Journal Article10.1186/s12864-024-10245-x
Molecular genetic diversity and linkage disequilibrium structure of the Egyptian faba bean using Single Primer Enrichment Technology (SPET)
Ahmed Sallam,Ahmed Amro,Amira M. I. Mourad,Abdallah Rafeek,A. Boerner,Shamaseldeen Eltaher +5 more
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TL;DR: The genetic diversity and linkage disequilibrium structure of the Egyptian faba bean using Single Primer Enrichment Technology (SPET) is high, and the population structure is complex.
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Abstract: Abstract Faba bean is an important legume crop. The genetic diversity among faba bean genotypes is very important for the genetic improvement of target traits. A set of 128 fab bean genotypes that are originally from Egypt were used in this study to investigate the genetic diversity and population structure. The 128 genotypes were genotyped using the Single Primer Enrichment Technology (SPET) by which a set of 6759 SNP markers were generated after filtration. The SNP markers were distributed on all chromosomes with a range extending from 822 (Chr. 6) to 1872 (Chr.1). The SNP markers had wide ranges of polymorphic information content (PIC), gene diversity (GD), and minor allele frequency. The analysis of population structure divided the Egyptian faba bean population into five subpopulations. Considerable genetic distance was found among all genotypes, ranging from 0.1 to 0.4. The highly divergent genotype was highlighted in this study and the genetic distance among genotypes ranged from 0.1 and 0.6. Moreover, the structure of linkage disequilibrium was studied, and the analysis revealed a low level of LD in the Egyptian faba bean population. A slow LD decay at the genomic and chromosomal levels was observed. Interestingly, the distribution of haplotype blocks was presented in each chromosome and the number of haplotype block ranged from 65 (Chr. 4) to 156 (Chr. 1). Migration and genetic drift are the main reasons for the low LD in the Egyptian faba bean population. The results of this study shed light on the possibility of the genetic improvement of faba bean crop in Egypt and conducting genetic association analyses to identify candidate genes associated with target traits (e.g. protein content, grain yield, etc.) in this panel.
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Citations
Effects of genotype × environment interactions on the morphological and genetic aspects of the seed characteristics of faba beans
Ahmed Sallam,Salwa M. Mahmoud,Ahmed AMRO,Ameer Elfarash,ANDREAS BÖRNER +4 more
Abstract: Abstract Faba bean ( Vicia faba L.) is one of the oldest cultivated crops in the world. It is the third most important feed grain legume globally, after soybean and lupin. It is an autogamous plant with a partial outcrossing rate ranging from 20% to 80%. The objective of most faba bean improvement programs is to enhance yield; however, yield is a complex trait influenced by many other traits. Therefore, in this study, we focused on seed traits that are related to faba bean yield. A set of 110 faba bean genotypes was tested across two different locations (Germany and Egypt) to investigate the effect of genotype–environment interactions and identify single‐nucleotide polymorphism (SNPs) related to seed characteristics. This study revealed that there is high genetic variation among genotypes in all traits in each location, and the genotype × location interactions were significant. There was a strong positive correlation among the seed characteristics within each location, but the correlations between the two locations were weak or not significant. FB‐231 and FB‐227 performed very well in both countries based on the selection index (SI) values, whereas FB‐193 and FB‐185 had the lowest SI values in both countries. All genotypes were genotyped via single primer enrichment technology, which resulted in 33,165 SNP markers. The association mapping revealed 162 and 31 significant SNPs in seed traits scored in Germany and Egypt, respectively. A set of seven SNPs was associated with more than one seed trait in Germany, whereas only one SNP was associated with two traits in Egypt. No shared markers were found between the two locations for any of the seed traits. These markers represent potential targets for future breeding programs to enhance seed size and understanding of its genetic control in the faba bean.
Jan Sjödin faba bean mutation collection: status and molecular characterization
Hamid Khazaei,Ulrika Carlson-Nilsson,Alan H. Schulman +2 more
- 28 Aug 2024
TL;DR: A historical faba bean mutant collection is genetically characterized using 11,073 SNP markers, revealing a shallow population structure and phenotypic clustering, supporting the use of SPET for faba bean genotyping and breeding.
The Jan Sjödin faba bean mutant collection: morphological and molecular characterization
TL;DR: A historical faba bean mutant collection, genotyped with 11,073 SNP markers, reveals phenotypic variation and shallow population structure, indicating its potential for faba bean breeding and genetic studies, despite minor clustering by phenotype.
References
Genetic analysis of global faba bean diversity, agronomic traits and selection signatures
Cathrine Kiel Skovbjerg,Deepti Angra,Tom Robertson-Shersby-Harvie,Jonathan Kreplak,Gabriel Keeble-Gagnère,Sukhjiwan Kaur,Wolfgang Ecke,Alex Windhorst,Linda Nielsen,A. Schiemann,J.C. Knudsen,Natalia Gutierrez,Vasiliki Tagkouli,Lavinia I. Fechete,Luc Janss,Jens Stougaard,A. Warsame,Sheila Alves,Hamid Khazaei,Wolfgang Link,Ana Maria Torres,Donal M. O'Sullivan,Stig U. Andersen +22 more
TL;DR: In this paper , the authors used 21,345 high-quality SNP markers to genetically characterize 2678 faba bean genotypes and found 238 significant marker-trait associations linked to 12 traits of agronomic importance.
Genetic diversity in some faba bean (Vicia faba L.) genotypes assessed by simple sequence repeats
Hidayet Tufan,Cahit Erdoğan +1 more
TL;DR: The results indicated that there is sufficient genetic diversity among the tested faba bean genotypes (especially cultivated in Turkey) and could be used in Faba bean breeding programmes.
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RNA-Seq and genetic diversity analysis of faba bean (Vicia faba L.) varieties in China
TL;DR: In this article , simple sequence repeat (SSR) markers were developed to determine the genetic diversity of 226 faba bean varieties derived from different regions in China, and the results provided a valuable data resource for annotating genes to different categories and developing SSR markers.
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Generation Mean Analysis, Heterosis, and Genetic Diversity in Five Egyptian Faba Beans and Their Hybrids
M. A. Abd El-Aty,M. El-Hity,Tharwat M. Abo Sen,I. A. El-Rahaman,O. M. Ibrahim,Ammar Al-Farga,Amira M. El-Tahan +6 more
TL;DR: The study found significant variations between generations in all attributes studied in faba bean hybrids. High heterosis and broad-sense heritability values were observed. Genetic advance through selection ranged from 1.73% to 95.12%.
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Untersuchungen zur Leitbündelstruktur der Ackerbohne (Vicia faba L.)
TL;DR: It is probable that the described vessel structure exists in most broad beans, this structure is complex arranged and modifyable and it is quite unprobable that the vessel structure will be a yield reducing factor.
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