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Journal article
Dissecting genomic regions and underlying candidate genes in groundnut MAGIC population for drought tolerance
BMC plant biology, Vol.24(1), 1044
2024
PMID: 39497063
Abstract
Background
Groundnut is mainly grown in the semi-arid tropic (SAT) regions worldwide, where abiotic stress like drought is persistent. However, a major research gap exists regarding exploring the genetic and genomic underpinnings of tolerance to drought. In this study, a multi-parent advanced generation inter-cross (MAGIC) population was developed and evaluated for five seasons at two locations for three consecutive years (2018–19, 2019–20 and 2020–21) under drought stress and normal environments.
Results
Phenotyping data of drought tolerance related traits, combined with the high-quality 10,556 polymorphic SNPs, were used to perform multi-locus model genome-wide association study (GWAS) analysis. We identified 37 significant marker-trait associations (MTAs) (Bonferroni-corrected) accounting, 0.91- 9.82% of the phenotypic variance. Intriguingly, 26 significant MTAs overlap on four chromosomes (Ah03, Ah07, Ah10 and Ah18) (harboring 70% of MTAs), indicating genomic hotspot regions governing drought tolerance traits. Furthermore, important candidate genes associated with leaf senescence (NAC transcription factor), flowering (B3 domain-containing transcription factor, Ulp1 protease family, and Ankyrin repeat-containing protein), involved in chlorophyll biosynthesis (FAR1 DNA-binding domain protein), stomatal regulation (Rop guanine nucleotide exchange factor; Galacturonosyltransferases), and associated with yield traits (Fasciclin-like arabinogalactan protein 11 and Fasciclin-like arabinogalactan protein 21) were found in the vicinity of significant MTAs genomic regions.
Conclusion
The findings of our investigation have the potential to provide a basis for significant MTAs validation, gene discovery and development of functional markers, which could be employed in genomics-assisted breeding to develop climate-resilient groundnut varieties.
Details
- Title
- Dissecting genomic regions and underlying candidate genes in groundnut MAGIC population for drought tolerance
- Authors/Creators
- Vinay Sharma - International Crops Research Institute for the Semi-Arid TropicsSupriya S. Mahadevaiah - University of Agricultural Sciences, DharwadPutta Latha - Acharya N. G. Ranga Agricultural UniversityS. Anjan Gowda - University of Agricultural Sciences, DharwadSurendra S. Manohar - International Crops Research Institute for the Semi-Arid TropicsKanchan Jadhav - Dharwad, IndiaPrasad Bajaj - International Crops Research Institute for the Semi-Arid TropicsPushpesh Joshi - Chaudhary Charan Singh UniversityT. Anitha - Acharya N. G. Ranga Agricultural UniversityMangesh P. Jadhav - University of Agricultural Sciences, DharwadShailendra Sharma - Chaudhary Charan Singh UniversityPasupuleti Janila - International Crops Research Institute for the Semi-Arid TropicsRamesh S. Bhat - University of Agricultural Sciences, DharwadRajeev K. Varshney - Murdoch UniversityManish K. Pandey - International Crops Research Institute for the Semi-Arid Tropics
- Publication Details
- BMC plant biology, Vol.24(1), 1044
- Publisher
- BioMed Central
- Number of pages
- 21
- Grant note
- Bill and Melinda Gates FoundationNational Agricultural Science Fund (NASF) of the Indian Council of Agricultural Research (ICAR), IndiaBill & Melinda Gates Foundation (BMGF), USA: 09/0800(18433)/2024-EMR-I Council of Scientific and Industrial Research (CSIR), Government of India
The authors thank the National Agricultural Science Fund (NASF) of the Indian Council of Agricultural Research (ICAR), India, for supporting the generation of genotyping and multi-location evaluation data, and the Bill & Melinda Gates Foundation (BMGF), USA, for their support in population development. VS and PJ acknowledges Chaudhary Charan Singh University (CCSU), Meerut, for collaborating with ICRISAT. V.S also acknowledges Council of Scientific and Industrial Research (CSIR), Government of India, for awarding the SRF-Direct fellowship (File No: 09/0800(18433)/2024-EMR-I) for PhD.
- Identifiers
- 991005713229107891
- Copyright
- © The Author(s) 2024
- Murdoch Affiliation
- Food Futures Institute
- Language
- English
- Resource Type
- Journal article
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- Domestic collaboration
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- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Plant Sciences
- ESI research areas
- Plant & Animal Science