This sample represents a MAG derived from the metagenomic sample ERR12658427

ENA-CHECKLIST

ERC000047

assembly software

MEGAHIT; 1.2.9; default parameters

binning software

MaxBin (biotools:maxbin), Concoct, MetaBAT2, DAS Tool

organism

Mesorhizobium sp.

broad-scale environmental context

mangrove biome soil

assembly quality

Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

collection date

2021-06

sample derived from

ERS18220289

geographic location (longitude)

-75,59169

taxonomic identity marker

multi-marker approach

binning parameters

default parameters

completeness score

99.55

contamination score

0.55

environmental medium

estuarine mud

geographic location (latitude)

10,26366

scientific_name

Mesorhizobium sp.

local environmental context

hotel

metagenomic source

mangrove metagenome

project name

Hunting polymers-transforming microbes from mangrove soils

completeness software

CheckM

geographic location (country and/or sea)

Colombia

isolation_source

mangrove soil microbiome under the presence of seawater collected from Baru Island (Colombia)

Sample eigth from the fourth transfer of the microbial consortium originating from the microcosm containing mangrove soil with seawater, and endured for three months in the presence of PET

elevation

2

ENA-CHECKLIST

ERC000022

organism

mangrove metagenome

broad-scale environmental context

mangrove biome soil

collection date

2021-06

perturbation

PET as the sole carbon source for 27 days

geographic location (longitude)

-75,59169

environmental medium

estuarine mud

geographic location (latitude)

10,26366

scientific_name

mangrove metagenome

local environmental context

hotel

depth

0,1

project name

Hunting polymers-transforming microbes from mangrove soils

temperature

40

geographic location (country and/or sea)

Colombia

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="ERX12027799" alias="MPSW-LT-CT6R8-16S" center_name="Computational Biology and Microbial Ecology">
  <IDENTIFIERS>
    <PRIMARY_ID>ERX12027799</PRIMARY_ID>
    <SUBMITTER_ID namespace="Computational Biology and Microbial Ecology">MPSW-LT-CT6R8-16S</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Illumina MiSeq paired end sequencing</TITLE>
  <STUDY_REF accession="ERP157245">
    <IDENTIFIERS>
      <PRIMARY_ID>ERP157245</PRIMARY_ID>
      <SECONDARY_ID>PRJEB72453</SECONDARY_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION/>
    <SAMPLE_DESCRIPTOR accession="ERS18220289">
      <IDENTIFIERS>
        <PRIMARY_ID>ERS18220289</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMEA115283886</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>16S Metagenomic Sequencing Library Preparation</LIBRARY_NAME>
      <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>unspecified</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina MiSeq</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>ERS18220289</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>ERA28754597</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=ERX12027799&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=ERX12027799&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>NAME</TAG>
      <VALUE>MPSW-LT-CT6R8-16S</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="ERX12032719" alias="MPSW-LT-CT6R8-Shotgun" center_name="Computational Biology and Microbial Ecology">
  <IDENTIFIERS>
    <PRIMARY_ID>ERX12032719</PRIMARY_ID>
    <SUBMITTER_ID namespace="Computational Biology and Microbial Ecology">MPSW-LT-CT6R8-Shotgun</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Illumina NovaSeq 6000 paired end sequencing</TITLE>
  <STUDY_REF accession="ERP157245">
    <IDENTIFIERS>
      <PRIMARY_ID>ERP157245</PRIMARY_ID>
      <SECONDARY_ID>PRJEB72453</SECONDARY_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION/>
    <SAMPLE_DESCRIPTOR accession="ERS18220289">
      <IDENTIFIERS>
        <PRIMARY_ID>ERS18220289</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMEA115283886</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>TruSeq Nano DNA</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>unspecified</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina NovaSeq 6000</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>ERS18220289</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>ERA28791266</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=ERX12032719&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=ERX12032719&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>NAME</TAG>
      <VALUE>MPSW-LT-CT6R8-Shotgun</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>