Analysis of genetic diversity in rosemary (Salvia rosemarinus Schleid.) using SSR molecular marker for its management and sustainable use in Ethiopian genebank

Zigene, Zewdinesh Damtew; Asfaw, Bizuayehu Tesfaye; Bitima, Tesfaye Disasa

doi:10.1007/s10722-020-00984-7

Cited by 13 publications

(4 citation statements)

References 38 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Genetic variation based on molecular markers is an effective and functional method used in breeding programs (Zigene et al 2020). It is interesting to note that the number of polymorphic bands identi ed (131 bands) in our study was su cient to delimit the genetic structure of the groups formed.…”

Section: Genetic Diversitymentioning

confidence: 72%

Genetic diversity and population structure of selected species of Eplingiella (Lamiaceae) using ISSR molecular markers

Silva

Oliveira

Pastore

et al. 2023

Preprint

View full text Add to dashboard Cite

The present study evaluated the population structure and genetic diversity using ISSR molecular markers in 18 natural populations belonging to three species of Eplingiella (E. cuniloides, E. fruticosa and E. brightoniae), found growing naturally in the semiarid region of Northeast Brazil. Samples of 265 plants were analyzed using nine primer combinations, which generated 131 informative bands. Eplingiella spp. populations showed moderate genetic diversity (percentage of polymorphic bands, PPB = 75.6–96.9%, Nei's genetic diversity He = 0.31–0.39, Shannon's information index I = 0.33–0.48). Molecular variance analysis (AMOVA) revealed that within populations, variations contributed more (74%) to the genetic diversity than between population variations (26%), with percentage of the genetic differentiation coefficient (GST= 0.29). The mean value of FST was 0.175, demonstrating good differentiation between populations. The analysis of the structure by the Bayesian method revealed the formation of two groups (K = 2), with many migrant individuals and a high level of miscegenation. The hierarchical cluster dendrogram grouped the 18 populations into two major clusters, with good support for the main clades (100%). According to principal component analysis (PCA), the two main principal components explained 21.06% of the total variation. The ISSR molecular markers used were effective in identifying the variability of natural populations of Eplingiella spp., and population structure demonstrated recent diversification of species. The results shed more light on the genetic variation and evolutionary dynamics of Eplingiella, helping to formulate effective breeding strategies.

show abstract

Section: Genetic Diversitymentioning

confidence: 72%

Genetic diversity and population structure of selected species of Eplingiella (Lamiaceae) using ISSR molecular markers

Silva

Oliveira

Pastore

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

“…Appiah-Kubi et al [ 61 ] assessment of the genetic diversity among the soybean genotypes using 20 SSR markers revealed a close link between genotypes and their geographic origin, which is consistent with these findings. Due to the substantial exchange of genetic resources among farming communities, the poor structure of germplasm may be a reflection of the presence of gene flow between the subpopulations [ 62 ]. So, by using molecular markers it will be easy for the farmers to assess the suitable genotype for the crossing that may lead to the development of new varieties.…”

Section: Discussionmentioning

confidence: 99%

Genetic diversity and population structure analysis in cultivated soybean (Glycine max [L.] Merr.) using SSR and EST-SSR markers

et al. 2023

View full text Add to dashboard Cite

Soybean (Glycine max) is an important legume that is used to fulfill the need of protein and oil of large number of population across the world. There are large numbers of soybean germplasm present in the USDA germplasm resources. Finding and understanding genetically diverse germplasm is a top priority for crop improvement programs. The current study used 20 functional EST-SSR and 80 SSR markers to characterize 96 soybean accessions from diverse geographic backgrounds. Ninety-six of the 100 markers were polymorphic, with 262 alleles (average 2.79 per locus). The molecular markers had an average polymorphic information content (PIC) value of 0.44, with 28 markers ≥ 0.50. The average major allele frequency was 0.57. The observed heterozygosity of the population ranged from 0–0.184 (average 0.02), while the expected heterozygosity ranged from 0.20–0.73 (average 0.51). The lower value for observed heterozygosity than expected heterozygosity suggests the likelihood of a population structure among the germplasm. The phylogenetic analysis and principal coordinate analysis (PCoA) divided the total population into two major groups (G1 and G2), with G1 comprising most of the USA lines and the Australian and Brazilian lines. Furthermore, the phylogenetic analysis and PCoA divided the USA lines into three major clusters without any specific differentiation, supported by the model-based STRUCTURE analysis. Analysis of molecular variance (AMOVA) showed 94% variation among individuals in the total population, with 2% among the populations. For the USA lines, 93% of the variation occurred among individuals, with only 2% among lines from different US states. Pairwise population distance indicated more similarity between the lines from continental America and Australia (189.371) than Asia (199.518). Overall, the 96 soybean lines had a high degree of genetic diversity.

show abstract

“…The average inbreeding coefficient ( F is = 0.192) in the population was positive and high, which similarly suggested there was an overabundance of homozygotes ( Liu et al, 2019 ; Bairu et al, 2021 ). The reproductive characteristics of species might be an important factor in heterozygote deficiency in populations; for example, the combination of hermaphroditic flowers and profuse flowering of E. stauntonii may lead to improved levels of inbreeding which can reduce the genetic diversity of this widely distributed species ( Zigene et al, 2021 ).…”

Section: Discussionmentioning

confidence: 99%

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

et al. 2022

View full text Add to dashboard Cite

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.

show abstract

Analysis of genetic diversity in rosemary (Salvia rosemarinus Schleid.) using SSR molecular marker for its management and sustainable use in Ethiopian genebank

Cited by 13 publications

References 38 publications

Genetic diversity and population structure of selected species of Eplingiella (Lamiaceae) using ISSR molecular markers

Genetic diversity and population structure of selected species of Eplingiella (Lamiaceae) using ISSR molecular markers

Genetic diversity and population structure analysis in cultivated soybean (Glycine max [L.] Merr.) using SSR and EST-SSR markers

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

Contact Info

Product

Resources

About