The Jan Sjödin faba bean mutant collection: morphological and molecular characterization DOI Creative Commons
Hamid Khazaei, Ulrika Carlson-Nilsson, Alan H. Schulman

et al.

Hereditas, Journal Year: 2024, Volume and Issue: 161(1)

Published: Oct. 7, 2024

Abstract Background Plant mutagenesis creates novel alleles, thereby increasing genetic and phenotypic diversity. The availability of the faba bean ( Vicia L.) reference genome a growing set additional genomic resources has increased scientific practical value mutant collections. We aimed to genotype morphologically phenotype historical collection developed characterized by Jan Sjödin (1934–2023) over half century ago in order increase its researchers. was genotyped using high-throughput single-primer enrichment technology (SPET) assays. Results used 11,073 informative single nucleotide polymorphism (SNP) markers spanning 52 lines along with background line, cv. Primus. A range flower, seed, leaf, stipule mutations were observed. analysis population structure revealed shallow no major subpopulations. Principal component cluster analyses revealed, minor extent, that mutants clustered their phenotype. Conclusions mutants’ variation indicate potential play significant role breeding functional studies.

Language: Английский

Genome-wide association study for yield-related traits in faba bean (Vicia faba L.) DOI Creative Commons
Natalia Gutiérrez, Marie Pégard, Ignacio Solís

et al.

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: March 13, 2024

Yield is the most complex trait to improve crop production, and identifying genetic determinants for high yield a major issue in breeding new varieties. In faba bean ( Vicia L.), quantitative loci (QTLs) have previously been detected studies of biparental mapping populations, but genes controlling main components remain largely unknown. this study, we investigated first time control six yield-related traits: shattering (SH), pods per plant (PP), seeds pod (SP), (SPL), 100-seed weight (HSW), plot (PY), using genome-wide association study (GWAS) on worldwide collection 352 homozygous accessions with aim markers associated them. Phenotyping was carried out field trials at three locations (Spain, United Kingdom, Serbia) over 2 years. The panel genotyped Affymetrix SNP-chip yielding 22,867 SNP markers. GWAS analysis identified 112 marker–trait associations (MTAs) 97 candidate genes, distributed chromosomes. Eight MTAs were least two environments, five multiple traits. next step will be validate these candidates different backgrounds provide resources marker-assisted yield.

Language: Английский

Citations

7
A special short-wing petal faba genome and genetic dissection of floral and yield-related traits accelerate breeding and improvement of faba bean DOI Creative Commons
Rong Liu,

Chaoqin Hu,

Dan Gao

et al.

Genome biology, Journal Year: 2025, Volume and Issue: 26(1)

Published: March 17, 2025

A comprehensive study of the genome and genetics superior germplasms is fundamental for crop improvement. As a widely adapted protein with high yield potential, improvement in breeding development seeds industry faba bean have been greatly hindered by its giant size outcrossing rate. To fully explore genomic diversity genetic basis important agronomic traits, we first generate de novo assembly perform annotation special short-wing petal germplasm (VF8137) exhibiting low Comparative pan-genome analyses reveal evolution characteristics unique pan-genes among three different genomes. In addition, 558 accessions reveals distinct groups remarkable differences between southern northern germplasms. Genome-wide association analysis identifies several candidate genes associated adaptation- yield-related traits. We also identify one gene related to petals combining quantitative trait locus mapping bulked segregant analysis. further elucidate function through multiple lines evidence from functional annotation, sequence variation, expression differences, structure variation. Our provides new insights into Leguminosae bean. It offers valuable resources

Language: Английский

Citations

0
Targeted genotyping (90K-SPET) facilitates genome-wide association studies and the prediction of yield-related traits in faba bean (Vicia faba L.) DOI Creative Commons
Antonio Lippolis, Salvador A. Gezan,

Jorrit Zuidgeest

et al.

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: April 29, 2025

Establishing faba bean (Vicia L.) as a major protein crop in Europe requires developing high-yielding varieties. However, the genetic regulation of yield-related traits is currently under-explored. These can be improved by exploiting extensive but largely uncharacterized germplasm. Our study aimed to identify associations between 38,014 single nucleotide polymorphisms (SNPs) and flowering time (FT), plant height (PH), pod length (PL), seeds per (SP), seed weight (SSW) 245 accessions (CGN panel) via Genome-Wide Association Study (GWAS). The were grown 2021 2022 Netherlands. Additionally, we developed genomic selection (GS) models predict merit within large germplasm collections for mentioned traits, well yield (YLD). CGN panel was an optimal performing high-resolution GWAS, showing phenotypic variation, high narrow-sense heritability all minimal relatedness among accessions. Population structure analysis revealed presence four groups. GWAS uncovered 33 SNP-trait 17 2022. We identified one stable QTL FT SSW over two years, representing key molecular markers testing breeding applications. Short linkage disequilibrium decay (~ 268 Kbp) facilitated identification several important candidate genes with interesting homologs other crops. Ten SNPs five predicted intra-genic missense variants, potentially altering function. Moreover, modeling SNP effect simultaneously Bayesian GS showed promising predictive ability (PA) prediction accuracy (ACC), supporting their potential application germplasm-improvement programs. Predictive ranged from 0.58 0.81 2021, 0.47 0.85 different traits. across-year predictions PA. QTLs use highlighted new genes. Interestingly, categorized 15 putatively affecting demonstrated first that has unlock untapped diversity genebank accelerate trait integration into

Language: Английский

Citations

0
Molecular genetic diversity and linkage disequilibrium structure of the Egyptian faba bean using Single Primer Enrichment Technology (SPET) DOI Creative Commons
Ahmed Sallam, Ahmed Amro, Amira M. I. Mourad

et al.

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: June 28, 2024

Abstract Faba bean is an important legume crop. The genetic diversity among faba genotypes very for the improvement of target traits. A set 128 fab that are originally from Egypt were used in this study to investigate and population structure. genotyped using Single Primer Enrichment Technology (SPET) by which a 6759 SNP markers generated after filtration. distributed on all chromosomes with range extending 822 (Chr. 6) 1872 (Chr.1). had wide ranges polymorphic information content (PIC), gene (GD), minor allele frequency. analysis structure divided Egyptian into five subpopulations. Considerable distance was found genotypes, ranging 0.1 0.4. highly divergent genotype highlighted ranged 0.6. Moreover, linkage disequilibrium studied, revealed low level LD population. slow decay at genomic chromosomal levels observed. Interestingly, distribution haplotype blocks presented each chromosome number block 65 4) 156 1). Migration drift main reasons results shed light possibility crop conducting association analyses identify candidate genes associated traits (e.g. protein content, grain yield, etc.) panel.

Language: Английский

Citations

2
Targeted genotyping (90K-SPET) facilitates genome-wide association studies and the prediction of yield-related traits in faba bean (Vicia faba L.) DOI Creative Commons
Antonio Lippolis, Salvador A. Gezan,

Jorrit Zuidgeest

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 13, 2024

Abstract Background Establishing faba bean (Vicia L.) as a major protein crop in Europe requires developing high-yielding varieties. However, the genetic regulation of yield-related traits is currently under-explored. These can be improved by exploiting extensive but largely uncharacterized germplasm. Our study aimed to identify associations between 38,014 single nucleotide polymorphisms (SNPs) and flowering time (FT), plant height (PH), pod length (PL), seeds per (SP), seed weight (SSW) 245 accessions (CGN population) via Genome-Wide Association Study (GWAS). The were grown 2021 2022 Netherlands. Additionally, we developed genomic selection (GS) models predict merit within large germplasm collections. Results CGN population was an optimal panel for performing high-resolution GWAS, showing phenotypic variation, high narrow-sense heritability all traits, minimal relatedness among accessions. Population structure analysis revealed presence four groups. GWAS uncovered 33 SNP-trait 17 2022. We identified one stable QTL FT SSW over two years, representing key molecular markers testing breeding applications. Short linkage disequilibrium decay (~268 Kbp) facilitated identification several important candidate genes with interesting homologs other crops. Ten SNPs five predicted intra-genic missense variants, potentially altering function. Moreover, modeling SNP effect simultaneously Bayesian GS showed promising predictive ability (PA) prediction accuracy (ACC), supporting their potential application germplasm-improvement programs. Predictive ranged from 0.58 0.81 2021, 0.47 0.85 different traits. across-year predictions PA. Conclusion QTLs use highlighted new genes. Interestingly, categorized 15 putatively affecting demonstrated first that has unlock untapped diversity genebank collections accelerate trait integration into

Language: Английский

Citations

2
Genome-Wide Development of Polymorphic SNP Markers and Evaluation of Genetic Diversity of Litchi (Litchi chinensis Sonn.) DOI Creative Commons
Wei Liu,

Zhidan Xiao,

Nonghui Jiang

et al.

Plants, Journal Year: 2023, Volume and Issue: 12(23), P. 3949 - 3949

Published: Nov. 23, 2023

Litchi (Litchi chinensis Sonn.) is a highly valuable fruit crop that widely grown in tropical and subtropical areas of the world. Studying its genetic diversity population structure critical for effective conservation breeding programs. In this study, we developed 150 single-nucleotide polymorphism (SNP) markers were evenly spaced across litchi genome applied them to evaluation 84 accessions, including old cultivars, modern hybrids from known parents wild accessions. Ninety-one SNP markers, showing high levels genotyping success rates, used further analysis. The newly captured relatively higher level (He = 0.364) cultivars could be successfully identification synonymous with close backgrounds. Cluster analysis grouped all genotypes into three clusters showed perfect association their maturation period, among which accessions clustered corresponding domesticated different parent combinations inheritance tendencies. Our study not only provided set efficient future research, but also laid an important foundation litchi.

Language: Английский

Citations

4
The Genetics, Genomics, and Breeding of Cereals and Grain Legumes: Traits and Technologies for Future Food Security DOI Creative Commons
Muhammad Amjad Nawaz, Gyuhwa Chung, Kirill S. Golokhvast

et al.

Agronomy, Journal Year: 2023, Volume and Issue: 13(8), P. 2065 - 2065

Published: Aug. 4, 2023

According to the United Nations (UN), world’s population is expected grow by more than one billion people over next 15 years [...]

Language: Английский

Citations

1
Evaluation of genetic diversity in faba bean (Vicia faba L.) DOI Open Access
Sourav Ranjan Nanda,

CS Mahto,

Jay Lal Mahto

et al.

Journal of Food Legumes, Journal Year: 2024, Volume and Issue: 36(4), P. 257 - 261

Published: April 1, 2024

The present investigation was carried out to study inherent genetic diversity among 35 genotypes of faba bean (Vicia L.) using Mahalonobis D2 statistics. analysis grouped studied genetypes into 16 clusters in Environment 1 (Early sowing) and 12 2 (Late sowing). intra-cluster distance greater Cluster I (8.48) V (7.99). While inter-cluster observed between cluster X XIV XII 2. Seed yield per plant contributed the highest towards total divergence under both environments (49.25% 28.41% 2). RFB 14, ET226414, ET226415, HFB-1, ET226430, ET226426 ET226417 belonging different had higher can be used as a parent for further hybridization program generating useful variability.

Language: Английский

Citations

0
Jan Sjödin faba bean mutation collection: status and molecular characterization DOI Creative Commons
Hamid Khazaei, Ulrika Carlson-Nilsson, Alan H. Schulman

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 28, 2024

Abstract Background Plant mutagenesis creates novel alleles that increase genetic diversity and enhance crop resilience, productivity, sustainability. The availability of the faba bean (Vicia faba L.) reference genome a growing set additional genomic resources has increased scientific practical value mutant collections. We phenotyped genotyped historical collection developed characterized by Jan Sjödin (1934–2023) over half century ago. was using high-throughput single-primer enrichment technology (SPET) assays. Results In this study, we used 11,073 informative single nucleotide polymorphism (SNP) markers spanning to genetically characterize 52 lines along with background line, cv. Primus. A range flowers, seeds, leaves, stipule mutations were observed. analysis population structure revealed shallow no major subpopulations. Principal component cluster analyses revealed, minor extent, mutants clustered their phenotype. Conclusions Given high marker density, our findings support power SPET for genotyping. Our results will be useful breeding studies in bean.

Language: Английский

Citations

0
The Jan Sjödin faba bean mutant collection: morphological and molecular characterization DOI Creative Commons
Hamid Khazaei, Ulrika Carlson-Nilsson, Alan H. Schulman

et al.

Hereditas, Journal Year: 2024, Volume and Issue: 161(1)

Published: Oct. 7, 2024

Abstract Background Plant mutagenesis creates novel alleles, thereby increasing genetic and phenotypic diversity. The availability of the faba bean ( Vicia L.) reference genome a growing set additional genomic resources has increased scientific practical value mutant collections. We aimed to genotype morphologically phenotype historical collection developed characterized by Jan Sjödin (1934–2023) over half century ago in order increase its researchers. was genotyped using high-throughput single-primer enrichment technology (SPET) assays. Results used 11,073 informative single nucleotide polymorphism (SNP) markers spanning 52 lines along with background line, cv. Primus. A range flower, seed, leaf, stipule mutations were observed. analysis population structure revealed shallow no major subpopulations. Principal component cluster analyses revealed, minor extent, that mutants clustered their phenotype. Conclusions mutants’ variation indicate potential play significant role breeding functional studies.

Language: Английский

Citations

0