Genome-wide association study for kernel weight-related traits using SNPs in a Chinese winter wheat population

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• 作者：Guangfeng Chen ; Han Zhang ; Zhiying Deng ; Rugang Wu ; Dongmei Li ; Mingyou Wang…
• 关键词：Wheat ; Association mapping ; Population structure ; Linkage disequilibrium ; Thousand ; kernel weight
• 刊名：Euphytica
• 出版年：2016
• 出版时间：November 2016
• 年：2016
• 卷：212
• 期：2
• 页码：173-185
• 全文大小：1,133 KB
• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Life Sciences
  Plant Physiology
  Plant Sciences
  Ecology
  
• 出版者：Springer Netherlands
• ISSN：1573-5060
• 卷排序：212

文摘

Genome-wide association studies have become a wide spread method of quantitative trait locus identification for many crops, including wheat (Triticum aestivum L.). Its benefit over traditional biparental mapping approaches depends on the extent of linkage disequilibrium (LD) in natural populations. We estimated the genetic diversity, population structure, and LD decay rate in a winter wheat association mapping panel (n = 205) and identified markers associated with thousand-kernel weight (TKW) and related traits. The panel was genotyped with a high-density Illumina iSelect 90 K single nucleotide polymorphism assay. PIC values were 0.047–0.375 with a mean of 0.277. Structural analysis suggested the association mapping panel contained four subpopulations. LD decay rates extended to longer genetic distances within the D genome (11.0 cM) relative to the A and B genomes (1.5 and 1.8 cM, respectively). A total of 271 marker-trait associations (MTAs) were identified for TKW and related traits, explaining 5.49–9.86 % of variation in individual traits. Among them, 11 highly significant markers (p < 0.0001), eight stable markers and twelve multi-trait MTAs were detected. Two stable markers, Ku_c9210_105 for KL and BS00023893_51 for TKW, were detected in three environments. These MTAs could be used for developing cleaved amplified polymorphic sequence markers for molecular marker-assisted selection in wheat breeding programs.