Alistipes putredinis (GenBank Accession Number for 16S rDNA gene: L16497) is a member of the Bacteroidetes division of the domain bacteria and has been isolated from human feces. It has been found in 16S rDNA sequence-based enumerations of the colonic microbiota of adult humans (Eckburg et. al. (2005), Ley et. al. (2006)). Keywords: GSC:MIxS;MIGS:6.0

BioSample Accession(s)

BIN 2, SAMN00000002, SRS000002

finishing strategy (depth of coverage)

Level 3: Improved-High-Quality Draft11.6x;20

collection_date

not determined

estimated_size

2550000

sop

http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf

project_type

Reference Genome

host

Homo sapiens

lat_lon

not determined

env_broad_scale

terrestrial biome [ENVO:00000446]

misc_param: HMP body site

not determined

nucleic acid extraction

not determined

env_local_scale

human-associated habitat [ENVO:00009003]

investigation_type

missing

host_taxid

9606

project_name

Alistipes putredinis DSM 17216

assembly

PCAP

geo_loc_name

not determined

source_material_id

DSM 17216, CCUG 45780, CIP 104286, ATCC 29800, Carlier 10203, VPI 3293

env_medium

biological product [ENVO:02000043]

ref_biomaterial

not determined

misc_param: HMP supersite

gastrointestinal_tract

num_replicons

not determined

sequencing method

454-GS20, Sanger

isol_growth_condt

not determined

env_package

missing

strain

DSM 17216

isolation_source

missing

type-material

type strain of Bacteroides putredinis

ncbi_package

MIGS.ba.6.0

Metadata as EBI XML

<EXPERIMENT_SET>
<EXPERIMENT accession="SRX000008" alias="1970218804" center_name="WUGSC" broker_name="NCBI">
  <IDENTIFIERS>
    <PRIMARY_ID>SRX000008</PRIMARY_ID>
    <SUBMITTER_ID namespace="WUGSC">1970218804</SUBMITTER_ID>
  </IDENTIFIERS>
  <TITLE>454 sequencing of Alistipes putredinis DSM 17216 genomic fragment library</TITLE>
  <STUDY_REF accession="SRP000002" refname="1970209096">
    <IDENTIFIERS>
      <PRIMARY_ID>SRP000002</PRIMARY_ID>
      <SUBMITTER_ID namespace="WUGSC">1970209096</SUBMITTER_ID>
    </IDENTIFIERS>
  </STUDY_REF>
  <DESIGN>
    <DESIGN_DESCRIPTION>           none provided         </DESIGN_DESCRIPTION>
    <SAMPLE_DESCRIPTOR accession="SRS000002" refname="Alistipes putredinis DSM 17216">
      <IDENTIFIERS>
        <PRIMARY_ID>SRS000002</PRIMARY_ID>
        <SUBMITTER_ID namespace="WUGSC">Alistipes putredinis DSM 17216</SUBMITTER_ID>
      </IDENTIFIERS>
    </SAMPLE_DESCRIPTOR>
    <LIBRARY_DESCRIPTOR>
      <LIBRARY_NAME>1970218804</LIBRARY_NAME>
      <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
      <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
      <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
      <LIBRARY_LAYOUT>
        <SINGLE/>
      </LIBRARY_LAYOUT>
    </LIBRARY_DESCRIPTOR>
    <SPOT_DESCRIPTOR>
      <SPOT_DECODE_SPEC>
        <READ_SPEC>
          <READ_INDEX>0</READ_INDEX>
          <READ_CLASS>Technical Read</READ_CLASS>
          <READ_TYPE>Adapter</READ_TYPE>
          <BASE_COORD>1</BASE_COORD>
        </READ_SPEC>
        <READ_SPEC>
          <READ_INDEX>1</READ_INDEX>
          <READ_CLASS>Application Read</READ_CLASS>
          <READ_TYPE>Forward</READ_TYPE>
          <BASE_COORD>5</BASE_COORD>
        </READ_SPEC>
      </SPOT_DECODE_SPEC>
    </SPOT_DESCRIPTOR>
  </DESIGN>
  <PLATFORM>
    <LS454>
      <INSTRUMENT_MODEL>454 GS FLX</INSTRUMENT_MODEL>
    </LS454>
  </PLATFORM>
  <PROCESSING/>
  <EXPERIMENT_LINKS>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SAMPLE</DB>
        <ID>SRS000002</ID>
      </XREF_LINK>
    </EXPERIMENT_LINK>
    <EXPERIMENT_LINK>
      <XREF_LINK>
        <DB>ENA-SUBMISSION</DB>
        <ID>SRA000126</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=SRX000008&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=SRX000008&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>submission_id</TAG>
      <VALUE>SRA000126</VALUE>
    </EXPERIMENT_ATTRIBUTE>
    <EXPERIMENT_ATTRIBUTE>
      <TAG>ENA-STATUS</TAG>
      <VALUE>PUBLIC</VALUE>
    </EXPERIMENT_ATTRIBUTE>
  </EXPERIMENT_ATTRIBUTES>
</EXPERIMENT>
</EXPERIMENT_SET>