Keywords: GSC:MIxS;MIMS:6.0

BioSample Accession(s)

SAMN15319620, SRS6922268

Site

Ag

collection_date

2018-06-06

sequencing_date

2018-07-03T00:00:00

INSDC secondary accession

SRS6922268

organism

groundwater metagenome

env_broad_scale

groundwater planktonic microbiome

bulk_or_size_filtration

bulk

env_local_scale

not applicable

NCBI submission package

MIMS.me.water.6.0

depth

<100 m

geo_loc_name

USA: California, Modesto

filter_size

0.1 um

env_medium

not applicable

lat_lon

37.661915 N 121.114554 W

isolation_source

Rifle well FP-101 under low O2 conditions; 0.2 micron filter; full assembly

BioSampleModel

MIGS/MIMS/MIMARKS.water

ENA-FIRST-PUBLIC

2020-12-22

ENA-LAST-UPDATE

2022-05-27

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX8635902" alias="Ag_180606_Bp1" center_name="SUB7648293" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX8635902</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB7648293">Ag_180606_Bp1</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Metagenome reads of agriculturally impacted groundwater community (Ag) in Northern California</TITLE>
  <STUDY_REF accession="SRP269290">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP269290</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA640378</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Sequencing of non-amplified metagenomic DNA</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS6922268">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS6922268</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN15319620</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>Ag_180606_Bp1</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>SRS6922268</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1092745</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=SRX8635902&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=SRX8635902&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>