Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current
Identifieur interne : 000415 ( Istex/Corpus ); précédent : 000414; suivant : 000416Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current
Auteurs : Justin R. Seymour ; Martina A. Doblin ; Thomas C. Jeffries ; Mark V. Brown ; Kelly Newton ; Peter J. Ralph ; Mark Baird ; James G. MitchellSource :
- Environmental Microbiology Reports [ 1758-2229 ] ; 2012-10.
Abstract
Different oceanographic provinces host discrete microbial assemblages that are adapted to local physicochemical conditions. We sequenced and compared the metagenomes of two microbial communities inhabiting adjacent water masses in the Tasman Sea, where the recent strengthening of the East Australian Current (EAC) has altered the ecology of coastal environments. Despite the comparable latitude of the samples, significant phylogenetic differences were apparent, including shifts in the relative frequency of matches to Cyanobacteria, Crenarchaeota and Euryarchaeota. Fine‐scale variability in the structure of SAR11, Prochlorococcus and Synechococcus populations, with more matches to ‘warm‐water’ ecotypes observed in the EAC, indicates the EAC may drive an intrusion of tropical microbes into temperate regions of the Tasman Sea. Furthermore, significant shifts in the relative importance of 17 metabolic categories indicate that the EAC prokaryotic community has different physiological properties than surrounding waters.
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DOI: 10.1111/j.1758-2229.2012.00362.x
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Mitchell</name><affiliation><mods:affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</mods:affiliation></affiliation></author></analytic><monogr></monogr><series><title level="j">Environmental Microbiology Reports</title><title level="j" type="abbrev">Environmental Microbiology Reports</title><idno type="ISSN">1758-2229</idno><idno type="eISSN">1758-2229</idno><imprint><publisher>Blackwell Publishing Ltd</publisher><date type="published" when="2012-10">2012-10</date><biblScope unit="volume">4</biblScope><biblScope unit="issue">5</biblScope><biblScope unit="page" from="548">548</biblScope><biblScope unit="page" to="555">555</biblScope></imprint><idno type="ISSN">1758-2229</idno></series><idno type="istex">321936057262CD287F0B1DFF64B6824DBDDFF396</idno><idno type="DOI">10.1111/j.1758-2229.2012.00362.x</idno><idno type="ArticleID">EMI4362</idno></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">1758-2229</idno></seriesStmt></fileDesc><profileDesc><textClass></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract">Different oceanographic provinces host discrete microbial assemblages that are adapted to local physicochemical conditions. We sequenced and compared the metagenomes of two microbial communities inhabiting adjacent water masses in the Tasman Sea, where the recent strengthening of the East Australian Current (EAC) has altered the ecology of coastal environments. Despite the comparable latitude of the samples, significant phylogenetic differences were apparent, including shifts in the relative frequency of matches to Cyanobacteria, Crenarchaeota and Euryarchaeota. Fine‐scale variability in the structure of SAR11, Prochlorococcus and Synechococcus populations, with more matches to ‘warm‐water’ ecotypes observed in the EAC, indicates the EAC may drive an intrusion of tropical microbes into temperate regions of the Tasman Sea. Furthermore, significant shifts in the relative importance of 17 metabolic categories indicate that the EAC prokaryotic community has different physiological properties than surrounding waters.</div></front></TEI><istex><corpusName>wiley</corpusName><author><json:item><name>Justin R. Seymour</name><affiliations><json:string>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</json:string></affiliations></json:item><json:item><name>Martina A. Doblin</name><affiliations><json:string>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</json:string></affiliations></json:item><json:item><name>Thomas C. Jeffries</name><affiliations><json:string>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</json:string></affiliations></json:item><json:item><name>Mark V. Brown</name><affiliations><json:string>School of Biotechnology and Biomolecular Science, University of New South Wales, NSW, 2052, Kensington, Australia</json:string></affiliations></json:item><json:item><name>Kelly Newton</name><affiliations><json:string>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</json:string></affiliations></json:item><json:item><name>Peter J. Ralph</name><affiliations><json:string>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</json:string></affiliations></json:item><json:item><name>Mark Baird</name><affiliations><json:string>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</json:string></affiliations></json:item><json:item><name>James G. Mitchell</name><affiliations><json:string>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</json:string></affiliations></json:item></author><articleId><json:string>EMI4362</json:string></articleId><language><json:string>eng</json:string></language><originalGenre><json:string>shortCommunication</json:string></originalGenre><abstract>Different oceanographic provinces host discrete microbial assemblages that are adapted to local physicochemical conditions. We sequenced and compared the metagenomes of two microbial communities inhabiting adjacent water masses in the Tasman Sea, where the recent strengthening of the East Australian Current (EAC) has altered the ecology of coastal environments. Despite the comparable latitude of the samples, significant phylogenetic differences were apparent, including shifts in the relative frequency of matches to Cyanobacteria, Crenarchaeota and Euryarchaeota. Fine‐scale variability in the structure of SAR11, Prochlorococcus and Synechococcus populations, with more matches to ‘warm‐water’ ecotypes observed in the EAC, indicates the EAC may drive an intrusion of tropical microbes into temperate regions of the Tasman Sea. Furthermore, significant shifts in the relative importance of 17 metabolic categories indicate that the EAC prokaryotic community has different physiological properties than surrounding waters.</abstract><qualityIndicators><score>5.985</score><pdfVersion>1.3</pdfVersion><pdfPageSize>595.276 x 782.362 pts</pdfPageSize><refBibsNative>true</refBibsNative><keywordCount>0</keywordCount><abstractCharCount>1027</abstractCharCount><pdfWordCount>4353</pdfWordCount><pdfCharCount>28657</pdfCharCount><pdfPageCount>8</pdfPageCount><abstractWordCount>136</abstractWordCount></qualityIndicators><title>Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current</title><genre><json:string>brief-communication</json:string></genre><host><volume>4</volume><publisherId><json:string>EMI4</json:string></publisherId><pages><total>8</total><last>555</last><first>548</first></pages><issn><json:string>1758-2229</json:string></issn><issue>5</issue><subject><json:item><value>Brief Report</value></json:item></subject><genre><json:string>journal</json:string></genre><language><json:string>unknown</json:string></language><eissn><json:string>1758-2229</json:string></eissn><title>Environmental Microbiology Reports</title><doi><json:string>10.1111/(ISSN)1758-2229</json:string></doi></host><publicationDate>2012</publicationDate><copyrightDate>2012</copyrightDate><doi><json:string>10.1111/j.1758-2229.2012.00362.x</json:string></doi><id>321936057262CD287F0B1DFF64B6824DBDDFF396</id><score>0.16726439</score><fulltext><json:item><original>true</original><mimetype>application/pdf</mimetype><extension>pdf</extension><uri>https://api.istex.fr/document/321936057262CD287F0B1DFF64B6824DBDDFF396/fulltext/pdf</uri></json:item><json:item><original>false</original><mimetype>application/zip</mimetype><extension>zip</extension><uri>https://api.istex.fr/document/321936057262CD287F0B1DFF64B6824DBDDFF396/fulltext/zip</uri></json:item><istex:fulltextTEI uri="https://api.istex.fr/document/321936057262CD287F0B1DFF64B6824DBDDFF396/fulltext/tei"><teiHeader><fileDesc><titleStmt><title level="a" type="main" xml:lang="en">Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current</title></titleStmt><publicationStmt><authority>ISTEX</authority><publisher>Blackwell Publishing Ltd</publisher><availability><p>Journal compilation © 2012 Society for Applied Microbiology and Blackwell Publishing Ltd© 2012 Society for Applied Microbiology and Blackwell Publishing Ltd</p></availability><date>2012-06-07</date></publicationStmt><notesStmt><note>Fig. S1. Top 10 identified bacterial genus‐level matches determined using a BLASTX search (E < 10−5) against the NCBI NR database using CAMERA (Sun et al., ) and mapped against the NCBI taxonomy within the MEGAN software package (Huson et al., ) (ordered according to frequency of occurrence in the EAC sample).Fig. S2. STAMP analysis showing relative importance of broad metabolic categories (SEED, Level 1) in TSW and EAC samples. Corrected P‐values (q‐values) were calculated using Storey's FDR approach (Parks and Beiko, ). Groups over‐represented in the EAC community (orange) correspond to negative differences between proportions. Groups over‐represented in the TSW community (blue) correspond to positive differences between proportions.Fig. S3. Hierarchical clustering of metagenomic profiles at (A) class, (B) genus and (C) functional level. Dendrograms represent group average clustering of the Bray–Curtis similarity between profiles. Abundance profiles were generated using the SEED database (Overbeek et al., , E < 10−5) in MG‐RAST (Meyer et al., ) and normalized abundance data was exported into PRIMER‐E (Clarke and Gorley, 2006) for analysis using the CLUSTER algorithm (Clarke, 1993). Normalization was based on a log transformation and data centring as per the MG‐RAST standard protocol (http://blog.metagenomics.anl.gov/howto/mg‐rast‐analysis‐tools/). Metagenomes representative of tropical and temperate ocean surface habitats (red and blue symbols respectively) were chosen for the analysis based on their geographic location (Tropical = < 23° latitude) and consisted of greater than 1000 hits. Datasets were as follows: GOS Temperate (‘Global Ocean Survey’, Rusch et al. 20007; MG‐RAST ID 4441143.3, 4441144.3, 4441570.3, 4441573.3,4441574.3, 4441575.3, 4441578.3, 4441579.3, 4441583.3, 4441585.3, 4441659.3), GOS Tropical (‘Global Ocean Survey’, Rusch et al. 2007; 4441145.3, 4441146.3, 4441594.3, 4441603.3, 4441605.3), Equatorial Pacific (‘Marine Bacterioplankton Metagenomes’; 4443766.3, 4443695.3, 4443697.3, 4443698.3, 4443699.3, 4443700.3, 4443701.3), Study (‘EAC/TSW’; 4446407.3, 4446457.3), Monterey Bay (‘Monterey Bay Microbial Study’; 4443713.3, 4443712.3, 4443714.3, 4443715.3, 4443716.3, 4443717.3), Botany Bay (‘Botany Bay Metagenomes’; 4443688.3, 4443689.3), HOT/ALOHA (‘Microbial Community Genomics at the HOT/ALOHA’ De Long et al. 2006; 4441051.3, 4441057.4), All data are publically available on MG‐RAST (Meyer et al., ; http://metagenomics.anl.gov/metagenomics.cgi?page=Home; accessed 21/3/12)</note><note>Australian Research Council - No. DP0772186; No. DP1092892; No. DP0988002; No. DP0880078; No. DP0988818;</note></notesStmt><sourceDesc><biblStruct type="inbook"><analytic><title level="a" type="main" xml:lang="en">Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current</title><author xml:id="author-1"><persName><forename type="first">Justin R.</forename><surname>Seymour</surname></persName><note type="correspondence"><p>Correspondence: For correspondence. E‐mail ; Tel. (+61) 2 9514 4092; Fax (+61) 2 9514 4079.</p></note><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation></author><author xml:id="author-2"><persName><forename type="first">Martina A.</forename><surname>Doblin</surname></persName><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation></author><author xml:id="author-3"><persName><forename type="first">Thomas C.</forename><surname>Jeffries</surname></persName><affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</affiliation></author><author xml:id="author-4"><persName><forename type="first">Mark V.</forename><surname>Brown</surname></persName><affiliation>School of Biotechnology and Biomolecular Science, University of New South Wales, NSW, 2052, Kensington, Australia</affiliation></author><author xml:id="author-5"><persName><forename type="first">Kelly</forename><surname>Newton</surname></persName><affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</affiliation></author><author xml:id="author-6"><persName><forename type="first">Peter J.</forename><surname>Ralph</surname></persName><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation></author><author xml:id="author-7"><persName><forename type="first">Mark</forename><surname>Baird</surname></persName><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation></author><author xml:id="author-8"><persName><forename type="first">James G.</forename><surname>Mitchell</surname></persName><affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</affiliation></author></analytic><monogr><title level="j">Environmental Microbiology Reports</title><title level="j" type="abbrev">Environmental Microbiology Reports</title><idno type="pISSN">1758-2229</idno><idno type="eISSN">1758-2229</idno><idno type="DOI">10.1111/(ISSN)1758-2229</idno><imprint><publisher>Blackwell Publishing Ltd</publisher><date type="published" when="2012-10"></date><biblScope unit="volume">4</biblScope><biblScope unit="issue">5</biblScope><biblScope unit="page" from="548">548</biblScope><biblScope unit="page" to="555">555</biblScope></imprint></monogr><idno type="istex">321936057262CD287F0B1DFF64B6824DBDDFF396</idno><idno type="DOI">10.1111/j.1758-2229.2012.00362.x</idno><idno type="ArticleID">EMI4362</idno></biblStruct></sourceDesc></fileDesc><profileDesc><creation><date>2012-06-07</date></creation><langUsage><language ident="en">en</language></langUsage><abstract><p>Different oceanographic provinces host discrete microbial assemblages that are adapted to local physicochemical conditions. We sequenced and compared the metagenomes of two microbial communities inhabiting adjacent water masses in the Tasman Sea, where the recent strengthening of the East Australian Current (EAC) has altered the ecology of coastal environments. Despite the comparable latitude of the samples, significant phylogenetic differences were apparent, including shifts in the relative frequency of matches to Cyanobacteria, Crenarchaeota and Euryarchaeota. Fine‐scale variability in the structure of SAR11, Prochlorococcus and Synechococcus populations, with more matches to ‘warm‐water’ ecotypes observed in the EAC, indicates the EAC may drive an intrusion of tropical microbes into temperate regions of the Tasman Sea. Furthermore, significant shifts in the relative importance of 17 metabolic categories indicate that the EAC prokaryotic community has different physiological properties than surrounding waters.</p></abstract><textClass><keywords scheme="Journal Subject"><list><head>article-category</head><item><term>Brief Report</term></item></list></keywords></textClass></profileDesc><revisionDesc><change when="2011-09-28">Received</change><change when="2012-05-30">Registration</change><change when="2012-06-07">Created</change><change when="2012-10">Published</change></revisionDesc></teiHeader></istex:fulltextTEI><json:item><original>false</original><mimetype>text/plain</mimetype><extension>txt</extension><uri>https://api.istex.fr/document/321936057262CD287F0B1DFF64B6824DBDDFF396/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 type="serialArticle" version="2.0" xml:id="emi4362" xml:lang="en"><header><publicationMeta level="product"><doi origin="wiley">10.1111/(ISSN)1758-2229</doi><issn type="print">1758-2229</issn><issn type="electronic">1758-2229</issn><idGroup><id type="product" value="EMI4"></id></idGroup><titleGroup><title sort="ENVIRONMENTAL MICROBIOLOGY REPORTS" type="main">Environmental Microbiology Reports</title><title type="short">Environmental Microbiology Reports</title></titleGroup></publicationMeta><publicationMeta level="part" position="10105"><doi>10.1111/emi4.2012.4.issue-5</doi><copyright ownership="joint">Journal compilation © 2012 Society for Applied Microbiology and Blackwell Publishing Ltd</copyright><numberingGroup><numbering number="4" type="journalVolume">4</numbering><numbering type="journalIssue">5</numbering></numberingGroup><coverDate startDate="2012-10">October 2012</coverDate></publicationMeta><publicationMeta level="unit" position="120" status="forIssue" type="shortCommunication"><doi>10.1111/j.1758-2229.2012.00362.x</doi><idGroup><id type="unit" value="EMI4362"></id></idGroup><countGroup><count number="8" type="pageTotal"></count></countGroup><titleGroup><title type="tocHeading1">Brief Reports</title><title type="articleCategory">Brief Report</title></titleGroup><copyright ownership="joint">© 2012 Society for Applied Microbiology and Blackwell Publishing Ltd</copyright><eventGroup><event agent="bestset" date="2012-06-07" type="xmlCreated"></event><event date="2011-09-28" type="manuscriptReceived"></event><event date="2012-05-30" type="manuscriptAccepted"></event><event date="2012-09-26" type="xmlCorrected"></event><event type="publishedOnlineAccepted" date="2012-06-06"></event><event type="publishedOnlineEarlyUnpaginated" date="2012-06-27"></event><event type="firstOnline" date="2012-06-27"></event><event type="publishedOnlineFinalForm" date="2012-10-04"></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:4.3.4 mode:FullText" date="2015-02-25"></event></eventGroup><numberingGroup><numbering type="pageFirst">548</numbering><numbering type="pageLast">555</numbering></numberingGroup><correspondenceTo>For correspondence. E‐mail <email>justin.seymour@uts.edu.au</email>; Tel. (+61) 2 9514 4092; Fax (+61) 2 9514 4079.</correspondenceTo><linkGroup><link type="toTypesetVersion" href="file:EMI4.EMI4362.pdf"></link></linkGroup></publicationMeta><contentMeta><titleGroup><title type="short">Metagenomics in the East <fc>A</fc>ustralian <fc>C</fc>urrent</title><title type="shortAuthors"><fc>J</fc>. <fc>R</fc>. <fc>S</fc>eymour <i>et al</i>.</title><title type="main">Contrasting microbial assemblages in adjacent water masses associated with the <fc>E</fc>ast <fc>A</fc>ustralian <fc>C</fc>urrent</title></titleGroup><creators><creator affiliationRef="#emi4362-aff-0001" corresponding="yes" creatorRole="author" xml:id="emi4362-cr-0001"><personName><givenNames>Justin R.</givenNames><familyName>Seymour</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0001" creatorRole="author" xml:id="emi4362-cr-0002"><personName><givenNames>Martina A.</givenNames><familyName>Doblin</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0002" creatorRole="author" xml:id="emi4362-cr-0003"><personName><givenNames>Thomas C.</givenNames><familyName>Jeffries</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0003" creatorRole="author" xml:id="emi4362-cr-0004"><personName><givenNames>Mark V.</givenNames><familyName>Brown</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0002" creatorRole="author" xml:id="emi4362-cr-0005"><personName><givenNames>Kelly</givenNames><familyName>Newton</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0001" creatorRole="author" xml:id="emi4362-cr-0006"><personName><givenNames>Peter J.</givenNames><familyName>Ralph</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0001" creatorRole="author" xml:id="emi4362-cr-0007"><personName><givenNames>Mark</givenNames><familyName>Baird</familyName></personName></creator><creator affiliationRef="#emi4362-aff-0002" creatorRole="author" xml:id="emi4362-cr-0008"><personName><givenNames>James G.</givenNames><familyName>Mitchell</familyName></personName></creator></creators><affiliationGroup><affiliation countryCode="AU" xml:id="emi4362-aff-0001"><orgDiv>Plant Functional Biology & Climate Change Cluster</orgDiv><orgName>University of Technology</orgName><address><street>PO Box 123</street><street>Broadway</street><city>Sydney</city><countryPart>NSW</countryPart><postCode>2007</postCode><country>Australia</country></address></affiliation><affiliation countryCode="AU" xml:id="emi4362-aff-0002"><orgDiv>School of Biological Sciences</orgDiv><orgName>Flinders University</orgName><address><street>PO Box 2100</street><city>Adelaide</city><countryPart>SA</countryPart><postCode>5001</postCode><country>Australia</country></address></affiliation><affiliation countryCode="AU" xml:id="emi4362-aff-0003"><orgDiv>School of Biotechnology and Biomolecular Science</orgDiv><orgName>University of New South Wales</orgName><address><city>Kensington</city><countryPart>NSW</countryPart><postCode>2052</postCode><country>Australia</country></address></affiliation></affiliationGroup><fundingInfo><fundingAgency>Australian Research Council</fundingAgency><fundingNumber>DP0772186</fundingNumber><fundingNumber>DP1092892</fundingNumber><fundingNumber>DP0988002</fundingNumber><fundingNumber>DP0880078</fundingNumber><fundingNumber>DP0988818</fundingNumber></fundingInfo><supportingInformation><supportingInfoItem><mediaResource alt="doc" href="urn-x:wiley:17582229:media:emi4362:emi4362-sup-0001-si"></mediaResource><caption><p><b>Fig. S1.</b> Top 10 identified bacterial genus‐level matches determined using a BLASTX search (<i>E</i> < 10<sup>−5</sup>) against the NCBI NR database using CAMERA (Sun <i>et al</i>., <link href="#emi4362-bib-0032"></link>) and mapped against the NCBI taxonomy within the MEGAN software package (Huson <i>et al</i>., <link href="#emi4362-bib-0013"></link>) (ordered according to frequency of occurrence in the EAC sample).</p></caption></supportingInfoItem><supportingInfoItem><mediaResource alt="doc" href="urn-x:wiley:17582229:media:emi4362:emi4362-sup-0001-si"></mediaResource><caption><p><b>Fig. S2.</b> STAMP analysis showing relative importance of broad metabolic categories (SEED, Level 1) in TSW and EAC samples. Corrected <i>P</i>‐values (<i>q</i>‐values) were calculated using Storey's FDR approach (Parks and Beiko, <link href="#emi4362-bib-0022"></link>). Groups over‐represented in the EAC community (orange) correspond to negative differences between proportions. Groups over‐represented in the TSW community (blue) correspond to positive differences between proportions.</p></caption></supportingInfoItem><supportingInfoItem><mediaResource alt="doc" href="urn-x:wiley:17582229:media:emi4362:emi4362-sup-0001-si"></mediaResource><caption><p><b>Fig. S3.</b> Hierarchical clustering of metagenomic profiles at (A) class, (B) genus and (C) functional level. Dendrograms represent group average clustering of the Bray–Curtis similarity between profiles. Abundance profiles were generated using the SEED database (Overbeek <i>et al</i>., <link href="#emi4362-bib-0021"></link>, <i>E</i> < 10<sup>−5</sup>) in MG‐RAST (Meyer <i>et al</i>., <link href="#emi4362-bib-0020"></link>) and normalized abundance data was exported into PRIMER‐E (Clarke and Gorley, 2006) for analysis using the CLUSTER algorithm (Clarke, 1993). Normalization was based on a log transformation and data centring as per the MG‐RAST standard protocol (<url href="http://blog.metagenomics.anl.gov/howto/mg-rast-analysis-tools/">http://blog.metagenomics.anl.gov/howto/mg‐rast‐analysis‐tools/</url>). Metagenomes representative of tropical and temperate ocean surface habitats (red and blue symbols respectively) were chosen for the analysis based on their geographic location (Tropical = < 23° latitude) and consisted of greater than 1000 hits. Datasets were as follows: GOS Temperate (‘Global Ocean Survey’, Rusch <i>et al</i>. 20007; MG‐RAST ID 4441143.3, 4441144.3, 4441570.3, 4441573.3,4441574.3, 4441575.3, 4441578.3, 4441579.3, 4441583.3, 4441585.3, 4441659.3), GOS Tropical (‘Global Ocean Survey’, Rusch <i>et al</i>. 2007; 4441145.3, 4441146.3, 4441594.3, 4441603.3, 4441605.3), Equatorial Pacific (‘Marine Bacterioplankton Metagenomes’; 4443766.3, 4443695.3, 4443697.3, 4443698.3, 4443699.3, 4443700.3, 4443701.3), Study (‘EAC/TSW’; 4446407.3, 4446457.3), Monterey Bay (‘Monterey Bay Microbial Study’; 4443713.3, 4443712.3, 4443714.3, 4443715.3, 4443716.3, 4443717.3), Botany Bay (‘Botany Bay Metagenomes’; 4443688.3, 4443689.3), HOT/ALOHA (‘Microbial Community Genomics at the HOT/ALOHA’ De Long <i>et al</i>. 2006; 4441051.3, 4441057.4), All data are publically available on MG‐RAST (Meyer <i>et al</i>., <link href="#emi4362-bib-0020"></link>; <url href="http://metagenomics.anl.gov/metagenomics.cgi?page=Home">http://metagenomics.anl.gov/metagenomics.cgi?page=Home</url>; accessed 21/3/12)</p></caption></supportingInfoItem></supportingInformation><abstractGroup><abstract type="main"><title type="main">Summary</title><p>Different oceanographic provinces host discrete microbial assemblages that are adapted to local physicochemical conditions. We sequenced and compared the metagenomes of two microbial communities inhabiting adjacent water masses in the <fc>T</fc>asman <fc>S</fc>ea, where the recent strengthening of the <fc>E</fc>ast <fc>A</fc>ustralian <fc>C</fc>urrent (<fc>EAC</fc>) has altered the ecology of coastal environments. Despite the comparable latitude of the samples, significant phylogenetic differences were apparent, including shifts in the relative frequency of matches to <i><fc>C</fc>yanobacteria</i>, <i><fc>C</fc>renarchaeota</i> and <i><fc>E</fc>uryarchaeota</i>. Fine‐scale variability in the structure of <i><fc>SAR</fc>11</i>, <i><fc>P</fc>rochlorococcus</i> and <i><fc>S</fc>ynechococcus</i> populations, with more matches to ‘warm‐water’ ecotypes observed in the <fc>EAC</fc>, indicates the <fc>EAC</fc> may drive an intrusion of tropical microbes into temperate regions of the <fc>T</fc>asman <fc>S</fc>ea. Furthermore, significant shifts in the relative importance of 17 metabolic categories indicate that the <fc>EAC</fc> prokaryotic community has different physiological properties than surrounding waters.</p></abstract></abstractGroup> </contentMeta></header></component></istex:document></istex:metadataXml><mods version="3.6"><titleInfo lang="en"><title>Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current</title></titleInfo><titleInfo type="abbreviated" lang="en"><title>Metagenomics in the East Australian Current</title></titleInfo><titleInfo type="alternative" contentType="CDATA" lang="en"><title>Contrasting microbial assemblages in adjacent water masses associated with the East Australian Current</title></titleInfo><name type="personal"><namePart type="given">Justin R.</namePart><namePart type="family">Seymour</namePart><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation><description>Correspondence: For correspondence. E‐mail ; Tel. (+61) 2 9514 4092; Fax (+61) 2 9514 4079.</description><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Martina A.</namePart><namePart type="family">Doblin</namePart><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Thomas C.</namePart><namePart type="family">Jeffries</namePart><affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Mark V.</namePart><namePart type="family">Brown</namePart><affiliation>School of Biotechnology and Biomolecular Science, University of New South Wales, NSW, 2052, Kensington, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Kelly</namePart><namePart type="family">Newton</namePart><affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Peter J.</namePart><namePart type="family">Ralph</namePart><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Mark</namePart><namePart type="family">Baird</namePart><affiliation>Plant Functional Biology & Climate Change Cluster, University of Technology, PO Box 123Broadway, NSW, 2007, Sydney, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">James G.</namePart><namePart type="family">Mitchell</namePart><affiliation>School of Biological Sciences, Flinders University, PO Box 2100, SA, 5001, Adelaide, Australia</affiliation><role><roleTerm type="text">author</roleTerm></role></name><typeOfResource>text</typeOfResource><genre type="brief-communication" displayLabel="shortCommunication"></genre><originInfo><publisher>Blackwell Publishing Ltd</publisher><dateIssued encoding="w3cdtf">2012-10</dateIssued><dateCreated encoding="w3cdtf">2012-06-07</dateCreated><dateCaptured encoding="w3cdtf">2011-09-28</dateCaptured><dateValid encoding="w3cdtf">2012-05-30</dateValid><copyrightDate encoding="w3cdtf">2012</copyrightDate></originInfo><language><languageTerm type="code" authority="rfc3066">en</languageTerm><languageTerm type="code" authority="iso639-2b">eng</languageTerm></language><physicalDescription><internetMediaType>text/html</internetMediaType></physicalDescription><abstract>Different oceanographic provinces host discrete microbial assemblages that are adapted to local physicochemical conditions. We sequenced and compared the metagenomes of two microbial communities inhabiting adjacent water masses in the Tasman Sea, where the recent strengthening of the East Australian Current (EAC) has altered the ecology of coastal environments. Despite the comparable latitude of the samples, significant phylogenetic differences were apparent, including shifts in the relative frequency of matches to Cyanobacteria, Crenarchaeota and Euryarchaeota. Fine‐scale variability in the structure of SAR11, Prochlorococcus and Synechococcus populations, with more matches to ‘warm‐water’ ecotypes observed in the EAC, indicates the EAC may drive an intrusion of tropical microbes into temperate regions of the Tasman Sea. Furthermore, significant shifts in the relative importance of 17 metabolic categories indicate that the EAC prokaryotic community has different physiological properties than surrounding waters.</abstract><note type="additional physical form">Fig. S1. Top 10 identified bacterial genus‐level matches determined using a BLASTX search (E < 10−5) against the NCBI NR database using CAMERA (Sun et al., ) and mapped against the NCBI taxonomy within the MEGAN software package (Huson et al., ) (ordered according to frequency of occurrence in the EAC sample).Fig. S2. STAMP analysis showing relative importance of broad metabolic categories (SEED, Level 1) in TSW and EAC samples. Corrected P‐values (q‐values) were calculated using Storey's FDR approach (Parks and Beiko, ). Groups over‐represented in the EAC community (orange) correspond to negative differences between proportions. Groups over‐represented in the TSW community (blue) correspond to positive differences between proportions.Fig. S3. Hierarchical clustering of metagenomic profiles at (A) class, (B) genus and (C) functional level. Dendrograms represent group average clustering of the Bray–Curtis similarity between profiles. Abundance profiles were generated using the SEED database (Overbeek et al., , E < 10−5) in MG‐RAST (Meyer et al., ) and normalized abundance data was exported into PRIMER‐E (Clarke and Gorley, 2006) for analysis using the CLUSTER algorithm (Clarke, 1993). Normalization was based on a log transformation and data centring as per the MG‐RAST standard protocol (http://blog.metagenomics.anl.gov/howto/mg‐rast‐analysis‐tools/). Metagenomes representative of tropical and temperate ocean surface habitats (red and blue symbols respectively) were chosen for the analysis based on their geographic location (Tropical = < 23° latitude) and consisted of greater than 1000 hits. Datasets were as follows: GOS Temperate (‘Global Ocean Survey’, Rusch et al. 20007; MG‐RAST ID 4441143.3, 4441144.3, 4441570.3, 4441573.3,4441574.3, 4441575.3, 4441578.3, 4441579.3, 4441583.3, 4441585.3, 4441659.3), GOS Tropical (‘Global Ocean Survey’, Rusch et al. 2007; 4441145.3, 4441146.3, 4441594.3, 4441603.3, 4441605.3), Equatorial Pacific (‘Marine Bacterioplankton Metagenomes’; 4443766.3, 4443695.3, 4443697.3, 4443698.3, 4443699.3, 4443700.3, 4443701.3), Study (‘EAC/TSW’; 4446407.3, 4446457.3), Monterey Bay (‘Monterey Bay Microbial Study’; 4443713.3, 4443712.3, 4443714.3, 4443715.3, 4443716.3, 4443717.3), Botany Bay (‘Botany Bay Metagenomes’; 4443688.3, 4443689.3), HOT/ALOHA (‘Microbial Community Genomics at the HOT/ALOHA’ De Long et al. 2006; 4441051.3, 4441057.4), All data are publically available on MG‐RAST (Meyer et al., ; http://metagenomics.anl.gov/metagenomics.cgi?page=Home; accessed 21/3/12)</note><note type="funding">Australian Research Council - No. DP0772186; No. DP1092892; No. DP0988002; No. DP0880078; No. DP0988818; </note><relatedItem type="host"><titleInfo><title>Environmental Microbiology Reports</title></titleInfo><titleInfo type="abbreviated"><title>Environmental Microbiology Reports</title></titleInfo><genre type="journal">journal</genre><subject><genre>article-category</genre><topic>Brief Report</topic></subject><identifier type="ISSN">1758-2229</identifier><identifier type="eISSN">1758-2229</identifier><identifier type="DOI">10.1111/(ISSN)1758-2229</identifier><identifier type="PublisherID">EMI4</identifier><part><date>2012</date><detail type="volume"><caption>vol.</caption><number>4</number></detail><detail type="issue"><caption>no.</caption><number>5</number></detail><extent unit="pages"><start>548</start><end>555</end><total>8</total></extent></part></relatedItem><identifier type="istex">321936057262CD287F0B1DFF64B6824DBDDFF396</identifier><identifier type="DOI">10.1111/j.1758-2229.2012.00362.x</identifier><identifier type="ArticleID">EMI4362</identifier><accessCondition type="use and reproduction" contentType="copyright">Journal compilation © 2012 Society for Applied Microbiology and Blackwell Publishing Ltd© 2012 Society for Applied Microbiology and Blackwell Publishing Ltd</accessCondition><recordInfo><recordContentSource>WILEY</recordContentSource></recordInfo></mods></metadata><enrichments><json:item><type>multicat</type><uri>https://api.istex.fr/document/321936057262CD287F0B1DFF64B6824DBDDFF396/enrichments/multicat</uri></json:item></enrichments><serie></serie></istex></record>Pour manipuler ce document sous Unix (Dilib)
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