"This sample (TARA_N000003081) was collected during the Tara Oceans expedition (2009-2013) at station TARA_142 (latitudeN=25.5264, longitudeE=-88.394) on date/time=2012-01-09T13:41, using a PUMP (High Volume Peristaltic Pump). The sample material (particulate matter, including plankton (ENVO:xxxxxxxx)) was collected at a depth of 3-7 m, targeting a surface water layer (ENVO:00002042) in the marine biome (ENVO:00000447). The sample was size-fractionated (0.8-> micrometres), and stored in liquid nitrogen for later detection of unicellular eukaryote (protist) nucleic acid sequences by pyrosequencing methods, and for later metagenomics/transcriptomics analysis. This sample has replicate sample(s): TARA_N000003082."

BioSample Accession(s)

SAMEA2623477, ERS493952

Further Details

tbd

Nitrate Sensor

-2.2118

Environment (Feature)

surface water layer (ENVO:00002042)

Temperature

24.96555

Chlorophyll Sensor

0.163338

Depth

5

ENA-FIRST-PUBLIC

2016-11-03

Sample Status

This version can be used to provide data discovery services

Size Fraction Lower Threshold

0.8

ENA-LAST-UPDATE

2015-11-04

Citation

tbd

ENA-CHECKLIST

ERC000030

Sample Collection Device

PUMP (High Volume Peristaltic Pump)

organism

marine metagenome

Latitude End

25.5416

Event Label

TARA_20120109T1341Z_142_EVENT_PUMP

scientific_name

marine metagenome

Latitude Start

25.5264

Sampling Platform

SV Tara

Sampling Station

TARA_142

Longitude Start

-88.394

Last Update Date

2014-05-01Z

Marine Region

"(search radius=5 degrees) Marine Province:Warm Temperate Northwest Atlantic (MRGID:21751), Marine Ecoregion:Southern Gulf of Mexico (MRGID:21983), Marine Ecoregion:Northern Gulf of Mexico (MRGID:22002)"

Project Name

Tara Oceans expedition (2009-2013)

Environment (Biome)

marine biome (ENVO:00000447)

Protocol Label

PROT_NUC-RNA(100L)_W0.8->

Size Fraction Upper Threshold

>

Environment (Material)

"particulate matter, including plankton (ENVO:xxxxxxxx)"

Event Date/Time End

2012-01-09T14:05

Sampling Campaign

TARA_20111230Z

Oxygen Sensor

194.2675

Longitude End

88.4044

Salinity Sensor

36.193733

Environmental Package

water

Event Date/Time Start

2012-01-09T13:41

Metadata as EBI XML

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Metadata as EBI XML

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Metadata as EBI XML

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Metadata as EBI XML

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Metadata as EBI XML

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Metadata as EBI XML

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      </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=ERX1940389&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>
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      </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="ERX4188288" alias="exp_BZM_AAWDOSTA_2_HV57HBCXY.12BA113" center_name="Genoscope">
  <IDENTIFIERS>
    <PRIMARY_ID>ERX4188288</PRIMARY_ID>
    <SUBMITTER_ID namespace="Genoscope">exp_BZM_AAWDOSTA_2_HV57HBCXY.12BA113</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>marine metagenome_Illumina_TA</TITLE>
  <STUDY_REF accession="ERP006157">
    <IDENTIFIERS>
      <PRIMARY_ID>ERP006157</PRIMARY_ID>
      <SECONDARY_ID>PRJEB6610</SECONDARY_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION/>
    <SAMPLE_DESCRIPTOR accession="ERS493952">
      <IDENTIFIERS>
        <PRIMARY_ID>ERS493952</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMEA2623477</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>BZM_AAWD_TA</LIBRARY_NAME>
      <LIBRARY_STRATEGY>AMPLICON</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>METAGENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED NOMINAL_LENGTH="459"/>
      </LIBRARY_LAYOUT>
      <LIBRARY_CONSTRUCTION_PROTOCOL>Library preparations from V4-18S rDNA amplicons</LIBRARY_CONSTRUCTION_PROTOCOL>
    </LIBRARY_DESCRIPTOR>
    <SPOT_DESCRIPTOR>
      <SPOT_DECODE_SPEC>
        <SPOT_LENGTH>514</SPOT_LENGTH>
        <READ_SPEC>
          <READ_INDEX>0</READ_INDEX>
          <READ_LABEL>F</READ_LABEL>
          <READ_CLASS>Application Read</READ_CLASS>
          <READ_TYPE>Forward</READ_TYPE>
          <BASE_COORD>1</BASE_COORD>
        </READ_SPEC>
        <READ_SPEC>
          <READ_INDEX>1</READ_INDEX>
          <READ_LABEL>R</READ_LABEL>
          <READ_CLASS>Application Read</READ_CLASS>
          <READ_TYPE>Reverse</READ_TYPE>
          <BASE_COORD>252</BASE_COORD>
        </READ_SPEC>
      </SPOT_DECODE_SPEC>
    </SPOT_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <ILLUMINA>
      <INSTRUMENT_MODEL>Illumina HiSeq 2500</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>ERS493952</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>ERA2689464</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=ERX4188288&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=ERX4188288&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>