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The Signatures of Ecological Adaptation in the Genomes of Chickpea Landraces

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Abstract—The seed bank of the Vavilov All-Russia Institute of Plant Genetic Resources (VIR) contains a wide range of landraces that were collected almost 100 years ago, in which natural selection might leave signatures through crop diversification. In this study, we analyzed 407 landraces sampled at centers of the origin of the chickpea and at sites of secondary diversity. We hypothesize that a fraction of single nucleotide polymorphisms might have exhibited strong selection to a range of environmental conditions that chickpea experienced during domestication and subsequent geographic distribution. Using the BayPass package we identified 13 polymorphisms; these assort by environmental conditions and are strong candidates for local adaptation.

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Funding

Bioclimatic and biogeographical analyses, as well the BayPass analysis, were supported by the Russian Science Foundation (project no. 16-16-00007 (ABS, SVN, MGS)). The study was also supported by the cooperation agreement from the US Agency for International Development in the framework of the Feed the Future program (no. AID-OAA-A-14-00008 (DRC, PLCh, SVN)), the Zumberge Research and Innovation Fund (SVN), the Plant Genome Program of the US National Science Foundation (grant no. IOS-1339346 (DRC)).

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Correspondence to M. G. Samsonova.

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The authors declare that they have no conflict of interest. This article does not contain any studies involving animals or human participants performed by any of the authors.

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Translated by M. Batrukova

Abbreviations: SNPs, single nucleotide polymorphisms; SMS, synthetic morphology score; BF, Bayes factor.

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Sokolkova, A.B., Chang, P.L., Carrasquila-Garcia, N. et al. The Signatures of Ecological Adaptation in the Genomes of Chickpea Landraces. BIOPHYSICS 65, 237–240 (2020). https://doi.org/10.1134/S0006350920020244

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  • DOI: https://doi.org/10.1134/S0006350920020244

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