Working group session:
Comparative Genomics and Bioinformatics
Presentation type:
oral
Authors:
Hulse, Amanda; Stelly, David; Wang, Fei; Zheng, Xiuting; Ashrafi, Hamid; Van Deynze, Allen; Gore, Michael; Poland, Jeese; Fang, David; Jenkins, Johnie; Islam, Md; Lacape, Jean-Marc; Giband, Marc; Claverie, Michel; Wilson, Iain; Zhu, Qian-Hao ; Llewellyn, Danny; Taylor, Jen; Spriggs, Andrew; Sawant, Samir; Rai, Krishan ; Singh, Sunil; Bhardwaj, Archana; Bag, Sumit; Jones, Don; Udall, Joshua; Byers, Robert; Harker, David; Yourstone, Scott; Buyyarapu, Ramesh; Burke, John; Ulloa, Mauricio; Hague, Steve; Pepper, Alan; Ganal, Martin; Lemm, Jana; Hinze, Lori; Percy, Richard ; Frelichowski, James ; Wang, Shirley; Lawley, Cindy; Scheffler, Jodi
Presenter:
Hulse, Amanda
Correspondent:
Hulse, Amanda; Stelly, David
Abstract:
An international collaborative effort has developed a SNP Chip for Cotton. This Illumina Infinium genotyping assay will allow genotyping of up to 90,000 attempted bead types, with 70,000 included in the public “fixed content”. The remaining 20,000 attempted bead types are available as “add-on content”. The consortium effort has included all currently published SNP development works as well as some sets of in press SNP data sets. The fixed content will primarily target intra-specific Gossypium hirsutum SNPs, but will also contain markers which target inter-specific SNPs for G. barbadense, G. tomentosum, G. mustelinum, G. armourianum, and G. longicalyx. The inter-specific targeted SNP are all developed relative to G. hirsutum and will greatly enable introgression work. To assist the cotton community, a cluster file has been developed for the 70,000 SNP included in the fixed content which will allow for automated genotyping. The Cotton 70K SNP Chip will be a resource that will be used globally by public and private breeders, geneticists, and other researchers to enhance cotton genetic analysis, breeding, genome sequence assembly and many other uses.