Pig genome sequence - analysis and publication strategy
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Pig genome sequence - analysis and publication strategy. / Archibald, Alan L.; Bolund, Lars; Churcher, Carol; Fredholm, Merete; Groenen, Martien A.M.; Harlizius, Barbara; Lee, Kyung-Tai; Milan, Denis; Rogers, Jane; Rothschild, Max F.; Uenishi, Hirohide; Wang, Jun; Schook, Lawrence B.
In: BMC Genomics, Vol. 11, No. 438, 2010.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Pig genome sequence - analysis and publication strategy
AU - Archibald, Alan L.
AU - Bolund, Lars
AU - Churcher, Carol
AU - Fredholm, Merete
AU - Groenen, Martien A.M.
AU - Harlizius, Barbara
AU - Lee, Kyung-Tai
AU - Milan, Denis
AU - Rogers, Jane
AU - Rothschild, Max F.
AU - Uenishi, Hirohide
AU - Wang, Jun
AU - Schook, Lawrence B.
N1 - Keywords: Animals; Genome; Publications; Sequence Analysis, DNA; Sus scrofa
PY - 2010
Y1 - 2010
N2 - 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.
AB - 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.
U2 - 10.1186/1471-2164-11-438
DO - 10.1186/1471-2164-11-438
M3 - Journal article
C2 - 20642822
VL - 11
JO - BMC Genomics
JF - BMC Genomics
SN - 1471-2164
IS - 438
ER -
ID: 22567973