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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill</title>
<author><name sortKey="Rivers, Adam R" sort="Rivers, Adam R" uniqKey="Rivers A" first="Adam R" last="Rivers">Adam R. Rivers</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Sharma, Shalabh" sort="Sharma, Shalabh" uniqKey="Sharma S" first="Shalabh" last="Sharma">Shalabh Sharma</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Tringe, Susannah G" sort="Tringe, Susannah G" uniqKey="Tringe S" first="Susannah G" last="Tringe">Susannah G. Tringe</name>
<affiliation><nlm:aff id="aff2"><institution>DOE Joint Genome Institute</institution>
, Walnut Creek, CA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Martin, Jeffrey" sort="Martin, Jeffrey" uniqKey="Martin J" first="Jeffrey" last="Martin">Jeffrey Martin</name>
<affiliation><nlm:aff id="aff2"><institution>DOE Joint Genome Institute</institution>
, Walnut Creek, CA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Joye, Samantha B" sort="Joye, Samantha B" uniqKey="Joye S" first="Samantha B" last="Joye">Samantha B. Joye</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Moran, Mary Ann" sort="Moran, Mary Ann" uniqKey="Moran M" first="Mary Ann" last="Moran">Mary Ann Moran</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">23902988</idno>
<idno type="pmc">3834857</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3834857</idno>
<idno type="RBID">PMC:3834857</idno>
<idno type="doi">10.1038/ismej.2013.129</idno>
<date when="2013">2013</date>
<idno type="wicri:Area/Pmc/Corpus">000009</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill</title>
<author><name sortKey="Rivers, Adam R" sort="Rivers, Adam R" uniqKey="Rivers A" first="Adam R" last="Rivers">Adam R. Rivers</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Sharma, Shalabh" sort="Sharma, Shalabh" uniqKey="Sharma S" first="Shalabh" last="Sharma">Shalabh Sharma</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Tringe, Susannah G" sort="Tringe, Susannah G" uniqKey="Tringe S" first="Susannah G" last="Tringe">Susannah G. Tringe</name>
<affiliation><nlm:aff id="aff2"><institution>DOE Joint Genome Institute</institution>
, Walnut Creek, CA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Martin, Jeffrey" sort="Martin, Jeffrey" uniqKey="Martin J" first="Jeffrey" last="Martin">Jeffrey Martin</name>
<affiliation><nlm:aff id="aff2"><institution>DOE Joint Genome Institute</institution>
, Walnut Creek, CA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Joye, Samantha B" sort="Joye, Samantha B" uniqKey="Joye S" first="Samantha B" last="Joye">Samantha B. Joye</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
<author><name sortKey="Moran, Mary Ann" sort="Moran, Mary Ann" uniqKey="Moran M" first="Mary Ann" last="Moran">Mary Ann Moran</name>
<affiliation><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
</affiliation>
</author>
</analytic>
<series><title level="j">The ISME Journal</title>
<idno type="ISSN">1751-7362</idno>
<idno type="eISSN">1751-7370</idno>
<imprint><date when="2013">2013</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p>The Deepwater Horizon blowout released a massive amount of oil and gas into the deep ocean between April and July 2010, stimulating microbial blooms of petroleum-degrading bacteria. To understand the metabolic response of marine microorganisms, we sequenced ∼66 million community transcripts that revealed the identity of metabolically active microbes and their roles in petroleum consumption. Reads were assigned to reference genes from ∼2700 bacterial and archaeal taxa, but most assignments (39%) were to just six genomes representing predominantly methane- and petroleum-degrading Gammaproteobacteria. Specific pathways for the degradation of alkanes, aromatic compounds and methane emerged from the metatranscriptomes, with some transcripts assigned to methane monooxygenases representing highly divergent homologs that may degrade either methane or short alkanes. The microbial community in the plume was less taxonomically and functionally diverse than the unexposed community below the plume; this was due primarily to decreased species evenness resulting from Gammaproteobacteria blooms. Surprisingly, a number of taxa (related to SAR11, <italic>Nitrosopumilus</italic>
and <italic>Bacteroides</italic>
, among others) contributed equal numbers of transcripts per liter in both the unexposed and plume samples, suggesting that some groups were unaffected by the petroleum inputs and blooms of degrader taxa, and may be important for re-establishing the pre-spill microbial community structure.</p>
</div>
</front>
</TEI>
<pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">ISME J</journal-id>
<journal-id journal-id-type="iso-abbrev">ISME J</journal-id>
<journal-title-group><journal-title>The ISME Journal</journal-title>
</journal-title-group>
<issn pub-type="ppub">1751-7362</issn>
<issn pub-type="epub">1751-7370</issn>
<publisher><publisher-name>Nature Publishing Group</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">23902988</article-id>
<article-id pub-id-type="pmc">3834857</article-id>
<article-id pub-id-type="pii">ismej2013129</article-id>
<article-id pub-id-type="doi">10.1038/ismej.2013.129</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject>
</subj-group>
</article-categories>
<title-group><article-title>Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill</article-title>
<alt-title alt-title-type="running">Response of bathypelagic bacterioplankton to petroleum inputs</alt-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Rivers</surname>
<given-names>Adam R</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Sharma</surname>
<given-names>Shalabh</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Tringe</surname>
<given-names>Susannah G</given-names>
</name>
<xref ref-type="aff" rid="aff2">2</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Martin</surname>
<given-names>Jeffrey</given-names>
</name>
<xref ref-type="aff" rid="aff2">2</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Joye</surname>
<given-names>Samantha B</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Moran</surname>
<given-names>Mary Ann</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
<xref ref-type="corresp" rid="caf1">*</xref>
</contrib>
<aff id="aff1"><label>1</label>
<institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</aff>
<aff id="aff2"><label>2</label>
<institution>DOE Joint Genome Institute</institution>
, Walnut Creek, CA,<country>USA</country>
</aff>
</contrib-group>
<author-notes><corresp id="caf1"><label>*</label>
<institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA 30602-3636, <country>USA</country>
. E-mail: <email>mmoran@uga.edu</email>
</corresp>
</author-notes>
<pub-date pub-type="ppub"><month>12</month>
<year>2013</year>
</pub-date>
<pub-date pub-type="epub"><day>01</day>
<month>08</month>
<year>2013</year>
</pub-date>
<volume>7</volume>
<issue>12</issue>
<fpage>2315</fpage>
<lpage>2329</lpage>
<history><date date-type="received"><day>21</day>
<month>02</month>
<year>2013</year>
</date>
<date date-type="rev-recd"><day>29</day>
<month>06</month>
<year>2013</year>
</date>
<date date-type="accepted"><day>01</day>
<month>07</month>
<year>2013</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2013 International Society for Microbial Ecology</copyright-statement>
<copyright-year>2013</copyright-year>
<copyright-holder>International Society for Microbial Ecology</copyright-holder>
</permissions>
<abstract><p>The Deepwater Horizon blowout released a massive amount of oil and gas into the deep ocean between April and July 2010, stimulating microbial blooms of petroleum-degrading bacteria. To understand the metabolic response of marine microorganisms, we sequenced ∼66 million community transcripts that revealed the identity of metabolically active microbes and their roles in petroleum consumption. Reads were assigned to reference genes from ∼2700 bacterial and archaeal taxa, but most assignments (39%) were to just six genomes representing predominantly methane- and petroleum-degrading Gammaproteobacteria. Specific pathways for the degradation of alkanes, aromatic compounds and methane emerged from the metatranscriptomes, with some transcripts assigned to methane monooxygenases representing highly divergent homologs that may degrade either methane or short alkanes. The microbial community in the plume was less taxonomically and functionally diverse than the unexposed community below the plume; this was due primarily to decreased species evenness resulting from Gammaproteobacteria blooms. Surprisingly, a number of taxa (related to SAR11, <italic>Nitrosopumilus</italic>
and <italic>Bacteroides</italic>
, among others) contributed equal numbers of transcripts per liter in both the unexposed and plume samples, suggesting that some groups were unaffected by the petroleum inputs and blooms of degrader taxa, and may be important for re-establishing the pre-spill microbial community structure.</p>
</abstract>
<kwd-group><kwd>Deepwater Horizon</kwd>
<kwd>transcriptomics</kwd>
<kwd>oil degradation</kwd>
<kwd>methane oxidation</kwd>
</kwd-group>
</article-meta>
</front>
</pmc>
</record>
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