BioSample Accession(s)

SAMN11125809, SRS12012397

strain

LBB_01

collection_date

2016-10-13

INSDC secondary accession

SRS12012397

NCBI submission package

Microbe.1.0

identified_by

Grouzdev D. S.

organism

Nitrospirales bacterium LBB_01

geo_loc_name

Russia: Moscow region, Shatura district, Lake Beloe Bordukovskoe

collected_by

Grouzdev D. S.

lat_lon

55.632230 N 39.743775 E

sample_type

metagenomic assembly

biomaterial_provider

Molecular Idiagnostics lab

isolation_source

enrichment culture inoculated with freshwater sediment

BioSampleModel

Microbe, viral or environmental

ENA-FIRST-PUBLIC

2019-03-15

ENA-LAST-UPDATE

2022-02-15

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX14191677" alias="LBB_long" center_name="SUB11090710" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX14191677</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB11090710">LBB_long</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>long_reads</TITLE>
  <STUDY_REF accession="SRP359966">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP359966</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA527025</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>A DNA library was constructed using the NEBNext Companion Module for ONT Ligation Sequencing kit to obtain long reads. The library sequencing was performed on a MinION sequencing device (Oxford Nanopore Technologies, UK) using an R9.4.1 flow cell (FLO-MIN106D).</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS12012397">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS12012397</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN11125809</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>LBB_long</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>SRS12012397</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1373240</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=SRX14191677&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=SRX14191677&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-ID</TAG>
      <VALUE>4</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX14191676" alias="LBB_short" center_name="SUB11090710" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX14191676</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB11090710">LBB_short</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>short_reads</TITLE>
  <STUDY_REF accession="SRP359966">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP359966</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA527025</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>A DNA library was constructed using the MGIEasy universal DNA library prep to obtain short reads. DNA library sequencing was performed using the DNBSEQ-G400 platform (MGI Tech, China) with pair-end 150-bp reads.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS12012397">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS12012397</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN11125809</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>LBB_short</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>
    <DNBSEQ>
      <INSTRUMENT_MODEL>DNBSEQ-G400</INSTRUMENT_MODEL>
    </DNBSEQ>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS12012397</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1373240</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=SRX14191676&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=SRX14191676&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-ID</TAG>
      <VALUE>4</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>