Pig genome sequence - analysis and publication strategy

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  • Pig...

    Final published version, 245 KB, PDF document

  • Alan L. Archibald
  • Lars Bolund
  • Carol Churcher
  • Fredholm, Merete
  • Martien A.M. Groenen
  • Barbara Harlizius
  • Kyung-Tai Lee
  • Denis Milan
  • Jane Rogers
  • Max F. Rothschild
  • Hirohide Uenishi
  • Jun Wang
  • Lawrence B. Schook
BACKGROUND: The pig genome is being sequenced and characterised under the auspices of the Swine Genome Sequencing Consortium. The sequencing strategy followed a hybrid approach combining hierarchical shotgun sequencing of BAC clones and whole genome shotgun sequencing. RESULTS: Assemblies of the BAC clone derived genome sequence have been annotated using the Pre-Ensembl and Ensembl automated pipelines and made accessible through the Pre-Ensembl/Ensembl browsers. The current annotated genome assembly (Sscrofa9) was released with Ensembl 56 in September 2009. A revised assembly (Sscrofa10) is under construction and will incorporate whole genome shotgun sequence (WGS) data providing > 30x genome coverage. The WGS sequence, most of which comprise short Illumina/Solexa reads, were generated from DNA from the same single Duroc sow as the source of the BAC library from which clones were preferentially selected for sequencing. In accordance with the Bermuda and Fort Lauderdale agreements and the more recent Toronto Statement the data have been released into public sequence repositories (Genbank/EMBL, NCBI/Ensembl trace repositories) in a timely manner and in advance of publication. CONCLUSIONS: In this marker paper, the Swine Genome Sequencing Consortium (SGSC) sets outs its plans for analysis of the pig genome sequence, for the application and publication of the results.
Original languageEnglish
JournalBMC Genomics
Volume11
Issue number438
Number of pages5
ISSN1471-2164
DOIs
Publication statusPublished - 2010

Bibliographical note

Keywords: Animals; Genome; Publications; Sequence Analysis, DNA; Sus scrofa

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