S01 - Session P9 - II - Construction of a genetic linkage map and HRM marker development in a 'Tano Red' x 'Ruby Seedless' F1 grape population by genotyping-by-sequencing

Authors: Seung Hyeon Joung *, Dong Jun Im, Youn Young Hur, Jundae Lee

Grape is a perennial plant with a highly heterozygous genome consisting of 19 chromosomes, and it takes a long time from seedling to fruit bearing tree, making it difficult to study its genetics and breeding. However, nowadays it is possible to quickly construct a genetic map by discovering large numbers of SNPs through whole genome resequencing or genotyping-by-sequencing (GBS) analysis. In this study, we aimed to develop high-resolution melting (HRM) markers for high-throughput SNP detection and construct a genetic linkage map using 2,553 SNP markers identified by GBS in a previous study. Of these, 1,336 SNPs represented three segregation types (lmⅹll, nnⅹnp and hkⅹhk), which were used to design primers for HRM analysis in this study. Using flanking sequences of 1,336 SNP markers, 805 HRM markers were developed, of which 403 representing the three segregation types were added to the genetic linkage map with 2,553 SNP markers in an F₁ segregating population derived from a cross between 'Tano Red' ( Vitis labrusca ⅹ V. vinifera ) and 'Ruby Seedless' ( V. vinifera ). The resulting genetic map consisted of 19 linkage groups, with a total of 2,236 markers mapped, of which 1,861 were SNP markers and 375 markers were new HRM markers. The total genetic map distance was 1,818 cM, and the average genetic map length was 95.7 cM. The number of molecular markers per linkage group ranged from 54 to 181, with an average of 118 molecular markers, and the average interval between markers was 1.23 cM. At 74.9 cM, the shortest linkage group was chromosome 9 and the longest linkage group was chromosome 18 at 132.1 cM. The constructed genetic map in this study can be utilized to analyze useful quantitative trait loci of grape.