BioSample Accession(s)

SAMN09041722

collection date

2014-08-05

environmental sample

true

geo loc name

Russia: Byelii Yar, Tomsk region (Western Siberia)

isolate

BY40

isolation source

2-km deep subsurface thermal aquifer

lat lon

58.4496 N 85.0279 E

metagenomic

true

note

This biosample is a metagenomic assembly obtained from the subsurface metagenome sample SAMN09768157

samp_collect_device

Filtration of water

samp_size

50 L

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX4031087" alias="BY_2014_metagenome" center_name="SUB3975438" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX4031087</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB3975438">BY_2014_metagenome</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Beliy Yar 2014 metagenome WGS</TITLE>
  <STUDY_REF accession="SRP144457">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP144457</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA454794</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Neb Next</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS3250650">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS3250650</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN09041722</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>BY_2014_metagenome</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <SINGLE/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina HiSeq 2500</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS3250650</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA699147</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-FASTQ-FILES</DB>
        <ID><![CDATA[https://www.ebi.ac.uk/ena/portal/api/filereport?accession=SRX4031087&result=read_run&fields=run_accession,fastq_ftp,fastq_md5,fastq_bytes]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMITTED-FILES</DB>
        <ID><![CDATA[https://www.ebi.ac.uk/ena/portal/api/filereport?accession=SRX4031087&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
  <EXPERIMENT_ATTRIBUTES>
    <EXPERIMENT_ATTRIBUTE>
      <TAG>ENA-STATUS</TAG>
      <VALUE>PUBLIC</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX4031086" alias="BY_2014_16S" center_name="SUB3975438" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX4031086</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB3975438">BY_2014_16S</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Beliy Yar 2014 metagenome 16S</TITLE>
  <STUDY_REF accession="SRP144457">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP144457</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA454794</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Rapid library</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS3250650">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS3250650</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN09041722</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>BY_2014_16S</LIBRARY_NAME>
      <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>PCR</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <SINGLE/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <LS454>
      <INSTRUMENT_MODEL>454 GS FLX+</INSTRUMENT_MODEL>
    </LS454>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS3250650</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA699147</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-FASTQ-FILES</DB>
        <ID><![CDATA[https://www.ebi.ac.uk/ena/portal/api/filereport?accession=SRX4031086&result=read_run&fields=run_accession,fastq_ftp,fastq_md5,fastq_bytes]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMITTED-FILES</DB>
        <ID><![CDATA[https://www.ebi.ac.uk/ena/portal/api/filereport?accession=SRX4031086&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
  <EXPERIMENT_ATTRIBUTES>
    <EXPERIMENT_ATTRIBUTE>
      <TAG>ENA-STATUS</TAG>
      <VALUE>PUBLIC</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>