首页|Detecting a novel locus associated with pellicle peelability in Japanese chestnut populations preselected for a major peelability gene
Detecting a novel locus associated with pellicle peelability in Japanese chestnut populations preselected for a major peelability gene
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NSTL
Elsevier
? 2022Peelability is one of the most important traits in Japanese chestnut (Castanea crenata Sieb. et Zucc.) breeding. Previous studies revealed that the peelability of Japanese chestnut is controlled by a major recessive peeling gene (MRPG). This locus has been used effectively for marker-assisted selection in chestnut breeding programs, but there are also likely to be minor loci that would further improve the efficiency of breeding for peelability. We conducted a genome-wide association study (GWAS) based on a variational approximation version of BayesB using 27 cultivars and MRPG-preselected populations consisting of 520 F1 seedlings from 22 families. Using double-digest restriction site-associated DNA sequencing (ddRAD-Seq), we obtained 9164 tag single-nucleotide polymorphisms. Because the phenotypic values of peelability were distributed very asymmetrically, with a peak at the high end due to the preselection for MRPG, we converted the original data set to both inverse normal transformed values and categorical scores, and we analyzed both sets of converted data by GWAS. In both analyses, a quantitative trait locus (QTL) for peelability at CCR1.0F_56177061 was identified with posterior probability values of 0.68 and 1.00, respectively. The average values of genotypes at CCR1.0F_56177061 for cultivars and seedlings in this study were 60.4% (peelability rate) for CC, 63.7% for CT, and 86.5% for TT. This analysis reveals a significant association between CCR1.0F_56177061 genotype and peelability, indicating that this newly identified QTL will be useful for improving peelability in chestnut breeding programs.
Bayesian genome-wide association study (GWAS)Castaneacategorical scoreminor genesquantitative trait loci (QTLs)
Nishio S.、Terakami S.、Takada N.、Takeuchi Y.、Imai A.、Saito T.、Hayashi T.、Shirasawa K.
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Institute of Fruit Tree and Tea Science NARO
Research Center for Agricultural Information Technology NARO
NSTL
Elsevier
