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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches
PLoS ONE, Volume 9, No. 5, Article e96758, Year 2014
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Description
To understand the genetic basis of tolerance to drought and heat stresses in chickpea, a comprehensive association mapping approach has been undertaken. Phenotypic data were generated on the reference set (300 accessions, including 211 mini-core collection accessions) for drought tolerance related root traits, heat tolerance, yield and yield component traits from 1-7 seasons and 1-3 locations in India (Patancheru, Kanpur, Bangalore) and three locations in Africa (Nairobi, Egerton in Kenya and Debre Zeit in Ethiopia). Diversity Array Technology (DArT) markers equally distributed across chickpea genome were used to determine population structure and three sub-populations were identified using admixture model in STRUCTURE. The pairwise linkage disequilibrium (LD) estimated using the squared-allele frequency correlations (r2; when r2<0.20) was found to decay rapidly with the genetic distance of 5 cM. For establishing marker-trait associations (MTAs), both genome-wide and candidate gene-sequencing based association mapping approaches were conducted using 1,872 markers (1,072 DArTs, 651 single nucleotide polymorphisms [SNPs], 113 gene-based SNPs and 36 simple sequence repeats [SSRs]) and phenotyping data mentioned above employing mixed linear model (MLM) analysis with optimum compression with P3D method and kinship matrix. As a result, 312 significant MTAs were identified and a maximum number of MTAs (70) was identified for 100-seed weight. A total of 18 SNPs from 5 genes (ERECTA, 11 SNPs; ASR, 4 SNPs; DREB, 1 SNP; CAP2 promoter, 1 SNP and AMDH, 1SNP) were significantly associated with different traits. This study provides significant MTAs for drought and heat tolerance in chickpea that can be used, after validation, in molecular breeding for developing superior varieties with enhanced drought and heat tolerance. © 2014 Thudi et al.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC4011848/bin/pone.0096758.s001.tif
https://efashare.b-cdn.net/share/pmc/articles/PMC4011848/bin/pone.0096758.s002.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC4011848/bin/pone.0096758.s003.xlsx
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https://efashare.b-cdn.net/share/pmc/articles/PMC4011848/bin/pone.0096758.s006.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC4011848/bin/pone.0096758.s007.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC4011848/bin/pone.0096758.s008.xlsx
Authors & Co-Authors
Thudi, Mahendar
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Upadhyaya, Hari Deo
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Rathore, Abhishek Singh
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Gaur, Pooran Mal
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Krishnamurthy, Lakshmanan
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Roorkiwal, Manish
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
India, New Delhi
Guru Gobind Singh Indraprastha University
Nayak, Spurthi N.
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Chaturvedi, Sushil Kumar
India, Kanpur
Icar - Indian Institute of Pulses Research, Kanpur
Basu, Partha Sarathi
India, Kanpur
Icar - Indian Institute of Pulses Research, Kanpur
Gangarao, N. V.P.R.
Kenya, Nairobi
International Crops Research Institute for the Semi-arid Tropics Nairobi
Fikre, Asnake
Ethiopia, Addis Ababa
Ethiopian Institute of Agricultural Research
Kimurto, Paul Kiprotich
Kenya, Njoro
Egerton University
Sharma, P. C.
India, New Delhi
Guru Gobind Singh Indraprastha University
Sheshashayee, M. S.
India, Bengaluru
University of Agricultural Sciences, Bangalore
Tobita, Satoshi
Japan, Tsukuba
Japan International Research Center for Agricultural Sciences
Kashiwagi, Junichi
Japan, Sapporo
Hokkaido University
Ito, Osamu
Japan, Tokyo
United Nations University, Japan
Killian, Andrzej
Australia
Dart Pty. Ltd.
Varshney, Rajeev Kumar
India, Patancheru
International Crops Research Institute for the Semi-arid Tropics
Statistics
Citations: 240
Authors: 19
Affiliations: 11
Identifiers
Doi:
10.1371/journal.pone.0096758
e-ISSN:
19326203
Research Areas
Genetics And Genomics
Study Design
Cross Sectional Study
Study Locations
Ethiopia
Kenya