snp discovery and development of a high-density genotyping array for sunflowersnp基因分型结果发现和开发的高密度阵列向日葵.pdf

SNP Discovery and Development of a High-Density Genotyping Array for Sunflower 1¤a 1¤b 1¤c 1,2 2 Eleni Bachlava , Christopher A. Taylor , Shunxue Tang , John E. Bowers , Jennifer R. Mandel , John M. Burke2*, Steven J. Knapp1¤a 1 Center for Applied Genetic Technologies, University of Georgia, Athens, Georgia, United States of America, 2 Department of Plant Biology, University of Georgia, Athens, Georgia, United States of America Abstract Recent advances in next-generation DNA sequencing technologies have made possible the development of high- throughput SNP genotyping platforms that allow for the simultaneous interrogation of thousands of single-nucleotide polymorphisms (SNPs). Such resources have the potential to facilitate the rapid development of high-density genetic maps, and to enable genome-wide association studies as well as molecular breeding approaches in a variety of taxa. Herein, we describe the development of a SNP genotyping resource for use in sunflower (Helianthus annuus L.). This work involved the development of a reference transcriptome assembly for sunflower, the discovery of thousands of high quality SNPs based on the generation and analysis of ca. 6 Gb of transcriptome re-sequencing data derived from multiple genotypes, the selection of 10,640 SNPs for inclusion in the genotyping array, and the use of the resulting array to screen a diverse panel of sunflower accessions as well as related wild species. The results of this work revealed a high frequency of polymorphic SNPs and relatively high leve