Cross Legume Species/Genera Transferability of SSR Markers and their Utility in Assessing Polymorphism among Advanced Breeding Lines in Dolichos Bean (Lablab purpureus L.)

Shivakumar, M.; Ramesh, S.; Rao, A. Mohan; Udaykumar, H.R.; Keerthi, C. M.

doi:10.20546/ijcmas.2017.608.083

Cited by 10 publications

(5 citation statements)

References 15 publications

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“…Thus there is a need to screen and identify polymorphic SSR markers in greater numbers to facilitate analyses of genetic diversity in mungbean. The process may include transferring the SSR markers from other closely related legumes such as moth bean, adzuki bean, cowpea and rice bean as this will also facilitate correlated studies in across related crops (Datta et al 2013;Jingade et al 2014;Shivakumar et al 2017).…”

Section: Introductionmentioning

confidence: 99%

Detection and characterization of polymorphic simple sequence repeats markers for the analysis of genetic diversity in Indian mungbean [Vigna radiata (L.) Wilczek]

Bangar¹,

Chaudhury²,

Umdale³

et al. 2017

Ind. Jrnl. Gen. Plnt. Bree.

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Mungbean is a widely cultivated grain legume in Asia, Africa and South America. In this study, 52 varieties of mungbean were profiled with 39 polymorphic SSR primers after screening a total 315 SSR primers. A total of 96 alleles were scored from the 39 primers with an average of 2.46 alleles per locus indicating the low diversity among varieties. The Nei's genetic diversity index and the Shannon information index of SSR primers varied from 0 to 0.649 and 0 to 1.169, respectively. The results showed that the potential transferability of adzuki bean primers (83.3%) was greater than the cowpea primers (25%). The varieties profiled were grouped into four major clusters. But the clustering pattern did not reflect on their geographical origin. Further, the AMOVA indicated presence of moderate genetic differentiation among groups compared to higher differentiation among varieties within populations. The SSR markers identified here will add valuable genomic resources for germplasm characterization, cultivar identification and assessment of genetic diversity of mungbean varieties.

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Section: Introductionmentioning

confidence: 99%

Detection and characterization of polymorphic simple sequence repeats markers for the analysis of genetic diversity in Indian mungbean [Vigna radiata (L.) Wilczek]

Bangar¹,

Chaudhury²,

Umdale³

et al. 2017

Ind. Jrnl. Gen. Plnt. Bree.

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“…A similar trend in heterologous SSR marker transferability has been reported for Euphorbiaceae, with the transfer rate of simple trinucleotide repeats being 11.44% higher than that of dinucleotide repeats ( Dharajiya et al, 2020 ). One reason might be that the selection of frameshift mutations limits the fixation of microsatellites whose motif lengths are not divisible by three (e.g., di-/tetra-/pentanucleotide repeats), whereas fixation of mutant microsatellite whose motif lengths are divisible by three (tri-/hexanucleotide repeats) is not affected by differential selection pressures in coding and non-coding regions ( Metzgar et al, 2000 ; Dutta et al, 2011 ; Shivakumar et al, 2017 ). Moreover, microsatellites based on a complex nucleotide sequence show a lower mutation rate and higher transferability than simple repeats ( Jin et al, 1996 ; Kalia et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity Study on Geographical Populations of the Multipurpose Species Elsholtzia stauntonii Using Transferable Microsatellite Markers

et al. 2022

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Elsholtzia stauntonii Benth. (Lamiaceae) is an economically important ornamental, medicinal and aromatic plant species. To meet the increasing market demand for E. stauntonii, it is necessary to assess genetic diversity within the species to accelerate the process of genetic improvement. Analysis of the transferability of simple sequence repeat (SSR) markers from related species or genera is a fast and economical method to evaluate diversity, and can ensure the availability of molecular markers in crops with limited genomic resources. In this study, the cross-genera transferability of 497 SSR markers selected from other members of the Lamiaceae (Salvia L., Perilla L., Mentha L., Hyptis Jacq., Leonurus L., Pogostemon Desf., Rosmarinus L., and Scutella L.) to E. stauntonii was 9.05% (45 primers). Among the 45 transferable markers, 10 markers revealed relatively high polymorphism in E. stauntonii. The genetic variation among 825 individuals from 18 natural populations of E. stauntonii in Hebei Province of China was analyzed using the 10 polymorphic SSR markers. On the basis of the SSR data, the average number of alleles (NA), expected heterozygosity (HE), and Shannon’s information index (I) of the 10 primers pairs were 7.000, 0.478, and 0.688, respectively. Lower gene flow (Nm = 1.252) and high genetic differentiation (Fst = 0.181) were detected in the populations. Analysis of molecular variance (AMOVA) revealed that most of the variation (81.47%) was within the populations. Integrating the results of STRUCTURE, UPGMA (Unweighted Pair Group Method with Arithmetic Mean) clustering, and principal coordinate analysis, the 825 samples were grouped into two clusters associated with geographical provenance (southwestern and northeastern regions), which was consistent with the results of a Mantel test (r = 0.56, p < 0.001). Overall, SSR markers developed in related genera were effective to study the genetic structure and genetic diversity in geographical populations of E. stauntonii. The results provide a theoretical basis for conservation of genetic resources, genetic improvement, and construction of a core collection for E. stauntonii.

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“…Molecular markers are complementary to morphological and biochemical markers [22]. Several studies have been realized on the genetic diversity of Medicago genotypes using different markers such as AFLP [23,24], RAPD [25,26], RFLP [27,28] and SSR [29][30][31][32]. The microsatellites as polymorphic DNA markers have been widely employed in molecular studies thanks to their facility and efficiency for population genetic analysis [33][34][35] while, using SSR markers for genetic variability within perennial Medicago genotypes had not been very developed.…”

Section: Introductionmentioning

confidence: 99%

Eco-Geographical, Morphological and Molecular Characterization of a Collection of the Perennial Endemic Species Medicago tunetana (Murb.) A.W. Hill (Fabaceae) from Tunisia

Ferchichi

Sakhraoui

Ltaeif

et al. 2021

Plants

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In order to characterize and conserve the endemic pastoral species Medicago tunetana, many prospecting missions were carried out in mountainous regions of the Tunisian ridge. Twenty-seven eco-geographical and morphological traits were studied for six M. tunetana accessions and followed by molecular analysis using seven Simple Sequence Repeat (SSR). Only five markers were polymorphic and reproductible in the six M. tunetana populations. A total of 54 alleles were observed with an average of 10.8 bands/primer/genotype. Mean Polymorphism Information Content (PIC), Nei gene diversity (h) Shannon’s information index (I) indicated the high level of polymorphism. The generated dendrogram with hierarchical UPGMA cluster analysis grouped accessions into two main groups with various degree of subclustring. All the studied accessions shared 57% of genetic similarity. Analysis of variance showed high significant difference between morphological traits among M. tunetana populations where MT3 from Kesra showed different morphological patterns regarding leaf, pod and seeds traits. Canonical correspondence analysis (CCA) showed two principal groups of M. tunetana populations based on potassium, total and active lime contents in soil. Our results suggest that SSR markers developed in M. truncatula could be a valuable tool to detect polymorphism in M. tunetana. Furthermore, the studied morphological markers showed a large genetic diversity among M. tunetana populations. This approach may be applicable for the analysis of intra specific variability in M. tunetana accessions. Our study could help in the implementation of an effective and integrated conservation programs of perennial endemic Medicago.

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Cross Legume Species/Genera Transferability of SSR Markers and their Utility in Assessing Polymorphism among Advanced Breeding Lines in Dolichos Bean (Lablab purpureus L.)

Cited by 10 publications

References 15 publications

Detection and characterization of polymorphic simple sequence repeats markers for the analysis of genetic diversity in Indian mungbean [Vigna radiata (L.) Wilczek]

Detection and characterization of polymorphic simple sequence repeats markers for the analysis of genetic diversity in Indian mungbean [Vigna radiata (L.) Wilczek]

Genetic Diversity Study on Geographical Populations of the Multipurpose Species Elsholtzia stauntonii Using Transferable Microsatellite Markers

Eco-Geographical, Morphological and Molecular Characterization of a Collection of the Perennial Endemic Species Medicago tunetana (Murb.) A.W. Hill (Fabaceae) from Tunisia

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