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Journal article
A chickpea MAGIC population to dissect the genetics of complex traits
The plant genome, Vol.18(3), e70096
2025
Abstract
Multiparent populations are now widespread in crop genetic studies as they capture more genetic diversity and offer high statistical power for detecting quantitative trait loci (QTLs). To confirm the suitability of using a recently developed chickpea (Cicer arietinum L.) multi-parent advanced generation intercross (MAGIC) population for genetic studies, we characterized the diversity of the eight founder lines and explored the linkage disequilibrium decay, marker coverage, segregation distortion, allelic variation, and structure of the population. The MAGIC population was genotyped using whole-genome sequencing; following marker curation, a total of 4255 high-quality polymorphic single nucleotide polymorphism markers were used for genomic analyses. To demonstrate the effectiveness of the MAGIC population to dissect the genetics of key agronomic traits (days to 50% flowering and plant height), we employed both a genome-wide mapping approach using fixed and random model circulating probability unification and a haplotype-based mapping using the local genomic estimated breeding value approach. Our analyses confirmed the role of genomic regions previously reported in the literature and identified several new QTLs for days to 50% flowering and plant height. We also showed the potential for trait improvement through stacking the top 10 haploblocks to develop early flowering chickpea and selection of desirable haplotypes on chromosome 4 to improve plant height. Our results demonstrate the chickpea MAGIC population is a valuable resource for researchers and pre-breeders to study the genetic architecture of complex traits and allelic variation to accelerate crop improvement in chickpea.
Details
- Title
- A chickpea MAGIC population to dissect the genetics of complex traits
- Authors/Creators
- Oluwaseun J. Akinlade - Queensland Alliance for Agriculture and Food Innovation The University of Queensland Brisbane Queensland Australia, State Agricultural Biotechnology Centre, Centre for Crop and Food Innovation, Food Futures Institute Murdoch University Murdoch Western Australia AustraliaHannah Robinson - The University of QueenslandYichen Kang - The University of QueenslandMahendar Thudi - Central Agricultural UniversitySrinivasan Samineni - International Crops Research Institute for the Semi-Arid TropicsPooran Gaur - International Crops Research Institute for the Semi-Arid TropicsMillicent R. Smith - The University of QueenslandKai P. Voss-Fels - Hochschule Geisenheim UniversityRoy Costilla - AgResearchRajeev K. Varshney - Murdoch University, Food Futures InstituteEric Dinglasan - The University of QueenslandLee T. Hickey - The University of Queensland
- Publication Details
- The plant genome, Vol.18(3), e70096
- Publisher
- Wiley Periodicals LLC on behalf of Crop Science Society of America; HOBOKEN
- Number of pages
- 17
- Identifiers
- 991005807944607891
- Copyright
- © 2025 The Author(s).
- Murdoch Affiliation
- Centre for Crop and Food Innovation; State Agricultural Biotechnology Centre; Food Futures Institute
- Language
- English
- Resource Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Genetics & Heredity
- Plant Sciences
- ESI research areas
- Plant & Animal Science