Quantitative Trait Loci Analysis of Seed Quality Characteristics in Lentil using Single Nucleotide Polymorphism Markers

Abstract

Seed shape, color, and pattern of lentil (Lens culinaris Medik. subsp. culinaris) are important quality traits as they determine market class and possible end uses. A recombinant inbred line population was phenotyped for seed dimensions over multiple site-years and classified according to cotyledon and seed coat color and pattern. The objectives were to determine the heritability of seed dimensions, identify genomic regions controlling these dimensions, and map seed coat and cotyledon color genes. A genetic linkage map consisting of 563 single nucleotide polymorphisms, 10 simple sequence repeats, and four seed color loci was developed for quantitative trait loci (QTL) analysis. Loci for seed coat color and pattern mapped to linkage groups 2 (Ggc), 3 (Tgc), and 6 (Scp) while the cotyledon color locus (Yc) mapped to linkage group 1. The broad sense heritability estimates were high for seed diameter (broad-sense heritability [H 2 ] = 0.92) and seed plumpness (H 2 = 0.94) while seed thickness (H 2 = 0.60) and days to flowering (H 2 = 0.45) were more moderate. There were significant seed dimension QTL on six of the seven linkage groups. The most significant QTL for diameter and plumpness was found at the cotyledon color locus (Yc). The markers identified in this study can be used to help enrich breeding populations for desired seed quality characteristics, thereby increasing efficiency in the lentil breeding program.

Analysis of variability and phylogeny in pisum (Pisum spp.) using digital phenotyping and morphological traits

“…Congling et al (2015) used phenotyping of peanut pod and seed traits for cultivar selection and genetic mapping of grade components in a group of peanut germplasm with high levels of phenotypic variation. Fedoruk et al (2013) phenotyped a recombinant inbred line population for seed shape, colour, and pattern of lentil (Lens culinaris Medik. subsp.…”

Generation and Characterisation of a Reference Transcriptome for Lentil (Lens culinaris Medik.)

“…Such an integrated genomic approach was successfully applied in the identification of candidate genes governing plant height and agro-morphological traits in chickpea [36,37]. In lentil, a limited number of SNP or gene based linkage maps have been published [8,38,39] and used for quantitative trait loci (QTL) identification [38,39]. QTLs or linked markers associated with traits such as boron (B) toxicity tolerance, flowering time (FT) and seed characteristics have been identified [38,39].…”

“…In lentil, a limited number of SNP or gene based linkage maps have been published [8,38,39] and used for quantitative trait loci (QTL) identification [38,39]. QTLs or linked markers associated with traits such as boron (B) toxicity tolerance, flowering time (FT) and seed characteristics have been identified [38,39]. A SNP and SSR-based linkage map of an intraspecific mapping population (Cassab × ILL2024) was developed, facilitating the identification of genomic regions and candidate genes associated with B toxicity tolerance.…”

Plant Responses to Elevated Temperatures: A Field Study on Phenological Sensitivity and Fitness Responses to Simulated Climate Warming

“…Also, the molecular markers which can be polymorphic www.frontiersin.org CDC Robin × 964a-46 SNP, SSR, and seed color loci 23 Fedoruk et al (2013) Seed thickness CDC Robin × 964a-46 SNP, SSR, and seed color loci 8. 4 Fedoruk et al (2013) Seed diameter CDC Robin × 964a-46 SNP, SSR, and seed color loci Up to 60 Fedoruk et al (2013) Seed plumpness CDC Robin × 964a-46 SNP, SSR, and seed color loci Up to 50 Fedoruk et al (2013) Days to 50% Kaur et al (2014) within the interspecific populations might not be polymorphic at the species level as genetic background affects their utility in MAS process.…”