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Exploring the genetic diversity and population structure of wheat landrace population conserved at ICARDA genebank

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Title Exploring the genetic diversity and population structure of wheat landrace population conserved at ICARDA genebank
 
Creator Tehseen, Muhammad Massub
Tonk, Fatma Aykut
Tosun, Muzaffer
Istipliler, Deniz
Amri, Ahmed
Sansaloni, Carolina Paola
Kurtulus, Ezgi
Mubarik, Muhammad Salman
Nazari, Kumarse
 
Subject breeding
discriminant analysis
genetic variation
genetic distance
genetic improvement
genetic markers
hexaploidy
landraces
population structure
single nucleotide polymorphism
Triticum aestivum
wheat
 
Description Landraces are considered a valuable source of potential genetic diversity that could be used in the selection process in any plant breeding program. Here, we assembled a population of 600 bread wheat landraces collected from eight different countries, conserved at the ICARDA's genebank, and evaluated the genetic diversity and the population structure of the landraces using single nucleotide polymorphism (SNP) markers. A total of 11,830 high-quality SNPs distributed across the genomes A (40.5%), B (45.9%), and D (13.6%) were used for the final analysis. The population structure analysis was evaluated using the model-based method (STRUCTURE) and distance-based methods [discriminant analysis of principal components (DAPC) and principal component analysis (PCA)]. The STRUCTURE method grouped the landraces into two major clusters, with the landraces from Syria and Turkey forming two clusters with high proportions of admixture, whereas the DAPC and PCA analysis grouped the population into three subpopulations mostly according to the geographical information of the landraces, i.e., Syria, Iran, and Turkey with admixture. The analysis of molecular variance revealed that the majority of the variation was due to genetic differences within the populations as compared with between subpopulations, and it was the same for both the cluster-based and distance-based methods. Genetic distance analysis was also studied to estimate the differences between the landraces from different countries, and it was observed that the maximum genetic distance (0.389) was between the landraces from Spain and Palestine, whereas the minimum genetic distance (0.013) was observed between the landraces from Syria and Turkey. It was concluded from the study that the model-based methods (DAPC and PCA) could dissect the population structure more precisely when compared with the STRUCTURE method. The population structure and genetic diversity analysis of the bread wheat landraces presented here highlight the complex genetic architecture of the landraces native to the Fertile Crescent region. The results of this study provide useful information for the genetic improvement of hexaploid wheat and facilitate the use of landraces in wheat breeding programs.
 
Date 2022-06-15
2023-01-13T14:03:39Z
2023-01-13T14:03:39Z
 
Type Journal Article
 
Identifier Tehseen, M.M., Tonk, F.A., Tosun, M., Istipliler, D., Amri, A., Sansaloni, C.P., Kurtulus, E., Mubarik, M.S. and Nazari, K. 2022. Exploring the genetic diversity and population structure of wheat landrace population conserved at ICARDA genebank. Frontiers in Genetics 13:900572. https://hdl.handle.net/10883/22251
1664-8021
https://hdl.handle.net/10568/127058
https://hdl.handle.net/10883/22251
https://doi.org/10.3389/fgene.2022.900572
 
Language en
 
Rights CC-BY-4.0
Open Access
 
Format application/pdf
 
Source Frontiers in Genetics