<?xml version="1.0" encoding="UTF-8"?>
<EXPERIMENT_SET xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <EXPERIMENT alias="CFSAN001921_01" center_name="CFSAN" accession="SRX314711">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX314711</PRIMARY_ID>
      <SUBMITTER_ID namespace="CFSAN">CFSAN001921_01</SUBMITTER_ID>
    </IDENTIFIERS>
    <TITLE>Whole genome shotgun sequencing of Salmonella enterica subsp. enterica serovar Typhimurium var. 5- str. CFSAN001921 by Pacific Biosciences SMRT</TITLE>
    <STUDY_REF accession="SRP026274">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP026274</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioProject">PRJNA184140</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>SMRT deep shotgun sequencing of cultured isolate</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS452291">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS452291</PRIMARY_ID>
          <EXTERNAL_ID namespace="BioSample">SAMN01832087</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Salmonella enterica str. CFSAN001921_01 10kb SMRTbell library.</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <SINGLE/>
        </LIBRARY_LAYOUT>
        <LIBRARY_CONSTRUCTION_PROTOCOL>PacBio RS 10kb SMRTbell library protocol (DOI: 10.1093/nar/gkq543)</LIBRARY_CONSTRUCTION_PROTOCOL>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>0</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>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <PACBIO_SMRT>
        <INSTRUMENT_MODEL>PacBio RS</INSTRUMENT_MODEL>
      </PACBIO_SMRT>
    </PLATFORM>
    <PROCESSING>
      <PIPELINE>
        <PIPE_SECTION section_name="base caller">
          <STEP_INDEX>0</STEP_INDEX>
          <PREV_STEP_INDEX>NULL</PREV_STEP_INDEX>
          <PROGRAM>PacBio SMRT Analysis</PROGRAM>
          <VERSION>1.4.0</VERSION>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
  </EXPERIMENT>
</EXPERIMENT_SET>
