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United States Department of Agriculture

Agricultural Research Service

Title: Swine Genome Sequencing Consortium (Sgsc): a Strategic Roadmap for Sequencing the Pig Genome

Authors
item Schook, Lawrence - UNIV ILLINOIS, URBANA
item Beever, Jonathan - UNIV ILLINOIS, URBANA
item Rogers, Jane - WELLCOME TRUST SANGER CEN
item Humphray, Sean - WELLCOME TRUST SANGER CEN
item Archibald, Alan - ROSLIN INSTITUTE
item Chardon, Patrick - ROSLIN INSTITUTE
item Milan, Denis - INRA-TOULOUSE
item Rohrer, Gary
item Eversole, Kellye - ALLIANCE ANIM. GENOMICS

Submitted to: Comparative and Functional Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: March 18, 2005
Publication Date: June 1, 2005
Citation: Schook, L.B., Beever, J.E., Rogers, J., Humphray, S., Archibald, A., Chardon, P., Milan, D., Rohrer, G.A., Eversole, K. 2005. Swine Genome Sequencing Consortium (SGSC): A strategic roadmap for sequencing the pig genome. Comparative and Functional Genomics. 6:251-255.

Interpretive Summary: A group of scientists formed the Swine Genome Sequencing Consortium in September 2003. The mission of the consortium is to advance swine genetic research by developing publicly available DNA-based tools that are free to all users. During the last two years the consortium has developed a physical map and a high resolution comparative map of the pig's genome. These resources are extremely valuable to scientists conducting pig genomic research and are the backbone of the efficient strategy developed by the consortium to sequence the pig's genome. The proposed strategy will utilize the maps developed as well as other efficient high-throughput sequencing techniques developed while sequencing the human genome.

Technical Abstract: The Swine Genome Sequencing Consortium (SGSC) was formed in September 2003 by academic, government and industry representatives to provide international coordination for sequencing the pig genome. The SGSC's mission is to advance biomedical research for animal production and health by the development of DNA based tools and products resulting from the sequencing of the swine genome that will be available to all parties at no cost. During the past 2 years, the SGSC has met biannually to develop a strategic roadmap for creating the required scientific resources, to integrate existing physical maps, and to create a sequencing strategy that captured international participation and a broad funding base. During the past year, SGSC members have integrated their respective physical mapping data with the goal of creating a minimal tiling path (MTP) that will be used as the sequencing template. During the recent Plant and Animal Genome meeting, presentations demonstrated that a human-pig comparative map has been completed, BAC fingerprint contigs (FPC) for each of the autosomes and X chromosomes have been constructed and that BAC end-sequencing has permitted, through BLAST analysis and RH-mapping, anchoring of the contigs. Thus, significant progress has been made towards the creation of a MTP. In addition, whole-genome (WG) shotgun libraries have been constructed are currently being sequenced in various laboratories around the globe. Thus, a hybrid sequencing approach in which 3x coverage of BACs comprising the MTP and 3x of the WG-shotgun libraries will be used to develop a draft 6x coverage of the pig genome.

Last Modified: 10/21/2014