p-nitrophenol degrading aquatic bacterium isolated from River Ganges water

BioSample Accession(s)

SAMN53927870, SRS27478183

collection_date

2018-10-04

geo_loc_name

India: West Bengal

isolation_source

water

sample_type

Pure culture

strain

DNPG3

Metadata as EBI XML

<RUN_SET>
<RUN accession="SRR36475856" alias="DNPG3_R1.fastq.gz" center_name="SUB15849808" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRR36475856</PRIMARY_ID>
    <SUBMITTER_ID label="0" namespace="SUB15849808">DNPG3_R1.fastq.gz</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Illumina HiSeq X paired end sequencing; Brachybacterium sp. strain DNPG3 draft genome</TITLE>
  <EXPERIMENT_REF accession="SRX31497811">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX31497811</PRIMARY_ID>
      <SUBMITTER_ID namespace="SUB15849808">DNPG3_R1.fastq</SUBMITTER_ID>
    </IDENTIFIERS>
  </EXPERIMENT_REF>
  <RUN_LINKS>
    <RUN_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA2298965</ID>
      </XREF_LINK>
    </RUN_LINK>
    <RUN_LINK>
      <XREF_LINK>
        <DB>ENA-STUDY</DB>
        <ID>SRP655796</ID>
      </XREF_LINK>
    </RUN_LINK>
    <RUN_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS27478183</ID>
      </XREF_LINK>
    </RUN_LINK>
    <RUN_LINK>
      <XREF_LINK>
        <DB>ENA-FASTQ-FILES</DB>
        <ID><![CDATA[https://www.ebi.ac.uk/ena/portal/api/filereport?accession=SRR36475856&result=read_run&fields=run_accession,fastq_ftp,fastq_md5,fastq_bytes]]></ID>
      </XREF_LINK>
    </RUN_LINK>
    <RUN_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMITTED-FILES</DB>
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      </XREF_LINK>
    </RUN_LINK>
  </RUN_LINKS>
  <RUN_ATTRIBUTES>
    <RUN_ATTRIBUTE>
      <TAG>ENA-STATUS</TAG>
      <VALUE>PUBLIC</VALUE>
    </RUN_ATTRIBUTE>
    <RUN_ATTRIBUTE>
      <TAG>ENA-FIRST-PUBLIC</TAG>
      <VALUE>2025-12-17</VALUE>
    </RUN_ATTRIBUTE>
    <RUN_ATTRIBUTE>
      <TAG>ENA-LAST-UPDATE</TAG>
      <VALUE>2025-12-17</VALUE>
    </RUN_ATTRIBUTE>
    <RUN_ATTRIBUTE>
      <TAG>ENA-BASE-COUNT</TAG>
      <VALUE>990694692</VALUE>
    </RUN_ATTRIBUTE>
    <RUN_ATTRIBUTE>
      <TAG>ENA-SPOT-COUNT</TAG>
      <VALUE>3280446</VALUE>
    </RUN_ATTRIBUTE>
  </RUN_ATTRIBUTES>
</RUN>
</RUN_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX31497811" alias="DNPG3_R1.fastq" center_name="SUB15849808" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX31497811</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB15849808">DNPG3_R1.fastq</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Brachybacterium sp. strain DNPG3 draft genome</TITLE>
  <STUDY_REF accession="SRP655796">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP655796</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA1380898</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>Denovo assembly was carriedout using SPAdes assembler</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS27478183">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS27478183</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN53927870</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>DNPG3_R1.fastq</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>PCR</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina HiSeq X</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS27478183</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA2298965</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=SRX31497811&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=SRX31497811&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>