Akhunov Eduard, Nicolet Charles, Dvorak Jan
Department of Plant Sciences, University of California, Davis, CA 95616, USA.
Theor Appl Genet. 2009 Aug;119(3):507-17. doi: 10.1007/s00122-009-1059-5. Epub 2009 May 18.
Single nucleotide polymorphisms (SNPs) are indispensable in such applications as association mapping and construction of high-density genetic maps. These applications usually require genotyping of thousands of SNPs in a large number of individuals. Although a number of SNP genotyping assays are available, most of them are designed for SNP genotyping in diploid individuals. Here, we demonstrate that the Illumina GoldenGate assay could be used for SNP genotyping of homozygous tetraploid and hexaploid wheat lines. Genotyping reactions could be carried out directly on genomic DNA without the necessity of preliminary PCR amplification. A total of 53 tetraploid and 38 hexaploid homozygous wheat lines were genotyped at 96 SNP loci. The genotyping error rate estimated after removal of low-quality data was 0 and 1% for tetraploid and hexaploid wheat, respectively. Developed SNP genotyping assays were shown to be useful for genotyping wheat cultivars. This study demonstrated that the GoldenGate assay is a very efficient tool for high-throughput genotyping of polyploid wheat, opening new possibilities for the analysis of genetic variation in wheat and dissection of genetic basis of complex traits using association mapping approach.
单核苷酸多态性（SNPs）在诸如关联作图和构建高密度遗传图谱等应用中不可或缺。这些应用通常需要对大量个体中的数千个SNPs进行基因分型。尽管有多种SNP基因分型检测方法可用，但它们大多是为二倍体个体的SNP基因分型设计的。在此，我们证明Illumina GoldenGate检测方法可用于纯合四倍体和六倍体小麦品系的SNP基因分型。基因分型反应可直接在基因组DNA上进行，无需进行初步的PCR扩增。对53个四倍体和38个六倍体纯合小麦品系在96个SNP位点进行了基因分型。去除低质量数据后估计的四倍体和六倍体小麦的基因分型错误率分别为0%和1%。所开发的SNP基因分型检测方法被证明对小麦品种的基因分型有用。本研究表明，GoldenGate检测方法是多倍体小麦高通量基因分型的一种非常有效的工具，为利用关联作图方法分析小麦遗传变异和解析复杂性状的遗传基础开辟了新的可能性。
