Analysis of genetic relationships of genotypes of the genus Rosa L. from the collection of Nikita Botanical Gardens using ISSR and IRAP DNA markers

In connection with the development of breeding and the creation of new plant varieties, the problem of their genotyping and identification is becoming increasingly important, therefore the use of molecular methods to identify genetic originality and assess plant genetic diversity appears to be relevant. As part of the work performed, informative ISSR and IRAP DNA markers promising for the study of genetic diversity of the Rosa L. genus were sought and applied to analysis of genetic relationships among 26 accessions of the genus Rosa L. from the gene pool collection of Nikita Botanical Gardens. They included 18 cultivated varieties and 8 accessions of wild species. The species sample included representatives of two subgenera, Rosa and Platyrhodon. The subgenus Platyrhodon was represented by one accession of the species R. roxburghii Tratt. Cultivated roses were represented by varieties of garden groups hybrid tea, floribunda, and grandiflora. The tested markers included 32 ISSRs and 13 IRAPs. Five ISSR markers (UBC 824, ASSR29, 3A21, UBC 864, and UBC 843) and three IRAPs (TDK 2R, Сass1, and Сass2) were chosen as the most promising. They were used for genotyping the studied sample of genotypes. In general, they appeared to be suitable for further use in studying the genetic diversity of the genus Rosa L. The numbers of polymorphic fragments ranged from 12 to 31, averaging 19.25 fragments per marker. For markers UBC 864 and UBC 843, unique fingerprints were identified in each accession studied. The genetic relationships of the studied species and varieties of roses analyzed by the UPGMA, PCoA, and Bayesian methods performed on the basis of IRAP and ISSR genotyping are consistent with their taxonomic positions. The genotype of the species R. roxburghii of the subgenus Platyrhodon was determined genetically as the most distant. According to clustering methods, the representative of the species R. bengalensis did not stand out from the group of cultivated varieties. When assessing the level of genetic similarity among the cultivated varieties of garden roses, the most genetically isolated varieties were ‘Flamingo’, ‘Queen Elizabeth’, and ‘Kordes Sondermeldung’; for most of the other varieties, groups of the greatest genetic similarity were identified. This assessment reflects general trends in phylogenetic relationships, both among the studied species of the genus and among cultivated varieties.

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Genetic diversity of Turkish lathyrus L. landraces using ISSR markers

Genetika ◽

10.2298/gensr1802395u ◽

2018 ◽

Vol 50 (2) ◽

pp. 395-402

Author(s):

Hüseyin Uysal ◽

Zeki Acar ◽

İlknur Ayan ◽

Orhan Kurt

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Genetic Relationships ◽

Issr Markers ◽

The Other ◽

High Similarity ◽

Pairwise Genetic Distance ◽

Dna Fragment ◽

Lathyrus Sativus L ◽

Issr Primers

Fifty-one Lathyrus sativus L. landraces and one L. clymenum L. landrace collected from Turkey and one L. sativus cultivar, G?rb?z, were evaluated with ISSR markers in this study to molecular characterization. Three ISSR primers were used and 45 DNA fragment were evaluated, of which 44 bands were polymorphic. The frequencies of scored bands ranged from 0.009 to 0.888 and averaged 0.363. The genotypes MLT04 and NEV02 had high similarity with 0.825 according to pairwise grouping. The furthest pairwise group was G?rb?z and MLT02 with 0.244. The nearest genotype to G?rb?z was CNR03 with 0.577. The pairwise genetic distance between L. clymenum and L. sativus ranged from 0.353 (accession NEV01) to 0.637 (accession DEN04) and pairwise genetic distance to the cultivar G?rb?z was 0.375. Assessment of genetic relationships among Lathyrus genotypes made two main groups. One of them covered only G?rb?z variety and the other covered 52 Lathyrus landrace. L. sativus and L. clymenum separated prominently in the second group.

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Genetic relationships of Chinese prickly ash as revealed by ISSR markers

Biologia ◽

10.1515/biolog-2015-0005 ◽

2015 ◽

Vol 70 (1) ◽

Cited By ~ 3

Author(s):

Shijing Feng ◽

Tuxi Yang ◽

Xiao Li ◽

Lv Chen ◽

Zhenshan Liu ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Relationship ◽

Genetic Divergence ◽

Genetic Similarity ◽

Genetic Relationships ◽

Issr Markers ◽

Similarity Coefficient ◽

Chinese Prickly Ash ◽

New Cultivars ◽

Issr Primers

AbstractChinese prickly ash, belonging to the genus Zanthoxylum L., has been one of the most important commerciallyexploited plants for its alimentary, industrial and medicinal applications. However, the breeding and promotion of Chinese prickly ash have been severely restricted due to its confusing classification. Therefore, we assessed genetic diversity and phylogenetic relationship among 45 Chinese prickly ash samples collected from 6 main cultivated regions using 11 ISSR primers. These eleven selected primers generated a total of 102 scorable bands ranging from 150 to 2000 bp, corresponding to an average of approximately 9.3 bands per primer. The percentage of polymorphic loci for all samples ranged from 75% to 100%, with an average of 84.3%. The genetic similarity coefficient across all samples varied from 0.460 to 0.919. Remarkably, UPGMA analysis showed that 45 samples were divided into six clusters with a genetic similarity of 0.7. The closest genetic relationship was observed between Dahongpao collected from Qin’an and Tianshui, and the greatest genetic divergence was found between Dahongpao collected from Hengshui and Jiuyeqing collected from Jiangjin. It could serve as a basis for identifying Chinese prickly ash cultivars, breeding new cultivars and protecting the Chinese prickly ash resources in main regions.

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Structure and Genetic Diversity of Nine Important Landraces of Capsicum Species Cultivated in the Yucatan Peninsula, Mexico

Agronomy ◽

10.3390/agronomy9070376 ◽

2019 ◽

Vol 9 (7) ◽

pp. 376 ◽

Cited By ~ 3

Author(s):

Lucero del C. López Castilla ◽

René Garruña Hernández ◽

Crescencio de la Cruz Castillo Aguilar ◽

Aida Martínez-Hernández ◽

Matilde Margarita Ortiz-García ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Relationships ◽

Yucatan Peninsula ◽

Conservation Status ◽

Sustainable Use ◽

Issr Markers ◽

Southern Mexico ◽

Yucatán Peninsula ◽

Capsicum Spp ◽

Capsicum Species

Mexico has a wealth of Capsicum species, which has led to the development of a large number of chili pepper landraces. A great wealth of Capsicum germplasm can be found in southern Mexico in the Yucatan Peninsula, an important area of diversification of Capsicum annuum. Specifically, in the western Yucatan Peninsula, three of the five domesticated species of Capsicum (C. annuum, C. chinense and C. frutescens) have been reported. However, information on their genetic diversity, conservation status and potential use is lacking. To generate useful information toward the sustainable use, management and conservation of these species, we evaluated the structure, diversity and genetic relationships of nine accessions of Capsicum spp., of major importance cultivated in the western Yucatan Peninsula using 42 ISSR loci. The results indicated that these accessions consisted of three genetic groups that were defined by the respective species of each accession. The level of genetic diversity was moderate and distributed mainly among accessions. The ISSR markers detected a high level of polymorphism and allowed the genetic differentiation of the C. annuum complex. The results indicated that the accessions collected in the western Yucatan Peninsula constitute a valuable genetic resource that can be used in genetic improvement and conservation programs.

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Study of genetic differences among Slovak Tsigai populations using microsatellite markers

Czech Journal of Animal Science ◽

10.17221/1670-cjas ◽

2009 ◽

Vol 54 (No. 10) ◽

pp. 468-474 ◽

Cited By ~ 3

Author(s):

S. Kusza ◽

E. Gyarmathy ◽

J. Dubravska ◽

I. Nagy ◽

A. Jávor ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Genetic Distance ◽

Microsatellite Markers ◽

Mating System ◽

Population Differentiation ◽

Genetic Relationships ◽

The Other ◽

Potential Risks ◽

Substantial Degree

In this study genetic diversity, population structure and genetic relationships of Tsigai populations in Slovakia were investigated using microsatellite markers. Altogether 195 animals from 12 populations were genotyped for 16 microsatellites. 212 alleles were detected on the loci. The number of identified alleles per locus ranged from 11 to 35. In the majority of the populations heterozygosity deficiency and potential risks of inbreeding could be determined. High values of <I>F</I><sub>ST</sub> (0.133) across all the loci revealed a substantial degree of population differentiation. The estimation of genetic distance value showed that the Slovak Vojin population was the most different from the other populations. The 12 examined populations were able to group into 4 clusters. With this result our aim is to help the Slovak sheep breeders to establish their own mating system, to avoid genetic loss and to prevent diversity of Tsigai breed in Slovakia.

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Genetic Characterization of Cleveland Bay Horse Breed

Diversity ◽

10.3390/d11100174 ◽

2019 ◽

Vol 11 (10) ◽

pp. 174 ◽

Cited By ~ 2

Author(s):

Khanshour ◽

Hempsey ◽

Juras ◽

Cothran

Keyword(s):

Genetic Diversity ◽

Genetic Variability ◽

Genetic Similarity ◽

Genetic Resource ◽

Genetic Characterization ◽

Genetic Relationships ◽

Similarity Measures ◽

Horse Breed ◽

The Usa

The Cleveland Bay (CB) is the United Kingdom’s oldest established horse breed. In this study we analyzed the genetic variability in CB horses and investigated its genetic relationships with other horse breeds. We examined the genetic variability among 90 CB horses sampled in the USA compared to a total of 3447 horses from 59 other breeds. Analysis of the genetic diversity and population structure was carried out using 15 microsatellite loci. We found that genetic diversity in CB horses was less than that for the majority of other tested breeds. The genetic similarity measures showed no direct relationship between the CB and Thoroughbred but suggested the Turkman horses (likely in the lineage of ancestors of the Thoroughbred) as a possible ancestor. Our findings reveal the genetic uniqueness of the CB breed and indicate its need to be preserved as a genetic resource.

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Genetic Diversity Based on ISSR Markers of Apple Genotypes in Ardahan/Turkey

Notulae Scientia Biologicae ◽

10.15835/nsb10410347 ◽

2018 ◽

Vol 10 (4) ◽

pp. 554-558

Author(s):

Emre SEVİNDİK ◽

Hüseyin UYSAL ◽

Zehra Tuğba MURATHAN

Keyword(s):

Genetic Diversity ◽

Phylogenetic Analysis ◽

Genetic Distance ◽

Uv Light ◽

Genetic Relationships ◽

Issr Markers ◽

Genetic Distances ◽

The Matrix ◽

Commercial Kits ◽

Issr Primers

Within the present study, it was conducted a genetic diversity analysis using ISSR markers for some apple genotypes grown in Ardahan region, Turkey. Total genomic DNA (gDNA) isolation from apple leaves was performed using commercial kits. Five ISSR primers were used to determine the genetic diversity among the genotypes studied. Polymerase Chain Reaction (PCR) was performed with all gDNA samples to produce bands to score. PCR products were run in agarose gel and visualized under UV light. Bands on the gels were scored as “1”, while no bands at the corresponding positions were scored as “0”, to generate the matrix file. Five ISSR primers produced a total of 35 bands, and 20 of them were polymorphic. The polymorphic bands rated approximately 57%. Phylogenetic relationships and genetic distances between the genotypes were calculated by using the PAUP [Phylogenetic Analysis Using Parsimony (and Other Methods)] program. According to the PAUP data, the closest genetic distance was 0.03704 between ‘Kaburga’ and ‘Japon Apple’ genotypes, while the furthest genetic distance was 0.48148 between ‘Karanfil Apple’ and ‘Sisli Uruset’. The phylogenetic analysis obtained using UPGMA algorithm produced a phylogenetic tree with two clades. The results suggest that ISSR markers are useful tools for determining genetic relationships among apple genotypes.

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Inter Simple Sequence Repeat (ISSR) markers to assess genetic diversity and relatedness within strawberry genotypes

Canadian Journal of Plant Science ◽

10.4141/cjps07088 ◽

2008 ◽

Vol 88 (2) ◽

pp. 313-322 ◽

Cited By ~ 22

Author(s):

S. C. Debnath ◽

S. Khanizadeh ◽

A. R. Jamieson ◽

C. Kempler

Keyword(s):

Genetic Diversity ◽

Simple Sequence Repeat ◽

Genetic Similarity ◽

Inter Simple Sequence Repeat ◽

Issr Markers ◽

Group Method ◽

Sequence Repeat ◽

Breeding Lines ◽

Pair Group ◽

Simple Sequence

The goal of this study was to determine the level of genetic diversity and relatedness among 16 strawberry (Fragaria H ananassa Duch.) cultivars and 11 breeding lines developed in Canada, using Inter Simple Sequence Repeat (ISSR) markers. Seventeen primers generated 225 polymorphic ISSR-PCR bands. Cluster analysis by the unweighted pair-group method with arithmetic averages (UPGMA) revealed a substantial degree of genetic similarity among the genotypes ranging from 63 to 77% that were in agreement with the principal coordinate (PCO) analysis. Geographical distribution for the place of breeding program explained only 1.4% of total variation as revealed by analysis of molecular variance (AMOVA). The ISSR markers detected a sufficient degree of polymorphism to differentiate among strawberry genotypes, making this technology valuable for cultivar identification and for the more efficient choice of parents in current strawberry breeding programs. Key words: Fragaria × ananassa, DNA fingerprinting, multivariate analysis, breeding, genetic similarity

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