biostudies-literatureSeo JHRural Development Administration2382https://www.ebi.ac.uk/biostudies/studies/S-EPMC8880809biostudies-literatureUnknown23(4)Pod-shattering causes a significant yield loss in many soybean cultivars. Shattering-tolerant cultivars provide the most effective approach to minimizing this loss. We developed molecular markers for pod-shattering and validated them in soybeans with diverse genetic backgrounds. The genes Glyma.16g141200, Glyma.16g141500, and Glyma.16g076600, identified in our previous study by quantitative trait locus (QTL) mapping and whole-genome resequencing, were selected for marker development. The whole-genome resequencing of three parental lines (one shattering-tolerant and two shattering-susceptible) identified single nucleotide polymorphism (SNP) and/or insertion/deletion (InDel) regions within or near the selected genes. Two SNPs and one InDel were converted to Kompetitive Allele-Specific PCR (KInternational journal of molecular sciencesDevelopment and Validation of SNP and InDel Markers for Pod-Shattering Tolerance in Soybean.PMC8880809PJ01186803Seo JHSung JSKo JYJun THBaek IYKang BKKim KSJung CSDhungana SKfalseDevelopment and Validation of SNP and InDel Markers for Pod-Shattering Tolerance in Soybean.Pod-shattering causes a significant yield loss in many soybean cultivars. Shattering-tolerant cultivars provide the most effective approach to minimizing this loss. We developed molecular markers for pod-shattering and validated them in soybeans with diverse genetic backgrounds. The genes Glyma.16g141200, Glyma.16g141500, and Glyma.16g076600, identified in our previous study by quantitative trait locus (QTL) mapping and whole-genome resequencing, were selected for marker development. The whole-genome resequencing of three parental lines (one shattering-tolerant and two shattering-susceptible) identified single nucleotide polymorphism (SNP) and/or insertion/deletion (InDel) regions within or near the selected genes. Two SNPs and one InDel were converted to Kompetitive Allele-Specific PCR (K2022-01-01T00:00:00Z2022 Feb2025-04-04T14:59:07.599Z2025-04-04T14:59:07.599ZS-EPMC88808093521650010.3390/ijms23042382