biostudies-literatureUnknown13O'Connell ARed rot caused by the fungus Colletotrichum falcatum is the main disease limiting sugarcane productivity in several countries including the major producer India. The genetic basis for red rot resistance is unclear. We studied a panel of 305 sugarcane clones from the Australian breeding program for disease response phenotype and genotype using an Affymetrix® Axiom® array, to better understand the genetic basis of red rot resistance. SNP markers highly significantly associated with red rot response (≤ 10-8) were identified. Markers with largest effect were located in a single 14.6 Mb genomic region of sorghum (the closest diploid relative of sugarcane with a sequenced genome) suggesting the presence of a major-effect QTL. By genomic selection, the estiFrontiers in plant science1021182https://www.ebi.ac.uk/biostudies/studies/S-EPMC9660812biostudies-literatureCombining genomic selection with genome-wide association analysis identified a large-effect QTL and improved selection for red rot resistance in sugarcane.PMC9660812Mohanraj KO'Connell AJackson PRam BLakshmanan PDeo JAitken KSViswanathan RDeomano EWei XManimekalai RHemaprabha GfalseCombining genomic selection with genome-wide association analysis identified a large-effect QTL and improved selection for red rot resistance in sugarcane.Red rot caused by the fungus Colletotrichum falcatum is the main disease limiting sugarcane productivity in several countries including the major producer India. The genetic basis for red rot resistance is unclear. We studied a panel of 305 sugarcane clones from the Australian breeding program for disease response phenotype and genotype using an Affymetrix® Axiom® array, to better understand the genetic basis of red rot resistance. SNP markers highly significantly associated with red rot response (≤ 10-8) were identified. Markers with largest effect were located in a single 14.6 Mb genomic region of sorghum (the closest diploid relative of sugarcane with a sequenced genome) suggesting the presence of a major-effect QTL. By genomic selection, the esti2022-01-01T00:00:00Z20222025-04-19T13:24:27.98Z2025-04-19T13:24:27.98ZS-EPMC96608123638846910.3389/fpls.2022.1021182