Assembly of Leucobacer sp. GP genome from sequencing of the microbial consortium formed between this strain and Achromobacter denitrificans PR1.

BioSample Accession(s)

SAMN10023734

collection date

2011-04-12

environmental sample

1

geo loc name

Portugal: Porto, Maia

isolate

GP

isolation source

microbial consortium containing Achromobacter denitrificans PR1 and Leucobacter sp.; enrichment cultured inoculated with activated sludge

lat lon

41.22 N 8.62 W

metagenome source

activated sludge metagenome

metagenomic

1

note

This BioSample is a metagenomic assembly obtained from the activated sludge metagenome BioSample: SAMN10101907.

sample type

metagenomic assembly

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX4668687" alias="Lib30042018" center_name="SUB4504279" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX4668687</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB4504279">Lib30042018</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Whole metagenome sequencing of a sulfonamide degrading consortium</TITLE>
  <STUDY_REF accession="SRP161444">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP161444</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA490017</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Library prepared with 1D genomic DNA sequencing kit (SQK-LSK108) and sequenced using a flow cell with R9.4 chemistry</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS3763473">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS3763473</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN10023734</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>Lib30042018</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>
    <OXFORD_NANOPORE>
      <INSTRUMENT_MODEL>MinION</INSTRUMENT_MODEL>
    </OXFORD_NANOPORE>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS3763473</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA771192</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-FASTQ-FILES</DB>
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      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
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      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
  <EXPERIMENT_ATTRIBUTES>
    <EXPERIMENT_ATTRIBUTE>
      <TAG>ENA-STATUS</TAG>
      <VALUE>PUBLIC</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX4668686" alias="Lib17022018" center_name="SUB4504279" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX4668686</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB4504279">Lib17022018</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Whole metagenome sequencing of a sulfonamide degrading consortium</TITLE>
  <STUDY_REF accession="SRP161444">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP161444</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA490017</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Library prepared with KAPA HyperPrep Kit using TruSeq DNA PCR-free LT Kit library adaptors</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS3763473">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS3763473</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN10023734</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>Lib17022018</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGA</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 MiSeq</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS3763473</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA771192</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=SRX4668686&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=SRX4668686&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
  <EXPERIMENT_ATTRIBUTES>
    <EXPERIMENT_ATTRIBUTE>
      <TAG>ENA-STATUS</TAG>
      <VALUE>PUBLIC</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>