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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » Livestock Bio-Systems » Research » Publications at this Location » Publication #197874
Title: SEQUENCING THE PIG GENOME USING A BAC BY BAC APPROACH

Author
item HUMPHRAY, SEAN - SANGER INST., UK
item SCOTT, CAROL - SANGER INST., UK
item CLARK, RICHARD - SANGER INST., UK
item MARRON, BRANDY - UNIV ILLINOIS, URBANA
item JONES, MATT - SANGER INST., UK
item PLUMB, ROBERT - SANGER INST., UK
item SIMS, SARAH - SANGER INST., UK
item ROGATCHEVA, MARGARITA - UNIV ILLINOIS, URBANA
item MILAN, DENIS - INRA, FRANCE
item CHARDON, PATRICK - INRA-CEA, FRANCE
item Rohrer, Gary
item Nonneman, Danny - Dan
item DE JONG, PIETER - BACPAC, OAKLAND, CA
item MEYERS, STACY - UNIV ILLINOIS, URBANA
item ARCHIBALD, ALAN - ROSLIN INST., UK
item BEEVER, JONATHON - UNIV. ILLINOIS, URBANA
item SCHOOK, LAWRENCE - UNIV. ILLINOIS, URBANA
item ROGERS, JANE - SANGER INST. UK

Submitted to: Animal Genetics International Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: 5/3/2006
Publication Date: 8/10/2006
Citation: Humphray, S., Scott, C., Clark, R., Marron, B., Jones, M., Plumb, R., Sims, S., 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. 2006. Sequencing the pig genome using a BAC by BAC approach. (Abstract) Animal Genetics International Conference Proceedings. p. 56. Abstract #B404.

Interpretive Summary:

Technical Abstract: We have generated a highly contiguous physical map covering >98% of the pig genome in just 176 contigs. The map is localized to the genome through integration with the UIVC RH map as well BAC end sequence alignments to the human genome. Over 265k HindIII restriction digest fingerprints totaling 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. The mapped clones have also been used to generate over 620k BAC end sequences with an average read length of 635bp. 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, at this stage we will also have access to end sequenced cosmids generated from the same Duroc as the CH-242 library which will improve efficiency of gap closure. The map is accessible through WebFPC (http://www.sanger.ac.uk/Projects/S_scrofa/WebFPC/porcine/large.shtml) and represents an entry point for rapid electronic positional cloning of genes and fine mapping of QTLs.