Molecular phylogeny based on its sequences of nrDNA ITS of Adonis (Linnaeus, 1753) (Ranunculaceae) from various ecological sites of Turkey (original) (raw)
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Molecular Biology Reports, 2022
Background Genus Adonis (Linnaeus, 1753) contains 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. In the present study, molecular phylogeny of genus Adonis L. from Turkey was evaluated with the aid of nrDNA ITS. Methods Samples of 10 natural Adonis taxa belonging to 21 different populations including 64 Adonis ecotypes were collected from different regions of the country during vegetation period between 2014 and 2018. ITS1, ITS4, P16 and P25 primers within Internal Transcribed Spacer (ITS) technique were used to estimate infraspeci c variation in different populations of Adonis species. Results We identi ed about 600 bp DNA sequences were obtained from 21 different populations including 64 Adonis ecotypes. The dendrogram obtained from Adonis species and out-group sequences had two large main groups. While the out-group species were placed in the rst large main group, the sect. Consiligo (perennial) and sect. Adonis (annuals) were placed in different subgroups of the second large main group. Genetic similarity among Adonis species varied between A. microcarpa and A. dentata (98.46%). Conclusions Present analyses revealed that phylogenetic classi cation (grouping) of Adonis taxa largely depended on morphological structure and present ITS primers were quite e cient in putting forth the genetic diversity of such species. The results obtained from molecular data can be used to explore the genetic variation pattern, population structure, and the evolutionary history of natural Adonis species in the future.
TURKISH JOURNAL OF BOTANY
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 (UPGMA) 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.
Turkish Journal of Botany, 2019
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 (UPGMA) 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.
A complete species-level molecular phylogeny for the
Molecular phylogenetics …, 2008
We generated the first complete phylogeny of extant taxa in a well-defined clade of 26 starling species that is collectively distributed across Eurasia, and which has one species endemic to sub-Saharan Africa. Two species in this group-the European starling Sturnus vulgaris and the common Myna Acridotheres tristis-now occur on continents and islands around the world following human-mediated introductions, and the entire clade is generally notable for being highly social and dispersive, as most of its species breed colonially or move in large flocks as they track ephemeral insect or plant resources, and for associating with humans in urban or agricultural landscapes. Our reconstructions were based on substantial mtDNA (4 kb) and nuclear intron (4 loci, 3 kb total) sequences from 16 species, augmented by mtDNA NDII gene sequences (1 kb) for the remaining 10 taxa for which DNAs were available only from museum skin samples. The resulting mitochondrial gene tree embedded within a multilocus framework shows that the well-studied taxa S. vulgaris/ unicolor are the sister lineage to the remaining members of the radiation, from which other relatively early lineages gave rise to forms that are now nomadic or locally migrant in Africa (Creatophora) and western Asia (Pastor). The remaining taxa form a clade with a complicated biogeographic history primarily in central and eastern Asia; this group contains a range of sedentary to highly migratory taxa, as well as widely distributed species and single-island endemics such as the highly endangered Bali myna (Leucopsar). Several groups of species in the genus Acridotheres have low magnitudes of within-group divergence and likely diversified via their respective colonization of islands. The taxonomy of this entire group has remained highly volatile over the past century; we propose dividing these 26 species among 11 reciprocally monophyletic genera (
Scientific Reports
The Euro-Siberian steppe flora consists of warm- and cold-adapted species, which may have responded differently to Pleistocene glacials and interglacials. Genotyping-by-sequencing individuals from across the distribution range of the pheasant’s eye (Adonis vernalis), we aimed to gain insight into steppe florogenesis based on the species’ evolutionary history. Although the primary area of origin of the species group comprising A. vernalis, A. villosa and A. volgensis is in Asia, our results indicate that recent populations of A. vernalis are not of Asian origin but evolved in the southern part of Europe during the Pleistocene, with Spanish populations clearly genetically distinct from the Southeastern European populations. We inferred that A. vernalis migrated eastwards from the sub-Mediterranean forest-steppes of Southeastern Europe into the continental forest-steppe zone. Eastern European populations had the highest private allelic richness, indicating long-term large population si...
Genetic diversity in the Brazilian species of Adesmia DC (Leguminosae) as assessed by RAPD
Plant Genetic Resources: characterization and utilization, 2004
The 17 Brazilian species of Adesmia DC were analysed, using 20 primers, with regard to their randomly amplified polymorphic DNA (RAPD) patterns. From a total of 357 individuals analysed, the 20 primers produced 2249 fragments with molecular sizes ranging from 200 to 2700 bp, 56% of which were polymorphic. Average intra-population genetic similarity, estimated by Jaccard's coefficient, ranged from 0.35 in A. araujoi to 0.80 in A. punctata. Mean intra-specific genetic similarity varied greatly among species, ranging from 0.19 for A. tristis to 0.89 for A. arillata. Mean genetic similarity among the species, estimated by Dice's coefficient, was 0.56. RAPD markers were efficient at separating all the accessions analysed. The results obtained generally agreed with the partition of genetic variability expected according to the mode of reproduction.
Plant biology (Stuttgart, Germany), 2015
Genetic diversity is important for species' fitness and evolutionary processes but our knowledge on how it varies across a species distribution range is limited. The abundant centre hypothesis (ACH) predicts that populations become smaller and more isolated towards the geographic range periphery - a pattern that in turn should be associated with decreasing genetic diversity and increasing genetic differentiation. We tested this hypothesis in Adonis vernalis, a dry grassland plant with an extensive Eurasian distribution. Its life history traits and distribution characteristics suggest a low genetic diversity that decreases and a high genetic differentiation that increases towards the range edge. We analyzed AFLP-fingerprints in 28 populations along a 4698 km transect from the geographic range core in Russia to the western range periphery in Central and Western Europe. Contrary to our expectation, our analysis revealed high genetic diversity (range of proportion of polymorphic ban...
Molecular Phylogenetics and Evolution, 2005
Ranunculus is a large genus with a worldwide distribution. Phylogenetic analyses of c. 200 species of Ranunculus s.l. based on sequences of the nrITS using maximum parsimony and Bayesian inference yielded high congruence with previous cpDNA restriction site analyses, but strongly contradict previous classifications. A large core clade including Ranunculus subg. Ranunculus, subg. Batrachium, subg. Crymodes p.p., Ceratocephala, Myosurus, and Aphanostemma is separated from R. subg. Ficaria, subg. Pallasiantha, subg. Coptidium, subg. Crymodes p.p., Halerpestes, Peltocalathos, Callianthemoides, and Arcteranthis. Within the core clade, 19 clades can be described with morphological and karyological features. Several sections are not monophyletic. Parallel evolution of morphological characters in adaptation to climatic conditions may be a reason for incongruence of molecular data and morphology-based classifications. In some mountainous regions, groups of closely related species may have originated from adaptive radiation and rapid speciation. Split decomposition analysis indicated complex patterns of relationship and suggested hybridization in the apomictic R. auricomus complex, R. subg. Batrachium, and the white-flowering European alpines. The evolutionary success of the genus might be due to a combination of morphological plasticity and adaptations, hybridization and polyploidy as important factors for regional diversification, and a broad range of reproductive strategies.