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SNP identification and allelic-specific PCR markers development for TaGW2, a gene linked to wheat kernel weight

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Abstract

TaGW2, an orthologous gene of rice OsGW2, has been associated with kernel width and weight of bread wheat (Triticum aestivum). Difference in TaGW2 coding sequence was not found among different wheat varieties in previous researches. In this study, we found eight exons and seven introns in TaGW2 with a full-length cDNA sequence of 1,275 bp, which contains a conserved function domain and seven splice sites that shared homology with rice OsGW2. A single T-base insertion in the eighth exon of TaGW2 on chromosome 6A was detected in a large-kernel wheat variety, Lankaodali. This insertion mutation reduces the coding protein sequence from normal 424 amino acids (~47.2 kDa) to 328 amino acids (~37.1 kDa) by truncating 96 amino acids. The result was validated by identifying histidine-tagged TaGW2 proteins encoded by both alleles of the mutant and the wild types in SDS-PAGE. Allele-specific PCR markers were developed based on the single nucleotide polymorphism (SNP) site. The SNP markers were genotyped for an F2 segregation population from the cross of Lankaodali × Chinese Spring. Seed traits of F2:3 families were evaluated in three different environments. The association analysis indicated that F2:3 families with the mutated TaGW2 allele significantly increased kernel width (KW) and thousand-kernel weight (TKW), and slightly improved kernel length (KL). Using the SNP markers, another two varieties harbored the mutated TaGW2 allele were successfully identified from 22 additional wheat varieties, and they both have large KW and TKW. Cloning and sequencing of the gene further confirmed the functions of the mutated allele of TaGW2 in the two large kernel varieties. The results suggested that TaGW2 may negatively regulate kernel size variation, which shares the same function as OsGW2 in rice. The successful development of SNP markers provides a useful tool for improving kernel yield in wheat.

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Acknowledgments

We thank Prof. Guihua Bai and Prof. Jianming Yu, Kansas State University, for critical review, discussion, and substantial editing of the manuscript. This work was supported in part by a grant from Cultivation of high-yielding transgenic wheat varieties (2008ZX08002003), National “863” program (2011AA100501) and Technological Innovation program of Northwest A&F University (QN2011083).

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  1. State Key Laboratory of Crop Stress Biology in Arid Areas and College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People’s Republic of China

    Zibo Yang, Zhiyuan Bai, Xiaolin Li, Pei Wang, Qingxia Wu, Lin Yang, Liqun Li & Xuejun Li

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  1. Zibo Yang
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  2. Zhiyuan Bai
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Correspondence to Xuejun Li.

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Communicated by J. Xiao.

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Yang, Z., Bai, Z., Li, X. et al. SNP identification and allelic-specific PCR markers development for TaGW2, a gene linked to wheat kernel weight. Theor Appl Genet 125, 1057–1068 (2012). https://doi.org/10.1007/s00122-012-1895-6

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