Genetic diversity in colonial bentgrass (Agrostis capillaris L.) revealed by EcoRI–MseI and PstI–MseI AFLP markers

Genome ◽  
2006 ◽  
Vol 49 (4) ◽  
pp. 328-335 ◽  
Author(s):  
Han Zhao ◽  
Suleiman S Bughrara ◽  
Jose Alberto Oliveira
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Mantel Test ◽  
Aflp Markers ◽  
Agrostis Capillaris ◽  
Northern Spain ◽  
Jaccard Similarity ◽  
Department Of Agriculture ◽  
Commercial Cultivars ◽  
High Level

Colonial bentgrass (Agrostis capillaris L.) is a potential source for genetic improvement of resistance to environmental stress and disease for other bentgrass species (Agrostis spp.). To conserve and study the existing genetic resources of colonial bentgrass for use in breeding, genetic diversity was investigated using amplified fragment length polymorphism (AFLP) markers. Included in this study were 22 accessions from US Department of Agriculture germplasm collected from 11 countries, in conjunction with 14 accessions from northern Spain and 3 commercial cultivars. Ten EcoRI–MseI and 6 PstI–MseI AFLP primer combinations produced 181 and 128 informative polymorphic bands, respectively. Cluster analysis of genetic similarity estimates revealed a high level of diversity in colonial bentgrass species with averages of 0.51 (EcoRI–MseI) and 0.63 (PstI–MseI). Greater genetic diversity was detected by the EcoRI–MseI AFLP primer combinations. A low but significant positive correlation (r = 0.44, p = 0.0099) between the 2 Jaccard similarity matrices was obtained by the Mantel test. Commercial cultivars of bentgrass showed a narrow genetic background. The assessment of genetic diversity among colonial bentgrass accessions suggested the potential value of the colonial bentgrass germplasm in turfgrass cultivar improvement.Key words: colonial bentgrass, genetic diversity, AFLP, cluster analysis.

Genetic diversity of eight millet genera assessed by using molecular and morphological markers

2016 ◽  
Vol 67 (2) ◽  
pp. 181
Author(s):  
Zdislava Dvořáková ◽  
Petra Hlásná Čepková ◽  
Iva Viehmannová ◽  
Lenka Havlíčková ◽  
Dagmar Janovská
Keyword(s):  
Genetic Diversity ◽  
Morphological Variability ◽  
Aflp Markers ◽  
Morphological Data ◽  
Plant Materials ◽  
Morphological Attributes ◽  
Shannon’S Index ◽  
High Level ◽  
Close Relatedness ◽  
Nei's Genetic Distance

In this study, the genetic diversity and relationships among eight millet genera were investigated by molecular and morphological data analyses. Sixty-nine millet accessions were analysed by using amplified fragment length polymorphism (AFLP) markers, and evaluated for morphological traits. Eight AFLP primer pairs were amplified successfully and 779 bands were scored for all accessions, with a high level of polymorphism detected. Nei’s genetic distance among all accessions varied from 0.0123 to 0.4246 and the Shannon’s index was estimated at 0.9708. The neighbour joining tree, using the unweighted neighbour-joining method and Dice’s dissimilarity coefficient, was constructed. The AFLP markers revealed the close relatedness between the Eragrostis and Panicum genera, whereas the greatest distance was found the Pennisetum and Echinochloa genera. Cluster analysis based on the AFLP profiles revealed that the majority of accessions of a given millet genus tend to group together. Clustering from morphological data allocated individuals into three main clusters with high variation. The genetic variability found between the analysed accessions was weakly negatively correlated (r = –0.074) with their morphological attributes. However, high molecular and morphological variability indicated that this collection includes rich and valuable plant materials for millet breeding.

Evaluation of genetic diversity among some commercial cultivars and Iranian wild strains of Agaricus bisporus by microsatellite markers

Botany ◽  
2016 ◽  
Vol 94 (1) ◽  
pp. 9-13 ◽  
Author(s):  
Nader Rokni ◽  
Ebrahim Mohammadi Goltapeh ◽  
Alireza Shafeinia ◽  
Naser Safaie
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Agaricus Bisporus ◽  
Breeding Programs ◽  
Banding Patterns ◽  
Commercial Cultivars ◽  
Wild Strains ◽  
Cultivated Mushroom ◽  
High Level ◽  
Promising Source

Agaricus bisporus (Lange) Imbach is the most widely cultivated mushroom in Iran. Lack of diversity in mushroom crops, especially where disease is concerned, creates a crucial risk for the currently grown cultivars. The aim of this study was to assess the genetic diversity among Iranian wild strains and some commercial cultivars by using microsatellite markers. Eighteen codominant microsatellite markers of A. bisporus (AbSSR) were used to distinguish 17 wild and commercial strains. All of the microsatellite markers used in this research gave clear banding patterns, and only one strain remained undistinguished. Among 106 generated alleles, the wild subgroup presented 53 alleles never found both in brown and white commercial cultivars, and 42 alleles never found in commercial brown strains. The dendrogram obtained by UPGMA clustering analysis separated A. bisporus strains into six groups. Based on our results, the high level of genetic diversity among Iranian wild strains, compared with the commercial strains, provides a new and promising source of diversity for A. bisporus breeding programs. To our knowledge this is the first relevant study of biodiversity in native Iranian populations of A. bisporus.

scholarly journals Genetic Diversity in Nephelium

HortScience ◽  
1995 ◽  
Vol 30 (4) ◽  
pp. 795F-795
Author(s):  
K.M. Aradhva ◽  
F. Zee ◽  
R.M. Manshardt
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Genetic Differentiation ◽  
Genetic Divergence ◽  
Taxonomic Revision ◽  
Isozyme Polymorphism ◽  
High Level

Fifty-six accessions involving five taxa of Nephelium (N. Iappaceum varieties lappaceum and pallens, N. hypoleucum, N. ramboutan-ake, and N. cuspidatum) were fingerprinted and evaluated for genetic diversity using isozyme polymorphism. All five taxa were polymorphic for most of the enzymes encoded by 10 putative loci. Number of alleles per locus ranged from three for Pgi-1 to nine for Pgi-2 with a total of 57 alleles. Thirty-eight accessions out of 56 possessed unique isozyme genotypes, indicating a high level of diversity in the collection. On average, 80% of the loci were polymorphic and the expected and observed heterozygosities were 0.374 and 0.373, respectively. The cluster analysis of the isozyme data revealed five distinct clusters representing the five taxa included in the study. Genetic differentiation within N. Iappaceum var. Iappaceum was evident from the cluster analysis. Isozyme data indicated that N. ramboutan-ake is the closest relative of N. Iappaceum var. Iappaceum, followed by N. hypoleucum, N. Iappaceum var. pallens, and N. cuspidatum. Interestingly, the varieties of N. Iappaceum exhibited genetic divergence far beyond that of the congenerics, N. hypoleucum and N. ramboutan-ake and may require a taxonomic revision.

scholarly journals Randomly Amplified Polymorphic DNA (RAPD) Variation Among Commercial Cultivars and Hybrids of Cabbage (Brassica oleracea var. capitata L.)

HortScience ◽  
1997 ◽  
Vol 32 (3) ◽  
pp. 451A-451
Author(s):  
R.L. Cansian ◽  
S. Echeverrigaray
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Brassica Oleracea ◽  
Randomly Amplified Polymorphic Dna ◽  
Commercial Cultivars ◽  
Similarity Indices ◽  
Single Entry ◽  
Traditional Cultivars ◽  
Rapd Variation

Randomly amplified polymorphisms (RAPD) were used to assess genetic diversity among five cultivars and 10 hybrids of cabbage (Brassica oleracea var. capitata L.). One-hundred-forty bands were scored from 15 oligonucleotide decamer primers selected from Operon Techn. kits B, W, X, and Y. The similarity indices between cabbage entries were computed from RAPD data, and these ranged from 0.53 to 0.95. The RAPD data allowed us to identify all the genotypes, even some of those characterized only by few bands. The cluster analysis formed five groups. One of these groups was formed by a single entry characterized by their precocity. The traditional cultivars Chato de Quintal and Chato de Brunswick were included in the same group, together with the Brazilian hybrid `Astrus'. Four of the six Japanese hybrids, imported and commercialized in Brazil, showed low variability between themselves.

scholarly journals Genetic diversity in maize dent landraces assessed by morphological and molecular markers

Genetika ◽  
2013 ◽  
Vol 45 (3) ◽  
pp. 811-824 ◽  
Author(s):  
Danijela Ristic ◽  
Vojka Babic ◽  
Violeta Andjelkovic ◽  
Jelena Vancetovic ◽  
Snezana Mladenovic-Drinic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Molecular Markers ◽  
Genetic Distance ◽  
Morphological Traits ◽  
Mean Value ◽  
Ecological Data ◽  
Phenotypic Analysis ◽  
High Level ◽  
Maize Research Institute

Maize Research Institute ?Zemun Polje? genebank maintains a collection of landraces grouped into 18 agro-ecological collected from ex-Yugoslavia territories. The application and comparison of different marker systems are important for the characterization and use of maize landraces in breeding program, as potential sources of desirable traits. In this study, 15 morphological traits, 7 RAPD primers and 10 SSR primer pairs were applied to i) to determine genetic distance between 21 maize dent landraces and ii) compare results obtained on morphological and molecular markers. Phenotypic analysis showed high level of heterogeneity between landraces. Higher level of genetic diversity was obtained with SSR than with RAPD. Genetic distance mean value for RAPD data was 0.35 i.e. for SSR 0.48. Based on the morphological traits and molecular markers, unweighted pairgroup method (UPGMA) analysis was applied for cluster analysis, using statistical NTSYSpc program package. Cluster analysis of morphological and molecular markers distances did not show the same population grouping. Better agreement with agro-ecological data was obtained with RAPD markers. Correlations between dissimilarity matrices for different types of markers were low. Data obtained in this work could be useful for further study of a larger number of landraces, and conservation of genetic resources and their genetic diversity.

scholarly journals Discrimination and Genetic Diversity of Cephalotaxus Accessions Using AFLP Markers

2000 ◽  
Vol 125 (4) ◽  
pp. 404-412 ◽  
Author(s):  
Donglin Zhang ◽  
Michael A. Dirr ◽  
Robert A. Price
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Shade Tolerance ◽  
Fragment Length Polymorphism ◽  
Genetic Differences ◽  
Aflp Markers ◽  
Base Pairs ◽  
Aflp Data ◽  
Hybrid Species ◽  
Sun And Shade

Cephalotaxus Sieb. and Zucc. (plum yew) species and cultivars have become popular because of their sun and shade tolerance, resistance to deer browsing, disease and insect tolerance, and cold and heat adaptability. Unfortunately, the nomenclature and classification in the literature and nursery trade are confusing due to their extreme similarity in morphology. In this study, amplified fragment-length polymorphism (AFLP) markers were used to discriminate taxa and evaluate genetic differences among 90 Cephalotaxus accessions. A total of 403 useful markers between 75 and 500 base pairs (bps) was generated from three primer-pair combinations. Cluster analysis showed that the 90 accessions can be classified as four species, C. oliveri Mast., C. fortunei Hooker, C. harringtonia (Forbes) Koch., and C. ×sinensis (a hybrid species); four varieties, C. fortunei var. alpina Li, C. harringtonia var. koreana (Nakai) Rehd., C. harringtonia var. nana (Nakai) Hornibr., and C. harringtonia var. wilsoniana (Hayata) Kitamura; and eight cultivars. Suggested names are provided for mislabeled or misidentified taxa. The Cephalotaxus AFLP data serve as a guide to researchers and growers for identification and genetic differences of a taxon, and a model to establish a cultivar library against which later introductions or problematic collections can be cross-referenced.

scholarly journals Genetic variation among Iranian alfalfa (Medicago sativa L.) populations based on RAPD markers

2011 ◽  
Vol 18 (2) ◽  
pp. 93-104 ◽  
Author(s):  
Fatemeh Mohammadzadeh ◽  
Hassan Monirifar ◽  
Jalal Saba ◽  
Mostafa Valizadeh ◽  
Ahmad Razban Haghighi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Genetic Variation ◽  
Breeding Population ◽  
Genetic Distances ◽  
Analysis Of Molecular Variance ◽  
Molecular Variance ◽  
Geographical Patterns ◽  
Plant Taxon ◽  
High Level

Genetic diversity among and within 10 populations of Iranian alfalfa, from different areas of Azarbaijan, Iran was analyzed by screening DNA from seeds of individual plants and bulk samples. In individual study, 10 randomly amplified polymorphic DNA (RAPD) primers produced 156 polymorphic bands and a high level of genetic diversity was observed within populations. The averages of total and within population genetic diversity were 0.2349 and 0.1892, respectively. Results of analysis of molecular variance (AMOVA) showed the great genetic variation existed within populations (81.37%). These Results were in agreement with allogamous and polyploid nature of alfalfa. Cluster analysis was performed based on Nei’s genetic distances resulting in grouping into 3 clusters which could separate breeding population from other populations. Results of cluster analysis were in consistent with morphological and geographical patterns of populations. The results of bulk method were different from individual analysis. Our results showed that RAPD analysis is a suitable method to study genetic diversity and relationships among alfalfa populations.Keywords: Alfalfa; RAPD; Genetic diversity; Analysis of Molecular Variance; Cluster analysis.DOI: http://dx.doi.org/10.3329/bjpt.v18i2.9296Bangladesh J. Plant Taxon. 18: (2): 93-104, 2011 (December)

scholarly journals Genetic Diversity and Population Structure of Alnus cremastogyne as Revealed by Microsatellite Markers

Forests ◽  
2019 ◽  
Vol 10 (3) ◽  
pp. 278 ◽  
Author(s):  
Hong-Ying Guo ◽  
Ze-Liang Wang ◽  
Zhen Huang ◽  
Zhi Chen ◽  
Han-Bo Yang ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Geographical Distribution ◽  
Mantel Test ◽  
Group Method ◽  
Arithmetic Means ◽  
Mountain Area ◽  
Pair Group ◽  
Hill Area ◽  
Population Genetic Variation ◽  
High Level

Alnus cremastogyne Burk. is a nonleguminous, nitrogen-fixing tree species. It is also the most important endemic species of Alnus Mill. in China, possessing important ecological functions. This study investigated population genetic variation in A. cremastogyne using 175 trees sampled from 14 populations native to Sichuan Province with 25 simple sequence repeat (SSR) markers. Our analysis showed that A. cremastogyne has an average of 5.83 alleles, 3.37 effective alleles, an expected heterozygosity of 0.63, and an observed heterozygosity of 0.739, indicating a relatively high level of genetic diversity. The A. cremastogyne populations in Liangshan Prefecture (Meigu, Mianning) showed the highest level of genetic diversity, whereas the Yanting population had the lowest. Our analysis also showed that the average genetic differentiation of 14 A. cremastogyne populations was 0.021. Analysis of molecular variance (AMOVA) revealed that 97% of the variation existed within populations; only 3% was among populations. Unweighted pair-group method with arithmetic means (UPGMA) clustering and genetic structure analysis showed that the 14 A. cremastogyne populations could be clearly divided into three clusters: Liangshan Prefecture population, Ganzi Prefecture population, the other population in the mountain area around the Sichuan Basin and central Sichuan hill area, indicating some geographical distribution. Further analysis using the Mantel test showed that this geographical distribution was significantly correlated with elevation.

scholarly journals Genetic Diversity and Origin of Slovene Common Bean (Phaseolus vulgaris L.) Germplasm as Revealed by AFLP Markers and Phaseolin Analysis

2006 ◽  
Vol 131 (2) ◽  
pp. 242-249 ◽  
Author(s):  
Jelka Šustar-Vozlič ◽  
Marko Maras ◽  
Branka Javornik ◽  
Vladimir Meglič
Keyword(s):  
Genetic Diversity ◽  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Seed Protein ◽  
Fragment Length Polymorphism ◽  
Aflp Markers ◽  
Group Method ◽  
Phaseolus Vulgaris L ◽  
Pair Group ◽  
High Level

There is a long tradition of common bean cultivation in Slovenia, which has resulted in the development of numerous landraces in addition to newly established cultivars. The genetic diversity of 100 accessions from the Genebank of the Agricultural Institute of Slovenia (AIS) were evaluated with amplified fragment length polymorphism (AFLP) markers and phaseolin seed protein. Twenty-seven standard accessions of known Mesoamerican and Andean origin, 10 wild Phaseolus vulgaris accessions and two related species, P. coccineus L. and P. lunatus L., were also included. Ten AFLP primer combinations produced 303 polymorphic bands, indicating a relatively high level of genetic diversity. Based on the marker data, unweighted pair group method with arithmethic mean (UPGMA) analysis and principal coordinate analysis (PCoA) all P. vulgaris accessions were separated into three well-defined groups. Two groups consisted of accessions of Mesoamerican and Andean origin, while the third was comprised of only four wild P. vulgaris accessions. A set of Slovene accessions formed a well-defined sub-group within the Andean cluster, showing their unique genetic structure. These data were supported by phaseolin analysis, which also revealed additional variants of “C” and “T” phaseolin types. The results are in agreement with previous findings concerning diversification of common bean germplasm introduced in Europe.

scholarly journals Analysis of Genetic Diversity in Chrysopogon aciculatus Using Intersimple Sequence Repeat and Sequence-related Amplified Polymorphism Markers

HortScience ◽  
2016 ◽  
Vol 51 (8) ◽  
pp. 972-979 ◽  
Author(s):  
Xinyi Zhang ◽  
Li Liao ◽  
Zhiyong Wang ◽  
Changjun Bai ◽  
Jianxiu Liu
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Molecular Genetic ◽  
Issr Markers ◽  
Data Sets ◽  
Sequence Repeat ◽  
Data Set ◽  
Srap Markers ◽  
Molecular Genetic Diversity ◽  
High Level

Molecular genetic diversity and relationships among 86 Chrysopogon aciculatus (Retz.) Trin. accessions were assessed using intersimple sequence repeat (ISSR) and sequence-related amplified polymorphism (SRAP) markers. Twenty-five ISSR markers generated 283 amplification bands, of which 266 were polymorphic. In addition, 576 polymorphic bands were detected from 627 bands amplified using 30 SRAP primers. Both marker types revealed a high level of genetic diversity, with ISSR markers showing a higher proportion of polymorphic loci (PPL; 94%) than SRAP markers (91.87%). The ISSR and SRAP data were significantly correlated (r = 0.8023). Cluster analysis of the separate ISSR and SRAP data sets clustered the accessions into three groups, which generally were consistent with geographic provenance. Cluster analysis of the combined ISSR and SRAP data set revealed four major groups similar to those based solely on ISSR or SRAP markers. The findings demonstrate that ISSR and SRAP markers are reliable and effective tools for analysis of genetic diversity in C. aciculatus.

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