Genome-wide association studies revealed DArTseq loci associated with agronomic traits in Turkish faba bean germplasm

Karaköy, Tolga; Toklu, Faruk; Karagöl, Eylem Tugay; Uncuer, Damla; Çilesiz, Yeter; Ali, Amjad; Nadeem, Muhammad Azhar; Özkan, Hakan

doi:10.1007/s10722-023-01615-7

Cited by 2 publications

(3 citation statements)

References 70 publications

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“…They detected 98 significant QTLs (PVE 1.6%-24.9%) associated with flower, pod, plant type, and grain-related traits. 33 Karaköy et al 76 performed a genome wide association study (GWAS) in 372 Turkish genotypes using 23,661 diversity array technology sequence (DArTseq) markers and genotyping by sequencing (GBS) analysis. They identified 34 DArTseq marker-trait associations for plant structure and reproductive traits.…”

Section: Association Mappingmentioning

confidence: 99%

“…They identified 34 DArTseq marker-trait associations for plant structure and reproductive traits. 76 Recently, Skovbjerg et al 77 genotyped 2678 faba bean accessions using the Vfa-ba_v2 Axiom SNP array, which includes around 60 K probes. In this study, they conducted GWAS analysis with 21,345 SNP markers, which resulted in the identification of 238 significant marker-trait associations for growth, reproductive, and seed-related traits.…”

Section: Association Mappingmentioning

confidence: 99%

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Association mapping of plant structure and yield traits in faba bean (Vicia faba L.)

Abuzayed,

Baytar,

Yanar

et al. 2023

JSFA Reports

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BACKGROUNDFaba bean (Vicia faba L.) is an important crop with high protein content. Tens of thousands of faba bean accessions are available in germplasm collections throughout the world. Morphological characterization of these materials can enrich these collection and aid in the selection of genotypes for use in breeding programs.RESULTSIn this study, 26 morphological characters were analyzed for 61 faba bean landraces and 53 cultivars over two seasons in Izmir, Turkey. The genotypes had high diversity for several yield traits including number of pods per plant, dry seed yield, and 100‐seed weight. Association mapping was conducted for the morphological characters using 651 alleles from 100 SSR markers and a general linear model based on the Q matrix. A false discovery rate of 0.20 was used to test the significance of marker‐trait associations resulting in 75 loci detected for 20 of the morphological characters (p ≤ 0.001).CONCLUSIONOverall, 44% of the quantitative trait loci (QTL) were for seed traits, with 24, 15, and 17% of QTL identified for vegetative, inflorescence and pod traits, respectively. The phenotypic data and marker‐trait associations generated by this work can help breeding programs in the selection and improvement of faba bean.This article is protected by copyright. All rights reserved.

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Section: Association Mappingmentioning

confidence: 99%

Section: Association Mappingmentioning

confidence: 99%

Association mapping of plant structure and yield traits in faba bean (Vicia faba L.)

Abuzayed,

Baytar,

Yanar

et al. 2023

JSFA Reports

View full text Add to dashboard Cite

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“…Genome-wide association study (GWAS) has become an important tool for geneticists in identifying genomic loci governing target traits in plants and is based on the association of genotypic and phenotypic data ( Torkamaneh and Belzile, 2022 ). Through GWAS on faba bean, genetic markers have been associated with agronomic traits such as heat stress and herbicide tolerance, plant architecture (height, branching, and flower/pod placement), time to flowering, and seed yield ( Abou-Khater et al., 2022 ; Maalouf et al., 2022 ; Karaköy et al., 2023 ; Li et al., 2023 ). Several GWAS on faba bean with a focus on seed quality aspects were also recently published, making use of the available reference genome to localize markers.…”

Section: Introductionmentioning

confidence: 99%

Novel SNP markers for flowering and seed quality traits in faba bean (Vicia faba L.): characterization and GWAS of a diversity panel

Ohm,

Åstrand,

Ceplitis

et al. 2024

Front. Plant Sci.

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Faba bean (Vicia faba L.) is a legume crop grown in diverse climates worldwide. It has a high potential for increased cultivation to meet the need for more plant-based proteins in human diets, a prerequisite for a more sustainable food production system. Characterization of diversity panels of crops can identify variation in and genetic markers for target traits of interest for plant breeding. In this work, we collected a diversity panel of 220 accessions of faba bean from around the world consisting of gene bank material and commercially available cultivars. The aims of this study were to quantify the phenotypic diversity in target traits to analyze the impact of breeding on these traits, and to identify genetic markers associated with traits through a genome-wide association study (GWAS). Characterization under field conditions at Nordic latitude across two years revealed a large genotypic variation and high broad-sense heritability for eleven agronomic and seed quality traits. Pairwise correlations showed that seed yield was positively correlated to plant height, number of seeds per plant, and days to maturity. Further, susceptibility to bean weevil damage was significantly higher for early flowering accessions and accessions with larger seeds. In this study, no yield penalty was found for higher seed protein content, but protein content was negatively correlated to starch content. Our results showed that while breeding advances in faba bean germplasm have resulted in increased yields and number of seeds per plant, they have also led to a selection pressure towards delayed onset of flowering and maturity. DArTseq genotyping identified 6,606 single nucleotide polymorphisms (SNPs) by alignment to the faba bean reference genome. These SNPs were used in a GWAS, revealing 51 novel SNP markers significantly associated with ten of the assessed traits. Three markers for days to flowering were found in predicted genes encoding proteins for which homologs in other plant species regulate flowering. Altogether, this work enriches the growing pool of phenotypic and genotypic data on faba bean as a valuable resource for developing efficient breeding strategies to expand crop cultivation.

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Genome-wide association studies revealed DArTseq loci associated with agronomic traits in Turkish faba bean germplasm

Cited by 2 publications

References 70 publications

Association mapping of plant structure and yield traits in faba bean (Vicia faba L.)

Association mapping of plant structure and yield traits in faba bean (Vicia faba L.)

Novel SNP markers for flowering and seed quality traits in faba bean (Vicia faba L.): characterization and GWAS of a diversity panel

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