FoodOmics Laboratory

About

In the FoodOmics Laboratory, current studies are carried out in the fields of food microbiology, microbial biotechnology and plant biotechnology by using classical methods and omic technologies such as genomics, transcriptomics, and metabolomics. The research area of ​​the laboratory is the development of new foods and food analysis methods; food safety, biosecurity and risk assessment and ensuring food security. In the FoodOmics Laboratory, the Sustainable Development Goals and the European Union Green Deal key objectives are important for the selection and orientation of research topics.
In the FoodOmics Laboratory; in traditional fermented foods, classical cultural methods and culture-independent (qPCR, sequencing, metagenomics, MALDI-TOF mass spectrometry) and their combination (culturalomic) methods are used to discover microbiota diversity and beneficial microorganisms. Microencapsulation of probiotic bacteria and the use of the obtained microcapsules in the development of new food products are carried out in the FoodOmics Research Laboratory, which has a culture collection containing original and local lactic acid bacteria and yeasts. The transcriptomic interaction that occurs as a result of fermentation in microorganisms such as Saccharomyces cerevisiae isolated and identified from Anatolia is examined and studies are carried out on the production of microbial protein, which is an alternative to plant and animal proteins. Studies on the development of vegetable protein-based products by fermentation using Saccharomyces boulardii are ongoing. In addition, a study has been initiated to determine the distribution and types of CRISPR-Cas loci of lactic acid bacteria.
In the field of plant biotechnology, first of all, local wheat varieties and their biofortification as a result of the expression levels of some antioxidant enzyme genes were investigated. In the FoodOmics Laboratory, highly specific DNA-based methodology, such as RT-PCR and nanobiosensor, has also been developed for the detection and quantification of genetically modified organisms (GMOs). Risk assessment methodology is being studied using bioinformatics tools from the perspective of multi-omic technologies of GMOs.
These studies are supported by grants provided by Hacettepe University Scientific Research Projects Coordination Unit (HU BAP), Ministry of Agriculture and Forestry, General Directorate of Agricultural Research and Policies (TAGEM) and Scientific and Technological Research Council of Turkey (TÜBİTAK). FoodOmics Lab, Michigan State University (USA) and Vrije Universiteit Brussel (Belgium) also prepare and conduct joint projects on sustainable food and biomass systems.

Research Infrastructure

  • RT-PCR device (Roche Lightcycler 96)
  • PCR device (Cubecycler, Nanobiz Ltd., Turkey)
  • Gel Electrophoresis (Obitek Mini-Power 100)
  • Incubator (Memmert Type B30 Schwabach)
  • Centrifuge (Nüve NF 800)
  • Microcentrifuge (Neuation i Fuge BL08VT)
  • Plate Centrifuge (MiuLab MiniP-2500 Micro-plate Centrifuge)
  • Commercial Blender (Waring)
  • Precision Balance (Yıldırım KD-TBC 300 g (0.001 g))
  • Precision Balance (Radwag WTB 200 200g (0.001 g))
  • Heater Block (Major Science MD-01N)
  • Vortex (Biosan Vortex V-1 Plus)
  • Vortex (DragonLab MX-F)
  • Magnetic Mixer (Thermomac TM-12 Magnetic Stirrer)
  • Magnetic Mixer (WiseStir MSH-20A)
  • Vacuum Machine (Stilea Vs2140)
  • Vertical Deep Freezer (Vestel CDE-M1102 W A+6 Drawers)
  • Refrigerators (2 units, Vestel and Arçelik)
  • Dry Autoclave (Nüve Steam Art S Class EN 13060 OT 23S)
  • Incubator (Nüve -EN400)
  • Incubator (Memmert GmbH)
  • Pure Water Device (Nüve NS 103)
  • Biosafety Cabinet (Esco Class II BSC Air Stream)

Researchers

  • Prof. Dr. Remziye YILMAZ
  • Begüm Zeynep HANÇERLİOĞULLARI (PhD student)
  • Özlem Işık DOĞAN (PhD student)
  • Zeynep Görkem CERİT (PhD student)
  • Elif Bircan MUYANLI (PhD student)
  • Beyza SAYMAN (MSc Student)
  • Bilge YILMAZ (MSc Student)
  • İpek Ceren YEŞİLDAĞ (MSc Student)
  • Nejat Furkan ÇAĞLAR (MSc Student)

Alumni

  • Mithat KURBAN (PhD.)
  • Taha Turgut ÜNAL (MSc.)
  • Sena ÇAKIR (MSc.)
  • Ayşegül Bilge UĞUZ (MSc.)
  • Yeşim TAŞKIN (MSc.)

Ongoing Projects

  • BAP-FHD-2021-19443-Effect of Microwave Treatment on Metabolomic, Lipidomic and Transcriptomic Profile Changes in MIR604 Maize Flour (2021-2023).
  • BAP-FYL-2022-20138-Investigation of the Use of Saccharomyces cerevisiae var boulardii in Soy-Based Fermented Food Production (2022-2023).

Completed Projects

  • Implementation Project on Establishing the Biosafety Framework, Executive and National Consultant, UNEP/GEF, 2013-2017.
  • Production of Bioactive Ingredient from Local Fruits,     Hacettepe University BAP, FBD-2017-14400, Executive, 2017.
  • Obtaining Saccharomyces cerevisiae DNA barcode, Hacettepe University BAP, FHD-2017-14645, Executive, 2018.
  • Performing Risk Analysis in Genetically Modified Food and Feed Products Using Omic Technologies, Hacettepe University BAP,   FHD-2019-17720, Executive, 2019-2020.
  • Performing Risk Analysis Using Omic Technologies, YÖK Mevlana, 862, Manager, 2018-2019.
  • Determination of Adulteration Using Modern Biotechnological Methods According to 2012/2 Communiqué by Using Plant-Specific Genes in Products Containing Wheat, Corn, Oats and Rye, TÜBİTAK, Researcher, 2016.
  • Determination of Drought Tolerance in Wheat Varieties Using Conventional Methods and Modern Biotechnological Methods and Development of DNA Chip and Marker Technologies to be Used in Breeding Programs, Turkey Seed Gene Bank, Researcher, TAGEM, 2016.
  • TÜBİTAK 219O033 - Microencapsulation of Lactobacillus rhamnosus GG and Escherichia coli Nissle and Use in Probiotic Fruit Juice (2020-2021).
  • TAGEM 18/AR-GE/31 & BAP FUK-2019-17669 - Characterization of Microbiota Isolated from White Cheese and Milk Processing Facility, Obtaining Native Starter Culture and Production of Prototype Product (2019-2021).
  • BAP-THD-2019-17899- Determination of In Vivo and In Vitro Efficacy of Probiotics Encapsulated by Different Methods (2019-2021).
  • BAP-FUK-2019-17752- Identification and Characterization of Some Bioactive Components in Selected Local Wheat (Triticum spp.) Varieties (2019-2021).

Publications

  • Yilmaz R, Unal TT. Genetically modified organisms: Food, feed, traceability. Ogel ZB, editor. Food Biotechnology. 1st Edition. Ankara: Turkey Clinics; 2021. p.17-21.
  • R. Yılmaz, Modern biotechnology breakthroughs to food and agricultural research in developing countries, GM crops & food 10 (1), 12-16, 2019.
  • R. Yılmaz, C Bayraç, A Başman, H Köksel, Development of SYBR green-based real time PCR assays for detection and quantification of adulteration in wheat-based composite breads and their in-house validation, Journal of cereal science 85, 91 -97,2019.
  • D. Varol, V. Purutçuoğlu, R. Yılmaz, Transcriptomic analysis of the heat stress response for a commercial baker's yeast Saccharomyces cerevisiae, Genes & Genomics 40, 137-150, 2018.
  • R. Yılmaz, C. Bayraç, M. Yücel, Single laboratory method performance evaluation for the analysis of Roundup Ready® soy flour by qualitative and quantitative detection methods, Quality Assurance and Safety of Crops & Foods 9 (3), 303-311 , 2017.
  • R. Yılmaz, Temiz, A., Açık, L., Keskin, A.Ç., Genetic Differentiation of Lactobacillus delbrueckii subsp. bulgaricus and Streptococcus thermophilus Strains Isolated from Raw Milk Samples Collected from Different Regions of Turkey, Food Biotechnology, Volume 29,11 December 2015 - Issue 4, pp 335-355.
  • Ö Şenyurt, F Eyidoğan, R Yılmaz, MT Öz, VC Özalp, Y Arica, HA Öktem, Development of a paper‐type tyrosinase biosensor for detection of phenolic compounds, Biotechnology and applied biochemistry, 62 (1), 132-136, 2015.
  • R. Yılmaz, E. Cabi, M. Doğan, Molecular Analyzes of the Genera Eremopyrum (Ledeb.) Jaub. & Spach and Agropyron Gaertner (Poaceae) by PCR Methods, PAK. J. BOTANY (ISI), 46(3): 769-774, 2014.
  • R. Yılmaz, C. Bayraç, Technical Guideline for the Risk Assessment of Genetically Engineering Crops and Derived Food and Feed, Ankara, TAGEM and UNEP-GEF, 2017, 1-66.
  • R.Yılmaz, C. Bayraç, Risk Assessment Technical Guide for Genetic Engineering Product Plant, Food and Feed, Ankara, TAGEM and UNEP-GEF, 2017, 1-64.
  • R. Yılmaz, D. Lenz, Food Biotechnology : Communication Guide (Translation), International Food Information Council Foundation (IFIC), 2017, 1-48.
  • R. Yılmaz, DNA barcoding for MPR fruits and vegetables, in Minimally Processed Refrigerated Fruits and Vegetables, Springer, 2017, pp 639-649.
  • R. Yılmaz, “High Technology and Food Industry”, Slow Cheese Bodrum 3rd International Cheese Festival, Bodrum, Muğla, 11-14 April 2019.
  • R. Yılmaz, “Food Biotechnology” Towards a Strong Bioeconomy: Priorities and Collaborations in Biotechnology,  BIOEXPO, Istanbul, 18-19 April 2019.
  • R. Yılmaz, “Food Biotechnology and Biosafety”, International Food Law Summer School, Hacettepe University, Ankara, 22-23 July 2019.
  • R. Yılmaz, “DNA Barcoding and Geographical Indications” Commercialization and Innovation Practices in Geographical Indications”, 2nd International Geographical Indications Products Summit, Ankara, 19-21 September 2019.
  • R. Yılmaz, “Modern Biotechnology for Food and Agricultural Research”, Karaman-Konya Food Biotechnology Symposium, Konya Food and Agriculture University, Konya, 25-26 September 2019.
  • AN. Moğol, R. Yılmaz, HA. Öktem, “Comparison of Loop Based Isothermal Replication (LAMP) and Three Different Simple-Fast DNA Isolation Methods for GMO Detection”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University , October 2019), 37.
  • ZG. Cerit, MC. Baloğlu, R. Yılmaz, "Culturomics: A New Approach To Identify The Lactococcus and Enterococcus Species Isolated From The Dairy Plant", 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Baskent University, October 2019), 49.
  • TT. Ünal, R. Yılmaz, “DNA Isolation of Mon87701 GM Soybean Variety and Verification of Analysis Method by RT-PCR and Calculation of Measurement Uncertainty”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara , Baskent University, October 2019), 50.
  • EB. Muyanlı, R. Yılmaz, “Detection Of Suc2 Gene by Real Time PCR in Saccharomyces cerevisiae”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University, October 2019) , 53.
  • EB. Muyanlı, R. Yılmaz, “Aromatic Amino Transferase I Gene (aro8) in the Saccharomyces cerevisiae Strains”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University, October 2019), 54.
  • Y. Taşkın, UC. Yilmaz, BZ. Hançerlioğulları, R. Yılmaz, “The Effect Of DNA Isolation Methods on PCR Inhibition in GMO Analysis of Vegan Foods”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University , October 2019), 57.
  • EU. Uğuz, R. Yılmaz, “Structural Bioinformatics Analysis of Enzymes Involved in The Biosynthesis Pathway of Flavonoids in Bread Wheat”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University , October 2019), 58.
  • M. Kurban, R. Yılmaz, “DNA Barcoding of Yeast Strains from Anatolia”, The 35th International Specialized Symposium on Yeasts, Antalya, 21-25 October 2019, Proceedings Book, (Cukurova University, Faculty of Agriculture, Department of Food Engineering , October 2019), 37.
  • “M”. The victim, "R". Yılmaz, “Yeast DNA Barcode Database a Tool for the Repository for S. cerevisiae and Other Fungi”, The 35th International Specialized Symposium on Yeasts, Antalya, 21-25 October 2019, Proceedings Book, (Cukurova University, Faculty of Agriculture, Department of Food Engineering, October 2019), 153.
  • R. Yılmaz, “Food Biotechnology and Biosecurity”, 9th Juiceful Istanbul Summit, Istanbul, 10 May 2018.
  • R. Yılmaz, “Genetic Modified Foods and Biosafety”, International Congress of Eurasian Natural Nutrition and Healthy Life, Ankara, 12-15 July 2018.
  • R. Yılmaz, “Genome Editing for Food Security” Review of Biosafety Regulatory Systems: Focus on Genome Editing and Compatibility with Relevant International Agreements, FAO Expert Consultation, Prague, Czech Republic, 28-30 August, 2018.
  • R. Yılmaz, Genome Editing and Food Security, “Review of biosafety regulatory systems: focus on genome editing and compatibility with relevant international agreements” FAO expert consultation, 28-20 August 2018, Prague, Czechia
  • R. Yılmaz, Genomics for the identification and characterisation of microbial strains used in food and feed products, EFSA scientific colloquium “Omics in risk assessment: state-of-the-art and next steps” - 24-25 April 2018 - Berlin ( Germany), 15.
  • R.  Yılmaz, Biotechnology and Biosafety in Food and Agricultural Sciences, International Food Biotechnology and Biosafety Workshop, October 9-11, 2017, Hacettepe University in collaboration with Michigan State University, Ankara, Turkey.
  • R. Yılmaz, C. Bayraç, Technical Guideline for the Risk Assessment of Genetically Engineering Crops and Derived Food and Feed, International Food Biotechnology and Biosafety Workshop, October 9-11, 2017, Hacettepe University in collaboration with Michigan State University, Ankara, Turkey.
  • R. Yılmaz, Biotechnology in Turkey: Hopes, Expectations and Reality, Michigan State University, East Lansing, Michigan, USA, April 20, 2016.
  • R. Yılmaz, Biotechnology and Biosafety Law in Turkey, Agricultural Biotechnology and Biosafety Workshop, Michigan State University, East Lansing, Michigan, USA, September 2-15, 2015.
  • R. Yılmaz, “Food Security and Modern Biotechnology”, 3rd National Biotechnology Student Summit, Başkent University, Ankara, 8 December 2018.
  • R. Yilmaz, T.T. Ünal, Measuring and Developing Awareness on Climate Change and Food Security, 19th National Biotechnology Congress with International Participation, Eskişehir, 1-3 December 2017, 19th National Biotechnology Congress Proceedings with International Participation,Biotechnology Association, December 2017, 77.
  • R. Yılmaz, C. Cansın Gazel, Establishment of GMO Analysis Basic Information System for Detection of Genetically Modified Organisms, 19th National Biotechnology Congress with International Participation, Eskişehir, 1-3 December 2017, 19th National Biotechnology Congress Proceedings with International Participation, Biotechnology Association , December 2017, 81.
  • R. Yilmaz, A.M. Büyükyazı, BD Karaduman, C. Cansın Gazel, Uses of Simultaneous Polymerase Chain Reaction Technique in Food Safety, 19th National Biotechnology Congress with International Participation, Eskişehir, 1-3 December 2017, 19th National Biotechnology Congress Proceedings with International Participation, Biotechnology Association, December 2017 , 90.
  • R. Yılmaz, GMO Analysis and Risk Assessment, Biosafety Project -Assessment Meeting, 04-08 December 2017, Ankara, 100.
  • R. Yılmaz, Genetically Modified Organisms (GMO): Analysis of Food and Feed Products, Eurasia Natural 2018, 12-15 July, Ankara, 95.
  • R. Yılmaz, Workshop on TS ISO EN 17025 Standard Requirements for Genetically Modified Organism (GMO) Analyzes, Genetically Modified Organism (GMO) Analyzes and GMO Analysis Laboratories- 4, Ankara, 11-12 December 2015, Food, Agriculture and Livestock Ministry, p.
  • R. Yılmaz, Event-Specific Real Time PCR Method for GMO Quantitation from Food, Feed and Seed Samples and Measurement Uncertainty, Genetically Modified Organism (GMO) Analyzes, and TS ISO EN 17025 Standard Requirements for GMO Analysis Laboratories- 4, Ankara, 11 -12 December 2015, Ministry of Food, Agriculture and Livestock, pp.
  • R. Yılmaz, Workshop on TS ISO EN 17025 Standard Requirements for GMO Analysis Laboratories, Genetically Modified Organism (GMO) Analysis and TS ISO EN 17025 Standard Requirements for GMO Analysis Laboratories- 5, Ankara, 4-5 January 2016, Food, Agriculture and Ministry of Livestock, pp.
  • Cerit, Zeynep Görkem, Characterization of Microbiota Isolated from White Cheese and Milk Processing Facility, M.Sc., 2020.
  • Moğol, Ayça Nazlı, Development of a Loop Mediated Isothermal Amplification (LAMP) Based Detection Platform For Genetically Modified Organism (GMO) Detection, Middle East Technical University Institute of Science, Department of Biotechnology, 2019 (Prof. Dr. Hüseyin Avni Öktem complete with)
  • Ünal, Taha Turgut, Development of Adequacy Test Kit for GMO Detection in Food and Feed Products, Hacettepe University, Graduate School of Sciences, (2019).
  • Tuğrul, C.Tugçe, Use of National Reference Material in GMO Analysis Methods and Verification with Interlaboratory Comparison Test, Middle East Technical University Institute of Science, Department of Biotechnology, 2014- (Completed with Prof. Dr. Meral Yücel).
  • Varol, D., Comparative data analysis in one-channel microarrays Middle East Technical University, Institute of Science and Technology, Department of Statistics, 2014 (Completed with Associate Professor Vilda Purutçuoğlu).
  • Kurban, Mithat, Determination of Saccharomyces cerevisiae DNA Barcode and Creation of a Database, Hacettepe University, Institute of Science, Ph.D., (2019).
  • Çakır, Sena, Investigation of Microencapsulation of Some Probiotic Bacteria and Their Use in Fruit Juice, Hacettepe University, Institute of Science, M.Sc., (2021).
  • Uğuz, Ayşegül Bilge, Comparative Transcriptome Analysis of Selected Local Wheat Varieties and Effects of Zinc Treatment on Expression Levels of Some Enzyme Genes, Hacettepe University, Institute of Science, M.Sc., (2022).
  • Taşkın, Yeşim, GMO Detection with Nanobiosensing System Integration of Artificial Intelligence, Hacettepe University, Institute of Science, M.Sc., (2022).
  • Muyanlı, Elif Bircan, Transcriptional Response to Using Mixed Starter Culture During the Sequential Fermentation Involving Saccharomyces cerevisiae and Metschnikowia pulcherrima, Hacettepe University, Institute of Science, M.Sc., (2022).
  • Begüm Zeynep Hançerlioğulları, Umut Toprak, Remziye Yılmaz, Phenol - Based Method for Isolation of
    High‑Quality RNA from MON810 and MIR604 Maize Events, 2nd International / 12th National Food Engineering Congress, TMMOB Gıda Mühendisleri Odası, Kasım 25-27, 2021.

 

Links

FoodOmics Laboratory Web Page:

https://foodomicslab.hacettepe.edu.tr/en

About

In the FoodOmics Laboratory, current studies are carried out in the fields of food microbiology, microbial biotechnology and plant biotechnology by using classical methods and omic technologies such as genomics, transcriptomics, and metabolomics. The research area of ​​the laboratory is the development of new foods and food analysis methods; food safety, biosecurity and risk assessment and ensuring food security. In the FoodOmics Laboratory, the Sustainable Development Goals and the European Union Green Deal key objectives are important for the selection and orientation of research topics.
In the FoodOmics Laboratory; in traditional fermented foods, classical cultural methods and culture-independent (qPCR, sequencing, metagenomics, MALDI-TOF mass spectrometry) and their combination (culturalomic) methods are used to discover microbiota diversity and beneficial microorganisms. Microencapsulation of probiotic bacteria and the use of the obtained microcapsules in the development of new food products are carried out in the FoodOmics Research Laboratory, which has a culture collection containing original and local lactic acid bacteria and yeasts. The transcriptomic interaction that occurs as a result of fermentation in microorganisms such as Saccharomyces cerevisiae isolated and identified from Anatolia is examined and studies are carried out on the production of microbial protein, which is an alternative to plant and animal proteins. Studies on the development of vegetable protein-based products by fermentation using Saccharomyces boulardii are ongoing. In addition, a study has been initiated to determine the distribution and types of CRISPR-Cas loci of lactic acid bacteria.
In the field of plant biotechnology, first of all, local wheat varieties and their biofortification as a result of the expression levels of some antioxidant enzyme genes were investigated. In the FoodOmics Laboratory, highly specific DNA-based methodology, such as RT-PCR and nanobiosensor, has also been developed for the detection and quantification of genetically modified organisms (GMOs). Risk assessment methodology is being studied using bioinformatics tools from the perspective of multi-omic technologies of GMOs.
These studies are supported by grants provided by Hacettepe University Scientific Research Projects Coordination Unit (HU BAP), Ministry of Agriculture and Forestry, General Directorate of Agricultural Research and Policies (TAGEM) and Scientific and Technological Research Council of Turkey (TÜBİTAK). FoodOmics Lab, Michigan State University (USA) and Vrije Universiteit Brussel (Belgium) also prepare and conduct joint projects on sustainable food and biomass systems.

Research Infrastructure

  • RT-PCR device (Roche Lightcycler 96)
  • PCR device (Cubecycler, Nanobiz Ltd., Turkey)
  • Gel Electrophoresis (Obitek Mini-Power 100)
  • Incubator (Memmert Type B30 Schwabach)
  • Centrifuge (Nüve NF 800)
  • Microcentrifuge (Neuation i Fuge BL08VT)
  • Plate Centrifuge (MiuLab MiniP-2500 Micro-plate Centrifuge)
  • Commercial Blender (Waring)
  • Precision Balance (Yıldırım KD-TBC 300 g (0.001 g))
  • Precision Balance (Radwag WTB 200 200g (0.001 g))
  • Heater Block (Major Science MD-01N)
  • Vortex (Biosan Vortex V-1 Plus)
  • Vortex (DragonLab MX-F)
  • Magnetic Mixer (Thermomac TM-12 Magnetic Stirrer)
  • Magnetic Mixer (WiseStir MSH-20A)
  • Vacuum Machine (Stilea Vs2140)
  • Vertical Deep Freezer (Vestel CDE-M1102 W A+6 Drawers)
  • Refrigerators (2 units, Vestel and Arçelik)
  • Dry Autoclave (Nüve Steam Art S Class EN 13060 OT 23S)
  • Incubator (Nüve -EN400)
  • Incubator (Memmert GmbH)
  • Pure Water Device (Nüve NS 103)
  • Biosafety Cabinet (Esco Class II BSC Air Stream)

Researchers

  • Prof. Dr. Remziye YILMAZ
  • Begüm Zeynep HANÇERLİOĞULLARI (PhD student)
  • Özlem Işık DOĞAN (PhD student)
  • Zeynep Görkem CERİT (PhD student)
  • Elif Bircan MUYANLI (PhD student)
  • Beyza SAYMAN (MSc Student)
  • Bilge YILMAZ (MSc Student)
  • İpek Ceren YEŞİLDAĞ (MSc Student)
  • Nejat Furkan ÇAĞLAR (MSc Student)

Alumni

  • Mithat KURBAN (PhD.)
  • Taha Turgut ÜNAL (MSc.)
  • Sena ÇAKIR (MSc.)
  • Ayşegül Bilge UĞUZ (MSc.)
  • Yeşim TAŞKIN (MSc.)

Ongoing Projects

  • BAP-FHD-2021-19443-Effect of Microwave Treatment on Metabolomic, Lipidomic and Transcriptomic Profile Changes in MIR604 Maize Flour (2021-2023).
  • BAP-FYL-2022-20138-Investigation of the Use of Saccharomyces cerevisiae var boulardii in Soy-Based Fermented Food Production (2022-2023).

Completed Projects

  • Implementation Project on Establishing the Biosafety Framework, Executive and National Consultant, UNEP/GEF, 2013-2017.
  • Production of Bioactive Ingredient from Local Fruits,     Hacettepe University BAP, FBD-2017-14400, Executive, 2017.
  • Obtaining Saccharomyces cerevisiae DNA barcode, Hacettepe University BAP, FHD-2017-14645, Executive, 2018.
  • Performing Risk Analysis in Genetically Modified Food and Feed Products Using Omic Technologies, Hacettepe University BAP,   FHD-2019-17720, Executive, 2019-2020.
  • Performing Risk Analysis Using Omic Technologies, YÖK Mevlana, 862, Manager, 2018-2019.
  • Determination of Adulteration Using Modern Biotechnological Methods According to 2012/2 Communiqué by Using Plant-Specific Genes in Products Containing Wheat, Corn, Oats and Rye, TÜBİTAK, Researcher, 2016.
  • Determination of Drought Tolerance in Wheat Varieties Using Conventional Methods and Modern Biotechnological Methods and Development of DNA Chip and Marker Technologies to be Used in Breeding Programs, Turkey Seed Gene Bank, Researcher, TAGEM, 2016.
  • TÜBİTAK 219O033 - Microencapsulation of Lactobacillus rhamnosus GG and Escherichia coli Nissle and Use in Probiotic Fruit Juice (2020-2021).
  • TAGEM 18/AR-GE/31 & BAP FUK-2019-17669 - Characterization of Microbiota Isolated from White Cheese and Milk Processing Facility, Obtaining Native Starter Culture and Production of Prototype Product (2019-2021).
  • BAP-THD-2019-17899- Determination of In Vivo and In Vitro Efficacy of Probiotics Encapsulated by Different Methods (2019-2021).
  • BAP-FUK-2019-17752- Identification and Characterization of Some Bioactive Components in Selected Local Wheat (Triticum spp.) Varieties (2019-2021).

Publications

  • Yilmaz R, Unal TT. Genetically modified organisms: Food, feed, traceability. Ogel ZB, editor. Food Biotechnology. 1st Edition. Ankara: Turkey Clinics; 2021. p.17-21.
  • R. Yılmaz, Modern biotechnology breakthroughs to food and agricultural research in developing countries, GM crops & food 10 (1), 12-16, 2019.
  • R. Yılmaz, C Bayraç, A Başman, H Köksel, Development of SYBR green-based real time PCR assays for detection and quantification of adulteration in wheat-based composite breads and their in-house validation, Journal of cereal science 85, 91 -97,2019.
  • D. Varol, V. Purutçuoğlu, R. Yılmaz, Transcriptomic analysis of the heat stress response for a commercial baker's yeast Saccharomyces cerevisiae, Genes & Genomics 40, 137-150, 2018.
  • R. Yılmaz, C. Bayraç, M. Yücel, Single laboratory method performance evaluation for the analysis of Roundup Ready® soy flour by qualitative and quantitative detection methods, Quality Assurance and Safety of Crops & Foods 9 (3), 303-311 , 2017.
  • R. Yılmaz, Temiz, A., Açık, L., Keskin, A.Ç., Genetic Differentiation of Lactobacillus delbrueckii subsp. bulgaricus and Streptococcus thermophilus Strains Isolated from Raw Milk Samples Collected from Different Regions of Turkey, Food Biotechnology, Volume 29,11 December 2015 - Issue 4, pp 335-355.
  • Ö Şenyurt, F Eyidoğan, R Yılmaz, MT Öz, VC Özalp, Y Arica, HA Öktem, Development of a paper‐type tyrosinase biosensor for detection of phenolic compounds, Biotechnology and applied biochemistry, 62 (1), 132-136, 2015.
  • R. Yılmaz, E. Cabi, M. Doğan, Molecular Analyzes of the Genera Eremopyrum (Ledeb.) Jaub. & Spach and Agropyron Gaertner (Poaceae) by PCR Methods, PAK. J. BOTANY (ISI), 46(3): 769-774, 2014.
  • R. Yılmaz, C. Bayraç, Technical Guideline for the Risk Assessment of Genetically Engineering Crops and Derived Food and Feed, Ankara, TAGEM and UNEP-GEF, 2017, 1-66.
  • R.Yılmaz, C. Bayraç, Risk Assessment Technical Guide for Genetic Engineering Product Plant, Food and Feed, Ankara, TAGEM and UNEP-GEF, 2017, 1-64.
  • R. Yılmaz, D. Lenz, Food Biotechnology : Communication Guide (Translation), International Food Information Council Foundation (IFIC), 2017, 1-48.
  • R. Yılmaz, DNA barcoding for MPR fruits and vegetables, in Minimally Processed Refrigerated Fruits and Vegetables, Springer, 2017, pp 639-649.
  • R. Yılmaz, “High Technology and Food Industry”, Slow Cheese Bodrum 3rd International Cheese Festival, Bodrum, Muğla, 11-14 April 2019.
  • R. Yılmaz, “Food Biotechnology” Towards a Strong Bioeconomy: Priorities and Collaborations in Biotechnology,  BIOEXPO, Istanbul, 18-19 April 2019.
  • R. Yılmaz, “Food Biotechnology and Biosafety”, International Food Law Summer School, Hacettepe University, Ankara, 22-23 July 2019.
  • R. Yılmaz, “DNA Barcoding and Geographical Indications” Commercialization and Innovation Practices in Geographical Indications”, 2nd International Geographical Indications Products Summit, Ankara, 19-21 September 2019.
  • R. Yılmaz, “Modern Biotechnology for Food and Agricultural Research”, Karaman-Konya Food Biotechnology Symposium, Konya Food and Agriculture University, Konya, 25-26 September 2019.
  • AN. Moğol, R. Yılmaz, HA. Öktem, “Comparison of Loop Based Isothermal Replication (LAMP) and Three Different Simple-Fast DNA Isolation Methods for GMO Detection”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University , October 2019), 37.
  • ZG. Cerit, MC. Baloğlu, R. Yılmaz, "Culturomics: A New Approach To Identify The Lactococcus and Enterococcus Species Isolated From The Dairy Plant", 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Baskent University, October 2019), 49.
  • TT. Ünal, R. Yılmaz, “DNA Isolation of Mon87701 GM Soybean Variety and Verification of Analysis Method by RT-PCR and Calculation of Measurement Uncertainty”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara , Baskent University, October 2019), 50.
  • EB. Muyanlı, R. Yılmaz, “Detection Of Suc2 Gene by Real Time PCR in Saccharomyces cerevisiae”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University, October 2019) , 53.
  • EB. Muyanlı, R. Yılmaz, “Aromatic Amino Transferase I Gene (aro8) in the Saccharomyces cerevisiae Strains”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University, October 2019), 54.
  • Y. Taşkın, UC. Yilmaz, BZ. Hançerlioğulları, R. Yılmaz, “The Effect Of DNA Isolation Methods on PCR Inhibition in GMO Analysis of Vegan Foods”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University , October 2019), 57.
  • EU. Uğuz, R. Yılmaz, “Structural Bioinformatics Analysis of Enzymes Involved in The Biosynthesis Pathway of Flavonoids in Bread Wheat”, 20th Biotechnology Congress with International Participation, Başkent University, Ankara, 10-12 October 2019, Proceedings Book, (Ankara, Başkent University , October 2019), 58.
  • M. Kurban, R. Yılmaz, “DNA Barcoding of Yeast Strains from Anatolia”, The 35th International Specialized Symposium on Yeasts, Antalya, 21-25 October 2019, Proceedings Book, (Cukurova University, Faculty of Agriculture, Department of Food Engineering , October 2019), 37.
  • “M”. The victim, "R". Yılmaz, “Yeast DNA Barcode Database a Tool for the Repository for S. cerevisiae and Other Fungi”, The 35th International Specialized Symposium on Yeasts, Antalya, 21-25 October 2019, Proceedings Book, (Cukurova University, Faculty of Agriculture, Department of Food Engineering, October 2019), 153.
  • R. Yılmaz, “Food Biotechnology and Biosecurity”, 9th Juiceful Istanbul Summit, Istanbul, 10 May 2018.
  • R. Yılmaz, “Genetic Modified Foods and Biosafety”, International Congress of Eurasian Natural Nutrition and Healthy Life, Ankara, 12-15 July 2018.
  • R. Yılmaz, “Genome Editing for Food Security” Review of Biosafety Regulatory Systems: Focus on Genome Editing and Compatibility with Relevant International Agreements, FAO Expert Consultation, Prague, Czech Republic, 28-30 August, 2018.
  • R. Yılmaz, Genome Editing and Food Security, “Review of biosafety regulatory systems: focus on genome editing and compatibility with relevant international agreements” FAO expert consultation, 28-20 August 2018, Prague, Czechia
  • R. Yılmaz, Genomics for the identification and characterisation of microbial strains used in food and feed products, EFSA scientific colloquium “Omics in risk assessment: state-of-the-art and next steps” - 24-25 April 2018 - Berlin ( Germany), 15.
  • R.  Yılmaz, Biotechnology and Biosafety in Food and Agricultural Sciences, International Food Biotechnology and Biosafety Workshop, October 9-11, 2017, Hacettepe University in collaboration with Michigan State University, Ankara, Turkey.
  • R. Yılmaz, C. Bayraç, Technical Guideline for the Risk Assessment of Genetically Engineering Crops and Derived Food and Feed, International Food Biotechnology and Biosafety Workshop, October 9-11, 2017, Hacettepe University in collaboration with Michigan State University, Ankara, Turkey.
  • R. Yılmaz, Biotechnology in Turkey: Hopes, Expectations and Reality, Michigan State University, East Lansing, Michigan, USA, April 20, 2016.
  • R. Yılmaz, Biotechnology and Biosafety Law in Turkey, Agricultural Biotechnology and Biosafety Workshop, Michigan State University, East Lansing, Michigan, USA, September 2-15, 2015.
  • R. Yılmaz, “Food Security and Modern Biotechnology”, 3rd National Biotechnology Student Summit, Başkent University, Ankara, 8 December 2018.
  • R. Yilmaz, T.T. Ünal, Measuring and Developing Awareness on Climate Change and Food Security, 19th National Biotechnology Congress with International Participation, Eskişehir, 1-3 December 2017, 19th National Biotechnology Congress Proceedings with International Participation,Biotechnology Association, December 2017, 77.
  • R. Yılmaz, C. Cansın Gazel, Establishment of GMO Analysis Basic Information System for Detection of Genetically Modified Organisms, 19th National Biotechnology Congress with International Participation, Eskişehir, 1-3 December 2017, 19th National Biotechnology Congress Proceedings with International Participation, Biotechnology Association , December 2017, 81.
  • R. Yilmaz, A.M. Büyükyazı, BD Karaduman, C. Cansın Gazel, Uses of Simultaneous Polymerase Chain Reaction Technique in Food Safety, 19th National Biotechnology Congress with International Participation, Eskişehir, 1-3 December 2017, 19th National Biotechnology Congress Proceedings with International Participation, Biotechnology Association, December 2017 , 90.
  • R. Yılmaz, GMO Analysis and Risk Assessment, Biosafety Project -Assessment Meeting, 04-08 December 2017, Ankara, 100.
  • R. Yılmaz, Genetically Modified Organisms (GMO): Analysis of Food and Feed Products, Eurasia Natural 2018, 12-15 July, Ankara, 95.
  • R. Yılmaz, Workshop on TS ISO EN 17025 Standard Requirements for Genetically Modified Organism (GMO) Analyzes, Genetically Modified Organism (GMO) Analyzes and GMO Analysis Laboratories- 4, Ankara, 11-12 December 2015, Food, Agriculture and Livestock Ministry, p.
  • R. Yılmaz, Event-Specific Real Time PCR Method for GMO Quantitation from Food, Feed and Seed Samples and Measurement Uncertainty, Genetically Modified Organism (GMO) Analyzes, and TS ISO EN 17025 Standard Requirements for GMO Analysis Laboratories- 4, Ankara, 11 -12 December 2015, Ministry of Food, Agriculture and Livestock, pp.
  • R. Yılmaz, Workshop on TS ISO EN 17025 Standard Requirements for GMO Analysis Laboratories, Genetically Modified Organism (GMO) Analysis and TS ISO EN 17025 Standard Requirements for GMO Analysis Laboratories- 5, Ankara, 4-5 January 2016, Food, Agriculture and Ministry of Livestock, pp.
  • Cerit, Zeynep Görkem, Characterization of Microbiota Isolated from White Cheese and Milk Processing Facility, M.Sc., 2020.
  • Moğol, Ayça Nazlı, Development of a Loop Mediated Isothermal Amplification (LAMP) Based Detection Platform For Genetically Modified Organism (GMO) Detection, Middle East Technical University Institute of Science, Department of Biotechnology, 2019 (Prof. Dr. Hüseyin Avni Öktem complete with)
  • Ünal, Taha Turgut, Development of Adequacy Test Kit for GMO Detection in Food and Feed Products, Hacettepe University, Graduate School of Sciences, (2019).
  • Tuğrul, C.Tugçe, Use of National Reference Material in GMO Analysis Methods and Verification with Interlaboratory Comparison Test, Middle East Technical University Institute of Science, Department of Biotechnology, 2014- (Completed with Prof. Dr. Meral Yücel).
  • Varol, D., Comparative data analysis in one-channel microarrays Middle East Technical University, Institute of Science and Technology, Department of Statistics, 2014 (Completed with Associate Professor Vilda Purutçuoğlu).
  • Kurban, Mithat, Determination of Saccharomyces cerevisiae DNA Barcode and Creation of a Database, Hacettepe University, Institute of Science, Ph.D., (2019).
  • Çakır, Sena, Investigation of Microencapsulation of Some Probiotic Bacteria and Their Use in Fruit Juice, Hacettepe University, Institute of Science, M.Sc., (2021).
  • Uğuz, Ayşegül Bilge, Comparative Transcriptome Analysis of Selected Local Wheat Varieties and Effects of Zinc Treatment on Expression Levels of Some Enzyme Genes, Hacettepe University, Institute of Science, M.Sc., (2022).
  • Taşkın, Yeşim, GMO Detection with Nanobiosensing System Integration of Artificial Intelligence, Hacettepe University, Institute of Science, M.Sc., (2022).
  • Muyanlı, Elif Bircan, Transcriptional Response to Using Mixed Starter Culture During the Sequential Fermentation Involving Saccharomyces cerevisiae and Metschnikowia pulcherrima, Hacettepe University, Institute of Science, M.Sc., (2022).
  • Begüm Zeynep Hançerlioğulları, Umut Toprak, Remziye Yılmaz, Phenol - Based Method for Isolation of
    High‑Quality RNA from MON810 and MIR604 Maize Events, 2nd International / 12th National Food Engineering Congress, TMMOB Gıda Mühendisleri Odası, Kasım 25-27, 2021.

 

Links

FoodOmics Laboratory Web Page:

https://foodomicslab.hacettepe.edu.tr/en