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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Enrichment and characterization of ammonia-oxidizing archaea from the open ocean: phylogeny, physiology and stable isotope fractionation</title><author><name sortKey="Santoro, Alyson E" sort="Santoro, Alyson E" uniqKey="Santoro A" first="Alyson E" last="Santoro">Alyson E. Santoro</name><affiliation><nlm:aff id="aff1"><institution>Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution</institution>, Woods Hole, MA,<country>USA</country></nlm:aff></affiliation></author><author><name sortKey="Casciotti, Karen L" sort="Casciotti, Karen L" uniqKey="Casciotti K" first="Karen L" last="Casciotti">Karen L. Casciotti</name><affiliation><nlm:aff id="aff1"><institution>Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution</institution>, Woods Hole, MA,<country>USA</country></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">21562601</idno><idno type="pmc">3197170</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3197170</idno><idno type="RBID">PMC:3197170</idno><idno type="doi">10.1038/ismej.2011.58</idno><date when="2011">2011</date><idno type="wicri:Area/Pmc/Corpus">000019</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Enrichment and characterization of ammonia-oxidizing archaea from the open ocean: phylogeny, physiology and stable isotope fractionation</title><author><name sortKey="Santoro, Alyson E" sort="Santoro, Alyson E" uniqKey="Santoro A" first="Alyson E" last="Santoro">Alyson E. Santoro</name><affiliation><nlm:aff id="aff1"><institution>Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution</institution>, Woods Hole, MA,<country>USA</country></nlm:aff></affiliation></author><author><name sortKey="Casciotti, Karen L" sort="Casciotti, Karen L" uniqKey="Casciotti K" first="Karen L" last="Casciotti">Karen L. Casciotti</name><affiliation><nlm:aff id="aff1"><institution>Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution</institution>, Woods Hole, MA,<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="2011">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Archaeal genes for ammonia oxidation are widespread in the marine environment, but direct physiological evidence for ammonia oxidation by marine archaea is limited. We report the enrichment and characterization of three strains of pelagic ammonia-oxidizing archaea (AOA) from the North Pacific Ocean that have been maintained in laboratory culture for over 3 years. Phylogenetic analyses indicate the three strains belong to a previously identified clade of water column-associated AOA and possess 16S ribosomal RNA genes and ammonia monooxygenase subunit a (<italic>amoA</italic>) genes highly similar (98–99% identity) to those recovered in DNA and complementary DNA clone libraries from the open ocean. The strains grow in natural seawater-based liquid medium while stoichiometrically converting ammonia (NH<sub>3</sub>) to nitrite (NO<sub>2</sub><sup>−</sup>). Ammonia oxidation by the enrichments is only partially inhibited by allylthiourea at concentrations known to completely inhibit cultivated ammonia-oxidizing bacteria. The three strains were used to determine the nitrogen stable isotope effect (<sup>15</sup><italic>ɛ</italic><sub>NH3</sub>) during archaeal ammonia oxidation, an important parameter for interpreting stable isotope ratios in the environment. Archaeal <sup>15</sup><italic>ɛ</italic><sub>NH3</sub> ranged from 13‰ to 41‰, within the range of that previously reported for ammonia-oxidizing bacteria. Despite low amino acid identity between the archaeal and bacterial Amo proteins, their functional diversity as captured by <sup>15</sup><italic>ɛ</italic><sub>NH3</sub> is similar.</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-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">21562601</article-id><article-id pub-id-type="pmc">3197170</article-id><article-id pub-id-type="pii">ismej201158</article-id><article-id pub-id-type="doi">10.1038/ismej.2011.58</article-id><article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject></subj-group></article-categories><title-group><article-title>Enrichment and characterization of ammonia-oxidizing archaea from the open ocean: phylogeny, physiology and stable isotope fractionation</article-title><alt-title alt-title-type="running">Isotope fractionation by ammonia-oxidizing archaea</alt-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Santoro</surname><given-names>Alyson E</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="author-notes" rid="note1"><sup>2</sup></xref><xref ref-type="corresp" rid="caf1">*</xref></contrib><contrib contrib-type="author"><name><surname>Casciotti</surname><given-names>Karen L</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="author-notes" rid="note2"><sup>3</sup></xref></contrib><aff id="aff1"><label>1</label><institution>Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution</institution>, Woods Hole, MA,<country>USA</country></aff></contrib-group><author-notes><corresp id="caf1"><label>*</label><institution>Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution</institution>, 360 Woods Hole Rd, M/S 52, Woods Hole, MA 02543, <country>USA</country>. E-mail: <email>asantoro@umces.edu</email></corresp><fn fn-type="present-address" id="note1"><label>2</label><p>Current address: Horn Point Laboratory, University of Maryland Center for Environmental Science, Cambridge, MD 21613, USA.</p></fn><fn fn-type="present-address" id="note2"><label>3</label><p>Current address: Department of Environmental Earth System Science, Stanford University, Stanford, CA 94305, USA.</p></fn></author-notes><pub-date pub-type="ppub"><month>11</month><year>2011</year></pub-date><pub-date pub-type="epub"><day>12</day><month>05</month><year>2011</year></pub-date><volume>5</volume><issue>11</issue><fpage>1796</fpage><lpage>1808</lpage><history><date date-type="received"><day>01</day><month>12</month><year>2010</year></date><date date-type="rev-recd"><day>16</day><month>03</month><year>2011</year></date><date date-type="accepted"><day>24</day><month>03</month><year>2011</year></date></history><permissions><copyright-statement>Copyright © 2011 International Society for Microbial Ecology</copyright-statement><copyright-year>2011</copyright-year><copyright-holder>International Society for Microbial Ecology</copyright-holder></permissions><abstract><p>Archaeal genes for ammonia oxidation are widespread in the marine environment, but direct physiological evidence for ammonia oxidation by marine archaea is limited. We report the enrichment and characterization of three strains of pelagic ammonia-oxidizing archaea (AOA) from the North Pacific Ocean that have been maintained in laboratory culture for over 3 years. Phylogenetic analyses indicate the three strains belong to a previously identified clade of water column-associated AOA and possess 16S ribosomal RNA genes and ammonia monooxygenase subunit a (<italic>amoA</italic>) genes highly similar (98–99% identity) to those recovered in DNA and complementary DNA clone libraries from the open ocean. The strains grow in natural seawater-based liquid medium while stoichiometrically converting ammonia (NH<sub>3</sub>) to nitrite (NO<sub>2</sub><sup>−</sup>). Ammonia oxidation by the enrichments is only partially inhibited by allylthiourea at concentrations known to completely inhibit cultivated ammonia-oxidizing bacteria. The three strains were used to determine the nitrogen stable isotope effect (<sup>15</sup><italic>ɛ</italic><sub>NH3</sub>) during archaeal ammonia oxidation, an important parameter for interpreting stable isotope ratios in the environment. Archaeal <sup>15</sup><italic>ɛ</italic><sub>NH3</sub> ranged from 13‰ to 41‰, within the range of that previously reported for ammonia-oxidizing bacteria. Despite low amino acid identity between the archaeal and bacterial Amo proteins, their functional diversity as captured by <sup>15</sup><italic>ɛ</italic><sub>NH3</sub> is similar.</p></abstract><kwd-group><kwd>thaumarchaea</kwd><kwd>nitrification</kwd><kwd>Pacific ocean</kwd><kwd>isotope effects</kwd></kwd-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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