Prokaryotic Genomes and Diversity in Surface Ocean Waters: Interrogating the Global Ocean Sampling Metagenome▿ †
Identifieur interne : 000074 ( Ncbi/Checkpoint ); précédent : 000073; suivant : 000075Prokaryotic Genomes and Diversity in Surface Ocean Waters: Interrogating the Global Ocean Sampling Metagenome▿ †
Auteurs : Erin J. Biers ; Shulei Sun ; Erinn C. HowardSource :
- Applied and Environmental Microbiology [ 0099-2240 ] ; 2009.
Abstract
The
Url:
DOI: 10.1128/AEM.02118-08
PubMed: 19201952
PubMed Central: 2663191
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Prokaryotic Genomes and Diversity in Surface Ocean Waters: Interrogating the Global Ocean Sampling Metagenome<xref ref-type="fn" rid="fn3">▿</xref> <xref ref-type="fn" rid="fn2">†</xref> </title><author><name sortKey="Biers, Erin J" sort="Biers, Erin J" uniqKey="Biers E" first="Erin J." last="Biers">Erin J. Biers</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Sun, Shulei" sort="Sun, Shulei" uniqKey="Sun S" first="Shulei" last="Sun">Shulei Sun</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Howard, Erinn C" sort="Howard, Erinn C" uniqKey="Howard E" first="Erinn C." last="Howard">Erinn C. Howard</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">19201952</idno><idno type="pmc">2663191</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2663191</idno><idno type="RBID">PMC:2663191</idno><idno type="doi">10.1128/AEM.02118-08</idno><date when="2009">2009</date><idno type="wicri:Area/Pmc/Corpus">000202</idno><idno type="wicri:Area/Pmc/Curation">000202</idno><idno type="wicri:Area/Pmc/Checkpoint">000621</idno><idno type="wicri:Area/Ncbi/Merge">000074</idno><idno type="wicri:Area/Ncbi/Curation">000074</idno><idno type="wicri:Area/Ncbi/Checkpoint">000074</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Prokaryotic Genomes and Diversity in Surface Ocean Waters: Interrogating the Global Ocean Sampling Metagenome<xref ref-type="fn" rid="fn3">▿</xref> <xref ref-type="fn" rid="fn2">†</xref> </title><author><name sortKey="Biers, Erin J" sort="Biers, Erin J" uniqKey="Biers E" first="Erin J." last="Biers">Erin J. Biers</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Sun, Shulei" sort="Sun, Shulei" uniqKey="Sun S" first="Shulei" last="Sun">Shulei Sun</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Howard, Erinn C" sort="Howard, Erinn C" uniqKey="Howard E" first="Erinn C." last="Howard">Erinn C. Howard</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></analytic><series><title level="j">Applied and Environmental Microbiology</title><idno type="ISSN">0099-2240</idno><idno type="eISSN">1098-5336</idno><imprint><date when="2009">2009</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The <italic>Sorcerer II</italic> Global Ocean Sampling (GOS) sequencing effort has vastly expanded the landscape of metagenomics, providing an opportunity to study the genetic potential of surface ocean water bacterioplankton on a global scale. Here we describe the habitat-based microbial diversity, both taxon evenness and taxon richness, for each GOS site and estimate genome characteristics of a typical free-living, surface ocean water bacterium. While <italic>Alphaproteobacteria</italic> and particularly SAR11 dominate the 0.1- to 0.8-μm size fraction of surface ocean water bacteria (43% and 31%, respectively), the proportions of other taxa varied with ocean habitat type. Within each habitat type, lower-bound estimates of phylum richness ranged between 18 and 59 operational taxonomic units (OTUs). However, OTU richness was relatively low in the hypersaline lagoon community at every taxonomic level, and open-ocean communities had much more microdiversity than any other habitat. Based on the abundance of single-copy eubacterial genes from the same data set, we estimate that the genome of an average free-living surface ocean water bacterium (sized between 0.1 and 0.8 μm) contains ∼1,019 genes and 1.8 copies of the 16S rRNA gene, suggesting that these bacteria have relatively streamlined genomes in comparison to those of cultured bacteria and bacteria from other habitats (e.g., soil or acid mine drainage).</p></div></front></TEI><affiliations><list></list><tree><noCountry><name sortKey="Biers, Erin J" sort="Biers, Erin J" uniqKey="Biers E" first="Erin J." last="Biers">Erin J. Biers</name><name sortKey="Howard, Erinn C" sort="Howard, Erinn C" uniqKey="Howard E" first="Erinn C." last="Howard">Erinn C. Howard</name><name sortKey="Sun, Shulei" sort="Sun, Shulei" uniqKey="Sun S" first="Shulei" last="Sun">Shulei Sun</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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