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Evaluation of Genetic Diversity and Genome-wide Linkage Disequilibrium among U.S. Wheat (Triticum aestivum L.) Germplasm Representing Different Market Classes

^a USDA-ARS Biosciences Research Lab., 1605 Albrecht Blvd., Fargo, ND 58105
^b Dep. of Plant Sciences, Univ. of California, Davis, CA 95616
^c Dep. of Plant Breeding and Genetics, Cornell Univ., 240 Emerson Hall, Ithaca, NY 14853

View larger version (32K): [in this window] [in a new window]   Figure 1. A consensus UPGMA dendrogram of 43 wheat accessions constructed using the genetic distance-based method based on 1000 bootstrap replications. The bootstrap values >50% are shown in the tree. The market class each sample represents is indicated in the parentheses. The four model-based populations were depicted as = Winter–East, = Winter–West, = Spring–Northern Plains, and • = Spring–Pacific Northwest groups. *Q36, a facultative SWS line, was treated as SWW in this study.

View larger version (13K): [in this window] [in a new window]   Figure 2. Genome-wide LD decay among SSR marker pairs as a function of genetic distance (cM). The P values were determined using 1000 permutations. The line corresponds to the population-specific threshold as the 95th percentile of the distribution of r2 as evidence of genetic linkage.

View larger version (136K): [in this window] [in a new window]   Figure 3. Wheat consensus map and distribution of LD patterns by chromosome. The gray scale shown in each square corresponds to P value. The original colored display can be accessed from the supplemental Fig. S1 file. Also included on the map are the chromosome locations of genes controlling selected agronomic traits.