Yellowstone Lake Nanoarchaeota
Identifieur interne : 000447 ( Ncbi/Checkpoint ); précédent : 000446; suivant : 000448Yellowstone Lake Nanoarchaeota
Auteurs : Scott Clingenpeel [États-Unis] ; Jinjun Kan [États-Unis] ; Richard E. Macur [États-Unis] ; Tanja Woyke [États-Unis] ; Dave Lovalvo [États-Unis] ; John Varley [États-Unis] ; William P. Inskeep [États-Unis] ; Kenneth Nealson [États-Unis] ; Timothy R. Mcdermott [États-Unis]Source :
- Frontiers in Microbiology [ 1664-302X ] ; 2013.
Abstract
Considerable
Url:
DOI: 10.3389/fmicb.2013.00274
PubMed: 24062731
PubMed Central: 3769629
Affiliations:
Links toward previous steps (curation, corpus...)
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- to stream Pmc, to step Curation: 000532
- to stream Pmc, to step Checkpoint: 000249
- to stream Ncbi, to step Merge: 000447
- to stream Ncbi, to step Curation: 000447
Links to Exploration step
PMC:3769629Le document en format XML
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Yellowstone Lake <italic>Nanoarchaeota</italic>
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<author><name sortKey="Mcdermott, Timothy R" sort="Mcdermott, Timothy R" uniqKey="Mcdermott T" first="Timothy R." last="Mcdermott">Timothy R. Mcdermott</name>
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<series><title level="j">Frontiers in Microbiology</title>
<idno type="eISSN">1664-302X</idno>
<imprint><date when="2013">2013</date>
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<front><div type="abstract" xml:lang="en"><p>Considerable <italic>Nanoarchaeota</italic>
novelty and diversity were encountered in Yellowstone Lake, Yellowstone National Park (YNP), where sampling targeted lake floor hydrothermal vent fluids, streamers and sediments associated with these vents, and in planktonic photic zones in three different regions of the lake. Significant homonucleotide repeats (HR) were observed in pyrosequence reads and in near full-length Sanger sequences, averaging 112 HR per 1349 bp clone and could confound diversity estimates derived from pyrosequencing, resulting in false nucleotide insertions or deletions (indels). However, Sanger sequencing of two different sets of PCR clones (110 bp, 1349 bp) demonstrated that at least some of these indels are real. The majority of the <italic>Nanoarchaeota</italic>
PCR amplicons were vent associated; however, curiously, one relatively small <italic>Nanoarchaeota</italic>
OTU (71 pyrosequencing reads) was only found in photic zone water samples obtained from a region of the lake furthest removed from the hydrothermal regions of the lake. Extensive pyrosequencing failed to demonstrate the presence of an <italic>Ignicoccus</italic>
lineage in this lake, suggesting the <italic>Nanoarchaeota</italic>
in this environment are associated with novel <italic>Archaea</italic>
hosts. Defined phylogroups based on near full-length PCR clones document the significant <italic>Nanoarchaeota</italic>
16S rRNA gene diversity in this lake and firmly establish a terrestrial clade distinct from the marine <italic>Nanoarcheota</italic>
as well as from other geographical locations.</p>
</div>
</front>
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