iSelect SNPs Summary Statistics

The design of the wheat 90K iSelect assay and a consensus genetic map are available for download from Kansas State University.

The description of assay design, accuracy of genotype calling using the polyploid version of GenomeStudio, development of cluster files and genetic maps will be provided in the manuscript Characterization of polyploid wheat genomic diversity using a high-density 90,000 SNP array. (2014) Plant Biotechnology Journal.

Number of SNPs mapped to each chromosome; (expected values are shown in brackets).
1 2 3 4 5 6 7 Total
A 2306 (1974) 2059 (2224) 1920 (2045) 1769 (2117) 2556 (2045) 2135 (1779) 2597 (2010) 15342 (14194)
B 3697 (2099) 5865 (2294) 2548 (2455) 1438 (2028) 2862 (2152) 2438 (2241) 2318 (2224) 21166 (15493)
D 553 (1494) 1310 (1797) 272 (1903) 320 (1601) 1056 (1850) 511 (1565) 1174 (1797) 5196 (12007)
Total 6556 9234 4740 3527 6474 5084 6089 41704

Table showing the number of iSelect SNPs that have been mapped to each of the 21 wheat chromosomes; the expected number, given the relative lengths* of each chromosome and the total number of mapped SNPs (41,704), is shown in parentheses. These data clearly show that far fewer SNPs have been mapped to the D genome than would be expected were the SNPs to be evenly distributed across the genome.

*The total length of the wheat genome (234.4 μm) and the percentage length of each chromosome and genome (A = 34.0% , B = 37.2%, C = 28.8%) were taken from Gill, B.S., Friebe, B. and Endo, T.R. (1991) Standard karyotype and nomenclature system for description of chromosome bands and structural aberrations in wheat, Genome 34: 830-839; this paper reports on the relative length in the variety Chinese Spring, which may differ from that for the varieties used in this study.




Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

Maintained by Mark Winfield.


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