title: Potential assessment of genome-wide association study and genomic selection in Japanese pear Pyrus pyrifolia.
abstract: Although the potential of marker-assisted selection (MAS) in fruit tree breeding has been reported, bi-parental QTL mapping before MAS has hindered the introduction of MAS to fruit tree breeding programs. Genome-wide association studies (GWAS) are an alternative to bi-parental QTL mapping in long-lived perennials. Selection based on genomic predictions of breeding values (genomic selection: GS) is another alternative for MAS. This study examined the potential of GWAS and GS in pear breeding with 76 Japanese pear cultivars to detect significant associations of 162 markers with nine agronomic traits. We applied multilocus Bayesian models accounting for ordinal categorical phenotypes for GWAS and GS model training. Significant associations were detected at harvest time, black spot resistance and the number of spurs and two of the associations were closely linked to known loci. Genome-wide predictions for GS were accurate at the highest level (0.75) in harvest time, at medium levels (0.38-0.61) in resistance to black spot, firmness of flesh, fruit shape in longitudinal section, fruit size, acid content and number of spurs and at low levels (<0.2) in all soluble solid content and vigor of tree. Results suggest the potential of GWAS and GS for use in future breeding programs in Japanese pear.
authors: Department of Agricultural and Environmental Biology, Graduate School of Agricultural and Life Sciences, The University of Tokyo , 1-1-1 Yayoi, Bunkyo, Tokyo 113-8657, Japan.
authors: Hiroyoshi
authors: H
authors: Iwata
authors: Takeshi
authors: T
authors: Hayashi
authors: Shingo
authors: S
authors: Terakami
authors: Norio
authors: N
authors: Takada
authors: Yutaka
authors: Y
authors: Sawamura
authors: Toshiya
authors: T
authors: Yamamoto
keywords: Japanese pear; black spot resistance; genome-wide association study (GWAS); genomic selection (GS); harvest time; ordinal categorical traits
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