Delineating Marker-Trait Associations for Fusarium Wilt in Chickpea Using the Axiom® CicerSNP Array

Rasool, B and Summuna, B and Djalovic, I and Shah, T A and Sheikh, P A and Gupta, S and Tyagi, S and Bilal, S and Varshney, R K and Abidi, I and Kumar, J and Penmetsa, R V and Khandey, I and Kumar, U and Sofi, P A and Khan, M A and Bhat, M A and Wani, F J and Thudi, M and Mir, R R (2023) Delineating Marker-Trait Associations for Fusarium Wilt in Chickpea Using the Axiom® CicerSNP Array. Phytopathology, 113 (5). ISSN 1943-7684

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Fusarium wilt (FW) caused by Fusarium oxysporum f. sp. ciceri is a devastating disease of chickpea (Cicer arietinum). To identify promising resistant genotypes and genomic loci for FW resistance, a core set of 179 genotypes of chickpea was tested for FW reactions at the seedling and reproductive stages under field conditions and controlled conditions in the greenhouse. Our results revealed that at the seedling stage, most of the genotypes were resistant, whereas at the reproductive stage, most of the genotypes were susceptible. Genotyping using a 50K Axiom® CicerSNP Array and trait data of FW together led to the identification of 26 significant (P ≤ E-05) marker-trait associations (MTAs) for FW resistance. Among the 26 MTAs, 12 were identified using trait data recorded in the field (three at the seedling and nine at the reproductive stage), and 14 were identified using trait data recorded under controlled conditions in the greenhouse (six at the seedling and eight at the reproductive stage). The phenotypic variation explained by these MTAs varied from 11.75 to 15.86%, with an average of 13.77%. Five MTAs were classified as major, explaining more than 15% of the phenotypic variation for FW, and two were declared stable, being identified in two environments. One of the promising stable and major MTAs (Affx_123280060) detected in field conditions at the reproductive stage was also detected in greenhouse conditions at the seedling and reproductive stages. The stable and major (>15% PVE) MTAs can be used in chickpea breeding programs.

Item Type: Article
Divisions: Center of Excellence in Genomics and Systems Biology
Uncontrolled Keywords: chickpea, Fusarium wilt resistance, marker-trait associations (MTAs), reproductive-stage resistance, seedling resistance
Subjects: Mandate crops > Chickpea
Others > Genetics and Genomics
Others > Plant Pathology
Depositing User: Mr Nagaraju T
Date Deposited: 08 Nov 2023 11:01
Last Modified: 08 Nov 2023 11:01
Official URL:
Funders: Science and Engineering Research Board, Government of India - Department of Science and Technology, Department of Biotechnology, Government of Karnataka
Acknowledgement: UNSPECIFIED
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