Genetic analysis of trade-offs among disease resistance, yield, and quality traits employing genome-wide association mapping in indica rice (Oryza sativa L.).
Vinodkumar Naik Moode, Madhusudhan Puchakayala, Srividya K Gannavarapu, Madhavilatha Kommana, Lalam Krishna, Sivarama Lekkala, Navajeet Chakravartty, VBReddy Lachagari, Shaik Nafeez Umar, Srividhya Akkareddy, Issa Keerthi, Sreelakshmi Chintala, Nirmalkumar R Amjikarai, Lakshminarayana R Vemireddy
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引用次数: 0
Abstract
The genetic trade-offs among complex traits are often witnessed in rice, however, very little is known about the contributing genes and mechanisms to exploit in breeding programmes. Here, we aimed to understand the genetic trade-offs among disease resistance, quality, and yield traits employing genome-wide association mapping. In all, 78 common marker-trait associations (MTAs) were identified for the targeted traits. In addition, five pleiotropic MTAs, 17 tightly linked MTAs, and two pleiotropic and tightly linked MTAs were detected for various trait combinations. The majority of MTA clusters were observed for quality traits (15 clusters) followed by the combined yield and quality traits (5 clusters) while only one cluster was found for combined yield and disease resistance traits. Further, the prediction of candidate genes controlling MTA clusters by exploiting the publicly available rice genome databases, revealed D-type cyclin 3;1 and Xyloglucan endotransglucosylase were found to be responsible for controlling grain size traits. We found no significant large linkage drag blocks with major MTAs for the targeted traits indicating that the indica rice genotypes have fewer trade-offs compared to japonica. The current study provides deeper insights into the genetic trade-offs among complex traits in rice, aiding in the meticulous planning of future breeding strategies.
Supplementary information: The online version contains supplementary material available at 10.1007/s11032-025-01578-w.
期刊介绍：
Molecular Breeding is an international journal publishing papers on applications of plant molecular biology, i.e., research most likely leading to practical applications. The practical applications might relate to the Developing as well as the industrialised World and have demonstrable benefits for the seed industry, farmers, processing industry, the environment and the consumer.
All papers published should contribute to the understanding and progress of modern plant breeding, encompassing the scientific disciplines of molecular biology, biochemistry, genetics, physiology, pathology, plant breeding, and ecology among others.
Molecular Breeding welcomes the following categories of papers: full papers, short communications, papers describing novel methods and review papers. All submission will be subject to peer review ensuring the highest possible scientific quality standards.
Molecular Breeding core areas:
Molecular Breeding will consider manuscripts describing contemporary methods of molecular genetics and genomic analysis, structural and functional genomics in crops, proteomics and metabolic profiling, abiotic stress and field evaluation of transgenic crops containing particular traits. Manuscripts on marker assisted breeding are also of major interest, in particular novel approaches and new results of marker assisted breeding, QTL cloning, integration of conventional and marker assisted breeding, and QTL studies in crop plants.
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