Pig (Sus scrofa)

Assembly

This is the first release of the high-coverage Sscrofa9 (April 2009) assembly for chromosomes 1 to 18 and X of the pig genome, Sus scrofa. Using the integrated highly contiguous physical map of the pig genome (Humphray et al, Genome Biology 2007,8:R139) as a template for sequencing, the International Swine Genome Sequencing Consortium has secured first phase funding from the USDA to achieve a draft 4x sequence depth across the genome through a minimal tilepath BAC by BAC approach. The map is localised to the genome through the integration of the UIUC RH markers, the tilepath is being selected from the CH-242 library generated from a single Duroc sow.

Annotation

The Pig Sscrofa9 was annotated using a standard Ensembl mammalian pipeline. Predictions from vertebrates as well as pig proteins have been used to create the gene set, along with human 1:1 orthologs aligned to the pig genome using Exonerate. Pig cDNAs have been used to add UTRs to pig protein based predictions, and pig ESTs were used to add UTR to predictions made from non-pig proteins.