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Gürbüz, Nergiz
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Gürbüz, N
Çolak, Nergiz Gürbüz
Colak, Nergiz Gurbuz
Gurbuz, Nergiz
Gürbüz, N.
Gurbuz, N.
Gurbuz, N
Gürbüz Çolak, Nergiz
Çolak, Nergiz Gürbüz
Colak, Nergiz Gurbuz
Gurbuz, Nergiz
Gürbüz, N.
Gurbuz, N.
Gurbuz, N
Gürbüz Çolak, Nergiz
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Email Address
nergizgurbuz@iyte.edu.tr
Main Affiliation
04.03. Department of Molecular Biology and Genetics
Status
Current Staff
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Turkish CoHE Profile ID
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WoS Researcher ID
Sustainable Development Goals
1NO POVERTY
0
Research Products
2ZERO HUNGER
6
Research Products
3GOOD HEALTH AND WELL-BEING
4
Research Products
4QUALITY EDUCATION
1
Research Products
5GENDER EQUALITY
0
Research Products
6CLEAN WATER AND SANITATION
1
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7AFFORDABLE AND CLEAN ENERGY
2
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8DECENT WORK AND ECONOMIC GROWTH
1
Research Products
9INDUSTRY, INNOVATION AND INFRASTRUCTURE
4
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10REDUCED INEQUALITIES
0
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11SUSTAINABLE CITIES AND COMMUNITIES
0
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12RESPONSIBLE CONSUMPTION AND PRODUCTION
1
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13CLIMATE ACTION
3
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14LIFE BELOW WATER
1
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15LIFE ON LAND
1
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16PEACE, JUSTICE AND STRONG INSTITUTIONS
0
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17PARTNERSHIPS FOR THE GOALS
0
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Documents
4
Citations
291
h-index
3
Documents
10
Citations
301
Publication Collaboration
| Affiliation Name | Count |
|---|---|
| Izmir Institute of Technology | 8 |
| Hamad bin Khalifa University | 2 |
| Weill Cornell Medical College in Qatar | 2 |
| Pamukkale University | 2 |
| Hamad Medical Corporation | 2 |
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Data obtained from OpenAlex
Scholarly Output
12
Articles
10
Views / Downloads
30524/18852
Supervised MSc Theses
1
Supervised PhD Theses
1
WoS Citation Count
301
Scopus Citation Count
375
Patents
0
Projects
0
WoS Citations per Publication
25.08
Scopus Citations per Publication
31.25
Open Access Source
9
Supervised Theses
2
| Journal | Count |
|---|---|
| Plant Science | 2 |
| Bio-Protocol | 1 |
| BMC Genomics | 1 |
| Food Chemistry | 1 |
| Fruits | 1 |
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12 results
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Now showing 1 - 10 of 12
Article Citation - WoS: 40Citation - Scopus: 46Genome-Wide Snp Discovery and Qtl Mapping for Fruit Quality Traits in Inbred Backcross Lines (ibls) of Solanum Pimpinellifolium Using Genotyping by Sequencing(BioMed Central Ltd., 2017) Frary, Anne; Gürbüz, Nergiz; Uncu, Ali Tevfik; Frary, Anne; Doğanlar, Sami; Gürbüz, Nergiz; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyBackground: Solanum pimpinellifolium has high breeding potential for fruit quality traits and has been used as a donor in tomato breeding programs. Unlocking the genetic potential of S. pimpinellifolium requires high-throughput polymorphism identification protocols for QTL mapping and introgression of favourable alleles into cultivated tomato by both positive and background selection. Results: In this study we identified SNP loci using a genotyping by sequencing (GBS) approach in an IBL mapping population derived from the cross between a high yielding fresh market tomato and S. pimpinellifolium (LA1589) as the recurrent and donor parents, respectively. A total of 120,983,088 reads were generated by the Illumina HiSeq next-generation sequencing platform. From these reads 448,539 sequence tags were generated. A majority of the sequence tags (84.4%) were uniquely aligned to the tomato genome. A total of 3.125 unique SNP loci were identified as a result of tag alignment to the genome assembly and were used in QTL analysis of 11 fruit quality traits. As a result, 37 QTLs were identified. S. pimpinellifolium contributed favourable alleles for 16 QTLs (43.2%), thus confirming the high breeding potential of this wild species. Conclusions: The present work introduced a set of SNPs at sufficiently high density for QTL mapping in populations derived from S. pimpinellifolium (LA1589). Moreover, this study demonstrated the high efficiency of the GBS approach for SNP identification, genotyping and QTL mapping in an interspecific tomato population.Article Citation - WoS: 179Citation - Scopus: 229Health Benefits and Bioactive Compounds of Eggplant(Elsevier, 2018) Gürbüz, Nergiz; Uluışık, Selman; Gürbüz, Nergiz; Frary, Amy; Doğanlar, Sami; Frary, Anne; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyEggplant is a vegetable crop that is grown around the world and can provide significant nutritive benefits thanks to its abundance of vitamins, phenolics and antioxidants. In addition, eggplant has potential pharmaceutical uses that are just now becoming recognized. As compared to other crops in the Solanaceae, few studies have investigated eggplant's metabolic profile. Metabolomics and metabolic profiling are important platforms for assessing the chemical composition of plants and breeders are increasingly concerned about the nutritional and health benefits of crops. In this review, the historical background and classification of eggplant are shortly explained; then the beneficial phytochemicals, antioxidant activity and health effects of eggplant are discussed in detail.Article Citation - WoS: 18Citation - Scopus: 21Exploring Wild Alleles From Solanum Pimpinellifolium With the Potential To Improve Tomato Flavor Compounds(Elsevier, 2020) Gürbüz Çolak, Nergiz; Tek, Neslihan; Tek, Neslihan; Doğanlar, Sami; Ülger, Mehmet; Gürbüz, Nergiz; Frary, Anne; Frary, Anne; Doğanlar, Sami; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyMost consumers complain about the flavor of current tomato cultivars and many pay a premium for alternatives such as heirloom varieties. Breeding for fruit flavor is difficult because it is a quantitatively inherited trait influenced by taste, aroma and environmental factors. A lack of genetic diversity in modern tomato cultivars also necessitates exploration of new sources for flavor alleles. Wild tomato S. pimpinellifolium and inbred backcross lines were assessed for individual sugars and organic acids which are two of the main components of tomato flavor. S. pimpinellifolium was found to harbor alleles that could be used to increase glucose and fructose content and adjust acidity by altering malic and citric acid levels. Single nucleotide polymorphism markers were used to detect 14 quantitative trait loci (QTLs) for sugars and 71 for organic acids. Confirmation was provided by comparing map locations with previously identified loci. Thus, seven (50 %) of the sugar QTLs and 22 (31 %) of the organic acids loci were supported by analyses in other tomato populations. Examination of the genomic sequence containing the QTLs allowed identification of potential candidate genes for several flavor components. © 2020 Elsevier B.V.Doctoral Thesis Metabolic and Genetic Profiling for Primary and Secondary Metabolites in Tomato(Izmir Institute of Technology, 2017) Gürbüz, Nergiz; Gürbüz, Nergiz; Doğanlar, Sami; Doğanlar, Sami; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyUnderstanding the metabolic content of plants and its genetic basis is important to determine the most appropriate breeding strategies for traits such as yield, fruit quality, nutritional content, tolerance to disease factors, adaptation to various environmental conditions, and tolerance to abiotic and biotic stresses. Recently, post-genomic studies such as metabolomics, proteomics and transcriptomics are attracting attention and being used in conjunction with genomic studies. These studies help to speed research progress with crops as well as model plants. Tomato (Solanum lycopersicum) is an important crop which is cultivated widely in the world and in our country, and is also important for our daily diet. Although there is growing attention to studies on tomato day by day, there are limited studies that identify the quantitative trait locus (QTL) regions responsible for important agronomic, economic, nutritional and health related traits by correlation of metabolomics and genomics data. In this study, an interspecific IBL (inbred backcross line) population derived from the cross S. lycopersicum cv. Tueza x S. pimpinellifolium (LA1589) was both genotyped via genotyping by sequencing (GBS) and quantified for primary and secondary metabolites affecting yield, quality and nutritional value of the fruit to determine QTL regions for the targeted metabolites. In total, 187 QTLs were identified for 143 important traits. The data obtained from this study will help to shed light on the genetic control of plant metabolism and to develop high yield and nutrient-rich cultivars with improved agronomic traits by breeding strategies.Article Citation - WoS: 36Citation - Scopus: 47Mapping of Quantitative Trait Loci for Antioxidant Molecules in Tomato Fruit: Carotenoids, Vitamins C and E, Glutathione and Phenolic Acids(Elsevier, 2020) Gürbüz Çolak, Nergiz; Gürbüz, Nergiz; Tek, Neslihan; Frary, Anne; Ülger, Mehmet; Tek, Neslihan; Frary, Anne; Doğanlar, Sami; Doğanlar, Sami; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyThe nutritional value of a crop lies not only in its protein, lipid, and sugar content but also involves compounds such as the antioxidants lycopene, beta-carotene and vitamin C. In the present study, wild tomato Solanum pimpinellifolium LA 1589 was assessed for its potential to improve antioxidant content. This wild species was found to be a good source of alleles for increasing beta-carotene, lycopene, vitamin C and vitamin E contents in cultivated tomato. Characterization of an LA 1589 interspecific inbred backcross line (IBL) mapping population revealed many individuals with transgressive segregation for the antioxidants confirming the usefulness of this wild species for breeding of these traits. Molecular markers were used to identify QTLs for the metabolites in the IBL population. In total, 64 QTLs were identified for the antioxidants and their locations were compared to the map positions of previously identified QTLs for confirmation. Four (57 %) of the carotenoid QTLs, four (36 %) of the vitamin QTLs, and 11 (25 %) of the phenolic acid QTLs were supported by previous studies. Furthermore, several potential candidate genes were identified for vitamins C and E and phenolic acids loci. These candidate genes might be used as markers in breeding programs to increase tomato's antioxidant content.Article Citation - WoS: 3Citation - Scopus: 3Glycoalkaloid Isolation From Solanum Linnaeanum Berries(EDP Sciences, 2015) Gürbüz, Nergiz; Karabey, Fatih; Doğanlar, Sami; Kılınç, Ali; Gürbüz, Nergiz; Frary, Anne; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyGlycoalkaloids are plant secondary metabolites that can be both harmful and beneficial to human health. They cause gastroenteric symptoms, coma and even death at high concentrations. It is thought that glycoalkaloids are toxic to human health as a result of their effects on the nervous system and destruction of cell membranes. On the other hand, glycoalkaloids can be effective drugs. For example, solasodine is used to treat skin cancer and tomatidine is used in cancer chemotherapy. Solasodine is also used as a precursor of steroidal drugs. The goal of the work was to isolate and separate efficiently these similar compounds. Materials and methods. Glycoalkaloids from Solanum linnaeanum berries were isolated using column chromatography and confirmed via NMR spectroscopy and MS/MS spectrometry. Results and discussion. The chemical structures of glycoalkaloids are nearly identical. For example, solamargine differs from solasonine in having a methyl group instead of a hydroxyl group bound to the sugar residue of the compound. Thus, their molecular weight and polarity are quite similar. In this work, the process yielded 37.1 mg solasonine, 92.3 mg solasonine and solamargine mix and 56.2 mg solamargine from 81.67 g dried S. linnaeanum berries. Conclusion. Solanum linnaeanum berries are a good source of these glycoalkaloids and the developed protocol proved efficient for purification of solasonine and solamargine.Article Citation - WoS: 3Citation - Scopus: 3Chromatographic Analysis for Targeted Metabolomics of Antioxidant and Flavor-Related Metabolites in Tomato(Bio-Protocol, 2021) Gürbüz Çolak, Nergiz; Tek, Neslihan; Tek, Neslihan; Frary, Anne; Frary, Anne; Gürbüz, Nergiz; Doğanlar, Sami; Doğanlar, Sami; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyTargeted metabolomics is a useful approach to evaluate crop breeding studies. Antioxidant and flavor-related traits are of increasing interest and are considered quality traits in tomato breeding. The present study presents chromatographic methods to study antioxidants (carotenoids, vitamin C, vitamin E, phenolic compounds, and glutathione) and flavor -related characters (sugars and organic acids) in tomato. Two different extraction methods (for polar and apolar entities) were applied to isolate the targeted compounds. The extraction methods developed in this work were time and cost-effective since no further purification was needed. Carotenoids, vitamin C, glutathione, and phenolic acids were analyzed by HPLC-PDA using a RP C18 column at an appropriate wavelength for each compound. Vitamin E and sugars were analyzed by HPLC with RP C18 and NH2 columns and detected by FLD and RI detectors, respectively. In addition, organic acids were analyzed with GC-FID using a Rtx 5DA column after derivatization with MSTFA. As a result, sensitive analytical methods to quantify important plant metabolites were developed and are described herein. These methods are not only applicable in tomato but are also useful to characterize other species for flavor-related and antioxidant compounds. Thus, these protocols can be used to guide selection in crop breeding.Article Citation - WoS: 4Citation - Scopus: 4Development of Liposomal Formulations of the Eggplant Glycoalkaloids Solasonine and Solamargine(Elsevier, 2022) Tatlıdil, Engin; Gürbüz, Nergiz; Doğanlar, Sami; Frary, Anne; Gürbüz, Nergiz; Frary, Anne; Tatlıdil, Engin; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyThe eggplant glycoalkaloids solasonine and solamargine are efficient biomacromolecules against skin diseases but are water-insoluble which results in inefficient treatment due to inadequate transdermal delivery. To address this problem, several liposomal formulations were prepared and evaluated for parameters including lecithin type, hydration temperature, and pH. The optimal formula with high physical and chemical stability included the lecithin Phospholipon 80H hydrated with 10 mM NaCl (pH 5.5). Solasonine - solamargine loaded liposomes were tested for their physical and chemical stability and drug leakage over a three-month period. Furthermore, the drug release profile of the loaded liposomes was evaluated with different release media. The glycoalkaloids and their liposomal formulations were assessed for their biological activity in culture using HaCaT and SCC-25 cell lines. This work resulted in a biologically effective liposomal formulation that was stable (size <220 nm, PDI [removed]80%) for at least three months.Article Citation - WoS: 5Citation - Scopus: 5The Designing of a Gel Formulation With Chitosan Polymer Using Liposomes as Nanocarriers of Amphotericin B for a Non-Invasive Treatment Model of Cutaneous Leishmaniasis(Springer, 2022) Gürbüz, Nergiz; Gürbüz, Nergiz; Özbel, Yusuf; Töz, Seray; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyPurpose Leishmaniasis is a disease caused by different Leishmania spp., which are transmitted to humans by a bite of infected female sand flies. Cutaneous leishmaniasis (CL, oriental sore), visceral leishmaniasis (VL), and mucocutaneous leishmaniasis (MCL) are three main clinical forms, however, only CL and VL are seen in Turkey. Cutaneous leishmaniasis is characterized by skin lesion(s) and is one of the most important vector-borne diseases in Turkey with over 2000 cases reported annually in 40 out of 81 provinces. The treatment is usually made invasively and painfully by intralesional injection of pentavalent antimony compounds. Non-invasive and innovative treatment methods are needed as aimed in this study. Methods In the present study, one of the classical antileishmanial drugs, amphotericin B (AmB), encapsulated in liposomes was evaluated using non-invasive design based on chitosan, which is a nontoxic, biocompatible and biodegradable polymer. To avoid the invasive effect of conventional intralesional needle application, the drug was encapsulated in liposomes and incorporated into a chitosan gel for applying topically on the skin lesion. The efficacy of encapsulation of amphotericin B into liposomes and the drug release from liposomes were studied. The chitosan gel was evaluated for viscosity, flowability, appearance and pH. The efficacy of the drug embedded into chitosan gel, liposomal AmB alone and chitosan gel alone in four different concentrations was also tested using Leishmania spp. promastigotes in vitro. Results The findings have shown that AmB was encapsulated into the liposomes with high efficiency (86.6%) and long-term physical and chemical stability. Therefore, designed liposomal formulation was suitable for sustained release. The appearance of the drug-embedded chitosan gel was transparent and appropriate. Chitosan gels showed non- Newtonian behavior and plastic flow. The liposomal AmB also showed higher efficacy with no parasites in all concentrations while drug embedded into chitosan gel and chitosan gel alone were effective in two higher concentrations. The lower efficacy of the drug-embedded chitosan gel in 24 h in in-vitro study was probably due to slow release of the drug. Conclusion The gel design created in this study will provide ease of use for the lesions of CL patients that do not have a specific number, size, and shape. Follow-up studies by the ex-vivo macrophage infection model with Leishmania intracellular amastigote forms and Leishmania-infected animal models are needed to understand the present design's efficacy better.Article Citation - WoS: 4Citation - Scopus: 4Mapping of Quantitative Trait Loci for the Nutritional Value of Fresh Market Tomato(Springer, 2023) Gürbüz Çolak, Nergiz; Doğanlar, Sami; Tek Eken, Neslihan; Frary, Anne; Ülger, Mehmet; Tek, Neslihan; Frary, Anne; Gürbüz, Nergiz; Doğanlar, Sami; 04.03. Department of Molecular Biology and Genetics; 04. Faculty of Science; 01. Izmir Institute of TechnologyThe incidence of many diseases, such as cancer, cardiovascular diseases, and diabetes, is associated with malnutrition and an unbalanced daily diet. Vegetables are an important source of vitamins and essential compounds for human health. As a result, such metabolites have increasingly become the focus of breeding programs. Tomato is one of the most popular components of our daily diet. Therefore, the improvement of tomato's nutritional quality is an important goal. In the present study, we performed targeted metabolic profiling of an interspecific Solanum pimpinellifolium x S. lycopersicum inbred backcross line (IBL) population and identified quantitative trait loci responsible for the nutritional value of tomato. Transgressive segregation was apparent for many of the nutritional compounds such that some IBLs had extremely high levels of various amino acids and vitamins compared to their parents. A total of 117 QTLs for nutritional traits including 62 QTLs for amino acids, 18 QTLs for fatty acids, 12 QTLs for water-soluble vitamins, and 25 QTLs for fat-soluble vitamins were identified. Moreover, almost 24% of identified QTLs were confirmed in previous studies, and 40 possible gene candidates were found for 18 identified QTLs. These findings can help breeders to improve the nutritional value of tomato.