Search for Articles:
Title / Keyword
Author / Affiliation / Email
Journal
Article Type
 
 
Advanced Search
 
Section
Special Issue
Volume
Issue
Number
Page
 
3.4
2.1
Journals
Diversity
Special Issues
The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity
share announcement

The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity

A special issue of Diversity (ISSN 1424-2818). This special issue belongs to the section "Plant Diversity".

Deadline for manuscript submissions: closed (31 March 2021) | Viewed by 19127

Special Issue Editors

Prof. Dr. Yu-Chung Chiang

E-Mail Website
Guest Editor
Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung 80424, Taiwan
Interests: plant genetics; population genetics; molecular evolution; phylogeography; conservation genetics
Special Issues, Collections and Topics in MDPI journals
Prof. Kuo-Hsiang Hung

E-Mail Website
Guest Editor
Graduate Institute of Bioresources, National Pingtung University of Science and Technology, Pingtung 91201, Taiwan
Interests: plant systematics; population genetics; evolution biology; conservation biology

Special Issue Information

Dear Colleagues,

Research has focused on evaluating plant genetic diversity based on microsatellite loci in past decade. Microsatellites (simple sequence repeats, SSRs) are commonly used molecular markers and are popular when it comes to investigating population genetics within species, including endemic plants, threatened species, invasive taxa, and cultivated crops. Microsatellites have several advantages, such as representing the variability mostly classified as neutral variation, co-dominant expression, and high variability, widely distributed throughout the whole genome. This Special Issue aims to serve as a platform to highlight new research on: (1) understanding plant population genetic diversity based on microsatellite markers; and (2) evaluating significant advances in understanding population genetic diversity in plants. In order to control the high quality of row data, normal gel electrophoresis cannot resolve the bands with accuracy. In this Special Issue, data only generate by laser-detecting and auto-recording systems in the methodology can accept in the first evaluation.

Prof. Yu-Chung Chiang
Prof. Kuo-Hsiang Hung
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Diversity is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • Microsatellite loci
  • Plant
  • Population genetics
  • Genetic diversity
  • Simple sequence repeat markers

Benefits of Publishing in a Special Issue

  • Ease of navigation: Grouping papers by topic helps scholars navigate broad scope journals more efficiently.
  • Greater discoverability: Special Issues support the reach and impact of scientific research. Articles in Special Issues are more discoverable and cited more frequently.
  • Expansion of research network: Special Issues facilitate connections among authors, fostering scientific collaborations.
  • External promotion: Articles in Special Issues are often promoted through the journal's social media, increasing their visibility.
  • e-Book format: Special Issues with more than 10 articles can be published as dedicated e-books, ensuring wide and rapid dissemination.

Further information on MDPI's Special Issue polices can be found here.

Published Papers (6 papers)

Download All Papers
Order results
Result details
Show export options expand_more Show export options expand_less
Select all
Export citation of selected articles as:

Research

20 pages, 2067 KiB  
Article
Assessing the Genetic Diversity of Ilex guayusa Loes., a Medicinal Plant from the Ecuadorian Amazon
by Maria P. Erazo-Garcia, Juan José Guadalupe, Jennifer K. Rowntree, Pamela Borja-Serrano, Nina Espinosa de los Monteros-Silva and Maria de Lourdes Torres
Diversity 2021, 13(5), 182; https://doi.org/10.3390/d13050182 - 28 Apr 2021
Cited by 5 | Viewed by 4764
Abstract
Ilex guayusa Loes. is a shrub native to the Neotropics, traditionally consumed as an infusion. Despite its cultural value and extensive use, genetic research remains scarce. This study examined the genetic and clonal diversity of guayusa in three different Ecuadorian Amazon regions using [...] Read more.
Ilex guayusa Loes. is a shrub native to the Neotropics, traditionally consumed as an infusion. Despite its cultural value and extensive use, genetic research remains scarce. This study examined the genetic and clonal diversity of guayusa in three different Ecuadorian Amazon regions using 17 species-specific SSR markers. The results obtained suggest a moderately low degree of genetic diversity (He = 0.396). Among the 88 samples studied, 71 unique multilocus genotypes (MLGs) were identified, demonstrating a high genotypic diversity. A Discriminant Analysis of Principal Components (DAPC) revealed the existence of two genetic clusters. We propose that a model of isolation-by-environment (IBE) could explain the genetic differentiation between these clusters, with the main variables shaping the population’s genetic structure being temperature seasonality (SD × 100) (Bio 4) and isothermality ×100 (Bio 3). Nonetheless, we cannot dismiss the possibility that human activities could also impact the genetic diversity and distribution of this species. This study gives a first glance at the genetic diversity of I. guayusa in the Ecuadorian Amazon. It could assist in developing successful conservation and breeding programs, which could promote the economic growth of local communities and reinforce the value of ancestral knowledge. Full article
(This article belongs to the Special Issue The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity)
►▼ Show Figures

Figure 1

12 pages, 612 KiB  
Article
Exploring Genetic Variability among and within Hail Tomato Landraces Based on Sequence-Related Amplified Polymorphism Markers
by Reem H. Alzahib, Hussein M. Migdadi, Abdullah A. Al Ghamdi, Mona S. Alwahibi, Muhammad Afzal, Ehab H. Elharty and Salem S. Alghamdi
Diversity 2021, 13(3), 135; https://doi.org/10.3390/d13030135 - 22 Mar 2021
Cited by 17 | Viewed by 2624
Abstract
Landraces are valuable sources of genetic characteristics, which are of plant breeders’ interest to include in breeding programs for crop improvement. We assess the inter- and intra-genetic variability among 96 accessions representing three Hail tomato landrace using DNA-based marker sequence-related amplified polymorphism (SRAP). [...] Read more.
Landraces are valuable sources of genetic characteristics, which are of plant breeders’ interest to include in breeding programs for crop improvement. We assess the inter- and intra-genetic variability among 96 accessions representing three Hail tomato landrace using DNA-based marker sequence-related amplified polymorphism (SRAP). Seven SRAP primer combinations generated 55 alleles with a polymorphism of 100%, and an average of 7.86 polymorphic alleles per pair of primers. All primers showed an average of 0.68 polymorphic information content (PIC) value and discrimination power (DP) of 14.29. Principal coordinate analysis (PCoA) confirmed the clustering produced via the UPGMA similarity dendrogram allowed for the grouping of the 96 accessions according to its gene bank accession numbers and showed relatively good separation between landraces. A similarity value ranged from 0.04 to 1.0 among accessions of Hail 747, 0.05 to 1.0 in Hail 1072, and from 0.16 to 0.92 in Hail 548. These results showed the landraces harbor a wide range of genetic diversity at both inter and intra-variation levels. AMOVA showed that most of the genetic variation was because of differences within populations (87%). Tomato Hail landraces have well-differentiated genetic populations and admixtures, where Hail 747 formed their separate group, and both Hail 548 and Hail 1072 were admixed, and some accessions showed more diversity pattern. We have to take the SRAP technique’s effectiveness in the study of genetic variability among and within landraces into consideration in the tomato-breeding programs through marker-assessed selection. Full article
(This article belongs to the Special Issue The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity)
►▼ Show Figures

Figure 1

10 pages, 2299 KiB  
Article
Genetic Diversity and Population Structure of the Spring Orchid Cymbidium goeringii in Korean Distant Islands
by Seung Woo Noh, Jun-Kyu Park, Jin Seok Yu, Da Eun Nam, Yuno Do and Ki Wha Chung
Diversity 2020, 12(12), 486; https://doi.org/10.3390/d12120486 - 18 Dec 2020
Cited by 2 | Viewed by 2619
Abstract
The spring orchid (Cymbidium goeringii), found in northeast Asia, is one of the most popular and horticulturally important species of the orchid family. This study analyzed the genetic diversity and population structure of the spring orchid populations in the small islands [...] Read more.
The spring orchid (Cymbidium goeringii), found in northeast Asia, is one of the most popular and horticulturally important species of the orchid family. This study analyzed the genetic diversity and population structure of the spring orchid populations in the small islands and mainland South Korea using 11 microsatellite markers. The genetic diversities of spring orchid populations in the distant islands (Heuksan Island and Ulleung Island) were slightly lower than that of the mainland population (Yeonggwang-gun). The population structure in the mainland was genetically separated from the populations in the islands. The population of Ulleung Island, located in the eastern part of the Korean peninsula, was genetically closer to the populations from China and Japan than to the populations from Yeonggwang-gun and Heuksan Island, which are geographically close to China. These results imply that the populations of spring orchids distributed in Yeonggwang-gun and Heuksan Island appear not to be influenced by the yellow dust winds. As the first population genetic study of spring orchids distributed in small distant islands, our study will be useful for understanding the genetic diversity and population structure of isolated C. goeringii populations. Full article
(This article belongs to the Special Issue The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity)
►▼ Show Figures

Figure 1

11 pages, 1388 KiB  
Article
Genetic Differentiation and Population Structure of Threatened Prunus africana Kalm. in Western Cameroon Using Molecular Markers
by Justine G. Nzweundji, Ulrike Huewe, Nicolas Niemenak, Néhémie T. Donfagsiteli and Klaus Eimert
Diversity 2020, 12(12), 446; https://doi.org/10.3390/d12120446 - 26 Nov 2020
Cited by 3 | Viewed by 2245
Abstract
Genetic diversity of species is an important baseline for the domestication process. In Cameroon, Prunus africana, an important and threatened medicinal tree, is among the priority species for domestication. The bark extract has been used to treat various diseases; mainly benign prostatic [...] Read more.
Genetic diversity of species is an important baseline for the domestication process. In Cameroon, Prunus africana, an important and threatened medicinal tree, is among the priority species for domestication. The bark extract has been used to treat various diseases; mainly benign prostatic hyperplasia which affects men above the age of 50. As little is known about the genetic diversity of P. africana in Cameroon, we aimed to determine the genetic diversity and differentiation of several P. africana populations in the western provinces, using sets of chloroplast DNA markers and nuclear microsatellites previously developed for Prunus species. Genetic diversity in the observed populations was considerable and genetic differentiation between populations proved substantial with 21% of the total observed variation detected among populations, revealing a distinct genetic structure among certain populations. However, the lack of correlation between genetic and geographic distances does not support isolation by distance (IBD). The analysis of chloroplast DNA haplotypes revealed no strong phylogeographic component in the genetic structure observed in the western populations of P. africana in Cameroon. The outcome of this study will contribute to improve the genetic characterization of P. africana for its better domestication and conservation in the Cameroon agroforestry system. Full article
(This article belongs to the Special Issue The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity)
►▼ Show Figures

Figure 1

13 pages, 824 KiB  
Communication
Transferability of Microsatellite Markers Developed in Oenothera spp. to the Invasive Species Oenothera drummondii Hook. (Onagraceae)
by Raquel Hernández-Espinosa, Jorge González-Astorga, Alejandro Espinosa de los Monteros, Dánae Cabrera-Toledo and Juan B. Gallego-Fernández
Diversity 2020, 12(10), 387; https://doi.org/10.3390/d12100387 - 8 Oct 2020
Cited by 2 | Viewed by 2483
Abstract
Oenothera drummondii Hook. (Onagraceae) has life-history traits that make it an invasive species. Native populations are distributed along the coastal dunes from North Carolina in the United States to Tabasco in the Gulf of Mexico. It has been reported as an invasive species [...] Read more.
Oenothera drummondii Hook. (Onagraceae) has life-history traits that make it an invasive species. Native populations are distributed along the coastal dunes from North Carolina in the United States to Tabasco in the Gulf of Mexico. It has been reported as an invasive species in Spain, Israel, and China, where this species can successfully colonize and dominate if the environmental conditions are appropriate. In South Africa, Australia, New Zealand, and France, it is reported to be naturalized. In this study, 28 microsatellite markers developed for other Oenothera species were evaluated for cross-amplification in O. drummondii. Nine primers showed consistent amplification and were polymorphic. Polymorphism was assessed in three populations from both native and invaded areas. Results indicated generalized low genetic variability. Three loci showed significant deviations from the Hardy Weinberg equilibrium, associated with null alleles’ presence. The observed heterozygosity and inbreeding coefficient reflected a generalized excess of homozygotes, particularly in the invaded population “El Dique”, likely due to allele fixation. High genetic differentiation was found between the three populations. These results highlight the accuracy of these markers for future population genetic studies in O. drummondii. Full article
(This article belongs to the Special Issue The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity)
►▼ Show Figures

Figure 1

8 pages, 743 KiB  
Communication
Genetic Diversity of Local Greek and Bulgarian Grapevine (Vitis Vinifera L.) Varieties
by Maria Papapetrou, Dimitrios Loukovitis, Orestis Papadopoulos, Zoi Kazlari, Anastasia Peristeraki, Slavina Arsenova, Desislava Bardarova, Desislava Doncheva, Serafeim Theocharis, Constantinos Karagiannidis, Stefanos Koundouras, Anastasia Giannakoula, Stamatis Aggelopoulos and Dimitrios Chatziplis
Diversity 2020, 12(7), 273; https://doi.org/10.3390/d12070273 - 9 Jul 2020
Cited by 4 | Viewed by 3163
Abstract
The aim of this study was to estimate the genetic diversity of Greek and Bulgarian grapevine varieties with the use of microsatellite markers. The studied samples were collected from various productive vineyards, consisting of eight Greek and nine Bulgarian native varieties. In order [...] Read more.
The aim of this study was to estimate the genetic diversity of Greek and Bulgarian grapevine varieties with the use of microsatellite markers. The studied samples were collected from various productive vineyards, consisting of eight Greek and nine Bulgarian native varieties. In order to create a genetic profile for each sample, a multiplex PCR reaction method was used amplifying simultaneously seven microsatellite loci. Statistical analysis of data showed that there was a high degree of genetic heterogeneity among most of the varieties studied, highlighting the discriminative power of the chosen set of markers. Moreover, the synonymy of (I) Greek Pamid and Bulgarian Pamid and (II) Greek Zoumiatiko and Bulgarian Dimyat was suggested, as each variety pair had identical allele profiles in all loci examined. Regarding the Greek Mavrud and Bulgarian Mavrud varieties, there was a close genetic relationship between them, however, they did not share common alleles in all microsatellite loci and, therefore, should not be characterized as synonyms. On the other hand, Greek and Bulgarian Keratsouda, which were supposed to be common varieties, were found to be genetically different, supporting that these two varieties should be considered as homonyms. Despite the genotypic assay performed herein, we believe that additional molecular work is needed for the efficient management of Greek and Bulgarian grapevine genepools, as well as to safely suggest any synonym or homonym annotation. Full article
(This article belongs to the Special Issue The Application of Microsatellite Markers in Evaluating Plant Genetic Diversity)
►▼ Show Figures

Figure 1

Show export options expand_more Show export options expand_less
Select all
Export citation of selected articles as:
 
Displaying articles 1-6
Back to TopTop