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SRX007371: HOT186_500m_gDNA
2 LS454 (454 GS FLX) runs: 995,747 spots, 274.4M bases, 556.7Mb downloads

Submitted by: Massachusetts Institute of Technology
Study: Planktonic microbial communities from North Pacific Subtropical Gyre
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This project consists of analyses of of planktonic microbial communities in a region of the North Pacific Ocean. The Subtropical Gyre consists of a clockwise swirling vortex of ocean currents that make up most of the northern Pacific Ocean. Samples were taken at different depths (10 m to 4000 m) at the Hawaii open-ocean time-series station ALOHA (22<sup>o</sup>45' N, 158<sup>o</sup>W) and large DNA fragments were cloned (36 kbp fosmids) from the samples and shotgun sequenced. A comparison of protein sequences encoded by samples at various depths and clustering of functional categories revealed definite gradients. For example, proteins involved in photosynthesis were found in the photic zone, as expected, while proteins involved in surface attachment were more prevalent in deep samples, suggesting a greater tendency for surface colonization at those ocean depths. There are a set of GenBank Accession Numbers associated with this study. <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;amp;db=Nucleotide&amp;cmd=search&amp;term=DU731018:DU796676[accn]">DU731018-DU796676 </a>and <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=DU800850:DU800864[accn]">DU800850-DU800864 </a>correspond to fosmid end sequences while <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=DQ300508:DQ300926[accn]">DQ300508-DQ300926</a> are the small subunit ribosomal RNA sequences. In addition <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=EF089401:EF089402[accn]">EF089401-EF089402 </a>, <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=EF100190:EF100191[accn]">EF100190-EF100191 </a>, <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=EF107101:EF107103[accn]">EF107101-EF107103 </a>, <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=EF107106[accn]">EF107106 </a>, <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=EU016559:EU016674[accn]">EU016559-EU016674 </a> and <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?holding=&amp;db=Nucleotide&amp;cmd=search&amp;term=GQ412706:GQ412710[accn]">GQ412706-GQ412710 </a> are genomic sequences derived from this study. 454 sequence data is available from the Short Read Archive (SRA): <a href="ftp://ftp.ncbi.nih.gov/pub/TraceDB/ShortRead/SRA000262 ">SRA000262</a> and <a href="ftp://ftp.ncbi.nih.gov/pub/TraceDB/ShortRead/SRA000263 ">SRA000263</a>.
Sample: Generic sample from marine metagenome
SAMN00008877 • SRS004518 • All experiments • All runs
Library:
Name: HOT186_500m_gDNA
Instrument: 454 GS FLX
Strategy: WGS
Source: GENOMIC
Selection: RANDOM
Layout: SINGLE
Spot descriptor:
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Runs: 2 runs, 995,747 spots, 274.4M bases, 556.7Mb
Run# of Spots# of BasesSizePublished
SRR020491523,246145.2M290.6Mb2009-10-01
SRR020492472,501129.2M266.1Mb2009-10-01

ID:
7637

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