Seasonal variation in the metratranscriptomes of a Thaumarchaeota population from SE USA coastal waters
Identifieur interne : 000462 ( Ncbi/Checkpoint ); précédent : 000461; suivant : 000463Seasonal variation in the metratranscriptomes of a Thaumarchaeota population from SE USA coastal waters
Auteurs : James T. Hollibaugh [États-Unis] ; Scott M. Gifford [États-Unis] ; Mary Ann Moran [États-Unis] ; Meredith J. Ross [États-Unis] ; Shalabh Sharma [États-Unis] ; Bradley B. Tolar [États-Unis]Source :
- The ISME Journal [ 1751-7362 ] ; 2013.
Abstract
We used a combination of metatranscriptomic analyses and quantitative PCR (qPCR) to study seasonal changes in Thaumarchaeota populations from a salt marsh-dominated estuary. Surface waters (0.5 m depth) were sampled quarterly at Marsh Landing, Sapelo Island, GA, USA over a 3-year period. We found a mid-summer peak in Thaumarchaeota abundance measured by qPCR of either 16S rRNA or
Url:
DOI: 10.1038/ismej.2013.171
PubMed: 24132081
PubMed Central: 3930313
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 000014
- to stream Pmc, to step Curation: 000014
- to stream Pmc, to step Checkpoint: 000268
- to stream Ncbi, to step Merge: 000462
- to stream Ncbi, to step Curation: 000462
Links to Exploration step
PMC:3930313Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Seasonal variation in the metratranscriptomes of a Thaumarchaeota population from SE USA coastal waters</title>
<author><name sortKey="Hollibaugh, James T" sort="Hollibaugh, James T" uniqKey="Hollibaugh J" first="James T" last="Hollibaugh">James T. Hollibaugh</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Gifford, Scott M" sort="Gifford, Scott M" uniqKey="Gifford S" first="Scott M" last="Gifford">Scott M. Gifford</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</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 wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Ross, Meredith J" sort="Ross, Meredith J" uniqKey="Ross M" first="Meredith J" last="Ross">Meredith J. Ross</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Sharma, Shalabh" sort="Sharma, Shalabh" uniqKey="Sharma S" first="Shalabh" last="Sharma">Shalabh Sharma</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Tolar, Bradley B" sort="Tolar, Bradley B" uniqKey="Tolar B" first="Bradley B" last="Tolar">Bradley B. Tolar</name>
<affiliation wicri:level="1"><nlm:aff id="aff2"><institution>Department of Microbiology, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">24132081</idno>
<idno type="pmc">3930313</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3930313</idno>
<idno type="RBID">PMC:3930313</idno>
<idno type="doi">10.1038/ismej.2013.171</idno>
<date when="2013">2013</date>
<idno type="wicri:Area/Pmc/Corpus">000014</idno>
<idno type="wicri:Area/Pmc/Curation">000014</idno>
<idno type="wicri:Area/Pmc/Checkpoint">000268</idno>
<idno type="wicri:Area/Ncbi/Merge">000462</idno>
<idno type="wicri:Area/Ncbi/Curation">000462</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">000462</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Seasonal variation in the metratranscriptomes of a Thaumarchaeota population from SE USA coastal waters</title>
<author><name sortKey="Hollibaugh, James T" sort="Hollibaugh, James T" uniqKey="Hollibaugh J" first="James T" last="Hollibaugh">James T. Hollibaugh</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Gifford, Scott M" sort="Gifford, Scott M" uniqKey="Gifford S" first="Scott M" last="Gifford">Scott M. Gifford</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</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 wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Ross, Meredith J" sort="Ross, Meredith J" uniqKey="Ross M" first="Meredith J" last="Ross">Meredith J. Ross</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Sharma, Shalabh" sort="Sharma, Shalabh" uniqKey="Sharma S" first="Shalabh" last="Sharma">Shalabh Sharma</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Department of Marine Sciences, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</affiliation>
</author>
<author><name sortKey="Tolar, Bradley B" sort="Tolar, Bradley B" uniqKey="Tolar B" first="Bradley B" last="Tolar">Bradley B. Tolar</name>
<affiliation wicri:level="1"><nlm:aff id="aff2"><institution>Department of Microbiology, University of Georgia</institution>
, Athens, GA,<country>USA</country>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea># see nlm:aff country strict</wicri:regionArea>
</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>We used a combination of metatranscriptomic analyses and quantitative PCR (qPCR) to study seasonal changes in Thaumarchaeota populations from a salt marsh-dominated estuary. Surface waters (0.5 m depth) were sampled quarterly at Marsh Landing, Sapelo Island, GA, USA over a 3-year period. We found a mid-summer peak in Thaumarchaeota abundance measured by qPCR of either 16S rRNA or <italic>amoA</italic>
genes in each of the 3 years. Thaumarchaeota were 100–1000-fold more abundant during the peak than at other times of the year, whereas the abundance of ammonia- and nitrite-oxidizing Bacteria varied <10-fold over the same period. Analysis of the microdiversity of several highly transcribed genes in 20 metatranscriptomes from a 1-year subset of these samples showed that the transcriptionally active population consisted of 2 or 3 dominant phylotypes that differed between successive summers. This shift appeared to have begun during the preceding winter and spring. Transcripts from the same genes dominated the Thaumarchaeota mRNA pool throughout the year, with genes encoding proteins believed to be involved in nitrogen uptake and oxidation, and two hypothetical proteins being the most abundant transcripts in all libraries. Analysis of individual genes over the seasonal cycle suggested that transcription was tied more closely to variation in growth rates than to seasonal changes in environmental conditions. Day–night differences in the relative abundance of transcripts for ribosomal proteins suggested diurnal variation in Thaumarchaeota growth.</p>
</div>
</front>
</TEI>
<affiliations><list><country><li>États-Unis</li>
</country>
</list>
<tree><country name="États-Unis"><noRegion><name sortKey="Hollibaugh, James T" sort="Hollibaugh, James T" uniqKey="Hollibaugh J" first="James T" last="Hollibaugh">James T. Hollibaugh</name>
</noRegion>
<name sortKey="Gifford, Scott M" sort="Gifford, Scott M" uniqKey="Gifford S" first="Scott M" last="Gifford">Scott M. Gifford</name>
<name sortKey="Moran, Mary Ann" sort="Moran, Mary Ann" uniqKey="Moran M" first="Mary Ann" last="Moran">Mary Ann Moran</name>
<name sortKey="Ross, Meredith J" sort="Ross, Meredith J" uniqKey="Ross M" first="Meredith J" last="Ross">Meredith J. Ross</name>
<name sortKey="Sharma, Shalabh" sort="Sharma, Shalabh" uniqKey="Sharma S" first="Shalabh" last="Sharma">Shalabh Sharma</name>
<name sortKey="Tolar, Bradley B" sort="Tolar, Bradley B" uniqKey="Tolar B" first="Bradley B" last="Tolar">Bradley B. Tolar</name>
</country>
</tree>
</affiliations>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Ticri/CIDE/explor/CyberinfraV1/Data/Ncbi/Checkpoint
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000462 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Ncbi/Checkpoint/biblio.hfd -nk 000462 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Ticri/CIDE |area= CyberinfraV1 |flux= Ncbi |étape= Checkpoint |type= RBID |clé= PMC:3930313 |texte= Seasonal variation in the metratranscriptomes of a Thaumarchaeota population from SE USA coastal waters }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Ncbi/Checkpoint/RBID.i -Sk "pubmed:24132081" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Ncbi/Checkpoint/biblio.hfd \ | NlmPubMed2Wicri -a CyberinfraV1
![]() | This area was generated with Dilib version V0.6.25. | ![]() |