This sample represents a MAG from the metagenomic run SRR1761720

BioSample Accession(s)

SAMEA4891025, ERS2710021

ENA-CHECKLIST

ERC000011

ENA-FIRST-PUBLIC

2019-01-25

organism

uncultured Spirochaetes bacterium

ENA-LAST-UPDATE

2018-10-02

sample derived from

SAMN03283293

scientific_name

uncultured Spirochaetes bacterium

common name

uncultured Spirochaetes bacterium

completeness

96.63

contamination

0.20

isolation_source

human gut

Keywords: GSC:MIxS;MIMS:5.0

BioSample Accession(s)

SAMN03283293, SRS820628

collection_date

2012

misc_param

SM43

env_feature

human-associated habitat

INSDC secondary accession

SRS820628

NCBI submission package

MIMS.me.human-gut.5.0

env_material

feces

organism

human gut metagenome

host

Homo sapiens

geo_loc_name

Peru

env_biome

human-associated habitat

lat_lon

5.68 S 73.33 W

BioSampleModel

MIGS/MIMS/MIMARKS.human-gut

ENA-FIRST-PUBLIC

2015-02-16

ENA-LAST-UPDATE

2015-02-16

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX844742" alias="SM43.paired" center_name="University of Oklahoma" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX844742</PRIMARY_ID>
    <SUBMITTER_ID namespace="University of Oklahoma">SM43.paired</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Shotgun metagenome sequencing: human gut microbiome: Sample SM43</TITLE>
  <STUDY_REF accession="SRP052307">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP052307</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA268964</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Nextera</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS820628">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS820628</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN03283293</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>SM43.paired</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
    <SPOT_DESCRIPTOR>
      <SPOT_DECODE_SPEC>
        <SPOT_LENGTH>150</SPOT_LENGTH>
        <READ_SPEC>
          <READ_INDEX>0</READ_INDEX>
          <READ_CLASS>Application Read</READ_CLASS>
          <READ_TYPE>Forward</READ_TYPE>
          <BASE_COORD>1</BASE_COORD>
        </READ_SPEC>
        <READ_SPEC>
          <READ_INDEX>1</READ_INDEX>
          <READ_CLASS>Application Read</READ_CLASS>
          <READ_TYPE>Reverse</READ_TYPE>
          <BASE_COORD>76</BASE_COORD>
        </READ_SPEC>
      </SPOT_DECODE_SPEC>
    </SPOT_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina HiSeq 2500</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS820628</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA232501</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=SRX844742&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=SRX844742&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX844795" alias="SM43.single" center_name="University of Oklahoma" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX844795</PRIMARY_ID>
    <SUBMITTER_ID namespace="University of Oklahoma">SM43.single</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Shotgun metagenome sequencing: human gut microbiome: Sample SM43</TITLE>
  <STUDY_REF accession="SRP052307">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP052307</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA268964</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Nextera</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS820628">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS820628</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN03283293</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>SM43.single</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <SINGLE/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
    <SPOT_DESCRIPTOR>
      <SPOT_DECODE_SPEC>
        <SPOT_LENGTH>75</SPOT_LENGTH>
        <READ_SPEC>
          <READ_INDEX>0</READ_INDEX>
          <READ_CLASS>Application Read</READ_CLASS>
          <READ_TYPE>Forward</READ_TYPE>
          <BASE_COORD>1</BASE_COORD>
        </READ_SPEC>
      </SPOT_DECODE_SPEC>
    </SPOT_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina HiSeq 2500</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS820628</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA232501</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=SRX844795&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=SRX844795&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>