scholarly journals Genetic Diversity of Local Greek and Bulgarian Grapevine (Vitis Vinifera L.) Varieties

Diversity ◽  
2020 ◽  
Vol 12 (7) ◽  
pp. 273 ◽  
Author(s):  
Maria Papapetrou ◽  
Dimitrios Loukovitis ◽  
Orestis Papadopoulos ◽  
Zoi Kazlari ◽  
Anastasia Peristeraki ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Loci ◽  
Vitis Vinifera L ◽  
Genetic Profile ◽  
Discriminative Power ◽  
Reaction Method ◽  
Efficient Management ◽  
High Degree ◽  
Close Genetic Relationship ◽  
Genotypic Assay

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.

scholarly journals ASSESSMENT OF GENETIC DIVERSITY AND RELATIONSHIPS AMONG GRAPEVINE CULTIVARS ORIGINATING IN CENTRAL AND EASTERN EUROPE AND NORTH AMERICA USING ISSR MARKERS

2019 ◽  
Vol 18 (5) ◽  
pp. 141-152
Author(s):  
Anna Lisek ◽  
Jerzy Lisek
Keyword(s):  
Genetic Diversity ◽  
North America ◽  
Polymorphic Information Content ◽  
Issr Markers ◽  
Molecular Techniques ◽  
Resolving Power ◽  
Vitis Vinifera L ◽  
Phenotypic Differences ◽  
High Degree ◽  
Issr Primers

The study shows genetic diversity of 38 Vitis vinifera L. cultivars and hybrids originating in North America and Europe, including cultivars selected in Poland, which have not been characterized with the use of DNA markers yet. The agrobiological features of the genotypes selected for testing, indicate that they may be useful for the breeding of new cultivars and grape production. The use of 12 ISSR primers allowed to obtain 94.4% of polymorphism. The polymorphic information content (PIC) value was high and varied between 0.829 and 0.953 with an average of 0.897. The resolving power (Rp) ranged between 3.678 and 8.892 with an average of 6.347. Primers UBC 809, UBC 810, UBC 812, UBC 855, UBC 891 and UBC 810 were found to be highly effective (informative). Similarity coefficient ranged between 0.167 and 1.0, which indicates high degree of diversity of tested  grape cultivars. Tested cultivars were grouped in 3 main clusters; one of them was further divided into 6 subclusters. ‘Pannonia Kincse’ and ‘Danmarpa Polonia’ were not differentiated. Phenotypic differences among those two cultivars suggest that ‘Danmarpa Polonia’ might be a clone of ‘Pannonia Kincse’ and other molecular techniques must be used to differentiate them. Morphological and agrobiological characters of cultivars support the results obtained by ISSR markers.

scholarly journals Differential genetic stability in vineyards of the cultivar ‘Italy’ (Vitis vinifera L.) cultivated in different regions of Southern and Southwestern Brazil

2018 ◽  
Vol 33 (1) ◽  
pp. 66-77
Author(s):  
Silvia Helena Zequim Maia ◽  
Sandra Aparecida de Oliveira-Collet ◽  
Claudete Aparecida Mangolin ◽  
Maria de Fátima P.S. Machado
Keyword(s):  
Genetic Diversity ◽  
Allele Frequency ◽  
Microsatellite Loci ◽  
Genetic Stability ◽  
Somatic Mutations ◽  
Molecular Level ◽  
Frequency Variation ◽  
Vitis Vinifera L ◽  
New Cultivars ◽  
New Alleles

During more than 50 years the vegetative propagation has been the form of maintaining and multiplication of the cv. ’Italy’ vineyards, a ’Bicane’ x ’Muscat Hamburg’ hybrid. In the current study, polymorphism in 17 microsatellite loci was used to evaluate the genetic stability at DNA level in vineyards of cv. ’Italy’ planted in different regions of the states of Paraná and São Paulo, Brazil. Unchanged and equal allele frequency indicating genetic stability was reported in 47% of the microsatellite loci in vineyards of six localities, while allele frequency variation has been observed in Scu15vv, Udv44, Udv74, Udv96, Udv107, Udv108, Vvmd5, Vvmd6 and Vvs3 microsatellite loci. Alleles Udv96140 and Vvs3448, detected in vines in only one of the vineyards, evidenced somatic mutations at molecular level in cv. ’Italy’. Genetic diversity, as result of changes in the allele frequencies in 53% of microsatellite loci, was detected more frequently than somatic mutations due to new alleles. Polymorphism in microsatellite loci revealed different genetic stability in vineyards of cv. ’Italy’ cultivated in six different Brazilian regions and indicated vineyards with less genetic stability as a possible source of somatic mutants, showing traits of agronomic interest with a potential to generate new cultivars.

Assessment of the genetic diversity of microsatellite loci of horses of Heavy Draft breeds

2018 ◽  
pp. 39-44
Author(s):  
N. Blohina ◽  
◽  
L. Khrabrova ◽  
A. Zaitcev ◽  
I. Gavrilicheva ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Loci

Genetic Diversity of Basil (Ocimum spp. - Lamiaceae) Based on RAPD Markers and Volatile Oil Constituents

HortScience ◽  
1998 ◽  
Vol 33 (3) ◽  
pp. 492f-493
Author(s):  
Roberto F. Vieira ◽  
James E. Simon ◽  
Peter Goldsbrough ◽  
Antonio Figueira
Keyword(s):  
Genetic Diversity ◽  
Molecular Markers ◽  
Rapd Markers ◽  
Volatile Oil ◽  
Essential Oil Composition ◽  
Oil Composition ◽  
Traditional Medicines ◽  
The Tropics ◽  
High Degree ◽  
First Time

Essential oils extracted from basil (Ocimum spp.) by steam distillation are used to flavor foods, oral products, in fragrances, and in traditional medicines. The genus Ocimum contains around 30 species native to the tropics and subtropics, with some species naturalized and/or cultivated in temperate areas. Interand intraspecific hybridization have created significant confusion in the botanical systematics of this genus. Taxonomy of basil (O. basilicum) is also complicated by the existence of numerous varieties, cultivars, and chemotypes within the species that do not differ significantly in morphology. In this study we are using RAPD markers and volatile oil composition to characterize the genetic diversity among the most economically important Ocimum species. We hypothesize that the genetic similarity revealed by molecular markers will more accurately reflect the morphological and chemical differences in Ocimum than essential oil composition per se. Preliminary research using five Ocimum species, four undetermined species, and eight varieties of O. basilicum (a total of 19 accessions) generated 107 polymorphic fragments amplified with 19 primers. RAPDs are able to discriminate between Ocimum species, but show a high degree of similarity between O. basilicum varieties. The genetic distance between nine species and among 55 accessions within the species O. americanum, O. basilicum, O. campechianum, O. × citriodorum, O. gratissimum, O. kilimandscharium, O. minimum, O. selloi, and O. tenuiflorum will be analyzed by matrix of similarity and compared to the volatile oil profile. This research will for the first time apply molecular markers to characterize the genetic diversity of Ocimum associate with volatile oil constituent.

scholarly journals Stand out from the Crowd: Small-Scale Genetic Structuring in the Endemic Sicilian Pond Turtle

Diversity ◽  
2020 ◽  
Vol 12 (9) ◽  
pp. 343
Author(s):  
Luca Vecchioni ◽  
Federico Marrone ◽  
Marco Arculeo ◽  
Uwe Fritz ◽  
Melita Vamberger
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Loci ◽  
Small Scale ◽  
Moderate Degree ◽  
Geographical Pattern ◽  
Genetic Structuring ◽  
Pond Turtle ◽  
Emys Trinacris ◽  
Polymorphic Microsatellite ◽  
Entire Distribution

The geographical pattern of genetic diversity was investigated in the endemic Sicilian pond turtle Emys trinacris across its entire distribution range, using 16 microsatellite loci. Overall, 245 specimens of E. trinacris were studied, showing high polymorphic microsatellite loci, with allele numbers ranging from 7 to 30. STRUCTURE and GENELAND analyses showed a noteworthy, geographically based structuring of the studied populations in five well-characterized clusters, supported by a moderate degree of genetic diversity (FST values between 0.075 and 0.160). Possible explanations for the genetic fragmentation observed are provided, where both natural and human-mediated habitat fragmentation of the Sicilian wetlands played a major role in this process. Finally, some conservation and management suggestions aimed at preventing the loss of genetic variability of the species are briefly reported, stressing the importance of considering the five detected clusters as independent Management Units.

Allozyme variation and an estimate of the inbreeding coefficient in the coffee berry borer, Hypothenemus hampei (Coleoptera: Scolytidae)

1995 ◽  
Vol 85 (1) ◽  
pp. 21-28 ◽  
Author(s):  
Philippe Borsa ◽  
D. Pierre Gingerich
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Population Genetic ◽  
New Caledonia ◽  
Allozyme Variation ◽  
Inbreeding Coefficient ◽  
Hypothenemus Hampei ◽  
Coffee Berry ◽  
Biological Features ◽  
High Degree

AbstractSeven presumed Mendelian enzyme loci (Est-2, Est-3, Gpi, Idh-l, Idh-2, Mdh-2 and Mpi) were characterized and tested for polymorphism in coffee berry borers, Hypothenemus hampei (Ferrari), sampled in Côte d′Ivoire, Mexico and New Caledonia. The average genetic diversity was H = 0.080. Two loci, Mdh-2 and Mpi were polymorphic, and thus usable as genetic markers. The population structure of H. hampei was analysed using Weir & Cockerham's estimators of Wright's F-statistics. A high degree of inbreeding (f = 0.298) characterized the elementary geographic sampling unit, the coffee field. The estimate of gene flow between fields within a country was Nm = 10.6 and that between countries was Nm = 2. The population genetic structure in H. hampei could be related to its known population biological features and history.

scholarly journals Genetic diversity and population structure of Plasmodium falciparum in Nigeria: insights from microsatellite loci analysis

2021 ◽  
Vol 20 (1) ◽  
Author(s):  
Fehintola V. Ajogbasile ◽  
Adeyemi T. Kayode ◽  
Paul E. Oluniyi ◽  
Kazeem O. Akano ◽  
Jessica N. Uwanibe ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Plasmodium Falciparum ◽  
Population Structure ◽  
Microsatellite Loci ◽  
Control Strategies ◽  
Population Diversity ◽  
Parasite Population ◽  
Nested Polymerase Chain Reaction ◽  
Public Health Burden ◽  
Genetic Diversity And Structure

Abstract Background Malaria remains a public health burden especially in Nigeria. To develop new malaria control and elimination strategies or refine existing ones, understanding parasite population diversity and transmission patterns is crucial. Methods In this study, characterization of the parasite diversity and structure of Plasmodium falciparum isolates from 633 dried blood spot samples in Nigeria was carried out using 12 microsatellite loci of P. falciparum. These microsatellite loci were amplified via semi-nested polymerase chain reaction (PCR) and fragments were analysed using population genetic tools. Results Estimates of parasite genetic diversity, such as mean number of different alleles (13.52), effective alleles (7.13), allelic richness (11.15) and expected heterozygosity (0.804), were high. Overall linkage disequilibrium was weak (0.006, P < 0.001). Parasite population structure was low (Fst: 0.008–0.105, AMOVA: 0.039). Conclusion The high level of parasite genetic diversity and low population structuring in this study suggests that parasite populations circulating in Nigeria are homogenous. However, higher resolution methods, such as the 24 SNP barcode and whole genome sequencing, may capture more specific parasite genetic signatures circulating in the country. The results obtained can be used as a baseline for parasite genetic diversity and structure, aiding in the formulation of appropriate therapeutic and control strategies in Nigeria.

scholarly journals Whole genome resequencing and custom genotyping unveil clonal lineages in ‘Malbec’ grapevines (Vitis vinifera L.)

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Luciano Calderón ◽  
Nuria Mauri ◽  
Claudio Muñoz ◽  
Pablo Carbonell-Bejerano ◽  
Laura Bree ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Somatic Mutations ◽  
Clonal Propagation ◽  
Variant Calling ◽  
Vitis Vinifera L ◽  
Whole Genome ◽  
Single Nucleotide Variants ◽  
Genome Resequencing ◽  
Diversity Pattern ◽  
Whole Genome Resequencing

AbstractGrapevine cultivars are clonally propagated to preserve their varietal attributes. However, genetic variations accumulate due to the occurrence of somatic mutations. This process is anthropically influenced through plant transportation, clonal propagation and selection. Malbec is a cultivar that is well-appreciated for the elaboration of red wine. It originated in Southwestern France and was introduced in Argentina during the 1850s. In order to study the clonal genetic diversity of Malbec grapevines, we generated whole-genome resequencing data for four accessions with different clonal propagation records. A stringent variant calling procedure was established to identify reliable polymorphisms among the analyzed accessions. The latter procedure retrieved 941 single nucleotide variants (SNVs). A reduced set of the detected SNVs was corroborated through Sanger sequencing, and employed to custom-design a genotyping experiment. We successfully genotyped 214 Malbec accessions using 41 SNVs, and identified 14 genotypes that clustered in two genetically divergent clonal lineages. These lineages were associated with the time span of clonal propagation of the analyzed accessions in Argentina and Europe. Our results show the usefulness of this approach for the study of the scarce intra-cultivar genetic diversity in grapevines. We also provide evidence on how human actions might have driven the accumulation of different somatic mutations, ultimately shaping the Malbec genetic diversity pattern.

scholarly journals Isolation and Characterization of Microsatellite Loci of Clarias macrocephalus and Their Application to Genetic Diversity Study

1999 ◽  
Vol 65 (4) ◽  
pp. 520-526 ◽  
Author(s):  
Uthairat Na-Nakorn ◽  
Nobuhiko Taniguchi ◽  
Estu Nugroho ◽  
Shingo Seki ◽  
Wongpathom Kamonrat
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Loci ◽  
Isolation And Characterization ◽  
Clarias Macrocephalus ◽  
Genetic Diversity Study ◽  
Diversity Study

scholarly journals Comparative assessment of genetic diversity in wild and primitive cultivated barley in a center of diversity.

Genetics ◽  
1988 ◽  
Vol 119 (4) ◽  
pp. 981-990
Author(s):  
S Jana ◽  
L N Pietrzak
Keyword(s):  
Genetic Diversity ◽  
Eastern Mediterranean ◽  
Hordeum Spontaneum ◽  
Hordeum Vulgare L ◽  
Closely Related Species ◽  
Mediterranean Countries ◽  
Isozyme Loci ◽  
Cultivated Barley ◽  
Multilocus Associations ◽  
High Degree

Abstract Wild barley (Hordeum spontaneum K.) and indigenous primitive varieties of cultivated barley (Hordeum vulgare L.), collected from 43 locations in four eastern Mediterranean countries, Jordan, Syria, Turkey and Greece, were electrophoretically assayed for genetic diversity at 16 isozyme loci. Contrary to a common impression, cultivated barley populations were found to maintain a level of diversity similar to that in its wild progenitor species. Apportionment of overall diversity in the region showed that in cultivated barley within-populations diversity was of higher magnitude than the between-populations component. Neighboring populations of wild and cultivated barleys showed high degree of genetic identity. Groups of 3 or 4 isozyme loci were analyzed to detect associations among loci. Multilocus associations of varying order were detected for all three groups chosen for the analysis. Some of the association terms differed between the two species in the region. Although there was no clear evidence for decrease in diversity attributable to the domestication of barley in the region, there was an indication of different multilocus organizations in the two closely related species.

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