Evaluation of lablab bean [Lablab purpureus (L.) sweet] genotypes: unveiling superior pod yield, nutritional quality, and collar rot resistance
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ABSTRACT:
SUBMITTER: Shubha K
PROVIDER: S-EPMC10809392 | biostudies-literature | 2023 Jan
REPOSITORIES: biostudies-literature
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Project description:Identification and validation of quantitative trait loci (QTL) governing desired phenotype of target trait is a prerequisite to implement marker-assisted selection in any crop including dolichos bean. Under this premise, we used two mapping populations (MPs) to detect and cross population validate QTL controlling fresh pod yield. One of the MPs consisted of F2 individuals (MP1) derived from crossing two elite genotypes, the second MP consisted of random RILs (MP2) derived from a different pair of elite genotypes. The MP1 and MP2 were genotyped using polymorphic 86 and 91 SSR markers, respectively and linkage maps were constructed using QTL IciM mapping software. The MP1 and MP2 were phenotyped during 2021 and 2017 rainy and post rainy seasons, respectively for fresh pod yield plant-1 following two-replicated simple lattice design. QTL maps were developed in MP1 and MP2 using genotype and phenotype data. Our results indicated that the estimates of total map length, average map length per linkage group (LG) and average inter-marker distance in MP2 were greater (by at least 1.5 times) than those in MP1. While seven QTLs were detected in MP1, six were detected in MP2 with three QTL exhibiting positive and additive minor effects for fresh pod yield plant-1. We also detected one common minor positive effect QTL across two seasons in MP2 and significant epistatic QTL, whose main effects were non-significant. One each of the seven and six QTL-linked SSR markers detected in MP1 and MP2, respectively were cross-population validated. The implications of these results are discussed in relation to strategies to breed dolichos bean.
| S-EPMC11904200 | biostudies-literature
Project description:Country bean is a grain legume extensively farmed for its multi-purpose uses, yet the traits related to yield are are poorly studied and yet unexplored. A study on the diversity of qualitative and quantitative morphological characteristics concerning yield among the country bean germplasms collected from Bangladesh identified considerable variation in the studied traits across the germplasms and identified a complex correlation between the qualitative and quantitative traits. Principal Component Analysis (PCA) detected five components that contributed 66.38% qualitative traits and six components contributed 74.49% quantitative traits to total variations. Eigenvalues indicated that a majority of color-related qualitative traits included cotyledon, leaf, vein, seed, flower, and petals contributed, in contrast,a majority of the seed, leaf, flower, and inflorescence-related quantitative traits contributed to the total diversity of the Lablab germplasms. Among the quantitative traits, the highest coefficient of variation (CV%) was found in average pod weight (50.98%), followed by the total number of spikes per plant (43.82%), while seed length, pod weight, length, width, thickness, number of flower/spike, spike length, and total no of spikes/plant all had more than 20.00 percent CV, suggesting suitability to use in the breeding of high yielding genotypes. The germplasms are grouped into four and three clusters based on quantitative and qualitative traits, suggesting quantitative characters offer better clustering of genotypes. Considering the above traits, our research found that the BD-10804, BD-10807, BD-11091, BD-10808, BD-10815, and BD-11089 and cultivar Goal Goda Lablab beans germplasms produced higher pod weight with corresponding higher pod length, width, and thickness suggesting to use them as high yielding genotypes for food and fodder purposes.
| S-EPMC9718983 | biostudies-literature
Project description:BackgroundPhytochromes are the best characterized photoreceptors that perceive Red (R)/Far-Red (FR) signals and mediate key developmental responses in plants. It is well established that photoperiodic control of flowering is regulated by PHY A (phytochrome A) gene. So far, the members of PHY A gene family remains unexplored in Lablab purpureus, and therefore, their functions are still not deciphered. PHYA3 is the homologue of phytochrome A and known to be involved in dominant suppression of flowering under long day conditions by downregulating florigens in Glycine max. The present study is the first effort to identify and characterize any photoreceptor gene (PHYA3, in this study) in Lablab purpureus and decipher its phylogeny with related legumes.ResultsPHYA3 was amplified in Lablab purpureus cv GNIB-21 (photo-insensitive and determinate) by utilizing primers designed from GmPHYA3 locus of Glycine max. This study was successful in partially characterizing PHYA3 in Lablab purpureus (LprPHYA3) which is 2 kb longer and belongs to exon 1 region of PHYA3 gene. Phylogenetic analysis of the nucleotide and protein sequences of PHYA genes through MEGA X delineated the conservation and evolution of Lablab purpureus PHYA3 (LprPHYA3) probably from PHYA genes of Vigna unguiculata, Glycine max and Vigna angularis. A conserved basic helix-loop-helix motif bHLH69 was predicted having DNA binding property. Domain analysis of GmPHYA protein and predicted partial protein sequence corresponding to exon-1 of LprPHYA3 revealed the presence of conserved domains (GAF and PAS domains) in Lablab purpureus similar to Glycine max.ConclusionPartial characterization of LprPHYA3 would facilitate the identification of complete gene in Lablab purpureus utilizing sequence information from phylogenetically related species of Fabaceae. This would allow screening of allelic variants for LprPHYA3 locus and their role in photoperiod responsive flowering. The present study could aid in modulating photoperiod responsive flowering in Lablab purpureus and other related legumes in near future through genome editing.
| S-EPMC8758814 | biostudies-literature
Project description:The complete molecular sequence of chloroplast genome of Lablab purpureus (L.) Sweet was firstly assembled and characterized using Illumina sequencing technology. It is 151916 bp in length, with a GC content of 35.4%, and has a typical quadrant structure, including a large single-copy region (LSC), a pair of inverted repeat regions (IRs) and a small single-copy region (SSC), the sequence length is 81132, 53244, 17540 bp, respectively. There are 131 genes in the L. purpureus chloroplast genome, including 84 encoding protein genes, 8 rRNA genes, and 38 tRNA genes. Phylogenetic analysis showed that L. purpureus clustered into a large evolutionary clade with three Vigna species.
| S-EPMC7954507 | biostudies-literature
Project description:Lablab (Lablab purpureus (L.) Sweet) is a legume crop widely cultivated in tropical and subtropical regions of Africa and Asia. In this study, we assessed genetic diversity and population structure of 299 individuals of subspecies purpureus and bengalensis of lablab from Thailand using 13 simple sequence repeat (SSR) markers. The SSR markers detected only 34 alleles in total with a mean of 2.6 alleles per locus. Overall gene diversity was 0.360. Gene diversity (H E) and allelic richness (A R) in different geographic regions was comparable. Similarly, both H E and A R between subspecies purpureus and bengalensis were similar. STRUCTURE and neighbor-joining (NJ) analyses revealed that the 299 individuals were clustered into two major groups. In contrast, principal coordinate analysis (PCoA) revealed admixture of the lablab germplasm. STRUCTURE, NJ and PCoA analyses also revealed that the subspecies purpureus and bengalensis are not genetically differentiated. Although the number of individuals from the west of Thailand was small and all of them were collected from the same province, they possessed comparable gene diversity with those from the other geographic regions. These results demonstrated that there is moderately low genetic diversity of lablab in Thailand and the west of the country possesses high diversity of lablab.
| S-EPMC8329884 | biostudies-literature
Project description:Fresh pods are harvestable and marketable economic product in dolichos bean. Fresh pod fragrance is one of the 'farmers' and 'consumers' preferred traits in dolichos bean varieties. The pods with high fragrance fetch a premium price in the market. In breeding programmes, pod fragrance is routinely assessed by organoleptic (sensory) means, which is highly relative and subjective. Identification of linked DNA markers not only offer an objective means but also enable selection of fragment genotypes at seedling stage itself. Betaine aldehyde dehydrogenase (BADH) is known to be the key gene responsible for fragrance in other legumes such as vegetable soybean and mung bean. Taking cues from highly conserved domains in proteins coded by BADH genes, we isolated dolichos bean homolog (LpBADH2) of soybean GmBADH2 gene using reported degenerate primers designed to conserved domains. Analysis of the translated amino acid sequence of LpBADH2 showed high degree of similarity (97.30%) with those of soybean homolog (GmBADH2). Conserved amino acid sequence of aldehyde dehydrogenase-super family were also identified in LpBADH2. Multiple sequence alignment of nucleotide sequences of LpBADH2 with those of related legumes using "ClustalW" revealed the presence of a single non-synonymous single nucleotide polymorphic (SNPs) and three synonymous SNP sites in LpBADH2. The substitution of the amino acid tyrosine in (fragrant genotypes) with phenyl alanine (non-fragrant genotypes) in protein coded by LpBADH2 appeared to be the cause for switch over from fragrance to non-fragrance in dolichos bean. These results are discussed in relation to strategies to breed dolichos bean cultivars with desired level of pod fragrance.
| S-EPMC9817452 | biostudies-literature
Project description:Legumes are one of the important crops for food and nutritional security. According to the International Treaty on Plant Genetic Resources for Food and Agriculture, the collection and documentation of promising germplasms are essential for creating the global database and also for facilitating the global exchange for crop improvement and further exploitation. Presented here are varietal dataset of an agriculturally important legume, Lablab purpureus (L.) Sweet, collected from eastern Uttar Pradesh of North India. Extensive field surveys were conducted for studying the occurrence and distribution of L. purpureus in six districts of eastern Uttar Pradesh (Ballia, Ghazipur, Jaunpur, Mirzapur, Sonebhadra and Varanasi) and germplasms of promising varieties were collected, and cultivated for further characterization. Dataset provides the morphological traits such as variation in stem colour, leaf size, flower colour, pod colour, pod size, seed size, seed weight etc. of fourteen different varieties of L. purpureus grown in the field gene bank maintained by authors at Rajgarh block of Mirzapur district, eastern Uttar Pradesh, India. Additionally, national and global distribution maps of L. purpureus was prepared using ArcGIS platform.
| S-EPMC6488767 | biostudies-literature
Project description:Most orphan crops have not been fully sequenced, hence we rely on genome sequences of related species to align markers to different chromosomes. This hinders their utilisation in plant population improvement programs. Utilising the advances in the science of sequencing technologies, the population structure, relatedness, and genetic diversity among accessions can be assessed quickly for better exploitation in forage breeding programs. Using DArTseq technology, we studied the genetic and structural variation in 65 Lablab purpureus (L.) Sweet conserved gene-bank accessions using 9320 DArTseq-based SNPs and 15,719 SilicoDart markers. These markers had a low discriminating ability with mean polymorphic information content (P.I.C.) of 0.14 with DArTseq-based SNPs and 0.13 with SilicoDart markers. However, the markers had a high mean call rate of 73% with DArTseq-based SNPs and 97% with SilicoDart markers. Analysis of molecular variance revealed a high within populations variance (99.4%), indicating a high gene exchange or low genetic differentiation (PhiPT = 0.0057) among the populations. Structure analysis showed three allelic pools in variable clusters of ΔK = 3 and 6. Phylogenetic tree of lablab accessions showed three main groups with variable membership coefficients. Most pairs of accessions (40.3%) had genetic distances between 0.10 and 0.15 for SilicoDart markers, while for DArTseq-based SNPs, (46.5%) had genetic distances between 0.20 and 0.25. Phylogenetic clustering and minimum spanning analysis divided the 65 accessions into three groups, irrespective of their origin. For the first time, this study produced high-density markers with good genom coverage. The utilisation of these accessions in a forage program will base on the information from molecular-based grouping. The outcomes uncovered the presence of noteworthy measure of variety in Uganda, CIAT and ILRI accessions, thus demonstrating an opportunity for further marker-trait-association studies.Supplementary informationThe online version contains supplementary material available at 10.1007/s10722-021-01171-y.
| S-EPMC8550355 | biostudies-literature
Project description:In this study, genetic diversity and structure of 474 cultivated and 19 wild lablab (Lablab purpureus) accessions. were determined using 15 nuclear and 6 chloroplast SSR markers. The overall gene diversity was relatively low (0.3441). Gene diversity in the wild accessions (0.6059) was about two-folds greater than that in the cultivated accessions. In the wild accessions, gene diversity was greatest in the southern Africa, followed by East Africa. In the cultivated accessions, gene diversity was highest in the eastern Africa. The results suggested that South Africa is the center of origin and East Africa is the center of domestication of lablab. Different cluster analyses showed that 2-seeded-pod cultivated accessions (ssp. uncinatus) were clustered with wild accessions and that 4-(6)-seeded-pod cultivated accessions (ssp. purpureus and bengalensis) were intermingled. UPGMA tree suggested that ssp. purpureus and bengalensis were domesticated from 4-seeded-pod wild accessions of southern Africa. Haplotype network analysis based on nuclear SSRs revealed two domestication routes; the ssp. uncinatus is domesticated from 2-seeded-pod wild lablab (wild spp. uncinatus) from East Africa (Ethiopia), while the ssp. purpureus and bengalensis are domesticated from 4-seeded-pod wild lablab from Central Africa (Rwanda). These results are useful for understanding domestication and revising classification of lablab.
| S-EPMC9824144 | biostudies-literature
Project description: Not available
| S-EPMC5499813 | biostudies-literature