Keywords: GSC:MIxS;MIMAG:6.0

BioSample Accession(s)

SAMN46472266

collection_date

2015-02-27

metagenome_source

sediment metagenome

organism

Maridesulfovibrio sp.

environmental_sample

true

env_broad_scale

missing

metagenomic

true

sample_type

missing

env_local_scale

missing

isolate

LRMN2-isolate

NCBI submission package

MIMAG.sediment.6.0

depth

missing

elev

missing

geo_loc_name

Spain: Catalonia, La Rapita

env_medium

missing

lat_lon

40.6404 N 0.7406 E

isolation_source

Lab-grown breviate-bacteria community

sample derived_from

SAMN40276088

BioSampleModel

MIMAG.sediment

ENA-FIRST-PUBLIC

2025-03-15

ENA-LAST-UPDATE

2025-03-15

BioSample Accession(s)

SAMN40276088, SRS20691577

collection_date

2014-02-27

INSDC secondary accession

SRS20691577

NCBI submission package

Metagenome.environmental.1.0

rel_to_oxygen

anaerobe

organism

sediment metagenome

geo_loc_name

Spain: Catalonia, La Rapita

lat_lon

40.6404 N 0.7406 E

isolation_source

mud, abandoned saltern

BioSampleModel

Metagenome or environmental

ENA-FIRST-PUBLIC

2025-03-20

ENA-LAST-UPDATE

2025-03-21

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX27466924" alias="LRM2N6_barcode87" center_name="SUB15027554" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX27466924</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB15027554">LRM2N6_barcode87</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Raw metagenomic sequencing reads for LRM2N6</TITLE>
  <STUDY_REF accession="SRP493959">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP493959</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA1084235</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>DNA was extracted from duplicate cultures grown for seven days in 3% LB-SW (45 ml) at room temperature under microaerophilic conditions. The DNA was treated with 1 mg/ml RNase A, quantified with the Qubit dsDNA HS assay kit, and stored at -20C.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS20691577">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS20691577</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN40276088</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>LRM2N6_barcode87</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>size fractionation</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <SINGLE/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <OXFORD_NANOPORE>
      <INSTRUMENT_MODEL>PromethION</INSTRUMENT_MODEL>
    </OXFORD_NANOPORE>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS20691577</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA2060292</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=SRX27466924&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=SRX27466924&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="SRX27521220" alias="LRM2N6_lib609352_8170_3" center_name="SUB15049977" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX27521220</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB15049977">LRM2N6_lib609352_8170_3</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>LRM2N6</TITLE>
  <STUDY_REF accession="SRP493959">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP493959</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA1084235</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Paired-end sequencing of breviate-associated bacterial communities, processed using Eurofins' INVIEW Metagenome pipeline</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS20691577">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS20691577</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN40276088</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>LRM2N6_lib609352_8170_3</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS20691577</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA2065010</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=SRX27521220&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=SRX27521220&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>