Keywords: GSC:MIxS;MIMAG:6.0

BioSample Accession(s)

SAMN12582100, SRS5276796

collection date

2013-08-12

derived-from

This BioSample is a metagenomic assembly obtained from the termite gut metagenome BioSample: SAMN03344612

env_broad_scale

woodland biome

env_local_scale

tropical woodland biome

env_medium

digestive tract

environmental sample

1

geo loc name

French Guiana: Petit-Saut

host

Neocapritermes taracua

host body habitat

gut

host diet

Humus feeder

isolate

Nt197P4_bin29

isolation source

P4 gut compartment

lat lon

5.345 N 53.246 W

metagenome source

termite gut metagenome

metagenomic

1

sample-type

metagenomic assembly

type-material

reference material of Candidatus Endomicrobium neocapritermitis

Neocapritermes taracua P4

BioSample Accession(s)

SAMN03344612

collection date

2013

geo loc name

Guyana

host

Neocapritermes taracua

isolation source

P4

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX6724820" alias="Nt197P4_bin29" center_name="SUB6185198" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX6724820</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB6185198">Nt197P4_bin29</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Binning of metagenomic reads from  the P4 gut compartment of Neocapritermes taracua</TITLE>
  <STUDY_REF accession="SRP218535">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP218535</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA560329</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Genome reconstructed from a termite gut metagenome suing MetaBAT2.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS5276796">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS5276796</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN12582100</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>Nt197P4_bin29</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 2000</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS5276796</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA942061</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=SRX6724820&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=SRX6724820&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="SRX952023" alias="Nt197P4 iTAG" center_name="Max Planck Institute for Terrestrial Microbiology" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX952023</PRIMARY_ID>
    <SUBMITTER_ID namespace="Max Planck Institute for Terrestrial Microbiology">Nt197P4 iTAG</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Nt197P4 termite gut iTAG</TITLE>
  <STUDY_REF accession="SRP116658">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP116658</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA280402</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION/>
    <SAMPLE_DESCRIPTOR accession="SRS872309">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS872309</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN03344612</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME/>
      <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>PCR</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED NOMINAL_SDEV="0.0E0"/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
    <SPOT_DESCRIPTOR>
      <SPOT_DECODE_SPEC>
        <SPOT_LENGTH>300</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>151</BASE_COORD>
        </READ_SPEC>
      </SPOT_DECODE_SPEC>
    </SPOT_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina HiSeq 2000</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS872309</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA246311</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=SRX952023&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=SRX952023&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>