Potential of Genome-Wide Studies in Unrelated Plus Trees of a Coniferous Species, Cryptomeria japonica (Japanese Cedar)

Frontiers in Plant Science

Miho Tamura¹  Atsushi Watanabe¹  Kosuke M. Teshima²  Tomonori Hirao³  Makoto Takahashi⁴  Miyoko Tsubomura⁴  Yuichiro Hiraoka⁴  Kentaro Mishima⁴  Eitaro Fukatsu⁵  Manabu Kurita⁵  Taiichi Iki⁶ 

[1] Faculty of Agriculture, Kyushu University, Fukuoka, Japan;Faculty of Science, Kyushu University, Fukuoka, Japan;Forest Bio-Research Center, Forestry and Forest Products Research Institute, Hitachi, Japan;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;Tohoku Regional Breeding Office, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Takizawa, Japan;

关键词: Cryptomeria japonica;    first-generation plus trees;    genomic prediction;    genome-wide association study (GWAS);    linkage disequilibrium;    population structure;   

DOI  :  10.3389/fpls.2018.01322

来源: DOAJ

【 摘 要 】

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 Cryptomeria japonica 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 C. japonica improvement.

【 授权许可】

Unknown