META DATA

• Nucleotide
• BioSample
• Complete Genome Sequence 

THESIS (Under the supervision of Prof. Dr. Remziye Yılmaz)

• Yeşildağ, İ. C., Alternative Protein Production from Fruit Juice Industry Wastes,2024.
• Hançerlioğulları, B. Z., Characterization of Microwave Treated MIR604 and MON810 Corn Flours by Omic Approach,2024.
• Yılmaz B.,Detection and Identification of CRISPR-CAS Type II System of Streptococcus salivarus subsp. thermophilus,2024.
• Işık Ö.,Investigation of Traditional Tarhana Fermentation Microbiome by Integrated Omics Approach,2024.
• Sayman, B., Investigation of the Use of Saccharomyces cerevisiae var. boulardii in Soy-Based Fermented Food Production, 2024.
• Muyanlı, E.B., Transcriptional Response to the Use of Mixed Starter Culture in Sequential Fermentation Containing Saccharomyces cerevisiae and Metschnikowia pulcherrima. 2022.
• Taşkın, Y., GMO Detection with Nanobiosensing System Integration of Artificial Intelligence. 2022.
• Uğuz, A. B, Comparative Transcriptomic Analysis of Selected Local Wheat Varieties and the Effect of Zinc Application on the Expression Level of Some Enzyme Genes, 2022.
• Çakır, S., Microencapsulation of some probiotic bacteria and investigation of their use in fruit juice, 2021.
• Cerit, Z. G., Characterization of Microbiota Isolated from White Cheese and Milk Processing Plant, 2020.
• Ünal, T. T., Development of a Proficiency Test Kit for GMO Detection in Food and Feed Products, 2019.
• Kurban, M., Determination of Saccharomyces cerevisiae DNA Barcode and Creation of a Database, 2019.

ARTICLES

• Sayman B., Yılmaz R., Differentiation of Saccharomyces boulardii from Saccharomyces cerevisiae Strains Using the qPCR-HRM Technique Targeting AAD15 Gene, Food Biotechnology (2024)
• Cerit Z. G., Ilıkkan Ö.,Baloğlu M. C., Yılmaz R.,Detection of the lactic acid bacterial community in small scale white cheese processing facility using shotgun metagenomics and culturomics, International Dairy Journal (2024).
• Muyanlı E.B., Yılmaz R, RT-qPCR based quantitative analysis of ARO and ADH genes in Saccharomyces cerevisiae and Metschnikowia pulcherrima strains growth white grape juice, Molecular Biology Reports (2024).
• Muyanlı E.B., Yılmaz R.,GIDA MİKROBİYOLOJİSİ VE GENETİK: ESCHERICHIA COLI, Gıda (2024).
• Akram, M.U., Yılmaz R., Salantur A., Uygun Ü., Bioactive compounds in lipids of selected wheat genotypes, Food Science and Technology (2023).
• Hançerlioğulları, B.Z., Yılmaz R., Analyses of Metabolites in Microwave-treated Maize Flour. Food and Bioprocess Technology (2023).
• Işık, Ö. and R. Yılmaz,Tarhana Microbiota–Metabolome Relationships: An Integrative Analysis of Multi-Omics Data. Food Biotechnology (2023).
• Hançerlioğulları, B.Z., Yılmaz, R. Screening of P-35S, P-FMV, and T-NOS genetic elements in microwave-treated genetically modified cereal flours. Molecular Biology Reports (2023).
• Cerit, Z. , Baloğlu, M. C. & Yılmaz, R. (2021). BEYAZ PEYNİR MİKROBİYOTASINDA KÜLTÜROMİK VE SHOTGUN METAGENOMİK TEKNOLOJİLERİN DEĞERLENDİRİLMESİ . Gıda , 46 (3) , 566-582 . DOI: 10.15237/gida.GD20136.
• Yılmaz, R., Modern biotechnology breakthroughs to food and agricultural research in developing countries,GM Crops & Food 10:12–16, 2019
• Yılmaz, R., Bayraç, C., Başman, A., & Köksel, H. (2019). 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.
• Varol, D., Purutçuoğlu, V., & Yılmaz, R. (2018). Transcriptomic analysis of the heat stress response for a commercial baker’s yeast Saccharomyces cerevisiae. Genes & genomics, 40, 137-150.
• YILMAZ, R., Bayraç, C., & Yucel, M. (2017). Single laboratory method performance evaluation for the analysis of roundup ready (R) soy flour by qualitative and quantitative detection methods. Quality Assurance and Safety of Crops & Foods, 9(3).
• Yilmaz, R. (2017). DNA barcoding for MPR fruits and vegetables. Minimally Processed Refrigerated Fruits and Vegetables, 639-649.
• Yılmaz R.Temiz A, Açık L., Çelebi A., Keskin., Genetic Differentiation of Lactobacillus delbrueckii subsp. bulgaricus and Streptococcus thermophilus Strains Isolated from Raw Milk Samples Collected from Different Regions of Turkey, 2015.
• Şenyurt, Ö., Eyidoğan, F., Yılmaz, R., Öz, M.T., Özalp, V.C., Arıca, Y. and Öktem, H.A. (2015), Development of a paper-type tyrosinase biosensor for detection of phenolic compounds.
• Yilmaz R, Cabi E, Dogan M, Molecular analyses of the genera Eremopyrum (LEDEB.) Jaub. & Spach and Agropyron Gaertner (Poaceae) by PCR methods, 2014.
• R Yılmaz, O Akça, MC Baloğlu, MT Öz, HA Öktem, M Yücel, Optimization of yeast (Saccharomyces cerevisiae) RNA isolation method for real-time quantitative PCR and microarray analysis, 2014.
• Yılmaz R., Ataseven L., Ortak Çalışma ve Ekip Bilimi: From Theory to Practice Collaboration and Team Science: From Theory to Practice, 2013.
• S Cansız, C Özen, C Bayraç, AT Bayraç, F Gül, Kavruk M., Yilmaz R., Eyidogan F., Öktem HA., A sandwich-type DNA array platform for detection of GM targets in multiplex assay, 2012.
• Oktem HA, Senyurt O, Eyidogan FI, Bayrac C, Yilmaz R., Development of a laccase based paper biosensor for the detection of phenolic compounds, 2012.
• Yılmaz R., Bayraç C., Mutlu P., Boy E., Yücel M., Verification of GMO analytical methods: DNA isolation and quantitative detection methods for Roundup Ready soy flour,2012 
• Yılmaz R., Akça O., Baloğlu,M.C., Öz M.T., Öktem H.A., Yücel M., Optimization of yeast (Saccharomyces cerevisiae) RNA isolation method for real-time quantitative PCR andmicroarray analysis, 2012.
• Gürakan G.C., Aydin G., Yilmaz R., Qualitative detection of GM maize (Bt11) in food and feed sold commercially in Turkey by PCR based methods, 2011.
• Çalık P, Bayraktar E, İnankur B, Soyaslan E.Ş., Şahin M, Taşpınar H, Açık E, Yılmaz R, Özdamar T.H., Influence of pH on recombinant human growth hormone production by Pichia pastoris, 2010.
• Farhoud J.H., Gültekin G.C., Yılmaz R., Genetiği değiştirilmiş mısır çeşidi Mon810'un real time PCR metodu ile tespiti ve kantifikasyonu için Taqman prob geliştime ve optimizasyonu, 2010.
• Yilmaz R., Temiz A.,  Genetiği Değiştirilmiş Mikroorganizmalar, 2010.
• Bayraktar E., Calik P., Yılmaz R., Ozdamar T.,Effects of methanol + sorbitol on recombinant human growth hormone production by Pichia pastoris Mut+ ,2009
• MT Öz, R. Yılmaz, F. Eyıdogan, LD Graaf, M Yücel, HA Öktem, Microarray analysis of late response to boron toxicity in barley (Hordeum vulgare L.) leaves, 2009.
• MT Öz, R. Yılmaz, F. Eyıdogan, LD Graaf, M Yücel, HA Öktem, Late Response to boron toxicity in barley leaves, 2009.
• Baran M., Yilmaz R., The biosafety policy on genetically modified organisms in Turkey, 2008.
• Yilmaz R., Yucel M., Oktem H.A., Quality assessment of gene expression data for an affymetrix platform with the two sample t-tests statistical analysis, 2008.
• A Temiz, R Yilmaz, Whey crystalline lactose as a main constituent in growth and counting media for lactococci and Streptococcus thermophilus, 2007.
• Açik L., Temiz A., Çelebi A., Arslan S., Yilmaz R., Protein Patterns and Plasmid Profiles of the Bacterial Strains Isolated from a Poultry Slaughterhouse in Ankara, Turkey, 2005.
• Yılmaz R., Gürakan C., Aydın G. , Genetik Yapısı Değiştirilmiş Organizmalar : Bt11-Mısır ve Türkiye’de Durum,2004 
• Temiz A., Yilmaz R., Saglam N., Ulger C., High fructose syrup production from whey lactose using microbial beta-galactosidase and glucose isomerase, 2003.
• Temiz A., Yilmaz R. Streptococcus salivarius subsp. thermophilus ve Lactobacillus delbrueckii subsp. bulgaricus ’un Klasik ve Moleküler Yöntemler Kullanılarak Tanımlanması ve Karakterizasyonu, 2023
• Temiz A., Yilmaz R, Lactose crystallization from deproteinized whey in an ethanol-water system, 1997 

 PRESENTATIONS

• 'R' Yılmaz, ''Alternative Food Source Types and Production Technologies'', 11th International Congress of Nutrition and Dietetics, October 11 2024.
• 'R' Yılmaz, ''Food Biotechnology for Food Future'', Circular Bioeconomy in the Climate Agenda, October 3-4 2024.
• ''Ö'' Işık Doğan, “R Yılmaz, ‘’Investigation of Traditional Usak Tarhana Microbiota with Metagenomic Approaches‘’, 13th Food Engineering Congress 02-04 November 2023.
• ''BZ'' Hançerlioğulları, “U” Toprak, “R Yılmaz, ‘’Quantitative Evaluation of Primary and Secondary Metabolites in Corn Flour‘’, 13th Food Engineering Congress 02-04 November 2023
• ''BZ'' Hançerlioğulları, “U” Toprak, “R Yılmaz, ‘’Determination of Primary Metabolite Profile of Genetically Modified MON810 Maize Flour‘’ ,22nd International Participatory Biotechnology Congress, October 20-22, 2023.
• ''B'' Sayman, “R Yılmaz, ‘’Determination of Quality Parameters in Fermented Products with Soybean Additives Using S. cerevisiae and S. boulardii‘’ 22nd Biotechnology Congress with International Participation, October 20-22, 2023.
• 'B' Yılmaz, 'R' Yılmaz, ''Detection of Cas9 gene of CRISPR-Cas Type II-C subtype in Streptococcus thermophilus strains by RT-qPCR'' , 22nd Biotechnology Congress with International Participation, October 20-22, 2023.
• ''IC'' Yesildag, “R Yılmaz, “H Akın, ‘S Yazıcı, ’‘Determination of the Composition of Fruit Juice Industry Wastes for the Production of High Value Added Products’', 22nd International Participatory Biotechnology Congress, October 20-22, 2023.
• “EB”, Muyanlı, ‘R’ Yılmaz, ‘’ADH2 and ADH5 Gene Expression Profile and Technological Properties of Saccharomyces cerevisiae Strains‘’, 22nd International Participatory Biotechnology Congress, October 20-22, 2023.
• “BZ”. Hançerlioğulları, “U”. Toprak, “R”. Yılmaz, “The Effect of Microwave Application on Gene Expression Levels of Argonaut (AGO1a) and Phosphoglycerate Kinase (Pgk3) Genes in Maize (Zea mays L.) Flours”, 1st International Congress of Biotechnology Studies (ICBIOS) November 9-11, 2022. 
• “EB”, Muyanlı, ‘R’ Yılmaz, ‘Differences in Technological Properties between Saccharomyces cerevisiae and Non-Saccharomyces Yeast’, 1st International Congress of Biotechnology Studies (ICBIOS), November 9-11, 2022.
• “ÖI” Doğan, ‘R’ Yılmaz, ‘Approaches to Metagenomic Investigation of Fermented Food Products’, 1st International Congress of Biotechnology Studies (ICBIOS), November 9-11, 2022.
• “B” Sayman, ‘R’ Yılmaz, ‘Using Real-Time PCR and High Resolution Melting Analysis for Identification and Differentiation of Saccharomyces boulardii Strains with AAD15 and MAL11 Genes’, 1st International Congress of Biotechnology Studies (ICBIOS), November 9-11, 2022.
• “B” Yılmaz, ‘R’ Yılmaz, ‘In silico CRISPR-Cas Based Screening of Lactococcus lactis ASM2046375v1’, 1st International Congress of Biotechnology Studies (ICBIOS), November 9-11, 2022.
• “İC” Yeşildağ, ‘R’ Yılmaz, ‘Protein Secretion Analysis of Bread Yeast Saccharomyces cerevisiae’, 1st International Congress of Biotechnology Studies (ICBIOS), November 9-11, 2022.
• “AB” Uğuz, ‘R’ Yılmaz, ‘Effect of Zinc Treatment on the Expression Levels of Some Enzyme Genes in Selected Wheat Varieties’, 1st International Congress of Biotechnology Studies (ICBIOS), November 9-11, 2022.
• “B” Sayman, ‘R’ Yılmaz, ‘FUNCTIONAL CHARACTERISTICS OF SACCHAROMYCES BOULARDII STRAINS USED IN SOYA-BASED FERMENTED FOOD PRODUCTS’,2nd NIZO Conference on Plant Protein Functionality, Proceedings Book (Page 77), October 11-13, 2022.
• “BZ”. Hançerlioğulları, “UH”. Toprak, “R”. Yılmaz, “Phenol Based Method for Isolation of High Quality RNA from Phenol MON810 and MIR604 Maize Varieties”, 2nd International/12th National Food Engineering Congress, Proceedings (Page 71), November 25-27, 2021       
• “EB”. Muyanlı, “R”. Yılmaz, “Response of Genes Associated with Aromatic Compound Synthesis Pathways in Yeast Saccharomyces cerevisiae to Heat Stress”, 21st International Participatory Biotechnology Congress 27-28 December 2021.
• “Y”. Taskin, “S”. Samaradivakara, “B”. Day, “R”. Yilmaz, “Use of Gold Nanoparticles of Different Size and Concentration for Cry1Ac Gene Detection”, 21st Biotechnology Congress with International Participation, December 27-28, 2021.
• “EB”. Muyanlı, “R”. Yılmaz, “Response of GABA Metabolism Pathway Genes to Heat Stress in Saccharomyces cerevisiae”, 2nd International / 12th National Food Engineering Congress, November 25-27, 2021.
• “Y”. Taskin, “S”. Samaradivakara, “B”. Day, “R”. Yılmaz, “DNA Based Nanobiosensor for Visual Detection of GMO level in Soybean MON87701 event”,2nd International/ 12th National Food Engineering Congress, November 25-27, 2021.
• “U”. Köroğlu, “S”. Sadikoglu, “EB”. Muyanlı, “R”. Yılmaz, “Synbiotic Ice Cream Production with Probiotics and Prebiotics”, 2nd International / 12th National Food Engineering Congress, November 25-27, 2021.
• ''R'' Yılmaz, NEW TECHNOLOGIES AND NEW FOODS IN FOOD INDUSTRY, Turkey Agricultural Engineering IX. Technical Congress Proceedings Book-2, 2020
• “Y”. Taskin, “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, Book of Proceedings (Page 57), October 10-12, 2019.
• “EB”. Muyanlı, “R”. Yılmaz, “DETECTION OF SUC2 GENE BY REAL-TIME PCR IN Saccharomyces cerevisiae yeast”, 20th Biotechnology Congress with International Participation, Book of Proceedings, October 10-12, 2019.
• “EB”. Muyanlı, “R”. Yılmaz, “AROMATIC AMINO TRANSFERASE I GENE (ARO8) IN Saccharomyces cerevisiae STRAINS”, 20th Biotechnology Congress with International Participation, Book of Proceedings, October 10-12, 2019.
• “AB”. Uğuz, “R”. Yılmaz, “Structural Bioinformatics Investigation of Enzymes Involved in the Biosynthesis Pathway of Flavonoids in Bread Wheat”, 20th Biotechnology Congress with International Participation, Book of Proceedings, October 10-12, 2019.
• “ZG”. Cerit, “MC”. Baloglu, “R”. Yilmaz, “Culturomix: A New Approach to Identify Lactococcus and Enterococcus Species Isolated from Dairy Plant”, 20th Biotechnology Congress with International Participation, Proceedings, October 10-12, 2019.

ONLINE COURSES

• Fermentation Academy Online Program, June 8, 2023 
• Life Cycle Analysis in the Food Sector: Online Short Course, January 27, 2023
• “BZ”. Hançerlioğulları, “R”. Yilmaz, “A”. Özcan, “C”. Taştan, “CRISPR-Cas and Bioethics”, CRISPR-Cas: Gene Editing Applications Online Short Course, January 09-10, 2021
• “EB”. Muyanlı, “R”. Yilmaz, “CRISPR-Cas: Gene editing for Saccharomyces cerevisiae”, CRISPR-Cas: Gene Editing Applications Online Short Course, January 09-10, 2021.
• “Y”. Taskin, “R”. Yılmaz, “An Overview of CRISPR-Cas and Plant Biotechnology”, CRISPR-Cas: Gene Editing Applications Online Short Course, January 09-10, 2021.

BOOK

• ''R''. Yılmaz, ''D''. Kütük, ''NN''. Yazğan, ''Genel Mikrobiyoloji Laboratuvarı Uygulamaları, Palme Yayınları, 2024

BOOK CHAPTER

• “R”. Yilmaz, “A”. Ozcan, “S”. Cakir, “EB”. Muyanlı, “Y”. Taskin, “AB”. Uğuz, “BZ”. Hançerlioğulları, “Novel Foods and CRISPR-Cas Gene/Genome Editing Technology”, FOOD - Science, Technology and Engineering Book, September 2022.
• Yilmaz R, Unal TT. Genetically modified organisms: Food, feed, traceability. Ögel ZB, editor. Food Biotechnology. 1st Edition. Ankara: Türkiye Klinikleri; 2021. p.17-21.
• ''R'' Yilmaz, “C Bayraç, Technical Guidelines for Risk Assessment of Genetically Engineering Crops and Derived Food and Feed (English), United Nations Environment Programme, TAGEM, 2018
• ''R'' Yilmaz, “D Lenz , Food Biotechnology : Communication Guide (Translation), International Food Information Council Foundation (IFIC),2017
• ''R'' Yilmaz, DNA: The Molecule of Life, Biology Abstract, Nobel, 2015
• ''HA'' Öktem, “F Eyidogan, “R Yilmaz, “MT Oz, “M Yücel, Biotechnology Sectoral Innovation System: Concepts, Examples from the World, Situation and Implications in Turkey, Biotechnology: Definition and Scope ,TTGV, 2013
• ''R'' Yilmaz, “F Eyidogan, “MT” Oz, “MC Baloğlu, Molecular Genetics of Gene Expression, Plant Biotechnology and Genetics: Principles, Techniques and Applications, Nobel, 2012
• ''MC'' Baloglu, “V Eser, “R Yilmaz, “F Eyidogan, “MT Öz, Transgenic Plant Analysis, Plant Biotechnology and Genetics: Principles, Techniques and Applications, Nobel (Translation), 2012
• ''HA'' Öktem, “R Yilmaz, “F Eyidogan, “MT Oz, “M Yücel, Genetically Modified Organism Analysis in Food Samples: Course Manual, 2010