Browsing by Author "İlhan, E."

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Analysis of miRNA in Plants by Next Generation Sequencing Technology
(Centenary University, 2016) Eren, A.H.; İlhan, E.; Inal, B.
miRNAs (microRNAs) find in the intron sites of the genes. miRNAs are produced from their gene region and non-coding RNAs. In plants, the production of miRNAs that consist of 21–24 nucleotides in length starts in nucleus and continues coordinately in cytoplasm. miRNAs help to protect the integrity of genome duo to define expression levels of genes related to development and stress in plant. In this way, miRNAs are considered to defend 30% of eukaryotic genomes. There are a few types of small RNAs such as miRNAs, siRNAs, phasiRNAs and NAT – siRNAs in plants. Various methods such as Northern Blotting, Flow cytometer, cloning, qRT – PCR, Microarray, sequencing and RNA-seq (transcriptome profiling) were developed to detect and discover functions of these small RNAs. Species and tissue specific miRNAs can be easily identified with this method called as miRNA-seq, one of the Next Generation Sequencing methods. In miRNA studies, the algorithms such as miRDeep-Seq, miRanalyzer, miRCat, miRExpress, miRTRAP can be used. This review summarizes about up to date applications of next generation seqeuncing technologies in miRNA-seq studies. © 2016, Centenary University. All rights reserved.
Evaluation of Genetic Diversity Using IPBS-Scot Marker Methods in Native Hawthorn Genetic Resources and Species Identification by Using DNA Barcoding Method
(Cellular and Molecular Biology Association, 2023) Sağbaş, H.I.; Ercıslı, S.; Aydın, M.; İlhan, E.; Aydınyurt, R.; Kasapoğlu, A.G.; Polat, Y.
Hawthorn is an important medicinal plant that spreads around the world and is used in traditional Chinese medicine. Its flowers and leaves contain flavonoids, vitamins, organic acids and essential oils. Its fruit is consumed as fresh and dried and is an important plant for human health. In this study, iPBS (Inter Primer Binding Site) and SCoT (Start Codon Target Polymorphism) markers were used to analyze genetic variation among 101 hawthorn genotypes collected from Çoruh Valley, Türkiye and ITS markers were used for DNA barcoding. Ten iPBS primers were used and a total of 400 alleles were identified from ten iPBS primers with an average of 40 alleles. PIC values ranged from 0.239 (iPBS 2387) to 0.272 (iPBS 2244). Twenty SCoT primers were used and have an average of 50.05 alleles. The PIC values of the primers ranged from 0.251 (SCoT 2) to 0.297 (SCoT 34). For the DNA barcoding study, it was confirmed that the correct region was amplified and sequenced. The genotypes we used in the study matched 14 different accession numbers by searching a BLASTN in the NCBI. NCBI similarity rates of hawthorn genotypes are between 90.83% and 100%. The study emphasizes the genetic diversity of hawthorn grown from seed and the importance of preserving plant genetic resources. © 2023 Cellular and Molecular Biology Association. All rights reserved.