Keywords: GSC:MIxS;MIMAG:5.0

BioSample Accession(s)

SAMN28659272

collection_date

not available

experimental_factor

MELMC

metagenome_source

decomposition metagenome

organism

Ochrobactrum sp.

environmental_sample

true

env_broad_scale

ENVO:00002261

metagenomic

true

derived-from

This BioSample is a metagenomic assembly obtained from the decomposition metagenome BioSample: SAMN28657967, SAMN28657968, SAMN28657969

env_local_scale

ENVO:00002261

isolate

MAG4

NCBI submission package

MIMAG.5.0

geo_loc_name

Colombia:Gambita

env_medium

ENVO:00001998

lat_lon

5.931 N 73.304 W

isolation_source

decomposition metagenome

BioSampleModel

MIMAG

ENA-FIRST-PUBLIC

2022-06-08

ENA-LAST-UPDATE

2022-06-08

BioSample Accession(s)

SAMN28657967, SRS13173699

collection_date

not available

replicate

biological replicate 1

INSDC secondary accession

SRS13173699

NCBI submission package

Metagenome.environmental.1.0

organism

decomposition metagenome

host

not available

geo_loc_name

Colombia:Gambita

lat_lon

5.931 N 73.304 W

isolation_source

soil

BioSampleModel

Metagenome or environmental

ENA-FIRST-PUBLIC

2022-05-25

ENA-LAST-UPDATE

2022-05-25

BioSample Accession(s)

SAMN28657968, SRS13173700

collection_date

not available

replicate

biological replicate 2

INSDC secondary accession

SRS13173700

NCBI submission package

Metagenome.environmental.1.0

organism

decomposition metagenome

host

not available

geo_loc_name

Colombia:Gambita

lat_lon

5.931 N 73.304 W

isolation_source

soil

BioSampleModel

Metagenome or environmental

ENA-FIRST-PUBLIC

2022-05-25

ENA-LAST-UPDATE

2022-05-25

BioSample Accession(s)

SAMN28657969, SRS13173701

collection_date

not available

replicate

biological replicate 3

INSDC secondary accession

SRS13173701

NCBI submission package

Metagenome.environmental.1.0

organism

decomposition metagenome

host

not available

geo_loc_name

Colombia:Gambita

lat_lon

5.931 N 73.304 W

isolation_source

soil

BioSampleModel

Metagenome or environmental

ENA-FIRST-PUBLIC

2022-05-25

ENA-LAST-UPDATE

2022-05-25

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX15451693" alias="12D-PacB" center_name="SUB11527223" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX15451693</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB11527223">12D-PacB</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Metagenome Seq of MELMC</TITLE>
  <STUDY_REF accession="SRP377042">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP377042</PRIMARY_ID>
      <SUBMITTER_ID namespace="SUB11527223">bp0</SUBMITTER_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>A SMRTbell template library was prepared according to the instructions from PacificBiosciences, Menlo Park, CA, USA, following the Procedure &amp; Checklist  Preparing 10kb Library Using SMRTbell Express Template Prep Kit 2.0 for Metagenomics Shotgun Sequencing.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS13173700">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS13173700</PRIMARY_ID>
        <SUBMITTER_ID namespace="pda|boyke.bunk">MELMC-12D</SUBMITTER_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>12D-PacB</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>
    <PACBIO_SMRT>
      <INSTRUMENT_MODEL>Sequel II</INSTRUMENT_MODEL>
    </PACBIO_SMRT>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS13173700</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1426295</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=SRX15451693&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=SRX15451693&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX15451694" alias="13D-PacB" center_name="SUB11527223" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX15451694</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB11527223">13D-PacB</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Metagenome Seq of MELMC</TITLE>
  <STUDY_REF accession="SRP377042">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP377042</PRIMARY_ID>
      <SUBMITTER_ID namespace="SUB11527223">bp0</SUBMITTER_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>A SMRTbell template library was prepared according to the instructions from PacificBiosciences, Menlo Park, CA, USA, following the Procedure &amp; Checklist  Preparing 10kb Library Using SMRTbell Express Template Prep Kit 2.0 for Metagenomics Shotgun Sequencing.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS13173701">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS13173701</PRIMARY_ID>
        <SUBMITTER_ID namespace="pda|boyke.bunk">MELMC-13D</SUBMITTER_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>13D-PacB</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>
    <PACBIO_SMRT>
      <INSTRUMENT_MODEL>Sequel II</INSTRUMENT_MODEL>
    </PACBIO_SMRT>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS13173701</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1426295</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=SRX15451694&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=SRX15451694&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX15451692" alias="11D-PacB" center_name="SUB11527223" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX15451692</PRIMARY_ID>
    <SUBMITTER_ID namespace="SUB11527223">11D-PacB</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Metagenome Seq of MELMC</TITLE>
  <STUDY_REF accession="SRP377042">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP377042</PRIMARY_ID>
      <SUBMITTER_ID namespace="SUB11527223">bp0</SUBMITTER_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>A SMRTbell template library was prepared according to the instructions from PacificBiosciences, Menlo Park, CA, USA, following the Procedure &amp; Checklist  Preparing 10kb Library Using SMRTbell Express Template Prep Kit 2.0 for Metagenomics Shotgun Sequencing.</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS13173699">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS13173699</PRIMARY_ID>
        <SUBMITTER_ID namespace="pda|boyke.bunk">MELMC-11D</SUBMITTER_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>11D-PacB</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>
    <PACBIO_SMRT>
      <INSTRUMENT_MODEL>Sequel II</INSTRUMENT_MODEL>
    </PACBIO_SMRT>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS13173699</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA1426295</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=SRX15451692&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=SRX15451692&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>