Genetic Dissection and Identification of Candidate Genes for Salinity Tolerance Using Axiom®CicerSNP Array in Chickpea

K.R. Soren; P. Madugula; N. Kumar; R. Barmukh; M.S. Sengar; C. Bharadwaj; P.C. Sharma; S. Singh; A. Bhandari; J. Singh; S.K. Sanwal; M. Pal; S.P. P.R.; A. Mann; S.R. Sagurthi; P.S. Shanmugavadivel; K.H.M. Siddique; N.P. Singh; M. Roorkiwal; R.K. Varshney

doi:10.3390/ijms21145058

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Genetic Dissection and Identification of Candidate Genes for Salinity Tolerance Using Axiom®CicerSNP Array in Chickpea

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Genetic Dissection and Identification of Candidate Genes for Salinity Tolerance Using Axiom®CicerSNP Array in Chickpea

K.R. Soren, P. Madugula, N. Kumar, R. Barmukh, M.S. Sengar, C. Bharadwaj, P.C. Sharma, S. Singh, A. Bhandari, J. Singh, …

International Journal of Molecular Sciences, Vol.21(14), 5058

2020

DOI: https://doi.org/10.3390/ijms21145058

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Abstract

Globally, chickpea production is severely affected by salinity stress. Understanding the genetic basis for salinity tolerance is important to develop salinity tolerant chickpeas. A recombinant inbred line (RIL) population developed using parental lines ICCV 10 (salt-tolerant) and DCP 92-3 (salt-sensitive) was screened under field conditions to collect information on agronomy, yield components, and stress tolerance indices. Genotyping data generated using Axiom®CicerSNP array was used to construct a linkage map comprising 1856 SNP markers spanning a distance of 1106.3 cM across eight chickpea chromosomes. Extensive analysis of the phenotyping and genotyping data identified 28 quantitative trait loci (QTLs) explaining up to 28.40% of the phenotypic variance in the population. We identified QTL clusters on CaLG03 and CaLG06, each harboring major QTLs for yield and yield component traits under salinity stress. The main-effect QTLs identified in these two clusters were associated with key genes such as calcium-dependent protein kinases, histidine kinases, cation proton antiporter, and WRKY and MYB transcription factors, which are known to impart salinity stress tolerance in crop plants. Molecular markers/genes associated with these major QTLs, after validation, will be useful to undertake marker-assisted breeding for developing better varieties with salinity tolerance.

Details

Title: Genetic Dissection and Identification of Candidate Genes for Salinity Tolerance Using Axiom®CicerSNP Array in Chickpea
Authors/Creators: K.R. Soren (Author/Creator) - Indian Institute of Pulses Research
P. Madugula (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
N. Kumar (Author/Creator) - Indian Agricultural Research Institute
R. Barmukh (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
M.S. Sengar (Author/Creator) - Indian Institute of Pulses Research
C. Bharadwaj (Author/Creator) - Indian Agricultural Research Institute
P.C. Sharma (Author/Creator) - Central Soil Salinity Research Institute
S. Singh (Author/Creator) - Punjab Agricultural University
A. Bhandari (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
J. Singh (Author/Creator) - Central Soil Salinity Research Institute
S.K. Sanwal (Author/Creator) - Central Soil Salinity Research Institute
M. Pal (Author/Creator) - Indian Agricultural Research Institute
S.P. P.R. (Author/Creator) - Indian Agricultural Research Institute
A. Mann (Author/Creator) - Central Soil Salinity Research Institute
S.R. Sagurthi (Author/Creator) - Osmania University
P.S. Shanmugavadivel (Author/Creator) - Indian Institute of Pulses Research
K.H.M. Siddique (Author/Creator) - The University of Western Australia
N.P. Singh (Author/Creator) - Indian Institute of Pulses Research
M. Roorkiwal (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
R.K. Varshney (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
Publication Details: International Journal of Molecular Sciences, Vol.21(14), 5058
Publisher: MDPI AG
Identifiers: 991005544603407891
Copyright: © 2020 The Authors.
Murdoch Affiliation: Murdoch University; Centre for Crop and Food Innovation
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; 3.4.49 Plant Stress Responses
Web Of Science research areas: Biochemistry & Molecular Biology; Chemistry, Multidisciplinary
ESI research areas: Chemistry