Browsing by Author "Karahan, Faruk"

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Genetic Structure and Diversity of Adonis L. (Ranunculaceae) Populations Collected from Turkey by Inter-Primer Binding Site (Ipbs) Retrotransposon Markers
(TÜBİTAK Scientific & Technological Research Council Turkey, 2019) Hossein-Pour, Arash; Karahan, Faruk; Ilhan, Emre; Ilcim, Ahmet; Haliloglu, Kamil
The genus Adonis L. is a member of Ranunculaceae and consists of perennial and annual herbaceous plants included in the tribe Adonideae under the subfamily Ranunculoideae. Botanically, Ranunculaceae comprises vital medicinal plants. Molecular markers are one of the most effective tools for exploring genetic variation that can enhance breeding efficiency. To identify the genetic diversity of 62 Adonis ecotypes collected from different regions in Turkey, the interprimer binding site (iPBS) retrotransposon system was used. Of the 83 iPBS primers used, 10 provided sufficient polymorphic data, generating a total of 204 alleles. The number of iPBS bands per individual was 3.29, and the number of alleles per polymorphic locus ranged from 8 to 35, with an average of 20.30. The average polymorphism percentage was 99.50%, and polymorphic information content ranged from 0.16 to 0.39. The highest average number of alleles, Nei's genetic diversity (h), and Shannon's information index (I) were obtained from A. volgensis species (1.64, 0.39, and 0.58, respectively), whereas the lowest values (1.41, 0.29, and 0.46, respectively) were found in A. flammea species. The analysis of molecular variance revealed significant variance within the population (71%), whereas no significant genetic variation was observed among the different species (29%). Cluster analysis according to unweighted pair-group mean average (UPG MA) divided 62 Adonis ecotypes into four major clusters. According to the principal coordinate analysis, the first three principal coordinates accounted for 81.51% of total variation. Genetic structure analysis of the studied germplasm using the Bayesian method revealed four subpopulations with an average of 0.2634 for expected heterozygosity and 0.2154 for population differentiation measurements. The results of this study suggested that iPBS markers could be used in the identification of genetic diversity among the Adonis species.
Nuclear DNA Content Variation Among Glycyrrhiza Taxons Collected from East Mediterranean
(Parlar Scientific Publications (p S P), 2017) Ilhan, Emre; Ozgur, Sevda; Tuna, Gulsemin Savas; Eren, Abdil Hakan; Karahan, Faruk; Tuna, Metin; Erayman, Mustafa
In this study, we performed nuclear DNA content determination of three different licorice species (G. flavescens Boiss, G. glabra L. var. glandulifera and G. echinata L.) collected from three different geographical regions of Hatay Province (Arsuz, Kirikhan, and Antakya) in the East Mediterranean Region. Previous cytogenetic studies in Glycyrrhiza genus is limited to chromosome counts by classical methods and no information was available on nuclear DNA content of the species included within the genus. Nuclear DNA content information is constant among individuals of one species, therefore, it is species specific. This makes nuclear DNA content information very useful for taxonomic, evolutionary, and genetic studies. Nuclear DNA content information (pg) can be converted to genome size (bp) by using a simple equation and it is critical for genome sequencing projects. In this study, nuclear DNA content of three different Glycyrrhiza species were comparatively analyzed for the first time by using flow cytometry method. Based on the results of the study G. flavesences (1.138 0,013 pg, 1112.96 Mbp) had larger nuclear DNA content than those of G. glabra (0.967 0,009, 945.73 Mbp) and G. echinata (0.946 0,008 pg, 925.19 Mbp). These results indicate that G. flavescens have different genomes than G. glabra and G. echinata, which have more similar genomes. The results of this study will be useful for taxonomic identification of Glycyrrhiza species and to understand their geno-mic structures and relations.
Phylogenetic Relationship Among Taxa in the Genus Adonis L. Collected from Türkiye Based on nrDNA Internal Transcribed Spacer (ITS) Markers
(Springer, 2022) Karahan, Faruk; Ilcim, Ahmet; Turkoglu, Aras; Ilhan, Emre; Haliloglu, Kamil
Background Genus Adonis L. contain approximately 40 annual and perennial species, which are widely distributed in the temperate zones of Asia and Europe, and less frequently in southwestern Asia, northern Africa and the Mediterranean region. The aim of the study was to evaluate the phylogenetic relationship among Adonis taxa collected from Turkiye based on nrDNA Internal transcribed spacer (ITS) markers. Methods Samples of 64 individual genotypes from 21 populations of 10 Adonis taxa were collected from different regions of the country during vegetation period between 2014 and 2018. ITS1, ITS4, P16 and P25 primers within ITS technique was used to genotype the plant materials. Then, genotypic data was used to estimate magnitude and organization of infraspecific variation in different populations of Adonis. Results About 600 bp DNA sequences were obtained from each 64 Adonis genotypes belonging to 21 different populations. The dendrogram obtained from Adonis taxa and out-group sequences had two large main groups. While the out-group species were placed in the first large main group, the sect. Consiligo (perennial) and sect. Adonis (annuals) were placed in different sub-groups of the second large main group. Genetic similarity among Adonis taxa varied between A. microcarpa and A. dentata (98.46%). Principal component analysis indicated that two important components in Adonis taxa genotypes. The expected heterozygosity ranged from 0.0252 (sub-population A) to 0.3460 (sub-population C), with an average of 0.1154. In addition, population differentiation measurements (Fst) ranged from 0.0025 (sub-population C) to 0.9016 (sub-population A) with a relatively high average 0.6601. Conclusions Present analyses revealed that phylogenetic classification (grouping) of Adonis taxa largely depended on morphological structure and present ITS primers were quite efficient in putting forth the genetic diversity of such species. The results of this study suggested that ITS markers could be used in the identification of genetic diversity among the Adonis taxa. The results obtained from molecular data can be used to explore the genetic variation pattern, population structure, and the evolutionary history of genus Adonis in the future.