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United States Department of Agriculture

Agricultural Research Service

Title: Sequencing the Pig Genome Using a Mapped BAC by BAC Approach

Authors
item Humphray, Sean - WELCOME TRUST CAMBRIDGE
item Scott, Carol - WELCOME TRUST CAMBRIDGE
item Clark, Richard - WELCOME TRUST CAMBRIDGE
item Marron, Brandy - UNIV IL, URBANA
item Plumb, Robert - WELLCOME TRUST CAMBRIDGE
item Bender, Clare - WELLCOME TRUST CAMBRIDGE
item Camm, Nick - WELLCOME TRUST CAMBRIDGE
item Davis, Jayne - WELLCOME TRUST CAMBRIDGE
item Jenks, Andrew - WELLCOME TRUST CAMBRIDGE
item Noon, Angela - WELLCOME TRUST CAMBRIDGE
item Patel, Manish - WELLCOME TRUST CAMBRIDGE
item Sehra, Harminder - WELLCOME TRUST CAMBRIDGE
item Rogatcheva, Margarita - WELLCOME TRUST CAMBRIDGE
item Milan, Denis - INRA, FRANCE
item Chardon, Patrick - INRA, FRANCE
item Rohrer, Gary
item Nonneman, Danny
item DE Jong, Pieter - CHILDREN'S HOSP, OAKLAND
item Meyers, Stacey - UNIV IL, URBANA
item Archibald, Alan - ROSLIN INST, UK
item Beever, Jonathon - UNIV IL,URBANA
item Schook, Lawrence - UNIV IL, URBANA
item Rogers, Jayne - WELLCOME TRUST CAMBRIDGE

Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: November 30, 2006
Publication Date: January 2, 2007
Repository URL: http:////64.241.182.116/
Citation: Humphray, S.J., Scott, C., Clark, R., Marron, B., Plumb, R., Bender, C., Camm, N., Davis, J., Jenks, A., Noon, A., Patel, M., Sehra, H., Rogatcheva, M., Milan, D., Chardon, P., Rohrer, G.A., Nonneman, D.J., De Jong, P., Meyers, S., Archibald, A., Beever, J., Schook, L., Rogers, J. 2007. Sequencing the pig genome using a mapped BAC by BAC approach. Plant and Animal Genome Conference Proceedings. Abstract P34, p. 110.

Technical Abstract: We have generated a highly contiguous physical map covering >98% of the pig genome in just 176 contigs. The map is localised to the genome through integration with the UIUC RH map as well BAC end sequence alignments to the human genome. Over 265k HindIII restriction digest fingerprints totalling 16.2 genome equivalents form the basis of the map assembly. Most of the map coverage is from the CH-242 library generated from a single Duroc sow. Mapped clones have also been used to generate over 620k BAC end sequences with an average read length of 635bp. The map represents an entry point for rapid electronic positional cloning of genes and fine mapping of QTLs. We are using the map as a basis for sequencing the pig genome by detecting the most economic set of minimally overlapping CH-242 BACs. Sequence clones are identified in a series of iterative sets using first mapped data and BES alignment to human with bridging clones subsequently selected on the basis of the map and BES alignments to pig sequence clones. A Duroc fosmid library (generated from the same animal as the CH-242 BAC library) is currently being end sequenced and will improve both sequencing efficiency in regions where clones of <40kb are required and further enable map gap closure. The map and project progress summaries are available via pre-ensembl (http://pre.ensembl.org/Sus_scrofa/index.html).

Last Modified: 9/10/2014