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Seed traits are very important agronomic traits that contribute significantly into crop yield and are considered useful indicators to monitor the inheritance of quantitative traits influenced by genotype and environmental conditions. To investıgate genomic regions useful for breeding high-yielding and highly nutritious common bean (Phaseolus vulgaris L.) cultivars, a mini core collection of Turkish common bean germplasm was screened under five environments and two locations for seed traits (seed width, seed yield/plant (SYP), and hundred seed weight). The results of analysis of variance (ANOVA) across the environments revealed significant effects of genotypes and genotype by environment interaction (G × E) for all studied traits except hundred seed weight (HSW), where G × E was found nonsignificant. During this study, mean seed width, SYP, and HSW were 7.038 mm, 21.815 g, and 42.1 g, respectively. Pearson's correlation coefficient revealed a significant and positive correlation (p = 0.01) of seed width with SYP and HSW. At the provinces level, minimum and maximum HSW was reflected by Elazığ and Bolu provinces, respectively. Studied germplasm was grouped into two populations in constellation analysis based on their HSW. A total of 7900 DArTseq markers identified through genotyping by sequencing (GBS) were used for the investigation of marker-trait association. DArT-3373385 marker present on chromosome Pv08 showed a significant association for seed width. DArT-8215545 marker showed a significant association for SYP and this marker was also present on chromosome Pv08. A total of four DArTseq markers were determined to be associated with HSW, and DArT-3372052 contributed maximum (11.32%) to phenotypic variations. We believe that the reported genomic regions will be helpful for future marker-assisted breeding regarding yield-related traits in common bean. [ABSTRACT FROM AUTHOR]

Human body needs sufficient quantity of protein on daily basis for the normal functioning. Dietary protein in sufficient quantity is becoming a key issue for huge population of the world particularly in developing countries. Present investigation aimed to explore the phenotypic variation and to investigate the genomic regions associated with seed protein contents in Turkish common bean germplasm collected from 19 provinces. Field experiments were conducted according to augmented block design at two locations (Bolu and Sivas) for two consecutive years (2017 and 2018). Analysis of variance revealed highly significant environmental effects (p < 0.05) on seed protein contents within environments, while genotype by environment interaction revealed nonsignificant effects. Overall mean protein contents were 36.36%, while Balikesir-3 and Hakkari-38 yielded minimum (31.64%) and maximum (40.70%) protein contents. Among 19 provinces, accessions from Hakkari and Erzincan provinces disclosed maximum and minimum mean protein contents respectively. Scatter plot between seed protein contents and plant height divided the accessions according to their protein contents and plant height. A total of eight stable accessions were selected and can be recommended for future breeding activities. The implemented constellation plot separated the studied germplasm into two populations on the basis of their protein contents. Genotyping by sequencing resulted 7900 DArTseq markers was used for marker-trait association and a total of 11 markers showed significant association for protein contents. During this study, DArT-3365703 marker was identified in both locations (Sivas and Bolu) during 2017 and might be used for future common bean breeding. Physical map revealed the presence narrow regions between identified markers on Pv02 and Pv05. Therefore, these regions should be considered for future breeding activities. We are confident that results of present study will be helpful for marker-assisted breeding of common bean. [ABSTRACT FROM AUTHOR]

Present study was aimed to investigate the genetic diversity and population structure of Turkish common bean germplasm. A total of 96 bean genotypes were characterized with iPBS-retrotansposons that yielded a mean polymorphism information contents of 0.8. Mean gene diversity and Shannon information index were 0.14 and 0.25, respectively. Neighbor joining analysis divided the bean genotypes into two main group (A and B) according to their geographical regions, growth habits and seed size. Bingol-l7, Sivas-14 and Hakkari-11 genotypes were found very distinct and can be used as candidate parents for the bean breeding. The higher efficiency and reproducibility of iPBS-retrotransposons was witnessed in common bean as compared to earlier studies using the same marker system. Results of this study will boost up the investigators for genotyping the larger germplasm of common bean with minimum laboratory infrastructure in developing and least developed countries. [ABSTRACT FROM AUTHOR]

Bean common mosaic virus (BCMV) is a significant pathogen that affects common bean, leading to substantial yield losses and reduced crop quality. To mitigate BCMV attacks, certain genes, including diacylglycerol kinases genes (PvDGKs), genes associated with defense and stress responses (PvGST , PvPAL, PvLOX , and PvPOD), as well as genes related to plant defense (PvPR 1, PvPR 2, and PvPR 3) play an essential functional role in various stress responses in common bean. In this study, the expression levels of PvDGK 1 , PvDGK 2 , PvDGK 3 , PvDGK 5a , PvDGK 5b , PvDGK 6, PvGST , PvPAL, PvLOX , PvPOD , PvPR 1, PvPR 2, and PvPR 3 genes were investigated in the leaves of different common bean genotypes under BCMV infection conditions. Through quantitative real-time PCR analysis, we observed varying expression patterns for all these genes at different time points during viral infection. The tolerant genotype exhibited higher expression levels of all PvDGKs , PvGST , PvPAL , PvPOD , PvPR 1, and PvPR 2 genes compared to the susceptible genotype, with the PvPR 1 gene showing the highest transcript levels. These findings provide the initial evidence of the potential roles of PvDGK s, PvGST , PvPAL, PvLOX , PvPOD , PvPR 1, PvPR 2, and PvPR 3 in responding to the stress induced by BCMV in common bean. The results presented herein will serve as a valuable resource for guiding future breeding studies aimed at addressing BCMV-induced stress in common bean cultivation. • This study marks the expression levels of different genes in Phaseolus vulgaris during BCMV infection. • These findings provide the initial evidence of the potential roles of diacylglycerol kinase genes. • The results will guide future breeding efforts to address BCMV-induced stress. [ABSTRACT FROM AUTHOR]

Common bean is an important legume crop having high quality protein, micronutrients, vitamins and antioxidants, which makes it a "grain of hope" for poor communities. Hence, a good number of breeding activities have been performed on the improvement of various key traits for years. However, recent advancements in molecular markers, sequencing technologies and the completion of the common bean genome sequence have opened numerous opportunities for fine mapping and gene characterization. The availability of these tools together with investigations of quantitative trait loci (QTL) and candidate genes for key traits such as morpho-agronomic, iron and zinc contents, cooking and quality traits, antioxidant activity, biotic and abiotic stresses pave the way to the development of new strategies for common bean genetic improvement. As a food source, it can contribute to the reduction of food scarcity worldwide in the coming years. Therefore, it is very important to take synergic efforts to integrate common bean genetic and genomic resources in breeding activities to ensure food security and contribute significantly to improved livelihoods in developing countries. Moreover, Kompetitive allele specific PCR (KASP) and CRISPR-Cas9 should be used to develop climate resilience common bean varieties. Here, we provide an overview of the evolution of common bean research by highlighting the past and recent advances in genomics, transgenics, transcriptomics and proteomics and also critically discuss the future prospects for further genetic improvement and better expansion of this crop. [ABSTRACT FROM AUTHOR]

Turkey presents a great diversity of common bean landraces in farmers’ fields. We collected 183 common bean accessions from 19 different Turkish geographic regions and 5 scarlet runner bean accessions to investigate their genetic diversity and population structure using phenotypic information (growth habit, and seed weight, flower color, bracteole shape and size, pod shape and leaf shape and color), geographic provenance and 12,557 silicoDArT markers. A total of 24.14% markers were found novel. For the entire population (188 accessions), the expected heterozygosity was 0.078 and overall gene diversity, Fst and Fis were 0.14, 0.55 and 1, respectively. Using marker information, model-based structure, principal coordinate analysis (PCoA) and unweighted pair-group method with arithmetic means (UPGMA) algorithms clustered the 188 accessions into two main populations A (predominant) and B, and 5 unclassified genotypes, representing 3 meaningful heterotic groups for breeding purposes. Phenotypic information clearly distinguished these populations; population A and B, respectively, were bigger (>40g/100 seeds) and smaller (<40g/100 seeds) seed-sized. The unclassified population was pure and only contained climbing genotypes with 100 seed weight 2–3 times greater than populations A and B. Clustering was mainly based on A: seed weight, B: growth habit, C: geographical provinces and D: flower color. Mean kinship was generally low, but population B was more diverse than population A. Overall, a useful level of gene and genotypic diversity was observed in this work and can be used by the scientific community in breeding efforts to develop superior common bean strains. [ABSTRACT FROM AUTHOR]

Plant landraces represent a repository of a gene pool, local adaptation of their domestic species, and thereby are considered a great source of genetic variations. Such genetic variation can be helpful to mitigate the current and future food challenges. A total of 183 common bean accessions including three commercial varieties collected from 19 Turkish provinces were grown to record their morpho-agronomic variations and to evaluate the best performing accessions under multi-environmental conditions. Plant height, days to maturity, pods weight, seed length, and 100-seed weight were used to evaluate the best performing accessions under different environmental conditions. A wide range of variations for traits like days to maturity (99–161), plant height (21–168.7 cm), seed length (7.41–16.4 mm), seeds per plant (17.8–254.4), and 100-seeds weight (24.97–73.8 g) were observed and can be useful for breeding purposes. The analytic results derived from the first three eigenvectors suggested that plant height, plant weight, 100-seed weight, and days to flowering were biologically significant bean traits. Seed yield per plant was positively and significantly correlated with plant weight and pods weight. Genotype × environment biplot discriminated the studied common bean accessions based on their plant height and growth habit. Plant height, days to maturity, seed width, and first pod height were found highly heritable traits and were least affected by environmental forces. Among 19 provinces, accessions of Bilecik showed maximum pods per plant, seed yield per plant and 100-seed weight, while Erzincan and Sivas provinces reflected the prevalence of bushy and early maturing accessions. Information provided herein comprehensively explored the occurrence of genotypic variations which can be used for the development of candidate varieties responding to breeder, farmer, and consumer preferences. [ABSTRACT FROM AUTHOR]

Antioxidants play an important role in animal and plant life owing to their involvement in complex metabolic and signaling mechanisms, hence uncovering the genetic basis associated with antioxidant activity is very important for the development of improved varieties. Here, a total of 182 common bean (Phaseolus vulgaris) landraces and six commercial cultivars collected from 19 provinces of Turkey were evaluated for seed antioxidant activity under four environments and two locations. Antioxidant activity was measured using ABTS radical scavenging capacity and mean antioxidant activity in common bean landraces was 20.03 µmol TE/g. Analysis of variance reflected that genotype by environment interaction was statistically non-significant and heritability analysis showed higher heritability of antioxidant activity. Variations in seed color were observed, and a higher antioxidant activity was present in seeds having colored seed as compared to those having white seeds. A negative correlation was found between white-colored seeds and antioxidant activity. A total of 7900 DArTseq markers were used to explore the population structure that grouped the studied germplasm into two sub-populations on the basis of their geographical origins and trolox equivalent antioxidant capacity contents. Mean linkage disequilibrium (LD) was 54%, and mean LD decay was 1.15 Mb. Mixed linear model i.e., the Q + K model demonstrated that four DArTseq markers had significant association (p < 0.01) for antioxidant activity. Three of these markers were present on chromosome Pv07, while the fourth marker was located on chromosome Pv03. Among the identified markers, DArT-3369938 marker showed maximum (14.61%) variation. A total of four putative candidate genes were predicted from sequences reflecting homology to identified DArTseq markers. This is a pioneering study involving the identification of association for antioxidant activity in common bean seeds. We envisage that this study will be very helpful for global common bean breeding community in order to develop cultivars with higher antioxidant activity. [ABSTRACT FROM AUTHOR]