Pig genome sequence--analysis and publication strategy.
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.
Archibald
Alan L
AL
Bolund
Lars
L
Churcher
Carol
C
Fredholm
Merete
M
Groenen
Martien A M
MA
Harlizius
Barbara
B
Lee
Kyung-Tai
KT
Milan
Denis
D
Rogers
Jane
J
Rothschild
Max F
MF
Uenishi
Hirohide
H
Wang
Jun
J
Schook
Lawrence B
LB
D000818:Animals; D016678:Genome; D011642:Publications; D017422:Sequence Analysis, DNA; D034421:Sus scrofa / Q000235:genetics*