Genotyping by Sequencing of 393 Sorghum bicolor BTx623 × IS3620C Recombinant Inbred Lines Improves Sensitivity and Resolution of QTL Detection

• Published in: G3 : genes - genomes - genetics Vol. 8; no. 8; pp. 2563 - 2572
• Main Authors: Kong, WenQian, Kim, Changsoo, Zhang, Dong, Guo, Hui, Tan, Xu, Jin, Huizhe, Zhou, Chengbo, Shuang, Lan-Shuan, Goff, Valorie, Sezen, Uzay, Pierce, Gary, Compton, Rosana, Lemke, Cornelia, Robertson, Jon, Rainville, Lisa, Auckland, Susan, Paterson, Andrew H
• Format: Journal Article
• Language: English
• Published: United States Genetics Society of America 01-08-2018
• Subjects: BASIC BIOLOGICAL SCIENCES; ENVIRONMENTAL SCIENCES; flowering Paleo-duplication; Flowers - genetics; genetic mapping; Genetics & Heredity; Genome, Plant; Genotyping Techniques - methods; Genotyping Techniques - standards; Inbreeding; MPP; Multiparent Advanced Generation Inter-Cross (MAGIC); Multiparental Populations; plant architecture; Plant Breeding - methods; Quantitative Trait Loci; Recombination, Genetic; Sensitivity and Specificity; Sorghum - genetics; Sorghum - growth & development; Synteny; Multiparent Advanced Generation Inter-Cross (MAGIC); Paleo-duplication; genetic mapping; flowering; MPP; quantitative trait loci; plant architecture; multiparental populations
• ISSN: 2160-1836; 2160-1836
• DOI: 10.1534/g3.118.200173

We describe a genetic map with a total of 381 bins of 616 genotyping by sequencing (GBS)-based SNP markers in a F
-F
recombinant inbred line (RIL) population of 393 individuals derived from crossing
BTx623 to
IS3620C, a guinea line substantially diverged from BTx623. Five segregation distorted regions were found with four showing enrichment for
alleles, suggesting possible selection during formation of this RIL population. A quantitative trait locus (QTL) study with this number of individuals, tripled relative to prior studies of this cross, provided resources, validated previous findings, and demonstrated improved power to detect plant height and flowering time related QTL relative to other published studies. An unexpected low correlation between flowering time and plant height permitted us to separate QTL for each trait and provide evidence against pleiotropy. Ten non- random syntenic regions conferring QTL for the same trait suggest that those QTL may represent alleles at genes functioning in the same manner since the 96 million year ago genome duplication that created these syntenic relationships, while syntenic regions conferring QTL for different trait may suggest sub-functionalization after duplication. Collectively, this study provides resources for marker-assisted breeding, as well as a framework for fine mapping and subsequent cloning of major genes for important traits such as plant height and flowering time in sorghum.