BioSample Accession(s)

SAMEA6946395, ERS4656278

geographic location (depth)

6.5

assembly software

megahit

environment (material)

sediment

collection date

2018-08-22

sample derived from

ERS4600347

geographic location (longitude)

25.11388888888889

metagenomic OTU

anoxic_mOTU_0151

binning parameters

min_len:1500,min_bin_size:10000,maxP:93,minS:50

contamination score

0.1

gtdb_taxonomy

d__Bacteria;p__Omnitrophota;c__Omnitrophia;o__Omnitrophales;f__UBA2337

water environmental package

water

sample owner

"Sari Peura

ENA-FIRST-PUBLIC

2020-06-15

ENA-LAST-UPDATE

2020-06-18

completeness software

checkm

collection data

metagenome

environment (biome)

lentic water body

environment (feature)

lake

geographic location (country and/or sea)

Finland

ENA-CHECKLIST

ERC000047

binning software

metabat

organism

Candidatus Omnitrophica bacterium

assembly quality

Many fragments with little to no review of assembly other than reporting of standard assembly statistics

taxonomic identity marker

gtdbtk followed by sourmash-lca, see publication

completeness score

91.4

geographic location (latitude)

61.20805555555556

scientific_name

Candidatus Omnitrophica bacterium

common name

investigation type

metagenome

metagenomic source

freshwater sediment metagenome

project name

microbes in stratified freshwaters

sequencing method

NovaSeq

region

Evo

isolation_source

freshwater sediment

site name

Alinen Mustajärvi

BioSample Accession(s)

ERS4600347, SAMEA6872783

geographic location (depth)

6.5

ENA-CHECKLIST

ERC000024

environment (material)

sediment

organism

freshwater sediment metagenome

collection date

2018-08-22

geographic location (longitude)

25.11388888888889

Run

R2

geographic location (latitude)

61.20805555555556

scientific_name

freshwater sediment metagenome

common name

investigation type

metagenome

water environmental package

water

sample owner

"Sari Peura

ENA-FIRST-PUBLIC

2020-06-15

project name

microbes in stratified freshwaters

sequencing method

NovaSeq

ENA-LAST-UPDATE

2020-06-18

collection data

metagenome

environment (biome)

lentic water body

region

Evo

Lake_code

AM

environment (feature)

lake

geographic location (country and/or sea)

Finland

site name

Alinen Mustajärvi

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="ERX4154706" alias="webin-reads-microbes_in_stratified_freshwaters_-_lake_Alinen_Mustaj&#xE4;rvi_sample_AM-sed-core1-D1" center_name="Department of Aquatic Sciences and Assessment">
  <IDENTIFIERS>
    <PRIMARY_ID>ERX4154706</PRIMARY_ID>
    <SUBMITTER_ID namespace="Department of Aquatic Sciences and Assessment">webin-reads-microbes_in_stratified_freshwaters_-_lake_Alinen_Mustaj&#xE4;rvi_sample_AM-sed-core1-D1</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Raw reads: microbes_in_stratified_freshwaters_-_lake_Alinen_Mustaj&#xE4;rvi_sample_AM-sed-core1-D1</TITLE>
  <STUDY_REF accession="ERP122124">
    <IDENTIFIERS>
      <PRIMARY_ID>ERP122124</PRIMARY_ID>
      <SECONDARY_ID>PRJEB38681</SECONDARY_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>unspecified</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="ERS4600347">
      <IDENTIFIERS>
        <PRIMARY_ID>ERS4600347</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMEA6872783</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>lake Alinen Mustaj&#xE4;rvi sample AM-sed-core1-D1</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</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>ERS4600347</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>ERA2667820</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=ERX4154706&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=ERX4154706&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>