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ARS Home » Plains Area » Manhattan, Kansas » Center for Grain and Animal Health Research » Hard Winter Wheat Genetics Research » Research » Publications at this Location » Publication #312282
Title: A high-density SNP and SSR consensus map reveals segregation distortion regions in wheat

Author
item LI, CHUNLIAN - Kansas State University
item Bai, Guihua
item Chao, Shiaoman
item WANG, ZHONGHUA - Northwest Agricultural & Forestry University

Submitted to: BioMed Research International
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 8/25/2015
Publication Date: 9/1/2016
Publication URL: https://handle.nal.usda.gov/10113/5454542
Citation: Li, C., Bai, G., Chao, S., Wang, Z. 2016. A high-density SNP and SSR consensus map reveals segregation distortion regions in wheat. BioMed Research International. doi:10.1155/2015/830618.

Interpretive Summary: Most chromosome regions segregate following Mendelian inheritance in biparental mapping populations. However, distorted segregation from Mendelian inheritance is also very common in some chromosome regions. This skewing of genetic ratios can affect the accuracy of genetic mapping studies. To study segregation distortion in wheat, we constructed a high-density consensus map using single nucleotide polymorphism (SNP) and simple sequence repeat (SSR) markers. The map was developed by merging two linkage maps developed from two recombinant-inbred line populations resulting from crossing the wheat cultivars, 'Ning7840' x 'Clark' and 'Heyne' x 'Lakin'. The number of markers that showed distorted segregation was 490 (18.5%) in the Ning7840 x Clark population and 225 (10.4%) in the Heyne x Lakin population. Identification of distorted regions can help to understand the underlying causes of segregation distortion and the map developed in this study can be used to map genes for important agronomic traits.

Technical Abstract: Segregation distortion is a widespread phenomenon in plant and animal genomes and significantly affects linkage map construction and identification of quantitative trait loci (QTL). To study segregation distortion in wheat, a high-density consensus map was constructed using single nucleotide polymorphism (SNP) and simple sequence repeat (SSR) markers by merging two genetic maps developed from two recombinant-inbred line (RIL) populations, Ning7840 x Clark and Heyne x Lakin. Chromosome regions with obvious segregation distortion were identified in the map. A total of 3541 SNPs and 145 SSR loci were mapped, and the map covered 3258.7 cM in genetic distance with an average interval of 0.88 cM. The number of markers that showed distorted segregation were 490 (18.5%) in the Ning7840 x Clark population and 225 (10.4%) in the Heyne x Lakin population. Most of the distorted markers (630) were mapped in the consensus map, which accounted for 17.1% of mapped markers. The majority of the distorted markers clustered in the segregation distortion regions (SDRs) on chromosomes 1B, 2A, 2B, 3A, 3B, 4B, 5B, 5D, 6B, 7A, and 7D. All of the markers in a given SDR skewed toward one of the parents, suggesting that gametophytic competition during zygote formation was most likely one of the causes for segregation distortion in the populations.