Keywords: GSC:MIxS;MISAG:6.0

BioSample Accession(s)

SAMN39416613, SRS25770982

isolate

FG-1

collection_date

2018

depth

10 cm

elev

1,100 m

env_broad_scale

environmental material [ENVO_00010483]

env_local_scale

sediment [ENVO:00002007]

env_medium

anaerobic sediment [ENVO_00002045]

geo_loc_name

France: Goyon fountain (Puy-de-Dome)

isolation_source

single cell amplified by MDA; sediment of a ferruginous spring

lat_lon

45.51045004 N 2.90412015 E

ncbi_package

MISAG.sediment.6.0

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX29656390" alias="GY2a" center_name="SUB15457920" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX29656390</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB15457920">GY2a</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Genomics of two bacterial species from ferruginous sediments</TITLE>
  <STUDY_REF accession="SRP600436">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP600436</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA1064047</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Whole-genome sequencing was performed on the amplified DNA of several cells. DNA libraries were prepared from the fragmented DNA using the Nextera XT DNA Library Preparation Kit from Illumina, according to the manufacturers instructions. Paired-end (2  150 bp) DNA sequencing was performed on the MiSeq sequencer (Illumina, San Diego, CA, USA) hosted at the IMM Transcriptomic and Genomic facility with a MiSeq v2 (300-cycles) flow cell (Illumina, San Diego, CA, USA).</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS25770982">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS25770982</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN39416613</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>GY2a</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC SINGLE CELL</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>MDA</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina MiSeq</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS25770982</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA2170134</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=SRX29656390&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=SRX29656390&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-ID</TAG>
      <VALUE>4</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>