Pod shattering (Dehiscence) severely reduces seed yield in soybean. Molecular tagging of pod shattering resistance can help in the process of breeding for shattering tolerance. In this study, an segregating population of cross (susceptible cultivar Monetta x tolerant genotype MACS-450) was used for bulked segregant analysis (BSA) with 26 SSR (simple sequence repeat) primers known to amplify markers linked to 22 qPDH loci. Among them, eight polymorphic SSR markers, viz., Sat_350 (qPDH1-7), Satt185 (qPDH1-3), Satt674 (qPDH1-5 loci), Satt166 (qPDH3-5), SRM1 (qPDH1 loci) Sat_342 (qPDH3-2), Satt685 (qPDH1-2) and Sat_407 (qPDH3-1) were able to distinguish parents differing for pod shattering of them two primers Satt 166 and SRM1 yielded markers polymorphic in between shattering tolerant and susceptible bulks by amplifying only Satt166-200 bp marker and SRM1-234bp marker only in tolerant bulks. Only Satt166-200 bp marker was observed in tolerant parent, bulks and 14 plants; while another 237 bp marker for pod shattering susceptibility got amplified in 46 plants including 8 plants that were heterozygous for both alleles. SRM1-234 bp marker was observed only in tolerant parent, bulks and 15 plants; while another 237 bp marker for pod shattering susceptibility got amplified in 45 plants. In combined marker analysis, the markers Satt 166 (qPDH3-5 loci) and SRM1 (qPDH1 loci) were linked with pod shattering score and were also confirmed in individual 60 F 2 segregants. Hence, these markers could be utilized in the marker assisted for pod shattering resistance/tolerance breeding of qPDH3-5 like and qPDH1 genes.
Tagging of pod shattering/dehiscence tolerance trait in soybean (qPDH loci) with molecular markers was undertaken in a segregating population of cross cultivar Kalitur (shattering of 12.02% at field level; 77.71% on oven drying) x DS-9712 (shattering of 1.63% at field level; 10.94% on oven drying) by bulked segregant analysis (BSA). Pod shattering was partially dominant over the tolerance in the cross. Inhibitory epistasis of two major genes was evidenced from F2 ratio (13:3) (3.0-16.0% shattering field level and 5-85% on oven drying), with chi-square test indicating goodness of fit which was confirmed by test cross. Only two of the five shortlisted microsatellite markers from previous study viz., Satt674 and SRM1generated polymorphism between shattering tolerant and susceptible parents and their corresponding F2 bulks. Satt674 marker alleles were closely placed (223 bp vrs. 228 bp) hampering clear resolution and hence this primer was not used forfurther validation. SRM1 primer yielded distinct polymorphic markers (237bp vrs. 225 bp) between shattering-tolerant and susceptible parents and bulks. SRM1 marker was validated in 60 individual F2 plants which were contrasting for pod dehiscence trait. Forty-seven susceptible plants yielded either only 237 bp bands or were heterozygous (having both 237 bp and 225 bp bands), while 13 shattering tolerant F2 plants amplified only 225 bp marker. Hence, in future this SRM1-225bp marker linked to a major pod shattering tolerance loci qPDH1, could be utilized for screening the parental lines, segregating generations, breeding lines and varieties of soybean.
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