title: Population structure, genetic diversity and linkage disequilibrium in elite winter wheat assessed with SNP and SSR markers.
abstract: Modern genomics approaches rely on the availability of high-throughput and high-density genotyping platforms. A major breakthrough in wheat genotyping was the development of an SNP array. In this study, we used a diverse panel of 172 elite European winter wheat lines to evaluate the utility of the SNP array for genomic analyses in wheat germplasm derived from breeding programs. We investigated population structure and genetic relatedness and found that the results obtained with SNP and SSR markers differ. This suggests that additional research is required to determine the optimum approach for the investigation of population structure and kinship. Our analysis of linkage disequilibrium (LD) showed that LD decays within approximately 5-10 cM. Moreover, we found that LD is variable along chromosomes. Our results suggest that the number of SNPs needs to be increased further to obtain a higher coverage of the chromosomes. Taken together, SNPs can be a valuable tool for genomics approaches and for a knowledge-based improvement of wheat.
authors: State Plant Breeding Institute, University of Hohenheim, 70593 Stuttgart, Germany. tobias.wuerschum@uni-hohenheim.de
authors: Tobias
authors: T
authors: Würschum
authors: Simon M
authors: SM
authors: Langer
authors: C Friedrich H
authors: CF
authors: Longin
authors: Viktor
authors: V
authors: Korzun
authors: Eduard
authors: E
authors: Akhunov
authors: Erhard
authors: E
authors: Ebmeyer
authors: Ralf
authors: R
authors: Schachschneider
authors: Johannes
authors: J
authors: Schacht
authors: Ebrahim
authors: E
authors: Kazman
authors: Jochen C
authors: JC
authors: Reif
mesh_terms: D001947:Breeding / Q000379:methods; D005060:Europe; D014644:Genetic Variation; D005828:Genetics, Population; D023281:Genomics / Q000379:methods; D015810:Linkage Disequilibrium; D018895:Microsatellite Repeats / Q000235:genetics; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D014908:Triticum / Q000235:genetics*