Hiraoka Yuichiro, Fukatsu Eitaro, Mishima Kentaro, Hirao Tomonori, Teshima Kosuke M, Tamura Miho, Tsubomura Miyoko, Iki Taiichi, Kurita Manabu, Takahashi Makoto, Watanabe Atsushi
Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Hitachi, Japan.
Kyushu Regional Breeding Office, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Kumamoto, Japan.
Front Plant Sci. 2018 Sep 10;9:1322. doi: 10.3389/fpls.2018.01322. eCollection 2018.
A genome-wide association study (GWAS) was conducted on more than 30,000 single nucleotide polymorphisms (SNPs) in unrelated first-generation plus tree genotypes from three populations of Japanese cedar D. Don with genomic prediction for traits of growth, wood properties and male fecundity. Among the assessed populations, genetic characteristics including the extent of linkage disequilibrium (LD) and genetic structure differed and these differences are considered to be due to differences in genetic background. Through population-independent GWAS, several significant SNPs found close to the regions associated with each of these traits and shared in common across the populations were identified. The accuracies of genomic predictions were dependent on the traits and populations and reflected the genetic architecture of traits and genetic characteristics. Prediction accuracies using SNPs selected based on GWAS results were similar to those using all SNPs for several combinations of traits and populations. We discussed the application of genome-wide studies for improvement.
对来自日本柳杉三个种群的30000多个单核苷酸多态性（SNP）进行了全基因组关联研究（GWAS），这些样本为不相关的第一代优树基因型，研究针对生长、木材性质和雄性繁殖力等性状进行基因组预测。在评估的种群中，包括连锁不平衡（LD）程度和遗传结构在内的遗传特征存在差异，这些差异被认为是由于遗传背景的不同所致。通过不依赖种群的GWAS，发现了几个与这些性状相关区域附近的显著SNP，并且在不同种群中具有共性。基因组预测的准确性取决于性状和种群，并反映了性状的遗传结构和遗传特征。对于几种性状和种群的组合，使用基于GWAS结果选择的SNP进行预测的准确性与使用所有SNP的准确性相似。我们讨论了全基因组研究在改良方面的应用。
