Browsing by Author "Koçak, M."

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Callus Production in Geranium (Pelargonium Quercetorum Agnew) Growing Naturally in Türkiye
(Centenary University, 2023) Koçak, M.; Turan Sirke, S.; Kuzğun, C.; Yildiz, M.
Pelargonium quercetorum Agnew grows naturally in the Hakkari province of Türkiye. Although P. quercetorum Agnew has potential use as a medicine and ornamental plant, it is especially used as a medicinal plant for the cure of various diseases by local people. In vitro tissue culture methods are favorable for the propagation, conservation, and breeding of medicinal plants. We aimed in this study to achieve regeneration of P. quercetorum Agnew from different explant types. Seeds of P. quercetorum Agnew were germinated in vitro conditions and explants were taken from these germinated sterile plantlets. Totally four different experiments, containing three of them embryogenic and one of them organogenic culture, were established to achieve regeneration in P. quercetorum Agnew. Leaf, petiole, cotyledon, cotyledon stalk, and root collar disc were used as explant. Different concentrations of 1-Naphthaleneacetic acid (NAA), 2,4-dichlorophenoxyacetic (2,4-D), 6-Benzylaminopurine (BA), 6-Furfurylaminopurine (Kinetin), 6-(γ,γ-Dimethylallylamino) purine (2iP), and Thidiazuron (TDZ) were used to induce embryogenic or organogenic regeneration. Explants were cultured in half-strength or full-strength Murashige and Skoog (MS) medium. In the embryogenic experiments, callus formation from different media ranged from 63.5% to 100%, and for explant types ranged from 39% to 100%. In the organogenic experiment, callus formation from different media ranged from 12.5% to 100%, and for explant types ranged from 71% to 93%. Also, embryo-like structures were obtained from embryogenic experiments. However, these structures could not grow more and transformed into plantlets. © 2023, Centenary University. All rights reserved.
Identification of Genetic Variations on Fritillaria Imperialis L. Genotypes Collected From Van Lake Basin by Ipbs-Retrotranspozon Markers
(Centenary University, 2020) Koçak, M.; Karataş, M.D.; Alp, Ş.; Baloch, F.S.; Yildiz, M.
Fritillaria imperialis L. naturally grows in Turkey and it is used as an ornamental plant. This species harbored plentiful genetic variation for various morphological traits in its natural habitat. In this study, 19 different iPBS-Retrotransposon primers were used to identify genetic variation among 74 F. imperialis genotypes collected around Van lake basin. 19 primers amplified 94 bands, 100% polymorphism. The average number of bands per primer was 4.94 and the average polymorphism information content (PIC) was 0.58. Maximum number of polymorphic bands were 10 while the minimum number of polymorphic bands were 2. The mean effective number of alleles, Shannon information index and the gene diversity were 1.50, 0.47, and 0.30 respectively. The results reflected that genetic variations of F. imperialis genotypes collected from Van lake basin were significant. This is the first report identifying the genetic variations of F. imperialis genotypes by iPBS-Retrotransposon primers, and it proved that iPBS-Retrotransposon marker system could be applied successfully in F. imperialis for genetics and genomic studies. The data obtained from this study will provide preliminary information for future F. imperialis breeding activities. © 2020, Centenary University. All rights reserved.
Synthetic Seed Production in Crataegus Monogyna L. and Prediction of Regeneration of Synthetic Seeds With Machine Learning Algorithms
(Springer Science and Business Media B.V., 2025) Koçak, M.; Yılmaz, M.C.; Kuzğun, C.; Sirke, S.T.; Yildiz, M.
Crataegus monogyna is a complex species that is essential in both ecological and therapeutic domains. Its versatility across several settings, along with its extensive phytochemical composition, renders it a significant focus of research in both botany and medicine. One of the research areas that could be focused on is the propagation of C. monogyna under in vitro conditions. In this study, we encapsulated nodal segments of sterile shoots from C. monogyna plants growing naturally in Van, Türkiye. Encapsulated propagules were cultured in hormone-free Murashige and Skoog medium or Murashige and Skoog medium supplemented with 2 mg/L indole-3-acetic acid (IAA) after being stored for 30, 60, or 90 days at −20, 4, or 24 °C. The regeneration of synthetic seeds under the effects of hormone (IAA), storage temperature, and storage period was predicted using five machine learning algorithms: Decision Tree (DT), Gaussian Process (GP), Multi-Layer Perceptron (MLP), Random Forest (RF), and XGBoost (Extreme Gradient Boosting). Feature importance analysis was conducted to identify the key factors influencing regeneration outcomes. The DT, MLP, RF, and XGBoost models achieved high prediction accuracy (97.3%). Furthermore, while the DT and XGBoost models identified temperature as the most influential factor, the MLP and RF models found hormone to be the most significant. Surface and contour plot analyses were also employed to assess the relationships visually between key features of the regeneration process. © The Author(s) 2025.