ArticleBMC genomics2020
Molecular genetic analysis of spring wheat core collection using genetic diversity, population structure, and linkage disequilibrium.
Article in BMC genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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46 citing papers in PubMed, 89 citations in OpenAlex.
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- Genome-wide association study and gene network analysis of drought tolerance in wheat during early growth.Frontiers in plant science · 2026Article
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- Exploring the genetic diversity and population structure of an ancient hexaploid wheat species Triticum sphaerococcum using SNP markers.BMC plant biology · 2024Article
- Genome-wide association study and KASP marker development for starch quality traits in wheat.The plant genome · 2024Article
- Identifying the physiological traits associated with DNA marker using genome wide association in wheat under heat stress.Scientific reports · 2024Article
- Genetic diversity and population structure of wheat landraces in Southern Winter Wheat Region of China.BMC genomics · 2024Article
- Molecular genetic diversity and linkage disequilibrium structure of the Egyptian faba bean using Single Primer Enrichment Technology (SPET).BMC genomics · 2024Article
- Genome-wide scanning to identify and validate single nucleotide polymorphism markers associated with drought tolerance in spring wheat seedlings.The plant genome · 2024Article
- Genome-Wide Association Study of Rice Diversity Panel Reveals New QTLs for Tolerance to Water Deficit Under the Egyptian Conditions.Rice (New York, N.Y.) · 2024Article
- Genome-wide association study, population structure, and genetic diversity of the tea plant in Guizhou Plateau.BMC plant biology · 2024Article
- Combining Genetic and Phenotypic Analyses for Detecting Bread Wheat Genotypes of Drought Tolerance through Multivariate Analysis Techniques.Life (Basel, Switzerland) · 2024Article
- Genetic analyses and prediction for lodging‑related traits in a diverse Iranian hexaploid wheat collection.Scientific reports · 2024Article
- Genome-wide association study of agronomic traits related to nitrogen use efficiency in Henan wheat.BMC genomics · 2024Article
- Genome-wide association study identifies key F-box genes linked to ethylene responsiveness and root growth in rice (Frontiers in plant science · 2024Article
- Assessment of genetic structure and trait associations of Watkins wheat landraces under Egyptian field conditions.Frontiers in genetics · 2024Article
- The groundnut improvement network for Africa (GINA) germplasm collection: a unique genetic resource for breeding and gene discovery.G3 (Bethesda, Md.) · 2023Article
- Genetic diversity, linkage disequilibrium, and population structure of tetraploid wheat landraces originating from Europe and Asia.BMC genomics · 2023Article
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Authors and funding
3 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundWheat (Triticum aestivium L.) is an important crop globally which has a complex genome. To identify the parents with useful agronomic characteristics that could be used in the various breeding programs, it is very important to understand the genetic diversity among global wheat genotypes. Also, understanding the genetic diversity is useful in breeding studies such as marker-assisted selection (MAS), genome-wide association studies (GWAS), and genomic selection.
resultsTo understand the genetic diversity in wheat, a set of 103 spring wheat genotypes which represented five different continents were used. These genotypes were genotyped using 36,720 genotyping-by-sequencing derived SNPs (GBS-SNPs) which were well distributed across wheat chromosomes. The tested 103-wheat genotypes contained three different subpopulations based on population structure, principle coordinate, and kinship analyses. A significant variation was found within and among the subpopulations based on the AMOVA. Subpopulation 1 was found to be the more diverse subpopulation based on the different allelic patterns (Na, Ne, I, h, and uh). No high linkage disequilibrium was found between the 36,720 SNPs. However, based on the genomic level, D genome was found to have the highest LD compared with the two other genomes A and B. The ratio between the number of significant LD/number of non-significant LD suggested that chromosomes 2D, 5A, and 7B are the highest LD chromosomes in their genomes with a value of 0.08, 0.07, and 0.05, respectively. Based on the LD decay, the D genome was found to be the lowest genome with the highest number of haplotype blocks on chromosome 2D.
conclusionThe recent study concluded that the 103-spring wheat genotypes and their GBS-SNP markers are very appropriate for GWAS studies and QTL-mapping. The core collection comprises three different subpopulations. Genotypes in subpopulation 1 are the most diverse genotypes and could be used in future breeding programs if they have desired traits. The distribution of LD hotspots across the genome was investigated which provides useful information on the genomic regions that includes interesting genes.
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