BioSample Accession(s)

SAMN08359156, SRS3535348

strain

LBUM920

collection_date

missing

INSDC secondary accession

SRS3535348

NCBI submission package

Microbe.1.0

organism

Pseudomonas sp. LBUM920

host

Picea glauca

geo_loc_name

Canada: Quebec, Saint-Modeste

sample_type

cell culture

isolation_source

white spruce rhizosphere

BioSampleModel

Microbe, viral or environmental

ENA-FIRST-PUBLIC

2018-07-24

ENA-LAST-UPDATE

2018-07-24

Keywords: GSC:MIxS;MIGS:5.0

BioSample Accession(s)

SAMN14692986, SRS6573939

strain

ADAK22

collection_date

2020-02-09

isol_growth_condt

30637402

ref_biomaterial

genome report

INSDC secondary accession

SRS6573939

organism

Pseudomonas sp. ADAK22

env_broad_scale

boreal forest

env_local_scale

forest

NCBI submission package

MIGS.ba.soil.5.0

depth

10 cm

elev

193 m

num_replicons

1

geo_loc_name

USA: Alaska, Fairbanks

env_medium

soil

lat_lon

64.859 N 147.855 W

BioSampleModel

MIGS/MIMS/MIMARKS.soil

ENA-FIRST-PUBLIC

2020-04-24

ENA-LAST-UPDATE

2020-04-30

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX4378958" alias="LBUM920" center_name="SUB3776722" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX4378958</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB3776722">LBUM920</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Whole genome sequence of Pseudomonas sp. LBUM920</TITLE>
  <STUDY_REF accession="SRP153035">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP153035</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA433211</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>SMRT sequencing with P6-C4 reagents and protocols</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS3535348">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS3535348</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN08359156</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>LBUM920</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</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>SRS3535348</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA737675</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=SRX4378958&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=SRX4378958&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="SRX8214823" alias="ADAK22_long" center_name="SUB7326941" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX8214823</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB7326941">ADAK22_long</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>WGS of Pseudomonas sp.: bacterial isolate</TITLE>
  <STUDY_REF accession="SRP259340">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP259340</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA627971</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>DNA isolated with DNeasy UltraClean Microbial Kit, Oxford Nanopore VolTRAX V2 used to generate Rapid Library with sequencing completed on Oxford Nanopore MinION.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS6573939">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS6573939</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN14692986</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>ADAK22_long</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</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>SRS6573939</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1070723</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=SRX8214823&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=SRX8214823&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="SRX8214818" alias="ADAK22_short" center_name="SUB7326941" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX8214818</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB7326941">ADAK22_short</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>WGS of Pseudomonas sp.: bacterial isolate</TITLE>
  <STUDY_REF accession="SRP259340">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP259340</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA627971</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>DNA isolated with DNeasy UltraClean Microbial Kit, Nextera library for sequencing on an Illumina NextSeq 550.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS6573939">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS6573939</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN14692986</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>ADAK22_short</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>NextSeq 550</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS6573939</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1070723</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=SRX8214818&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=SRX8214818&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>