Browsing by Author "Yegenoglu E.D."
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Item Application of the RAPD technique and morphological characteristics in cultivated olives (Olea europaea sativa)(2010) Sesli M.; Yegenoglu E.D.; Gevrekci Y.Five different morphological characteristics (width, length, width/length, stem length, stem thickness) were considered in 18 cultivated olives and discriminant analysis was applied. Using primers OP-I (1- 20) and OP-Z (7, 8, 9, 10 and 11) in the same olives, evaluable bands were obtained from 12 primers out of 25. PCR analysis was repeated twice and those providing stable bands in the end of both analyses were evaluated. Genetic distances of cultivated olives were determined using neighbor-joining (Mega 4.1 program) method. SPSS 15.0 package program was used in the evaluation of morphological data of plants with the discriminant analysis; and in accordance with the discriminant results, while accurate estimations were made among the groups in olives, there had been misclassified estimations in some of them. The purpose of study is to determine the genetic distances of cultivated olives which economically important by applying Neighbor-joining method with the data obtained using RAPD analysis; and to classify the some morphological characteristics of same olives with the discriminant analysis. ©2010 Academic Journals.Item Resistance of olive cultivars to verticillium dahliae(2010) Sesli M.; Onan E.; Oden S.; Yener H.; Yegenoglu E.D.Seventeen important olive cultivars have been evaluated for resistance to Verticillium dahliae under controlled conditions. One-year-old nursery olive plants were inoculated with cotton defoliating (D) (Mn 16) isolate (VCG1) of V. dahliae. Resistance was evaluated by assessing symptom severity using a 0 - 4 rating scale and estimating the area under disease progress curves. Besides, additional parameters for including cultivars into a defined category were used such as the percentage of plants killed and those which recovered from the disease. All cultivars were susceptible to isolate of V. dahliae at different levels. 'Wild 6' and 'Gemlik 2' were moderately susceptible to isolate of V. dahliae. Their resistance was evident by the plant ability to recover from infection with isolate. © 2010 Academic Journals.Item Compare various combinations of similarity coefficients and clustering methods for Olea europaea sativa(2010) Sesli M.; Yegenoglu E.D.The aim of the study was to compared the genetic similarity coefficients (Jaccard, Dice, Simple Matching) and different clustering methods (UPGMA, WPGMA, Single Linkage and Complete Linkage) combinations for cultivated olives. A total of 12 samples, Gemlik, Manzanilla, Edremit, Domat, Uslu and Memecik cultivars were screened with RAPD-PCR analysis by Operon random primers OP-Q kit. The closest samples based on their genetic similarity values have been found as 'Edremit and Gemlik 5' and the most distant ones have been found as 'Manzanilla 1 and Gemlik 3' in both of Dice and Jaccard coefficients; whereas, in simple-matching coefficient, the closest samples based on their genetic similarities have been determined as Edremit and Gemlik 5 and the most distant ones have been determined as Manzanilla 1 and Gemlik 3 and also Manzanilla 1 and Gemlik 4. The results from Mantel test of original matrices show that the correlation between Jaccard and Dice similarity matrices was high and significant (0.9971). UPGMA clustering for Dice coefficient was given a highest cophenetic correlation as 0.9571 and Complete linkage clustering for Simple Matching was yielded a lowest correlation value as 0.8992. The results obtained from consensus indices shown that Consensus fork index was found (CIC =0, 9000) in Jaccard and Dice coefficients. Simple Matching coefficient had very low values with the Dice and Jaccard coefficients (CIC =0.1000). PCO analysis provided results matching up one-to-one with the data obtained from Dice and Jaccard coefficient UPGMAs. © 2010 Academic Journals.Item Genetic dissimilarities between wild olives by random amplified polymorphic DNA (RAPD) assay(2010) Sesli M.; Yegenoglu E.D.Olive, being a fruit of subtropical climate and recognized to have significant importance in terms of human health, is being investigated with different aspects. Wild olives are valuable in the sense that they contain the sources of stability and they can be separated by using random amplified polymorphic DNA (RAPD) technique. In this study, a total of 59 primers were used for the purpose of determining the DNA fingerprints of 12 wild olives obtained from different provinces of Aegean region, and 92 polymorphic bands were yielded. Mean number of polymorphic bands per individual was calculated as 7.67 and number of polymorphic bands per scorable primer was calculated as 4.6. Specific DNA markers are important for determining the genetic relation among wild subspecies in olives. The purpose of this study is to identify the wild olives by using RAPD analysis. In conclusion, the genetic relation between wild olives were determined through Jaccard, Sorensen Dice, Simple Matching coefficients, (unweighted pair group method with arithmetic averages) UPGMA and neighbor joining method by using the data obtained with RAPD. © 2010 Academic Journals.Item Comparison of similarity coefficients used for cluster analysis based on RAPD markers in wild olives.(2010) Sesli M.; Yegenoglu E.D.Five different similarity coefficients (Jaccard, Sorensen-Dice, simple matching, Rogers and Tanimoto, and Russel and Rao) were evaluated and 10 wild olives analyzed with RAPD markers. The influence of the similarity coefficients on wild olives clustering was investigated. Forty-five primers were used on samples from 10 wild olives (Wild 1 and 2 obtained from Mugla province; Wild 3, 4, 5, 6, 7, and 8 from Manisa province and Wild 9 and 10 from Izmir province of Turkey). The similarity matrices obtained from RAPD markers were compared by the Mantel test. Cluster analysis was made with UPGMA dendrograms, and the consensus fork indexes between all pairs of dendrograms were calculated. The Jaccard and Sorensen-Dice coefficients gave the same results, due to the fact that both exclude negative co-occurrences. The dendrograms using the simple matching and Rogers and Tanimoto coefficients were similar; Wild 4 (Akhisar, Manisa) and Wild 9 (Bornova, Izmir) olives had the closest genetic similarities. This occurred because these coefficients include negative co-occurrences. The Russel and Rao coefficients produced different results, because they include negative co-occurrences in the denominator. We concluded that the coefficients that do not include negative co-occurrences are more efficient for studies of wild olives clustering based on RAPD markers.Item Genetic relationships in wild olives (Olea europaea ssp. oleaster) by ISSR and RAPD markers(Taylor and Francis Ltd., 2017) Sesli M.; Yegenoglu E.D.Wild olives or oleaster (Olea europaea ssp. oleaster) are found naturally in the Mediterranean basin. The changes in climate and environmental conditions have been gradually accelerating in the last decades. Since oleasters are more resistant to diseases, pests and unfavorable environmental conditions, they have become a very important source for resistance breeding studies that would be required in the future. Twelve inter simple sequence repeat (ISSR) and 12 random amplified polymorphic DNA (RAPD) markers were used; the effectiveness of these markers was studied and different parameters such as effective multiplex ratio, marker index, resolving power, and polymorphic information content, Shannon information index (I), effective allele number (ne), and Nei's genetic distance (h) were used in the determination of genetic varieties of 18 oleasters grown in Turkey. When both marker systems were analyzed in this study, it was observed that MI, RP and EMR parameters in ISSR gave higher values than RAPD while ne, I, and h were lower in ISSRs. Neighbour-joining dendrograms were developed by using Nei's genetic distance matrix, and principal coordinate analysis was performed. © 2017 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.Item Determining the genetic relationships between cultivated type olives using ISSR and morphological markers(Triveni Enterprises, 2017) Yegenoglu E.D.; Sesli M.; Gevrekci Y.Aim: The study aimed to compare morphological characters and Inter-simple sequence repeat data based trees, and examine the genetic relations in ten olive varieties among cultivated type olives grown commonly in different regions of Turkey. Methodology: Ten olive varieties were evaluated with some morphologic markers and ISSR marker. All analyses were conducted with Numerical Taxonomy System (NTSYS). The cluster analysis was performed with unweighted pair group method with arithmetic average (UPGMA) clustering algorithm. Results: The results showed that there was a moderate correlation between pairwise distances estimated from ISSR data and distances from morphological characters (0.511). The Euclidean Distance matrix represented that the lowest value was between Tavsan Yuregi and Cilli (1.62), while the highest value was between Manzanilla and Cekiste (7.91). According to Jaccard coefficient, the samples closest to each other were (Memecik and Gemlik); and the samples farthest to each other were (Halhali and Manzanilla). I n t e r p r e t a t i o n: Determining the genetic relations in agriculturally economic plants is valuable in terms of protecting the gene sources, determining t h e h o m o n y m s a n d synonyms, and developing b r e e d i n g p r o g r a m s. M o r p h o l o g i c a l a n d molecular markers may be used in the identification of genetic variability. Mutually complementary information can be obtained by using m o r p h o l o g i c a l a n d molecular markers together. © Triveni Enterprises, Lucknow (India).Item UPGMA and artificial neural networks applications on wild type olives(Triveni Enterprises, 2017) Sesli M.; Yegenoglu E.D.; Altintas V.; Gevrekçi Y.Aim: Plant genetic sources are important to study genetic variability and richness of hereditary knowledge of plant species in gene pool. Local varieties, rural populations, wild types and old varieties are the primary ones. In this respect, wild type olives (Olea europaea oleaster) are valuable in terms of olive breeding, cultivation and ecosystem. The aim of the study was to determine genetic distances between olive varieties. Methodology: Artificial Neural Networks intuitive algorithm application was performed on seven wild type olives grown in different regions of Turkey by using data obtained from twenty-two ISSR primers. Results: UPGMA dendrograms were developed through Jaccard, simple matching coefficients, and similarity matrices; and genetic similarities and dissimilarities were exhibited. Interpretation: It was concluded that Artificial Neural Networks would be beneficial for estimating olive types accurately based on the results obtained from earlier studies performed with genetic markers. © Triveni Enterprises, Lucknow (India).Item Determination of olive cultivars by deep learning and ISSR markers(Triveni Enterprises, 2020) Sesli M.; Yegenoglu E.D.; Altintas V.Aim: The aim of the study was to make accurate estimation of olive varieties by using morphologic characters through deep learning and genetic characters through ISSR (Inter Simple Sequence Repeats) markers. Methodology: In this study, 800 leaf samples were collected from olive varieties and training and testing was performed; 600 samples were assessed for the training process and 200 samples were assessed for the testing process. Convolution of neural networks is a component of deep learning which is used frequently in image processing was used in this study. Results: Based on the results of such classification, the designed model was successful at a rate of 89.57% and it was also determined that this structure can be used in the area of problem. Interpretation: The success of convolution neural networks in terms of classification was exhibited. In ISSR method, the evaluation was performed on the basis of DNAs, i.e., genetic properties of varieties by means of ISSR markers. © Triveni Enterprises, Lucknow (India).