Browsing by Author "İpek, Meryem S."

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Analysis of genetic diversity of local olive varieties in Turkey by AFLP markers
(Int Soc Horticultural Science, 2011-12-31) Hummer, K. E.; Şeker, Murat; Gündoğdu, Ayşe; İpek, Meryem S.; Uludağ Üniversitesi/Ziraat Fakültesi/Bahçe Bitkileri Bölümü.; 16031208900
Olive (Olea europaea L.) has great genetic variation in Turkey as important crop due to its economic value. There are many cultivars, types and landraces having good potential as a source of genes for productivity, oil quality and fruit characters which are difficult to differentiate by using morphological characters in different ecological conditions of Turkey. Therefore, genotypic identification studies are important for olive breeding, olive industry and genome analysis. In this study, local olive genotypes which are grown in Adana, Artvin, Aydin, Balikesir, Bursa, Canakkale, Gaziantep, Hatay, Kilis, Izmir, Manisa, Mersin and Tekirdag provinces of Turkey were investigated. Most of the genotypes in this study were used for the first time for evaluation of their genetic structures. Genetic diversity of local genotypes was estimated using amplified fragment length polymorphism (AFLP) markers. Sixty three olive genotypes were analyzed with five EcoRI-MseI primer combinations. Informative AFLP markers were generated and scored as binary data. Five primer pairs used in AFLP analysis detected 173 loci, of which 135 (78%) were polymorphic. Similarity coefficient matrix was computed to cluster the data and to draw precise relationships among the 63 studied olive genotypes. The generated dendrogram revealed three major groups.
Determination of self-incompatibility groups of sweet cherry genotypes from Turkey.
(Funpec-Editora, 2011) Akçay, Mehmet Emin; İpek, Ahmet; Gülen, Hatice; İpek, Meryem S.; Ergin, Sergül; Eriş, Atilla; Uludağ Üniversitesi/Ziraat Fakültesi/Bahçe Bitkileri Bölümü.; 0000-0002-7720-5536; AAG-6558-2020; AAH-3233-2021; 6603912487; 6603211102; 16031208900; 39661052000; 6602612385
Determination of S-allele combinations of sweet cherry genotypes and cultivars has importance for both growers and breeders. We determined S-allele combinations of 40 local Turkish sweet cherry genotypes using a PCR-based method. Ten different S-alleles were detected. Although the most common S-allele was S-3, as also found in Western genotypes and cultivars, there were some differences in the frequencies of some S-alleles between Turkish and Western sweet cherry genotypes. According to their S-allele compositions, 30 local Turkish sweet cherry genotypes were assigned to 10 previously identified incompatibility groups. For the remaining genotypes, whose S-allele combinations did not fit to any previous incompatibility groups, three more incompatibility groups, XLII, XLIII and XLIV, were proposed. Results obtained from this study will help both sweet cherry growers and breeders to better manage these local Turkish sweet cherry genotypes in their orchards.
Differentially expressed genes in leaf, meristematic and flower tissues of garlic
(Int Soc Horticultural Science, 2012) Senalik, Douglas A.; Simon, Philipp W.; Wako, T.; İpek, Meryem S.; İpek, Ahmet; Aydoğan, Çiğdem; Uludağ Üniversitesi/Ziraat Fakültesi/Bahçe Bitkileri Bölümü.; 0000-0003-4884-5304; AAH-3233-2021; AAG-6532-2020; 16031208900; 6603912487; 55481474200
Differential gene expression analysis has been investigated to reveal important genes in many plant species. Identification of genes controlling metabolic pathways in garlic could contribute to the understanding of garlic genetic. In this study, transcript (mRNA) profile of differentially expressed genes was determined in leaf, meristematic and flower tissues of three genetically divers garlic clones at different developmental stages using cDNA-AFLP approach. In total, 352 differentially expressed transcript-derived fragments (TDFs) were evaluated from 20 primer combinations. While seven TDFs fragments expressed only in meristematic tissues, 30 TDFs expressed only in leaf tissues. Twenty seven fragments expressed in both meristematic and leaf tissues with intensity polymorphism and two fragments differentially expressed in flower tissues. BLAST analysis of these tissue specific expressed fragments revealed that some genes have significant similarities with previously determined sequences in the database of NCBI GenBank while some of them are unique to garlic genome. These tissue specific expressed genes can be used to develop tissue specific markers for garlic genome.
Testing the utility of matK and ITS DNA regions for discrimination of Allium species
(Türkiye Bilimsel ve Teknolojik Araştırma Kurumu, 2013-11-27) Simon, Philipp W.; İpek, Meryem S.; İpek, Ahmet; Uludağ Üniversitesi/Ziraat Fakültesi/Bahçe Bitkileri Bölümü.; AAH-3233-2021; 16031208900; 6603912487
Molecular phylogenetic analysis of the genus Allium L. has been mainly based on the nucleotide sequences of the ITS region. In 2009, matK and rbcL were accepted as a 2-locus DNA barcode to classify plant species by the Consortium for the Barcode of Life Plant Working Group. The matK region was chosen as a DNA barcode because of its effective species discrimination power, high quality sequence recovery, and easy experimental procedures. Integration of matK sequences into Allium phylogeny could improve phylogenetic reconstruction of this genus. This study was carried out to test the utility of nucleotide sequences of matK for discrimination of Allium species and to compare topologies of the phylogenetic trees based on matK and ITS analyses. Topologies of the phylogenetic trees based on ITS and matK analyses were very similar but a few accessions were placed into distant phylogenetic groups. Neither ITS nor matK analyses were able to discriminate some closely related Allium species alone. However, we do not suggest the use of a concatenated data approach to increase resolving power of ITS and matK because of the presence of the paralogous sequences and different types of cytoplasm in different accessions of a species. Therefore, we can suggest use of the matK region as an additional tool for phylogenetic analysis in Allium because characterization of the nucleotide sequences of matK region was easier to recover and more cost-effective than those of the ITS region.