Potential of genome-wide studies in unrelated plus trees of a coniferous species, cryptomeria japonica (japanese cedar)

Yuichiro Hiraoka, Eitaro Fukatsu, Kentaro Mishima, Tomonori Hirao, Kosuke Teshima, Miho Tamura, Miyoko Tsubomura, Taiichi Iki, Manabu Kurita, Makoto Takahashi, Atsushi Watanabe

研究成果: ジャーナルへの寄稿記事

1 引用 (Scopus)

抄録

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.

元の言語英語
記事番号1322
ジャーナルFrontiers in Plant Science
9
DOI
出版物ステータス出版済み - 9 10 2018

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plus trees
Cryptomeria japonica
single nucleotide polymorphism
genome
prediction
genomics
wood properties
growth traits
linkage disequilibrium
genetic background
population genetics
fecundity
genotype
genome-wide association study

All Science Journal Classification (ASJC) codes

  • Plant Science

これを引用

Potential of genome-wide studies in unrelated plus trees of a coniferous species, cryptomeria japonica (japanese cedar). / Hiraoka, Yuichiro; Fukatsu, Eitaro; Mishima, Kentaro; Hirao, Tomonori; Teshima, Kosuke; Tamura, Miho; Tsubomura, Miyoko; Iki, Taiichi; Kurita, Manabu; Takahashi, Makoto; Watanabe, Atsushi.

:: Frontiers in Plant Science, 巻 9, 1322, 10.09.2018.

研究成果: ジャーナルへの寄稿記事

Hiraoka, Yuichiro ; Fukatsu, Eitaro ; Mishima, Kentaro ; Hirao, Tomonori ; Teshima, Kosuke ; Tamura, Miho ; Tsubomura, Miyoko ; Iki, Taiichi ; Kurita, Manabu ; Takahashi, Makoto ; Watanabe, Atsushi. / Potential of genome-wide studies in unrelated plus trees of a coniferous species, cryptomeria japonica (japanese cedar). :: Frontiers in Plant Science. 2018 ; 巻 9.
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abstract = "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.",
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AU - Hirao, Tomonori

AU - Teshima, Kosuke

AU - Tamura, Miho

AU - Tsubomura, Miyoko

AU - Iki, Taiichi

AU - Kurita, Manabu

AU - Takahashi, Makoto

AU - Watanabe, Atsushi

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