Please use this identifier to cite or link to this item: http://223.31.159.10:8080/jspui/handle/123456789/1597
Title: Uncovering DNA methylation landscapes to decipher evolutionary footprints of phenotypic diversity in chickpea
Authors: Daware, Anurag
Mohanty, Jitendra K.
Narnoliya, Laxmi
Singh, Akansha
Rathore, Deepanshi
Thakro, Virevol
Francis, Aleena
Singh, Nagendra Pratap
Francis, Philip
Tripathi, Shailesh
Chattopadhyay, Debasis
Parida, Swarup K.
Keywords: Cicer
Chickpea
DNA methylation
Epi-alleles
SNPs
Issue Date: 2024
Publisher: Oxford University Press
Citation: DNA Research, 31(3): dsae013
Abstract: Genetic diversity and environmental factors are long believed to be the dominant contributor to phenotypic diversity in crop plants. However, it has been recently established that, besides genetic variation, epigenetic variation, especially variation in DNA methylation, plays a significant role in determining phenotypic diversity in crop plants. Therefore, assessing DNA methylation diversity in crop plants becomes vital, especially in the case of crops like chickpea, which has a narrow genetic base. Thus, in the present study, we employed whole-genome bisulfite sequencing to assess DNA methylation diversity in wild and cultivated (desi and kabuli) chickpea. This revealed extensive DNA methylation diversity in both wild and cultivated chickpea. Interestingly, the methylation diversity was found to be significantly higher than genetic diversity, suggesting its potential role in providing vital phenotypic diversity for the evolution and domestication of the Cicer gene pool. The phylogeny based on DNA methylation variation also indicates a potential complementary role of DNA methylation variation in addition to DNA sequence variation in shaping chickpea evolution. Besides, the study also identified diverse epi-alleles of many previously known genes of agronomic importance. The Cicer MethVarMap database developed in this study enables researchers to readily visualize methylation variation within the genes and genomic regions of their interest (http://223.31.159.7/cicer/public/). Therefore, epigenetic variation like DNA methylation variation can potentially explain the paradox of high phenotypic diversity despite the narrow genetic base in chickpea and can potentially be employed for crop improvement.
Description: Accepted date: 04 May 2024
URI: https://academic.oup.com/dnaresearch/advance-article/doi/10.1093/dnares/dsae013/7664434?searchresult=1
http://223.31.159.10:8080/jspui/handle/123456789/1597
ISSN: 1756-1663
Appears in Collections:Institutional Publications

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