TaqMan® SNPs Summary Statistics

Total number of markers available: 4,800

Mapped markers available: 4,735

TaqMan® Assays are a gold standard in qPCR applications and the technology is based on 5’ nuclease chemistry using specific fluorescent probes to discriminate SNP variants. These assays come as single tube, pre-formulated primer and probe sets which can be used right out of the box requiring no optimization or laborious setup. Assays are available in three sizes or in other high throughput formats from Life Technologies – custom 96- and 384-well plates, microfluidic cards and OpenArray® plates.

Number of SNPs mapped to each chromosome (expected values are shown in brackets).
1 2 3 4 5 6 7 Total
A 227 (224) 278 (252) 232 (232) 128 (240) 262 (232) 265 (201) 243 (228) 1635 (1609)
B 414 (238) 356 (260) 281 (278) 156 (230) 362 (244) 249 (254) 113 (252) 1931 (1756)
D 386 (169) 207 (204) 46 (216) 66 (181) 227 (210) 117 (177) 120 (204) 1169 (1361)
Total 1027 841 559 350 851 631 476 4735

Table showing the number of TaqMan® 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 (4,735), 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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