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Communication Dans Un Congrès Année : 2012

Goat genome assembly, availability of an international 50K SNP chip and RH panel: an update of the international goat genome consortium projects

Cédric Cabau
Andre Eggen
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  • PersonId : 1203026
Thomas Faraut
Saadiah Jamli
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Cindy Taylor Lawley
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John Mcewan
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Eric Pailhoux
Rachel Rupp
Brian Sayre
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Jun Wang
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  • PersonId : 881572
Wen Wang
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  • PersonId : 858635
Tun-Ping Yu
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Wenguang Zhang
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Résumé

Goat breeds, including dairy, meat and fiber breeds, are adapted to a wide range of breeding conditions, and have a large economic impact. Currently, however, they benefit from fewer genomic research tools compared to cattle or sheep. At present, the International Goat Genome Consortium (www.goat.genome.org) federates 3 projects, aiming at the improvement of knowledge of goat genome: - de novo goat genome sequence - RH panel and whole genome high density RH maps - 50K SNP chip. An update will be made on these three topics. Details will be given on the international goat SNP chip, developed using whole genome de novo sequencing and reduced representation libraries of the genome of Alpine, Saanen, Creole, Boer, Kacang and Savanna breeds. More than 500,000 SNP were chosen by filtering on flanking sequence data, minimum allele frequency, technological qualities and categorized depending on the number of breeds in which the 2 alleles were observed. 60,000 high quality SNPs were finally spaced on the goat genome, using goat contigs. 59,000 out of the 60,000 SNPs were aligned on the bovine genome. 100 % of the SNPs were observed as heterozygous in milk breeds, 97% in meat breeds. This chip, based on Illumina Infinium technology, has been used to generate cluster files on 288 animals, using both the breeds used for SNP discovery and Skopelos, Angora and Jinlan breeds.

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Dates et versions

hal-01019243 , version 1 (07-07-2014)

Identifiants

  • HAL Id : hal-01019243 , version 1
  • PRODINRA : 254977

Citer

Gwenola Tosser-Klopp, Cédric Cabau, Andre Eggen, Thomas Faraut, Henri Heuven, et al.. Goat genome assembly, availability of an international 50K SNP chip and RH panel: an update of the international goat genome consortium projects. 20. Conference of the Plant & Animal Genome, Plant & Animal Genome (PAG). USA., Jan 2012, San Diego, United States. 28 diapositives. ⟨hal-01019243⟩
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