Keywords: GSC:MIxS;MIMAG:6.0

BioSample Accession(s)

SAMN12581797, SRS5276863

collection date

2016-02-01

dreived-from

This BioSample is a metagenomic assembly obtained from the termite gut metagenome BioSample: SAMN13139694

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

Embiratermes neotenicus

host body habitat

gut

host diet

Humus feeder

isolate

Emb289P3_bin85

isolation source

P3 gut compartment

lat lon

5.3454 N 53.2463 W

metagenome source

termite gut metagenome

metagenomic

1

sample-type

metagenomic assembly

type-material

reference material of Candidatus Endomicrobium embiratermitis

BioSample Accession(s)

SAMN13139694

collection date

2016-02-01

geo loc name

French Guiana: Petit-Saut

host

Embiratermes neotenicus

isolation source

P3 gut compartment

lat lon

5.3454 N 53.2463 W

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX6724887" alias="Emb289P3_bin85" center_name="SUB6185198" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX6724887</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB6185198">Emb289P3_bin85</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Binning of metagenomic reads from  the P3 gut compartment of Embiratermes neotenicus</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="SRS5276863">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS5276863</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN12581797</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>Emb289P3_bin85</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>SRS5276863</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=SRX6724887&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=SRX6724887&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="SRX7201063" alias="Emb289P3" center_name="SUB6582440" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX7201063</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB6582440">Emb289P3</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Metagenome of Embiratermes neotenicus P3 gut compartment</TITLE>
  <STUDY_REF accession="SRP231247">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP231247</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA590611</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Processing of the termite samples and DNA extraction and purification were described in Rossmassler et al., 2015, Microbiome. Metagenomic libraries were prepared, sequenced, quality controlled, and assembled at the Joint Genome Institute (Walnut Creek, CA, USA).</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS5706511">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS5706511</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN13139694</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>Emb289P3</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>SRS5706511</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1000572</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=SRX7201063&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=SRX7201063&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>