BioSample Accession(s)

SAMEA6947939, ERS4657820

geographic location (depth)

5

assembly software

megahit

sulfate

0.771

sample derived from

ERS4600562

geographic location (longitude)

18.799750000000003

gtdb_taxonomy

d__Bacteria;p__Omnitrophota;c__koll11;o__UBA10015;f__GCA-002753745;g__GCA-2753465

ENA-FIRST-PUBLIC

2020-06-15

ENA-LAST-UPDATE

2020-06-18

completeness software

checkm

oxygen

-0.1

binning software

metabat

organism

Candidatus Omnitrophica bacterium

scientific_name

Candidatus Omnitrophica bacterium

investigation type

metagenome

swedish lake code

711940-164576

nitrite

0

metagenomic source

lake water metagenome

project name

microbes in stratified freshwaters

sequencing method

NovaSeq

methane

6.878594337

region

Umeå

total dissolved nitrogen

450

environment (material)

water

ferric iron

25.98711753

collection date

2018-09-07

ferrous iron

4.974547353

ammonium

9.97838017628472

metagenomic OTU

anoxic_mOTU_0259

binning parameters

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

contamination score

2.75

nitrate

0.645110305798413

water environmental package

water

sample owner

Gaetan Martin

temperature

5.3

collection data

metagenome

environment (biome)

lentic water body

environment (feature)

lake

geographic location (country and/or sea)

Sweden

ENA-CHECKLIST

ERC000047

assembly quality

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

phosphate

0.021058971437717

taxonomic identity marker

gtdbtk followed by sourmash-lca, see publication

completeness score

92.59

dissolved carbon dioxide

497.3069949

geographic location (latitude)

64.1503888888889

common name

ph

6.19

iron

30.96166488

dissolved organic carbon

814.273939070995

isolation_source

lake water

site name

Nästjärnen

BioSample Accession(s)

ERS4600562, SAMEA6872998

geographic location (depth)

5

environment (material)

water

sulfate

0.771

ferric iron

25.98711753

collection date

2018-09-07

ferrous iron

4.974547353

ammonium

9.97838017628472

geographic location (longitude)

18.799750000000003

nitrate

0.645110305798413

water environmental package

water

sample owner

Gaetan Martin

ENA-FIRST-PUBLIC

2020-06-15

ENA-LAST-UPDATE

2020-06-18

pH

6.19

temperature

5.3

collection data

metagenome

environment (biome)

lentic water body

Lake_code

Umea1

oxygen

-0.1

environment (feature)

lake

geographic location (country and/or sea)

Sweden

ENA-CHECKLIST

ERC000024

organism

lake water metagenome

phosphate

0.021058971437717

Run

R3

dissolved carbon dioxide

497.3069949

geographic location (latitude)

64.1503888888889

scientific_name

lake water metagenome

common name

investigation type

metagenome

swedish lake code

711940-164576

nitrite

0

project name

microbes in stratified freshwaters

sequencing method

NovaSeq

methane

6.878594337

iron

30.96166488

region

Umeå

total dissolved nitrogen

450

dissolved organic carbon

814.273939070995

site name

Nästjärnen

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="ERX4156111" alias="webin-reads-microbes_in_stratified_freshwaters_-_lake_N&#xE4;stj&#xE4;rnen_(711940-164576)_sample_Umea1p4" center_name="Department of Aquatic Sciences and Assessment">
  <IDENTIFIERS>
    <PRIMARY_ID>ERX4156111</PRIMARY_ID>
    <SUBMITTER_ID namespace="Department of Aquatic Sciences and Assessment">webin-reads-microbes_in_stratified_freshwaters_-_lake_N&#xE4;stj&#xE4;rnen_(711940-164576)_sample_Umea1p4</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Raw reads: microbes_in_stratified_freshwaters_-_lake_N&#xE4;stj&#xE4;rnen_(711940-164576)_sample_Umea1p4</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="ERS4600562">
      <IDENTIFIERS>
        <PRIMARY_ID>ERS4600562</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMEA6872998</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>lake N&#xE4;stj&#xE4;rnen (711940-164576) sample Umea1p4</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>ERS4600562</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>ERA2668181</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=ERX4156111&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=ERX4156111&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>