Sürdürülebilir Kalkınma Amaçları

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• MakaleYalnız künye2025Scopus SJRQ2/r/munzur/1477
  Phylogenetic analysis of the nrDNA ITS and cpDNA rbcL sequences of some endemic Dianthus (Caryophyllaceae) species from Türkiye

  Sevindik, Emre; Güner, Özal; Yolcu, Seher; Başköse, İsa; Paksoy, Mehmet Yavuz; Khadivi, Ali; Tunç, Yazgan; Yaman, Mehmet

  In this study, the phylogenetic relationship of four species of Dianthus genus which are endemic and distributed in Türkiye, including D. zederbaueri Vierch, D. varankii Hamzaoğlu & Koç, D. halisdemirii Hamzaoğlu & Koç, and D. goekayi Kaynak, was determined using nuclear DNA (nrDNA) internal transcribed spacer (ITS) and chloroplast DNA (cpDNA) rbcL regions. After sampling from the plant, DNA was extracted and the ITS (ITS4-ITS5A) and rbcL (rbcLaF-rbcLaR) primers were used to perform PCR amplification. Sequencer 5.4.6. was used to edit the sequences. MEGA 11 software was used to determine the nucleotide ratios, genetic distance matrix, and π = nucleotide diversity. Some species of Dianthus available in the National Center for Biotechnology Information (NCBI) were used to construct maximum likelihood (ML) phylogenetic trees. As a result, based on the ITS analysis π = nucleotide diversity was determined as: 0.001543, and the result of the rbcL analysis π = nucleotide diversity was determined as: 0.000000. In the ITS results, D. halisdemirii, D. superbus, and D. varankii appeared together, while D. zederbaueri and D. aculeatus appeared together. The rbcL results showed that D. zederbaueri and D. varankii were closely related, but the relationship between D. halisdemirii and D. goekayi could not be determined. Furthermore, in the phylogenetic tree constructed by taking the ITS and rbcL sequences of Dianthus, Gypsophila, Silene, Arenaria, Saponaria, Cerastium, Stellaria, Petrorhagia, Minuartia, Agrostemma, and Polycarpon species from NCBI using ITS and rbcL sequences, our endemic Dianthus species appeared in the same group with Petrorhagia, Gypsophila, and Saponaria species. To conclude, our ITS and rbcL results were consistent in determining the phylogenetic relationships of our Dianthus species with other species.

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• MakaleAçık Erişim2025Scopus SJRQ2/r/munzur/689
  In vitro and in silico analyses of cytoprotective, antigenotoxic and antimutagenic potential of Phlomis pungens var. hirta extracts against oxidative damage

  Wild Korkmaz, Franziska Johanna; Dogan, Serap; Yilmaz Kardas, Begumhan; Diken, Mehmet Emin; Karasakal, Ömer Faruk; Acar, Mikail

  Phlomis pungens var. hirta Velen has been used by local people for food and to treat diseases but there are limited number of investigations in literature about this plant and cyto/genotoxicity analyses have not been done before. Hence, this study aimed to find out cell-protective activity and DNA damage prevention ability of P. pungens var. hirta by MTS, micronucleus, 8-OHdG and somatic mutation recombination tests (SMART). In addition, liquid chromatography, antioxidant/antibacterial activity analyses and in silico biological activity profiling were performed. The healthy lymphocyte cell growth was supported by the plant extracts and none of the extracts was genotoxic. 8-OHdG test showed that methanolic and ethanolic extracts of the plant were able to decrease the oxidative DNA damage. According to the SMART results, extracts could suppress the genotoxic effects of an important environmental pollutant, H2O2. Rutin hydrate and quercetin were found in highest concentrations and the extracts could be characterized as antioxidant/antibacterial. In silico analysis also showed that the major compounds of this plant can be considered as chemoprotective. This is the first study that assessed the cell protective activity and DNA damage prevention capacity of P. pungens var. hirta, which should be regarded as a potential source for nutritional supplements and therapeutic products.

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  AtıfOpenAlex1

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• MakaleYalnız künye2024Scopus SJRQ2/r/munzur/1718
  Phylogenetic analysis of the endemic Bornmuellera Hausskn. spp. (Brassicaceae) in Türkiye based on nuclear ITS and chloroplast trnL intron, trnL-F, rbcL and trnQ-rps16 DNA sequences

  Okan, Kemalcan; Sevindik, Emre; Paksoy, Mehmet Yavuz

  In this study, phylogenetic analysis of Turkish endemic Bornmuellera (Brassicaceae) species was conducted based on nuclear ribosomal DNA (ITS) and chloroplast DNA (trnL intron, trnL-F, rbcL and trnQ-rps16 DNA) sequences. In addition, the relationships between the sequences of some Brassicaceae family species retrieved from NCBI, and Bornmuellera species were documented. All of the plant specimens were collected from different regions of Türkiye, and brought to the laboratory. Total genomic DNA was extracted using the GeneMark kit. After polymerase chain reaction (PCR) analyses, DNA sequences obtained were then edited using Sequencher 5.4, Bioedit 7.2.3 and FinchTV 1.4.0, and analyzed using MEGA 6.0 software. Maximum likelihood (ML) and bootstrap trees were constructed in order to identify the relationships among Bornmuellera species. In the study, the highest nucleotide diversity was detected by rps16-trnQ (0.039146) sequence analysis, while the lowest was detected by rbcL (0.004186) sequence analysis. In addition, according to the phylogenetic analysis results obtained with other Brassicaceae species, it is revealed that the Turkish endemic Bornmuellera genus is monophyletic.

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