Spatial patterns and light‐driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean
Identifieur interne : 000620 ( Istex/Corpus ); précédent : 000619; suivant : 000621Spatial patterns and light‐driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean
Auteurs : Ian Hewson ; Rachel S. Poretsky ; H. James Tripp ; Joseph P. Montoya ; Jonathan P. ZehrSource :
- Environmental Microbiology [ 1462-2912 ] ; 2010-07.
Abstract
Because bacterioplankton production rates do not vary strongly across vast expanses of the ocean, it is unclear how variability in community structure corresponds with functional variability in the open ocean. We surveyed community transcript functional profiles at eight locations in the open ocean, in both the light and in the dark, using the genomic subsystems approach, to understand variability in gene expression patterns in surface waters. Metatranscriptomes from geographically distinct areas and collected during the day and night shared a large proportion of metabolic functional similarity (74%) at the finest metabolic resolution possible. The variability between metatranscriptomes could be explained by phylogenetic differences between libraries (Mantel test, P < 0.0001). Several key gene expression pathways, including Photosystem I, Photosystem II and ammonium uptake, demonstrated the most variability both geographically and between light and dark. Libraries were dominated by transcripts of the cyanobacterium Prochlorocococcus marinus, where most geographical and diel variability between metatranscriptomes reflected between‐station differences in cyanobacterial phototrophic metabolism. Our results demonstrate that active genetic machinery in surface waters of the ocean is dominated by photosynthetic microorganisms and their site‐to‐site variability, while variability in the remainder of assemblages is dependent on local taxonomic composition.
Url:
DOI: 10.1111/j.1462-2920.2010.02198.x
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We surveyed community transcript functional profiles at eight locations in the open ocean, in both the light and in the dark, using the genomic subsystems approach, to understand variability in gene expression patterns in surface waters. Metatranscriptomes from geographically distinct areas and collected during the day and night shared a large proportion of metabolic functional similarity (74%) at the finest metabolic resolution possible. The variability between metatranscriptomes could be explained by phylogenetic differences between libraries (Mantel test, P < 0.0001). Several key gene expression pathways, including Photosystem I, Photosystem II and ammonium uptake, demonstrated the most variability both geographically and between light and dark. Libraries were dominated by transcripts of the cyanobacterium Prochlorocococcus marinus, where most geographical and diel variability between metatranscriptomes reflected between‐station differences in cyanobacterial phototrophic metabolism. Our results demonstrate that active genetic machinery in surface waters of the ocean is dominated by photosynthetic microorganisms and their site‐to‐site variability, while variability in the remainder of assemblages is dependent on local taxonomic composition.</div></front></TEI><istex><corpusName>wiley</corpusName><author><json:item><name>Ian Hewson</name><affiliations><json:string>Department of Microbiology, Cornell University, Wing Hall 403, Ithaca, NY 14853, USA.</json:string><json:string>Department of Ocean Sciences, University of California Santa Cruz, CA, USA.</json:string></affiliations></json:item><json:item><name>Rachel S. 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The variability between metatranscriptomes could be explained by phylogenetic differences between libraries (Mantel test, P > 0.0001). Several key gene expression pathways, including Photosystem I, Photosystem II and ammonium uptake, demonstrated the most variability both geographically and between light and dark. Libraries were dominated by transcripts of the cyanobacterium Prochlorocococcus marinus, where most geographical and diel variability between metatranscriptomes reflected between‐station differences in cyanobacterial phototrophic metabolism. 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We surveyed community transcript functional profiles at eight locations in the open ocean, in both the light and in the dark, using the genomic subsystems approach, to understand variability in gene expression patterns in surface waters. Metatranscriptomes from geographically distinct areas and collected during the day and night shared a large proportion of metabolic functional similarity (74%) at the finest metabolic resolution possible. The variability between metatranscriptomes could be explained by phylogenetic differences between libraries (Mantel test, P < 0.0001). Several key gene expression pathways, including Photosystem I, Photosystem II and ammonium uptake, demonstrated the most variability both geographically and between light and dark. Libraries were dominated by transcripts of the cyanobacterium Prochlorocococcus marinus, where most geographical and diel variability between metatranscriptomes reflected between‐station differences in cyanobacterial phototrophic metabolism. Our results demonstrate that active genetic machinery in surface waters of the ocean is dominated by photosynthetic microorganisms and their site‐to‐site variability, while variability in the remainder of assemblages is dependent on local taxonomic composition.</p></abstract></profileDesc><revisionDesc><change when="2010-07">Published</change></revisionDesc></teiHeader></istex:fulltextTEI><json:item><original>false</original><mimetype>text/plain</mimetype><extension>txt</extension><uri>https://api.istex.fr/document/E698F2051F19F74192DC56646F381A337B0FBF18/fulltext/txt</uri></json:item></fulltext><metadata><istex:metadataXml wicri:clean="Wiley, elements deleted: body"><istex:xmlDeclaration>version="1.0" encoding="UTF-8" standalone="yes"</istex:xmlDeclaration><istex:document><component version="2.0" type="serialArticle" xml:lang="en"><header><publicationMeta level="product"><publisherInfo><publisherName>Blackwell Publishing Ltd</publisherName><publisherLoc>Oxford, UK</publisherLoc></publisherInfo><doi origin="wiley" registered="yes">10.1111/(ISSN)1462-2920</doi><issn type="print">1462-2912</issn><issn type="electronic">1462-2920</issn><idGroup><id type="product" value="EMI"></id><id type="publisherDivision" value="ST"></id></idGroup><titleGroup><title type="main" sort="ENVIRONMENTAL MICROBIOLOGY">Environmental Microbiology</title></titleGroup></publicationMeta><publicationMeta level="part" position="07007"><doi origin="wiley">10.1111/emi.2010.12.issue-7</doi><numberingGroup><numbering type="journalVolume" number="12">12</numbering><numbering type="journalIssue" number="7">7</numbering></numberingGroup><coverDate startDate="2010-07">July 2010</coverDate></publicationMeta><publicationMeta level="unit" type="article" position="13" status="forIssue"><doi origin="wiley">10.1111/j.1462-2920.2010.02198.x</doi><idGroup><id type="unit" value="EMI2198"></id></idGroup><countGroup><count type="pageTotal" number="17"></count></countGroup><titleGroup><title type="tocHeading1">Research articles</title></titleGroup><copyright>© 2010 Society for Applied Microbiology and Blackwell Publishing Ltd</copyright><eventGroup><event type="firstOnline" date="2010-04-14"></event><event type="publishedOnlineFinalForm" date="2010-07-05"></event><event type="xmlConverted" agent="Converter:BPG_TO_WML3G version:2.3.15 mode:FullText source:FullText result:FullText" date="2010-07-21"></event><event type="xmlConverted" agent="Converter:WILEY_ML3G_TO_WILEY_ML3GV2 version:3.8.8" date="2014-01-24"></event><event type="xmlConverted" agent="Converter:WML3G_To_WML3G version:4.1.7 mode:FullText,remove_FC" date="2014-10-16"></event></eventGroup><numberingGroup><numbering type="pageFirst" number="1940">1940</numbering><numbering type="pageLast" number="1956">1956</numbering></numberingGroup><correspondenceTo> E‐mail <email>hewson@cornell.edu</email>; Tel. 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Hewson <i>et al.</i></title><title type="short">Comparative oceanic gene expression profiles</title></titleGroup><creators><creator creatorRole="author" xml:id="cr1" affiliationRef="#a1 #a2" corresponding="yes"><personName><givenNames>Ian</givenNames><familyName>Hewson</familyName></personName></creator><creator creatorRole="author" xml:id="cr2" affiliationRef="#a3" noteRef="#fn1"><personName><givenNames>Rachel S.</givenNames><familyName>Poretsky</familyName></personName></creator><creator creatorRole="author" xml:id="cr3" affiliationRef="#a2"><personName><givenNames>H. James</givenNames><familyName>Tripp</familyName></personName></creator><creator creatorRole="author" xml:id="cr4" affiliationRef="#a4"><personName><givenNames>Joseph P.</givenNames><familyName>Montoya</familyName></personName></creator><creator creatorRole="author" xml:id="cr5" affiliationRef="#a2"><personName><givenNames>Jonathan P.</givenNames><familyName>Zehr</familyName></personName></creator></creators><affiliationGroup><affiliation xml:id="a1"><unparsedAffiliation>Department of Microbiology, Cornell University, Wing Hall 403, Ithaca, NY 14853, USA.</unparsedAffiliation></affiliation><affiliation xml:id="a2" countryCode="US"><unparsedAffiliation>Department of Ocean Sciences, University of California Santa Cruz, CA, USA.</unparsedAffiliation></affiliation><affiliation xml:id="a3" countryCode="US"><unparsedAffiliation>Department of Marine Science, University of Georgia, Athens, GA, USA.</unparsedAffiliation></affiliation><affiliation xml:id="a4" countryCode="US"><unparsedAffiliation>School of Biology, Georgia Institute of Technology, Atlanta, GA, USA.</unparsedAffiliation></affiliation></affiliationGroup><abstractGroup><abstract type="main" xml:lang="en"><title type="main">Summary</title><p>Because bacterioplankton production rates do not vary strongly across vast expanses of the ocean, it is unclear how variability in community structure corresponds with functional variability in the open ocean. We surveyed community transcript functional profiles at eight locations in the open ocean, in both the light and in the dark, using the genomic subsystems approach, to understand variability in gene expression patterns in surface waters. Metatranscriptomes from geographically distinct areas and collected during the day and night shared a large proportion of metabolic functional similarity (74%) at the finest metabolic resolution possible. The variability between metatranscriptomes could be explained by phylogenetic differences between libraries (Mantel test, <i>P</i> < 0.0001). Several key gene expression pathways, including Photosystem I, Photosystem II and ammonium uptake, demonstrated the most variability both geographically and between light and dark. Libraries were dominated by transcripts of the cyanobacterium <i>Prochlorocococcus marinus</i>, where most geographical and diel variability between metatranscriptomes reflected between‐station differences in cyanobacterial phototrophic metabolism. Our results demonstrate that active genetic machinery in surface waters of the ocean is dominated by photosynthetic microorganisms and their site‐to‐site variability, while variability in the remainder of assemblages is dependent on local taxonomic composition.</p></abstract></abstractGroup></contentMeta><noteGroup><note xml:id="fn1"><label><sup>†</sup></label><p> Present address: Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, USA.</p></note></noteGroup></header></component></istex:document></istex:metadataXml><mods version="3.6"><titleInfo lang="en"><title>Spatial patterns and light‐driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean</title></titleInfo><titleInfo type="abbreviated" lang="en"><title>Comparative oceanic gene expression profiles</title></titleInfo><titleInfo type="alternative" contentType="CDATA" lang="en"><title>Spatial patterns and light‐driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean</title></titleInfo><name type="personal"><namePart type="given">Ian</namePart><namePart type="family">Hewson</namePart><affiliation>Department of Microbiology, Cornell University, Wing Hall 403, Ithaca, NY 14853, USA.</affiliation><affiliation>Department of Ocean Sciences, University of California Santa Cruz, CA, USA.</affiliation><description>Correspondence: E‐mail ; Tel. 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We surveyed community transcript functional profiles at eight locations in the open ocean, in both the light and in the dark, using the genomic subsystems approach, to understand variability in gene expression patterns in surface waters. Metatranscriptomes from geographically distinct areas and collected during the day and night shared a large proportion of metabolic functional similarity (74%) at the finest metabolic resolution possible. The variability between metatranscriptomes could be explained by phylogenetic differences between libraries (Mantel test, P < 0.0001). Several key gene expression pathways, including Photosystem I, Photosystem II and ammonium uptake, demonstrated the most variability both geographically and between light and dark. Libraries were dominated by transcripts of the cyanobacterium Prochlorocococcus marinus, where most geographical and diel variability between metatranscriptomes reflected between‐station differences in cyanobacterial phototrophic metabolism. Our results demonstrate that active genetic machinery in surface waters of the ocean is dominated by photosynthetic microorganisms and their site‐to‐site variability, while variability in the remainder of assemblages is dependent on local taxonomic composition.</abstract><relatedItem type="host"><titleInfo><title>Environmental Microbiology</title></titleInfo><genre type="journal">journal</genre><identifier type="ISSN">1462-2912</identifier><identifier type="eISSN">1462-2920</identifier><identifier type="DOI">10.1111/(ISSN)1462-2920</identifier><identifier type="PublisherID">EMI</identifier><part><date>2010</date><detail type="volume"><caption>vol.</caption><number>12</number></detail><detail type="issue"><caption>no.</caption><number>7</number></detail><extent unit="pages"><start>1940</start><end>1956</end><total>17</total></extent></part></relatedItem><identifier type="istex">E698F2051F19F74192DC56646F381A337B0FBF18</identifier><identifier type="DOI">10.1111/j.1462-2920.2010.02198.x</identifier><identifier type="ArticleID">EMI2198</identifier><accessCondition type="use and reproduction" contentType="copyright">© 2010 Society for Applied Microbiology and Blackwell Publishing Ltd</accessCondition><recordInfo><recordContentSource>WILEY</recordContentSource><recordOrigin>Blackwell Publishing Ltd</recordOrigin></recordInfo></mods></metadata><enrichments><json:item><type>multicat</type><uri>https://api.istex.fr/document/E698F2051F19F74192DC56646F381A337B0FBF18/enrichments/multicat</uri></json:item></enrichments><serie></serie></istex></record>Pour manipuler ce document sous Unix (Dilib)
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|étape= Corpus
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|clé= ISTEX:E698F2051F19F74192DC56646F381A337B0FBF18
|texte= Spatial patterns and light‐driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean
}}
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