Paksoy, Mehmet Y.; Sevİndİk, Emre; Başköse, İsa

In this study, we performed DNA barcoding and phylogenetic analysis using one nuclear (ITS) and two chloroplast DNA regions (matK and rbcL) of endemic Astragalus nezaketiae A. Duran & Aytaçand Vicia alpestris Stev. subsp. hypoleuca (Boiss.) Davis taxa in Turkey. PCR reactions were performed using universal primers. Sequences of the PCR products were edited using BioEdit and FinchTV software and contigs were obtained. All contigs were Blasted at NCBI and similarities were analysed. Using the MEGA 6.0 program, maximum likelihood trees were constructed including some sequences retrieved from NCBI. For Astragalus nezaketiae; in the ITS analysis, Astragalus nezaketiae appeared separately from other species, and for matK, Astragalus nezaketiae appeared together with Astragalus cicer L. However, rbcL tree was polytomic. For Vicia alpestris subsp. hypoleuca; in ITS, rbcL and matK results Vicia alpestris subsp. hypoleuca were found together with Vicia cracca L., Vicia benghalensis L. and Vicia villosa Roth species. Analysis of the combined data revealed similar results with all barcode regions for Vicia alpestris subsp. hypoleuca while different phylogenetic results were obtained for Astragalus nezaketiae.

AtıfScopus3·WoS2·OpenAlex3

İncele

Sevindik, Emre; Aydogan, Melike; Paksoy, Mehmet Y.

In this study, phylogenetic analysis of Turkish Conringia (Brassicaceae) species was conducted based on nuclear ribosomal DNA (nrITS) and chloroplast DNA (trnL-F) sequences. In addition, the relationships between the sequences of some Brassicaceae family species retrieved from NCBI, and Conringia species were documented. All of the plant specimens were collected at their flowering and vegetation periods from different regions of Turkey, and brought to the laboratory. Total genomic DNA was extracted using the GeneMark kit. In PCR analyses, ITS4 and ITS5A primers were used for the amplification of the nrITS region, while the trnLe and trnLf primers were used for the cpDNA trnL-F region. The DNA sequences obtained were then edited using BioEdit and FinchTV, and analyzed using MEGA 6.0 software. Neighbor joining (NJ) and bootstrap trees were constructed in order to identify the relationships among Conringia taxa. The nrITS sequences ranged between 573 and 672 nucleotides, while the trnL-F sequences ranged between 346 and 764 nucleotides. The divergence values of nrITS sequences differed between 0.177 and 0.00 and divergence values of trnL-F sequences differed between 0.902 and 0.00. NJ tree generated using nrITS and trnL-F sequences consisted of two clades. In trees generated with both the nrITS and trnL-F sequences, C. orientalis, C. grandiflora and C. austriaca appeared within the same group. In addition, according to the phylogenetic analysis results obtained with other Brassicaceae species, it is revealed that the Conringia genus is polyphyletic.

AtıfScopus1

İncele

Çakilcioglu, Ugur; Paksoy, Mehmet Y.; Babacan, Ebru Yuce; Polat, Ridvan

The micromorphological and anatomical characteristics of three species of Chrysochamela genus have been comparatively presented by using light microscopy (LM) and scanning electron microscopy (SEM). The micromorphological studies are related to the epidermal and seed surface. In anatomical studies, cross sections of the stems and leaves were examined and biometric measurement of cell and tissues were made. The stem and leaf anatomy of the genus were described. In addition, the stomatal index rate and stomatal index of these species were calculated. The leaf is dorsiventral in mesophyll-type. Except its C. noeana taxon, stellate trichomas are coincided in other taxon. Stoma can be observed on both sides of the leaf. Whereas stoma index rates of this genus were found in the range of 0.7 - 1.2, stoma types were observed as aniocytic and anomocytic. Seed surface of the genus can be found in reticulate, verrucae or in verrucaerugose types. In conclusion, the presence/absence of trichome over stem and leaves, the presence/absence of collenchyma in middle the vascular region, the seed shape, epidermal cell shape, and the characteristics of anticlinal boundaries and periclinal cell walls were found to be the important characters for identification of the Chrysochamela genus.

AtıfWoS3

İncele