Dilution to extinction isolation

BioSample Accession(s)

SAMN05296534, SRS2095014

altitude

406 m

collection_date

2013-07-15

INSDC secondary accession

SRS2095014

organism

Candidatus Planktophila limnetica

collected_by

Michaela M. Salcher

sample_type

cell culture

isolate

MMS-VB-114

NCBI submission package

Microbe.1.0

geo_loc_name

Switzerland: Lake Zurich

env_biome

Freshwater

lat_lon

47.31 N 8.58 E

biomaterial_provider

Michaela M. Salcher, University of Zurich, Switzerland

isolation_source

Switzerland: Lake Zurich, 5 m depth

sample_name

Candidatus Planktophila limnetica MMS-VB-114

BioSampleModel

Microbe, viral or environmental

ENA-FIRST-PUBLIC

2017-04-20

ENA-LAST-UPDATE

2021-02-28

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX2701047" alias="MMS-VB-114" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX2701047</PRIMARY_ID>
    <SUBMITTER_ID namespace="Department of Plant and Microbial Biology, Univers">MMS-VB-114</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>Candidatus Planktophila limnetica MMS-VB-114</TITLE>
  <STUDY_REF accession="SRP102925">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP102925</PRIMARY_ID>
      <EXTERNAL_ID namespace="BioProject">PRJNA327031</EXTERNAL_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>TruSeq PCR-free v2, 500 cycles</DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS2095014">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS2095014</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioSample">SAMN05296534</EXTERNAL_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>MMS-VB-114</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGA</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>MDA</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <PAIRED NOMINAL_LENGTH="550" NOMINAL_SDEV="0.0E0"/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
    <SPOT_DESCRIPTOR>
      <SPOT_DECODE_SPEC>
        <SPOT_LENGTH>502</SPOT_LENGTH>
        <READ_SPEC>
          <READ_INDEX>0</READ_INDEX>
          <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_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 MiSeq</INSTRUMENT_MODEL>
    </ILLUMINA>
  </PLATFORM>
  <PROCESSING>
    <PIPELINE>
      <PIPE_SECTION>
        <STEP_INDEX/>
        <PREV_STEP_INDEX/>
        <PROGRAM>SPAdes</PROGRAM>
        <VERSION>3.7.0</VERSION>
      </PIPE_SECTION>
    </PIPELINE>
  </PROCESSING>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS2095014</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA550927</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=SRX2701047&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=SRX2701047&result=read_run&fields=run_accession,submitted_ftp,submitted_md5,submitted_bytes,submitted_format]]></ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
  </EXPERIMENT_LINKS>
</EXPERIMENT>
</EXPERIMENT_SET>