessel "Lough Foyle" -June/July 2003  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.3548887">doi:10.5281/zenodo.3548887</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/3mk2ivgitnamvfzc677kiqm7nq">fatcat:3mk2ivgitnamvfzc677kiqm7nq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20220206095005/https://zenodo.org/record/3548888/files/D3.2%20final_May%202019.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/21/d8/21d808cf1c09d4f551dc89971b35fddebe8134ca.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.3548887"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

ATLAS Deliverable 4.4: Reproduction, dispersal and genetic connectivity in benthos and fishes [article]

M Carreiro-Silva, A Fox, J Carlsson, JEL Carlsson, C Orejas, CNR Roterman, M Rakka, J Boavida, J González- Irusta, T Morato, M Bilan, J Movilla (+2 others)
<span title="2021-04-01">2021</span> <i title="Zenodo"> Zenodo </i> &nbsp;
The direct observation and study of migratory movements is almost impossible in the oceans due to i) the reduced potential to fully access the marine environment, ii) the often minute size of the dispersing  ...  of the biology and ecology of species being studied.  ...  The large individual aggregations associated to a long larval dispersal time mediated by ocean currents may lead to high gene flow among the distant NE Atlantic cold-water coral reefs.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4658879">doi:10.5281/zenodo.4658879</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xl64rbge4vgvhn7iqo3jp6zejy">fatcat:xl64rbge4vgvhn7iqo3jp6zejy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210403165234/https://zenodo.org/record/4658880/files/ATLAS%20D4.4.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/72/b6/72b6b479412cb210b7ac07241535f0ecafaaa491.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4658879"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

ATLAS Deliverable 3.3: Biodiversity, biogeography and GOODS classification system under current climate conditions and future IPCC scenarios [article]

T Morato, JM González-Irusta, C Dominguez-Carrió, C-L Wei, A Davies, AK Sweetman, GH Taranto, L Beazley, A García-Alegre, A Grehan, P Laffargue, FJ Murillo (+89 others)
<span title="2021-04-01">2021</span> <i title="Zenodo"> Zenodo </i> &nbsp;
The main vision of WP3 Biodiversity and Biogeography is to conduct pilot studies to validate robust and cost-effective techniques to minimise uncertainty in deep ocean biodiversity and biogeography assessment  ...  At international levels, the Global Open Oceans and Deep Seabed (GOODS) classification scheme is a decision-support tool to help safeguard marine biodiversity, support the ecosystem approach, marine spatial  ...  ATLAS WP3, has significantly contributed to the increased knowledge on the biodiversity (Chapter 1) and biogeography (Chapter 2) of the North Atlantic but large areas of this ocean-basin still remain poorly  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4658502">doi:10.5281/zenodo.4658502</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/zv3hxy6pgnefbke5yskxuenjva">fatcat:zv3hxy6pgnefbke5yskxuenjva</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210408064448/https://zenodo.org/record/4658502/files/ATLAS%20D3.3.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/a6/20/a62093256f596ed792be7b4c43c4d1c459c69471.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.4658502"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

Zoogeography of Intertidal Communities in the West Indian Ocean as Determined by Ocean Circulation Systems: Patterns from the Tetraclita Barnacles

Ling Ming Tsang, Yair Achituv, Ka Hou Chu, Benny Kwok Kan Chan, Senjie Lin
<span title="2012-09-14">2012</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s3gm7274mfe6fcs7e3jterqlri" style="color: black;">PLoS ONE</a> </i> &nbsp;
The Indian Ocean is the least known ocean in the world with the biogeography of marine species in the West Indian Ocean (WIO) understudied.  ...  Our results support that intertidal species in the West Indian Ocean are associated with each of the major oceanographic circulation systems which determine gene flow.  ...  Analyses and visualizations used in Figure 1B -E were produced with the Giovanni online data system, developed and maintained by the NASA GES DISC. Analyses and visualizations used in Figure 1F  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0045120">doi:10.1371/journal.pone.0045120</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23024801">pmid:23024801</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3443201/">pmcid:PMC3443201</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/3chvcpuehneiliyft7cwwl7kpi">fatcat:3chvcpuehneiliyft7cwwl7kpi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210716230230/https://archimer.ifremer.fr/doc/00218/32975/31600.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/50/b2/50b2d4e43676bae9a72fdf67e1ac200e56374378.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0045120"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3443201" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Metabolic adaptations to marine environments: molecular diversity and evolution of ovothiol biosynthesis in Bacteria

Mariarita Brancaccio, Michael Tangherlini, Roberto Danovaro, Immacolata Castellano, Tal Dagan
<span title="2021-07-17">2021</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/c3tk2qca4vdq5htca2effydqim" style="color: black;">Genome Biology and Evolution</a> </i> &nbsp;
Our search within the Ocean Gene Atlas revealed the occurrence of ovothiol biosynthetic genes in Proteobacteria living in a wide range of pelagic and highly oxygenated environments.  ...  We identified a horizontal gene transfer event of OvoB from Bacteroidetes living in symbiosis with Hydrozoa.  ...  The Ocean Gene Atlas: exploring the biogeography of plankton genes 770 online. Nucleic Acids Res. 46:W289-W295. 771 Vogt RN, Spies HS, Steenkamp DJ. 2001.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/gbe/evab169">doi:10.1093/gbe/evab169</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/34272861">pmid:34272861</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC8433421/">pmcid:PMC8433421</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/wt6y276eb5er5ai5qmkyo6xjyy">fatcat:wt6y276eb5er5ai5qmkyo6xjyy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210718092306/https://watermark.silverchair.com/evab169.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAtMwggLPBgkqhkiG9w0BBwagggLAMIICvAIBADCCArUGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMeO6Y9xhNP5aRFEnhAgEQgIIChmCbq-iW08uAXaJPKyd1ZvT9TW1MpBwNfmPaF1cnCGBRrtx1Yj2ebmPfzmx7-d4FdZcQbhFhN_oQ1TQwCLaorDfbyvUnLEq1i72eA-2AOFouiRj6caey__im1Pgw4XJbwhhkf3jT1ezJVmFZ9j6KuOTJhkVkUEIP2IBXQWteFKCfQJP1QqvSGbg0KSVOqnuXCsqo8hUZjswQ9b8uPJ2xkTXJtEbsEx5X0T9X7bro2clU7XBoWJm7OiFJ-mtfmcRmiS9MajZLPGRD3LXCMvuVPJUmLi3_LWmXm8uOGIqGLKr8kSxXFC8X5V5YAmXw29iwNU6atQjXgzSPCkB-cCHiRa1nJqQdYHin_oh0Er5U5NolKvOkwCLfWdVcLOSkIvw5JhZqh5MhUiajs7GdlBD7WnPHUb5izNcGacZ609qlpzaGpKzhSEtGQL1PVm7Ych4kI09W4kAnpPiERn8bWBMJIVTVJNGEqw_sQO23Bkxrt9Vql2eVuRCrOlcKNNVyXTzj4kPbOpFlmwLhO2J1pin4Nm6cSvAUd3Iq_zkFbfRg-fdT3kFVm0-qkTbPuAmUpssfMVN6A1zWJnM9vDtaKBVHFEDQMUwoZx6o-payHz_A5YLsQUCo2j7sllNCvuvCW8Fjy5W1r5DaR5bzHqjxRov0UTSIZVxa4neTvNu45WRO5lQ7byJ2HgSQdB_jzLn_K7Vs7PhWlX5hFhpgXr3GiK_Qr-8MUecMGr50FNqZOSGE3NAkYspa63rrC7aN1rQQNtIsxRP-OaLT8pIXHB90JVjfM3lx2YAA-dJWiJ5MSsbdbVVroZmKtlFLQjf9H0cesKeS7WmbchV_KrWtE1uS_1i-QsmtljZZg2Y" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/60/0d/600d174c97be136ca64104399ed0b2a71aaf7a11.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/gbe/evab169"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8433421" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Global Trends in Marine Plankton Diversity across Kingdoms of Life

Federico M. Ibarbalz, Nicolas Henry, Manoela C. Brandão, Séverine Martini, Greta Busseni, Hannah Byrne, Luis Pedro Coelho, Hisashi Endo, Josep M. Gasol, Ann C. Gregory, Frédéric Mahé, Janaina Rigonato (+62 others)
<span title="2019-11-14">2019</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iwommhyo5bdk7c3u37mhjzexfe" style="color: black;">Cell</a> </i> &nbsp;
The ocean is home to myriad small planktonic organisms that underpin the functioning of marine ecosystems.  ...  Projections into the future suggest that severe warming of the surface ocean by the end of the 21st century could lead to tropicalization of the diversity of most planktonic groups in temperate and polar  ...  STAR+METHODS Detailed methods are provided in the online version of this paper and include the following: Funding for the collection and processing of the Tara Oceans data set was provided by NASA Ocean  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2019.10.008">doi:10.1016/j.cell.2019.10.008</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31730851">pmid:31730851</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6912166/">pmcid:PMC6912166</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/yxnhxqumefhqbip5cdh4eyfgki">fatcat:yxnhxqumefhqbip5cdh4eyfgki</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210715192042/https://agritrop.cirad.fr/597386/1/1-s2.0-S0092867419311249-main.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/3c/23/3c23974e792c477e3d65f58255deba7ab9c570fa.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2019.10.008"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6912166" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Eukaryotic virus composition can predict the efficiency of carbon export in the global ocean

Hiroto Kaneko, Romain Blanc-Mathieu, Hisashi Endo, Samuel Chaffron, Tom O. Delmont, Morgan Gaia, Nicolas Henry, Rodrigo Hernández-Velázquez, Canh Hao Nguyen, Hiroshi Mamitsuka, Patrick Forterre, Olivier Jaillon (+5 others)
<span title="2020-12-29">2020</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/5u6jlpnlzndwrequnssxehzurq" style="color: black;">iScience</a> </i> &nbsp;
A regression model based on relative abundance of viral marker genes explained 67% of the variation in CEE.  ...  The biological carbon pump, in which carbon fixed by photosynthesis is exported to the deep ocean through sinking, is a major process in Earth's carbon cycle.  ...  The second gene catalog, the Marine Atlas of Tara Oceans Unigenes (MATOU), contains 116 million non-redundant genes derived from metatranscriptomes of single-cell microeukaryotes and small multicellular  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.isci.2020.102002">doi:10.1016/j.isci.2020.102002</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33490910">pmid:33490910</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7811142/">pmcid:PMC7811142</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/lijrmerxvffhnfmhikpd3g73lm">fatcat:lijrmerxvffhnfmhikpd3g73lm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210427213507/https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/261021/1/j.isci.2020.102002.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/fe/7e/fe7ee72dcdc004018ce6b06fe60648033bebac5d.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.isci.2020.102002"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7811142" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Global phylogenetic community structure and β-diversity patterns in surface bacterioplankton metacommunities

A Barberán, EO Casamayor
<span title="2010-03-11">2010</span> <i title="Inter-Research Science Center"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/khso35z75bgi7fuaveq2bpfzoa" style="color: black;">Aquatic Microbial Ecology</a> </i> &nbsp;
Marine (background) and freshwater (inset) bacterioplankton look similar under the microscope but present very different dominant bacteria.  ...  The ecological drivers guiding assemblage composition are, however, intriguing and challenging for microbial ecologists today. Photos: L. Alonso  ...  versions of this manuscript.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3354/ame01389">doi:10.3354/ame01389</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/zwdkbdgmszh6jefmuthlkcsgpe">fatcat:zwdkbdgmszh6jefmuthlkcsgpe</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170821142704/http://digital.csic.es/bitstream/10261/22981/1/bacterioplankton.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/a6/43/a643dad6b5f5d289ea9e1feb9e0a236aeef1a85a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3354/ame01389"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Biogeography of Australian Marine Invertebrates [chapter]

<span title="2017-01-06">2017</span> <i title="CRC Press"> Handbook of Australasian Biogeography </i> &nbsp;
Acknowledgements References 16 Handbook of Australasian Biogeography Stow, A., Maclean, N., and Holwell, G.I. (2015) Australasian region: 7.  ...  Ecological relations of Australian estuarine dino�agellates. Nova Hedwigia 8: 548-568.  ...  The biogeography of the Southern Ocean. In Biogeographic Atlas of the Southern Ocean , ed. C. De Broyer, P. Koubbi, H.J. Grif�ths, B. Raymond, C.D. Udekem D' acoz, A.P. Van De Putte et al., 1- 9.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1201/9781315373096-11">doi:10.1201/9781315373096-11</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/kon6gwprerfh3haefgbezr42si">fatcat:kon6gwprerfh3haefgbezr42si</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201229002902/https://s3-euw1-ap-pe-ws4-capi2-distribution-p.s3-eu-west-1.amazonaws.com/books/9781315373096/HUBPMP/9781315373096_googleScholarPDF.pdf?response-content-disposition=attachment%3B%20filename%3D%229781315373096_googlepreview.pdf%22&amp;response-content-type=application%2Fpdf&amp;x-amz-security-token=IQoJb3JpZ2luX2VjEJj%2F%2F%2F%2F%2F%2F%2F%2F%2F%2FwEaCWV1LXdlc3QtMSJHMEUCIQCiP%2FXD%2BHKBkqhwRiNTMVZpMzUvW8AFd5E5jR3iNYvIgwIgQa8Wr%2F4z61BzK9g4V4O%2BY4ShcV%2BS63YLtInWsaurXXAqtAMIUBACGgwwMTIxNzcyNjQ1MTEiDFqolArWoyam9hLMFyqRAwyzKVIIPOOrig4Q5SEd04mtbk2hpDvEi4cVdNhzzHBDybaJQ0x2zvM%2FPwJ%2FWtYyZSbGDTLgUw7SOH%2B7Le1pTsCGhO1hbCoU%2BV55mvYdgCjSVPPurSll39BuSPH7j7tpy2UZs5%2FUg4j41J%2BrVIIHxMcLbYtqb3tb53RdIlgBGEM8jggYFlFv0UD6xRxyb0bXZnlponu3%2BbXkmm%2BlDSM6yeX6DPHfcf%2Bw0NKDB1wWvUgKCQ8xVCXFxh6Q5kGdkSeHt8bbiEZ7T90jisFDItYAuRWerx2azgp9RKZ%2BvyWErZ7hxCz1zlmAtMjAxjAYLP2RO3R%2FJbVyj0Po6lP89Fdnixi3JXpqMVOxy%2FcYaqVsid83TxzPvP%2BOLHfrUPidF9EV5gh2s10ye1t2E8jd4%2BsTjvwqq4n1WS0m3wUfxCcQm1CbY4LNfSKzelXWElYhDqH%2B0yf%2BsxLlz0wILvSPqQ234nygMj%2B23lYFdKCi%2FI%2B7UnPTaCzU2L0Wfoo%2F%2FdX7JQUAAeJUwF8af1wwpB5l%2BY5fMroyMKPQqf8FOusBLP3553DN4k7S3S9eQ%2F3FfqmOHs6ytMFWYP2Fa5AL8pXrFVyaSYp0rqaboWSOl6zvqm6Xv26PHxDu0Hb%2FrUxCKzDY2fYQZgx8ibgM5YzZObSqCQhGReOVO9fN7m0Gvjco9%2BTqWnvHvNV3atph8eh6nhL0bdhqPzYkU3rOlXFnqtKkGwhv2I%2B45RHKv9SVF80wYRc5VHf9%2BxRM44%2BaunsE55XYXQFEm3%2FBGDNtiHJoYgXkVT5GZg9UbJEFe7i2mvstLBk6bND2WZWCRgtjJq1M9DN0SUJ6zNtqmtwzumOlsq2krsS1sUH7wm%2B85Q%3D%3D&amp;AWSAccessKeyId=ASIAQFVOSJ57XT2RYXFW&amp;Expires=1609806541&amp;Signature=JvMy25jbT%2F3SGkWot%2BHRLH%2BGBjA%3D" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/f8/32/f832480bddfe6ec078c8f4d54d54ee092f42cfd7.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1201/9781315373096-11"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>
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