marine Chloroflexi bacterium isolated from the Yellow Sea

BioSample Accession(s)

SAMN13314701, ERS20453019

strain

JH545

collection_date

2017-10-17

type-material

reference material of Candidatus Lucifugimonas marina

organism

Candidatus Lucifugimonas marina

collected_by

Ji-Hui Seo

sample_type

cell culture

NCBI submission package

Microbe.1.0

depth

1m

Tax ID

3038979

geo_loc_name

South Korea: Yellow sea near Garorim bay

lat_lon

37.0335 N 126.274917 E

biomaterial_provider

Jang-Cheon Cho

isolation_source

Yellow sea

BioSampleModel

Microbe, viral or environmental

ENA-FIRST-PUBLIC

2023-04-06

ENA-LAST-UPDATE

2024-06-21

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX28245759" alias="JH545" center_name="SUB15230805" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX28245759</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB15230805">JH545</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>PacBio rawdata of SAR202 strain: Licufugimonas marina JH545</TITLE>
  <STUDY_REF accession="SRP576426">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP576426</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA590007</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>The genomic DNA of strain JH545 was used for the construction of the 20-kb SMRTbell library, which was sequenced on the PacBio RS II platform (Pacific Biosciences). De novo assembly of raw sequencing reads was carried out by the RS_HGAP_Assembly.2 protocol of SMRT Analysis (v2.3.0)</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS24593422">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS24593422</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN13314701</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>JH545</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>size fractionation</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <SINGLE/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <PACBIO_SMRT>
      <INSTRUMENT_MODEL>PacBio RS II</INSTRUMENT_MODEL>
    </PACBIO_SMRT>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS24593422</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA2106437</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=SRX28245759&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=SRX28245759&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>