Genetic Dissection and Identification of Candidate Genes for Salinity Tolerance Using Axiom<sup>®</sup><i>CicerSNP</i> Array in Chickpea

Genetic Dissection and Identification of Candidate Genes for Salinity Tolerance Using Axiom<sup>®</sup><i>CicerSNP</i> Array in Chickpea

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-sens...

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Bibliographic Details
Main Authors: Khela Ram Soren, Praveen Madugula, Neeraj Kumar, Rutwik Barmukh, Meenu Singh Sengar, Chellapilla Bharadwaj, Parbodh Chander Sharma, Sarvjeet Singh, Aditi Bhandari, Jogendra Singh, Satish Kumar Sanwal, Madan Pal, Sneha Priya P.R., Anita Mann, Someswar Rao Sagurthi, Shanmugavadivel PS, Kadambot H.M. Siddique, Narendra Pratap Singh, Manish Roorkiwal, Rajeev K Varshney
Format: Article
Language:English
Published: MDPI AG 2020-07-01
Series:International Journal of Molecular Sciences
Subjects:
chickpea
salinity
quantitative trait loci
stress susceptibility index (SSI)
stress tolerance index (STI)
candidate genes
Online Access:https://www.mdpi.com/1422-0067/21/14/5058
Description
Summary: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<sup>®</sup><i>CicerSNP</i> 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.
ISSN:1661-6596
1422-0067

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