ISSR Marker Based Genetic Diversity in Morinda Spp. For Its Enhanced Collection, Conservation and Utilization

2021 ◽  
Author(s):  
Lalit Arya ◽  
Ramya Kossery Narayanan ◽  
Anjali Kak ◽  
Chitra Devi Pandey ◽  
Manjusha Verma ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Gene Diversity ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Morinda Citrifolia ◽  
Species Differentiation ◽  
Information Index ◽  
Upgma Cluster Analysis ◽  
Simple Sequence

Abstract Morinda (Rubiaceae) is considerably recognized for its multiple uses viz. food, medicine, dyes, firewood, tools, oil, bio-sorbent etc. The molecular characterization of such an important plant would be very useful for its multifarious enhanced utilization. In the present study, 31 Morinda genotypes belonging to two different species Morinda citrifolia and Morinda tomentosa collected from different regions of India were investigated using Inter Simple Sequence Repeat (ISSR) markers. Fifteen ISSR primers generated 176 bands with an average of 11.7 bands per primer, of which (90.34%) were polymorphic. The percentage of polymorphic bands, mean Nei’s gene diversity, mean Shannon’s information index in Morinda tomentosa and Morinda citrifolia was [(69.89%, 30.68%); (0.21 ± 0.19, 0.12 ± 0.20); (0.32 ± 0.27 0.17 ± 0.28)] respectively, revealing higher polymorphism and genetic diversity in Morinda tomentosa compared to Morinda citrifolia. Structure, and UPGMA cluster analysis placed the genotypes into well-defined separate clusters belonging to two species Morinda tomentosa and Morinda citrifolia revealing the utility of ISSR markers in species differentiation. Distinct ecotypes within a particular species could also be inferred emphasizing the collection and conservation of Morinda genotypes from different regions, in order to capture the overall diversity of respective species. Further higher diversity of M. tomentosa must be advanced for its utilization in nutraceutical, nutritional and other nonfood purposes.

scholarly journals Genetic diversity and interspecific relationships of some Allium species using inter simple sequence repeat markers

2015 ◽  
Vol 22 (2) ◽  
pp. 67-75 ◽  
Author(s):  
Leila Samiei ◽  
Mahnaz Kiani ◽  
Homa Zarghami ◽  
Farshid Memariani ◽  
Mohammad Reza Joharchi
Keyword(s):  
Genetic Diversity ◽  
Simple Sequence Repeat ◽  
Gene Diversity ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Group Method ◽  
Sequence Repeat ◽  
Allium Species ◽  
Interspecific Relationships ◽  
Simple Sequence

In this study genetic diversity and interspecific relationships of 11 Allium L. species from Khorassan province of Iran including 32 accessions were investigated by inter simple sequence repeat (ISSR) markers. Nine ISSR primers produced a total of 80 polymorphic markers and revealed high polymorphism among the studied species. The average gene diversity, effective number of alleles and Shannon’s information index were 0.2, 1.28 and 0.3, respectively. Allium kuhsorkhense exhibited the greatest level of variation (He: 0.18), whereas A. stipitatum demonstrated the lowest level of variability (He: 0.05). UPGMA (Unweighted Pair Group Method with Arithmetic mean) analysis showed that Allium accessions have a similarity range of 0.60 to 0.95. Allium scapriscapum composed the most distant group in the dendrogram. The clustered groups of Allium species clearly reflect the recent taxonomic concept of the genus at the subgenus and section levels. The present study showed that the ISSR technique is an effective molecular approach for analyzing genetic diversity and relationship in Allium species.Bangladesh J. Plant Taxon. 22(2): 67-75, 2015 (December)

scholarly journals A comparative analysis of genetic diversity in Portuguese grape germplasm from ampelographic collections fit for quality wine production

2016 ◽  
Vol 14 (4) ◽  
pp. e0712 ◽  
Author(s):  
Isaura Castro ◽  
Olinda Pinto-Carnide ◽  
Jesús M. Ortiz ◽  
Vanessa Ferreira ◽  
Juan P. Martín
Keyword(s):  
Genetic Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Morphological Characters ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Molecular Techniques ◽  
Wine Production ◽  
Rapd And Issr ◽  
Simple Sequence

Grapevine cultivars diversity is vast and full of synonyms and homonyms. Up to few decades ago characterization of grapevine was based on morphological characters. In the last decades, molecular markers were developed and have been used as tools to study genetic diversity in a range of different plant species. Fifty-six Portuguese accessions representative of ‘Vinhos Verdes’ and ‘Douro’ Controlled Designations of Origin (DOC) were analysed through DNA fingerprints generated by Random Amplified Polymorphic DNA (RAPD) and Inter Simple Sequence Repeat (ISSR). The study aimed to compare the effectiveness of RAPD and ISSR molecular techniques in the detection of synonyms, homonyms and misnames. RAPD and ISSR analysis enabled the detection of 36 different band patterns, reducing in about 36% the initial material. Several accessions grown under different names, between and within collections, were confirmed as the same genotype, namely Gouveio/Verdelho, Sousão Douro/Vinhão and Arinto Oeste/Pedernã. Similarly, some homonyms/misnames were also identified, namely within Azal Tinto and Rabigato accessions. RAPD and ISSR markers revealed to be adequate molecular techniques for grapevine varieties fingerprinting with advantages over other molecular procedures, contributing for a good management of grapevine collections.

scholarly journals Molecular Characterization of Verbascum anisophyllum (Scrophulariaceae) Genetic Resources Through Inter-Simple Sequence Repeat (ISSR) Markers

2017 ◽  
Vol 12 (2) ◽  
pp. 1934578X1701200 ◽  
Author(s):  
Galya Petrova ◽  
Stefan Petrov ◽  
Svetlana Bancheva
Keyword(s):  
Genetic Diversity ◽  
Genetic Resources ◽  
Simple Sequence Repeat ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Sequence Repeat ◽  
Data Book ◽  
Simple Sequence

Verbascum (Mullein) flowers are highly valued as natural remedy for various respiratory diseases. Verbascum anisophyllum Murb. is a Balkan endemic, protected by law and included in the Bulgarian Red Data Book as “Critically Endangered”. Thus, a strict conservation policy and a reliable evaluation of its genetic resources are required, considering its narrow distribution range and the increasing risk from destruction of its habitats. Here, we used Inter-simple sequence repeat (ISSR) markers to characterize the genetic diversity and to assess the genetic differentiation between the existing populations of Verbascum anisophyllum in Bulgaria. The level of genetic diversity found herein clearly indicates a long-term potential for adaptability of this endangered plant. Our findings provide important knowledge of population genetic structure of this species, thus representing a strategy for its efficient conservation and utilization.

Genetic Diversity of Stephanie kwangsiensis H. S. Lo and Salvia prionitis Hance after Transplanted and Micropropagated

2012 ◽  
Vol 518-523 ◽  
pp. 5460-5467
Author(s):  
Chuan Ming Fu ◽  
Yan Qin ◽  
Feng Luan Tang ◽  
Yun Ping Shi ◽  
Zhi Guo Zhao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Tissue Culture ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Chinese Herbs ◽  
High Genetic Diversity ◽  
Information Index ◽  
Rapd Pcr

Stephanie Kwangsiensis H. S. Lo and Salvia prionitis Hance were two rare and valuable Chinese herbs. Genetic diversity of the two plants were studied by using random amplified polymorphic DNA (RAPD) and inter simple sequence repeat (ISSR) markers after they were transplantation and tissue culture. Results indicated that Nei’s gene diversity (H), Shannon’s information index (I), the percentage of polymorphic loci (PPL) of source / transplantation / tissue culture materials of S. Kwangsiensis H. S. Lo were H=0.282 / 0.195/ 0.056, I=0.415 / 0.290 / 0.087, PPL=75.6% / 56.1% /19.5% based on RAPDs and H=0.295 / 0.292 / 0.111, I=0.445 / 0.435 / 0.166, PPL=85.3% / 85.3% / 32.8% based ISSRs. And the same parameters of source / transplantation / tissue culture materials of S. prionitis Hance were H=0.193 / 0.192 / 0.231, I=0.291 / 0.289 /0.347, PPL=57.8% / 57.2% / 68.6% based on RAPDs and H=0.217 / 0.217 / 0.155, I=0.327 / 0.326 /0.235, and PPL=64.2% / 64.2% / 49.1% based on ISSRs instead. For the transplanted materials, genetic diversity was slightly declining with the disappearance of adversity. And for the tissue culture materials, more genets sampled for tissue culture, less reduction of genetic diversity; and fewer genets sampled, more reduction of genetic diversity. In addition, high genetic diversity appearing in tissue culture materials of S. prionitis Hance partially generate from somatic mutations. And these mutations maybe related to RAPD-PCR regions and just had been checked out by RAPDs.

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

Plants ◽  
2021 ◽  
Vol 10 (9) ◽  
pp. 1923
Author(s):  
Yosr Ferchichi ◽  
Anis Sakhraoui ◽  
Hela Belhaj Ltaeif ◽  
Yosr Ben Mhara ◽  
Mohamed Elimem ◽  
...  
Keyword(s):  
Morphological Traits ◽  
Gene Diversity ◽  
Mountainous Regions ◽  
Information Index ◽  
Significant Difference ◽  
Upgma Cluster Analysis ◽  
High Level ◽  
Integrated Conservation ◽  
Simple Sequence

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.

scholarly journals ISSR based analysis of genetic diversity in some endangered species of Allium subg. Melanocrommyum

Genetika ◽  
2018 ◽  
Vol 50 (1) ◽  
pp. 59-68
Author(s):  
Jalal Rezaei ◽  
Zare Mehrjerdi ◽  
Hassan Mastali
Keyword(s):  
Genetic Diversity ◽  
Endangered Species ◽  
Genetic Distance ◽  
Gene Diversity ◽  
Program Planning ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Polymorphic Band ◽  
Upgma Cluster Analysis ◽  
Two Populations

Melanocrommyum, a subgenus of the Allium genus, is found in different regions of Iran and is in danger of extinction due to excessive exploitation. This study aimed to determine the genetic diversity in 170 individuals representing 17 wild populations belonging to six endangered species of Allium subg. Melanocrommyum using inter simple sequence repeat (ISSR) markers. The 10 selected ISSR primers produced 178 polymorphic fragments (100%). Polymorphic band number varied from 12 (primer 8) to 22 (primer 2). The average observed number of alleles, effective number of alleles, Shannon?s indices and Nei?s gene diversity were 1.48, 1.2, 0.2 and 0.1, respectively. According to Nei?s genetic distance, the lowest genetic distance (0.048) was observed among both two populations of A. elburzense (Emamzadeh Ebrahim and Kamelat), and two populations of A. subakaka (Jame Shoran and Ghalelan) while the highest distance (0.097) was observed among a population of A. kurdistanicum (Taze Abad Oryeh) with both A. pseudobodeanum (Shen Jari), and A. derderianum (Dareh Oson) populations. In UPGMA cluster analysis, the populations were grouped into four main clusters at a cutoff value of 0.07. The analysis of molecular variance showed that the maximum value of genetic variation was found within the populations (68%), where as a low genetic differentiation was observed among the populations (32%). Our results revealed that ISSR molecular markers are useful to display the diversity in Allium genus and can be used to improve the classification accuracy. This study provided valuable information for the conservation of these species and breeding program planning.

Inter-Simple Sequence Repeat (ISSR) Markers Revealed Genetic Diversity and Population Structure Among 9 Wild Species of Clematis L.

2021 ◽  
Vol 15 (5) ◽  
pp. 580-588
Author(s):  
Yonghui Li ◽  
Shipeng Li ◽  
Jingjing Li ◽  
Xiangli Yu ◽  
Fawei Zhang ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Differentiation ◽  
Diversity Index ◽  
Gene Diversity ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Mantel Test ◽  
Information Index ◽  
Ctab Method ◽  
Different Populations

To analyze the genetic diversity of 9 species of Clematis from 31 different populations, we extracted DNA by the improved CTAB method, used ISSR-PCR for amplification, and then selected 9 primers with clear amplified bands from amongst 220 primers. A total of 127 clear bands were amplified, of which 126 were polymorphic bands, yielding a ratio of 99.2%. The polymorphism information index (PIC) of the primers ranged from 0.9326 to 0.9649. The Nei’s genetic diversity index (H) was 0.2750, the total gene diversity (Ht) was 0.2845, and the genetic differentiation coefficient (Gst) was 0.6696, indicating high genetic differentiation among populations of Clematis. After cluster analysis, the 31 Clematis populations were divided into 3 categories. Principal coordination analysis (PCoA) of 9 Clematis species then showed that the genetic relationship between samples of the same Clematis germplasms was closer than that of samples from the same region. The mantel test revealed a significant positive correlation between genetic distance and geographical distance among the populations. The population clustering results are broadly consistent with the clustering graphs of UPGMA and PCoA. We can conclude the polymorphism of the 9 primers is good, and that the genetic diversity of 31 Clematis populations is rich. Individual Clematis germplasms are closely related and will gather together preferentially.

scholarly journals Assessment of Genetic Diversity of Niger Plant (Guizotia abyssinica L.) in Moiben Sub County, Kenya, Using Inter Simple Sequence Repeat Markers

2021 ◽  
Vol 8 (1) ◽  
pp. 126-131
Author(s):  
Lynnete Moraa Oimbo
Keyword(s):  
Genetic Diversity ◽  
Simple Sequence Repeat ◽  
Gene Diversity ◽  
Distance Matrix ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Guizotia Abyssinica ◽  
Sequence Repeat ◽  
Euclidean Distance Matrix ◽  
Simple Sequence

Niger plant (Guizotia abyssinica), exhibits phenotypic plasticity in different environments. There is need to assess its genetic diversity since guizotia species has a high number of species which may be confused amongst themselves. To achieve this, inter simple sequence repeat (ISSR) markers were used to estimate genetic diversity among 12 wild populations of Niger plant from Moiben sub-county. Total genomic DNA was extracted as per the cetyltrimethylammonium bromide (Ctab) method and subjected to ISSR analysis using 20 primers. None of the primers produced unique banding patterns. ISSR data were used to calculate a squared-euclidean distance matrix. All the twenty primers (100%) gave polymorphic bands thus they were all considered for further analysis. The allele frequency of all the primers was below 0.95 indicating that they were all polymorphic in character. Gene diversity was high ranging from 0.3550 to 0.7337 with a mean value of 0.6302. The ISSR based upgma clustering produced four clusters. Niger plant within Moiben sub-county was found to be genetically diverse though heterozygosity was not noticed. The study recommends further analysis of Niger plant so as to form a basis for further development of the plant.

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