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Genomic Analysis of Vavilov's Historic Chickpea Landraces Reveals Footprints of Environmental and Human Selection.

Genomic Analysis of Vavilov's Historic Chickpea Landraces Reveals Footprints of Environmental and Human Selection.

Authors :
Sokolkova, Alena
Sokolkova, Alena
Bulyntsev, Sergey V
Chang, Peter L
Carrasquilla-Garcia, Noelia
Igolkina, Anna A
Noujdina, Nina V
von Wettberg, Eric
Vishnyakova, Margarita A
Cook, Douglas R
Nuzhdin, Sergey V
Samsonova, Maria G
Sokolkova, Alena
Sokolkova, Alena
Bulyntsev, Sergey V
Chang, Peter L
Carrasquilla-Garcia, Noelia
Igolkina, Anna A
Noujdina, Nina V
von Wettberg, Eric
Vishnyakova, Margarita A
Cook, Douglas R
Nuzhdin, Sergey V
Samsonova, Maria G
Source :
International journal of molecular sciences; vol 21, iss 11, E3952; 1422-0067
Publication Year :
2020

Abstract

A defining challenge of the 21st century is meeting the nutritional demands of the growing human population, under a scenario of limited land and water resources and under the specter of climate change. The Vavilov seed bank contains numerous landraces collected nearly a hundred years ago, and thus may contain 'genetic gems' with the potential to enhance modern breeding efforts. Here, we analyze 407 landraces, sampled from major historic centers of chickpea cultivation and secondary diversification. Genome-Wide Association Studies (GWAS) conducted on both phenotypic traits and bioclimatic variables at landraces sampling sites as extended phenotypes resulted in 84 GWAS hits associated to various regions. The novel haploblock-based test identified haploblocks enriched for single nucleotide polymorphisms (SNPs) associated with phenotypes and bioclimatic variables. Subsequent bi-clustering of traits sharing enriched haploblocks underscored both non-random distribution of SNPs among several haploblocks and their association with multiple traits. We hypothesize that these clusters of pleiotropic SNPs represent co-adapted genetic complexes to a range of environmental conditions that chickpea experienced during domestication and subsequent geographic radiation. Linking genetic variation to phenotypic data and a wealth of historic information preserved in historic seed banks are the keys for genome-based and environment-informed breeding intensification.

Details

Database :
OAIster
Journal :
International journal of molecular sciences; vol 21, iss 11, E3952; 1422-0067
Notes :
application/pdf, International journal of molecular sciences vol 21, iss 11, E3952 1422-0067
Publication Type :
Electronic Resource
Accession number :
edsoai.on1391599257
Document Type :
Electronic Resource