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2017 ASHS Annual Conference

A Genetic Linkage Map in Interspecific Asian Pear Using SNP and Indel Derived from Next Generation Sequencing

Friday, September 22, 2017
Kona Ballroom (Hilton Waikoloa Village)
Kidong Hwang, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Hyeondae Han, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Keumsun Kim, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Youngjae Oh, National Institute of Horticultural & Herbal Science, Gunwi-gun, Korea, Republic of (South)
Sewon Oh, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Min-Gi Lee, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Suji Ahn, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Jiyeon Kim, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
Yoon-Kyeong Kim, Pear Research Station, National Institute of Horticultural & Herbal Science, Rural Development Administration, Naju-si, Korea, Republic of (South)
Daeil Kim, Chungbuk National University, Cheongju-si, Korea, Republic of (South)
In the genus Pyrus, High-density genetic linkage maps have been constructed with an effort to identify quantitative traits loci (QTLs), evaluate whole genome structure, and apply to marker-assisted selection. In this study, a population of 93 progenies of ‘Whangkeumbae’ (P. pyrifolia) and ‘Minibae’ (P. hybrid) was used to construct a saturated linkage map using genotyping by sequencing-based 2,331 SNP and 12 InDel markers according to the pseudo-testcross mapping strategy. For the detection of InDel markers, ‘Whangkeumbae’ and ‘Minibae’ were aligned to the pear whole genome sequence of Chinese pear ‘Suli’ (P. bretschneideri). After grouping, 17 strongly linked groups consisted of 982 SNP and 2 InDel markers in ‘Whangkeumbae’ and 907 SNP and 5 InDel markers in ‘Minibae’, respectively. The map for ‘Whangkeumbae’ consisted of 988 loci on 17 linkage groups (LGs) over totals of 1,111.6 cM, with an average distance of 1.13 cM between markers whereas that for ‘Minibae’ included 921 loci encompassing a genetic distance of 1,293.5 cM, with an average distance of 1.40 cM. The shortest LG of ‘Whangkeumbae’ was 10.0 cM in LG17, while that of ‘Minibae’ was 30.3 cM in LG2. However, the longest LG of ‘Whangkeumbae’ was 105.1 cM in LG10, while that of ‘Minibae’ was 119.2 cM in LG11. In our results, 3 InDel markers fitting a Mendelian fashion were not mapped, indicating a relatively unevenness of restriction sites across the genome. This genetic map should be continuously integrated with published SSRs for the construction of consensus genetic linkage map.