Akademik Kadro

Prof. Dr. Zeynep Petek Çakar

Akademik Dereceler ve Çalışma Deneyimi/
Academic Degrees and Work Experience

Prof. Dr. – İstanbul Teknik Üniversitesi, Fen-Edebiyat Fakültesi, Moleküler Biyoloji ve Genetik Bölümü / Istanbul Technical University, Faculty of Science & Letters, Department of Molecular Biology & Genetics, Istanbul, Türkiye (2012 – halen/present)

Visiting Professor – University of Sassari, Department of Environmental, Agricultural Sciences and Agro-Food Biotechnology (DISAABA), Sassari, Italya/Italy (Mayıs 2011 / May 2011)

Doç. Dr. / Assoc. Prof. Dr. – İstanbul Teknik Üniversitesi, Fen-Edebiyat Fakültesi, Moleküler Biyoloji ve Genetik Bölümü / Istanbul Technical University, Faculty of Science & Letters, Department of Molecular Biology & Genetics, Istanbul, Türkiye (2006- 2012)

Yrd. Doç. Dr. / Assist. Prof. Dr. – İstanbul Teknik Üniversitesi, Fen-Edebiyat Fakültesi, Moleküler Biyoloji ve Genetik Bölümü / Istanbul Technical University, Faculty of Science & Letters, Department of Molecular Biology & Genetics, Istanbul, Türkiye (2001- 2006)

Doktora Sonrası Araştırma Görevlisi / Post doctoral research associate– Division of Biochemistry, Biocenter, University of Basel, Basel, Isviçre/Switzerland (2000-2001)

Araştırma görevlisi / Research and teaching assistant – Institute of Biotechnology, Swiss Federal Institute of Technology, ETH-Zürich, Zurich, Isviçre/Switzerland (1996-2000)

Araştırma görevlisi / Research and Teaching Assistant – Boğaziçi Üniversitesi, Kimya Mühendisliği Bölümü, (Bogazici University, Department of Chemical Engineering), Istanbul, Türkiye (1994-1996)

Doktora / Ph.D. (Dr. sc. nat. ETH Zurich) – Institute of Biotechnology, Swiss Federal Institute of Technology, ETH-Zurich, Zurich, Isviçre/Switzerland (2000)

Yüksek Lisans / M. Sc. – Boğaziçi Üniversitesi, Fen Bilimleri Enstitüsü, Kimya Mühendisliği Lisansüstü Programı, (Bogazici University, Institute of Graduate Studies in Science and Engineering, Graduate Program in Chemical Engineering), Istanbul, Türkiye (1996)

Lisans / B. Sc. – Boğaziçi Üniversitesi, Kimya Mühendisliği Bölümü, (Bogazici University, Department of Chemical Engineering), Istanbul, Türkiye (1994)

Lisans / B. Sc. (Çift Anadal Programı / Double Major Program) – Boğaziçi Üniversitesi, Moleküler Biyoloji ve Genetik Bölümü, (Bogazici University, Department of Molecular Biology & Genetics), Istanbul, Türkiye (1995)

Ortaöğretim / High school education – Istanbul (Erkek) Lisesi (1983-1990)

İlgi Alanları / Research Interests

• Mikrobiyal biyoteknoloji / Microbial biotechnology,
• Maya fizyolojisi ve genetiği / Yeast physiology and genetics,
• Metabolik mühendislik / Metabolic engineering,
• Sistem biyolojisi / Systems biology,
• Stres direnci / Stress resistance,
• Biyoetanol üretimi / Bioethanol production,
• Yaşlanmanın moleküler biyolojisi / Molecular biology of aging,
• Biyohidrojen üretimi / Biohydrogen production,
• Çevre biyoteknolojisi / Environmental biotechnology

Yayınlar

Turanli-Yildiz, B., Benbadis, L., Alkim, C., Sezgin, T., Aksit, A., Gokce, A., Ozturk, Y., Baykal, A.T., Cakar, Z.P., Francois, J.M. ‘In vivo evolutionary engineering for ethanol-tolerance of Saccharomyces cerevisiae haploid cells triggers diploidization.’, J. Biosci. Bioeng., 124, 309-318 (2017)

Gokce, A., Ozturk, Y., Cakar, Z.P. ‘Comparative genomic analysis of two heat-resistant Rhodobacter capsulatus mutants with different hydrogen production levels reveals mutations related to hydrogen production.’, Int. J. Hydrogen Energy, 42, 20529-20539 (2017)

Chessa, R., Landolfo, S., Ciani, M., Budroni, M., Zara, S., Ustun, M., Cakar, Z.P., Mannazzu, I. ‘Biotechnological exploitation of Tetrapisispora phaffii killer toxin: heterologous production in Komagataella phaffii (Pichia pastoris).’, Appl. Microbiol. Biotechnol., 101, 2931-2942 (2017)

Gokce, A., Cakar, Z.P., Yucel, M., Ozcan, O., Sencan, S., Sertdemir, İ., Erguner, B., Yuceturk, B., Sarac, A., Yuksel, B., Ozturk, Y., ‘Draft genome sequences of two heat-resistant mutant strains (A52 and B41) of the photosynthetic, hydrogen-producing bacterium Rhodobacter capsulatus’, Genome Announc., 4(3), e00531-16 (2016)

Biros, Y., Cokgor, E.U., Yagci, N., Pala-Ozkok, I., Cakar, Z.P., Sozen, S., Orhon, D. ‘Effect of acetate to biomass ratio on simultaneous polyhydroxybutyrate generation and direct microbial growth in fast growing microbial culture.’, Bioresource Technol., 171, 314-322, (2014)

Pala-Ozkok, I., Ubay-Cokgor, E., Cakar, Z.P., Orhon, D. ‘Acute impact of erythromycin on substrate utilization by activated sludge: effect of sludge age.’ J. Chem. Technol. Biotechnol., 89, 1091-1102, (2014)

Demirkapi, D., Sirin, A., Turanli-Yildiz, B., Cakar, Z.P., Sesalan, B.S. ‘The synthesis of new silicon phthalocyanines and analysis of their photochemical and biological properties.’, Synthetic Metals, 187, 152-159, (2014)

Kucukgoze, G., Alkim, C., Yilmaz, U., Kisakesen, H.I., Gunduz, S., Akman, S., Cakar, Z.P. ‘Evolutionary engineering and transcriptomic analysis of nickel-resistant Saccharomyces cerevisiae.’, FEMS Yeast Res., 13, 731-746, (2013)

Alkim, C., Benbadis, L., Yilmaz, U., Cakar, Z.P., Francois, J.M. ‘Mechanisms other than activation of the iron regulon account for the hyper-resistance to cobalt of a Saccharomyces cerevisiae strain obtained by evolutionary engineering.’, Metallomics, 5, 1043-1060, (2013)

Gokce, A., Ozturk, Y., Cakar, Z.P., Yucel, M. ‘Temperature resistant mutants of Rhodobacter capsulatus generated by a directed evolution approach and effects of temperature resistance on hydrogen production.’, Int. J. Hydrogen Energy, 37, 16466-16472 (2012)

Cakar, Z.P., Turanli-Yildiz, B., Alkim, C. Yilmaz, U. ‘Evolutionary engineering of Saccharomyces cerevisiae for improved industrially important properties’, (Invited mini-review), FEMS Yeast Res., 12, 171-182 (2012)

Turanli-Yildiz, B., Sezgin, T., Cakar, Z.P., Uslan, C., Sesalan, B.S., Gul, A. ‘The use of novel photobleachable phthalocyanines to image DNA’, Synthetic Metals, 161, 1720-1724 (2011)

Sen, M., Yilmaz, U., Baysal, A., Akman, S., Cakar, Z.P. ‘In vivo evolutionary engineering of a boron-resistant bacterium: Bacillus boroniphilus.’, Antonie van Leeuwenhoek, 99, 825-835 (2011)

Çakar, Z.P. , Alkım, C., Turanlı, B., Tokman, N., Akman, S., Sarıkaya, M., Tamerler, C., Benbadis, L., François, J.M. 2009. Isolation of cobalt hyper-resistant mutants of Saccharomyces cerevisiae by in vivo evolutionary engineering approach. J. Biotechnol. 143: 130-138.

Çakar, Z.P. 2009. Metabolic and evolutionary engineering research in Turkey and beyond. Biotechnol. J. 4: 992-1002 (review article).

Üçışık-Akkaya, E., Ercan, O., Yeşiladalı, S.K., Öztürk, T., Ubay-Çokgör, E., Orhon, D., Tamerler, C., Çakar, Z.P. 2009. Enhanced polyhydroxyalkanoate production by Paracoccus pantotrophus from glucose and mixed substrate. Fresenius Environ. Bulletin 18: 2013-2022.

Pala, I., Kolukırık, M., İnsel, G., İnce, O., Çakar, Z.P. , Orhon, D. 2008.Fluorescence in situ hybridization for the assessment of nitrifying bacteria in a pilot-scale membrane bioreactor. Fresenius Environ. Bulletin 17: 2255-2261.

Insel, G., Çelikyılmaz, G., Ucisik-Akkaya, E., Yesiladali, K, Çakar, Z.P. , Tamerler, C., Orhon, D. 2007. Respirometric evaluation and modeling of glucose utilization by Escherichia coli under aerobic and mesophilic cultivation conditions. Biotechnol. Bioengin. 96: 94-105.

Akar, A., Üçışık Akkaya, E., Yeşiladalı, S.K., Çelikyılmaz, G., Ubay Çokgör, E., Tamerler, C., Orhon, D., Çakar, Z.P. 2006. Accumulation of polyhydroxyalkanoates by Microlunatus phosphovorus under various growth conditions. J. Ind. Microbiol. Biotechnol. 33: 215-220.

Çakar, Z.P. , Şeker, U.Ö.Ş., Tamerler, C., Sonderegger, M., Sauer, U. 2005. Evolutionary engineering of multiple-stress resistant Saccharomyces cerevisiae. FEMS Yeast Res. 5: 569-578.

Chatenay-Rivauday, C., Çakar, Z.P. , Jeno, P., Kuzmenko, E.S., Fiedler, K. 2004. Caveolae: biochemical analysis. Mol. Biol. Rep. 31: 67-84.

Kuzmenko, E.S., Djafarzadeh, S., Çakar, Z.P. , Fiedler, K. 2004. LDL transcytosis by protein membrane diffusion. Int. J. Biochem. Cell Biol. 36: 519-534.

Fiaux, J., Çakar, Z.P. , Sonderegger, M., Wuethrich, K., Szyperski, T., Sauer, U. 2003. Metabolic flux profiling of the yeasts Saccharomyces cerevisiae and Pichia stipitis. Eukaryotic Cell. 2: 170-180.

Maaheimo, H., Fiaux, J., Çakar, Z. P., Bailey, J. E., Sauer, U., Szyperski, T. 2001. Central carbon metabolism of Saccharomyces cerevisiae explored by biosynthetic fractional 13C labeling of common amino acids. Eur. J. Biochem. 268: 2464-2479.

Çakar, Z. P., Sauer, U., Bailey, J. E., Mueller, M., Stolz, M., Wallimann, T., Schlattner, U. 2000. Vacuolar morphology and cell cycle distribution are modified by leucine limitation in auxotrophic Saccharomyces cerevisiae. Biol. Cell 92: 629-637.

Çakar, Z. P., Sauer, U., Bailey, J. E. 1999. Metabolic engineering of yeast: the perils of auxotrophic hosts. Biotechnol. Lett. 21: 611-616.

Kitap Bölümleri / Book Chapters

Bölüm yazarları / Chapter authors: Turanli-Yildiz, B., Hacisalihoglu, B., Cakar, Z.P., Bölüm başlığı / Chapter title: ‘Advances in metabolic engineering of Saccharomyces cerevisiae for the production of industrially and clinically important chemicals’, Kitap adı / Book title: Yeast (editors: Candida Lucas and Celia Pais), InTech Publishers, (baskıda / in press ), ISBN: 978-953-51-5515-7.

Bölüm yazarları / Chapter authors: Cakar, Z.P., Sonmez, B., Bölüm başlığı / Chapter title: ‘Microfluidics and its applications in bionanotechnology’, Kitap adı / Book title: Low-dimensional and nanostructured materials and devices properties, synthesis, characterization, modelling and application (editors: Hilmi Unlu, Norman JM Horing, Jaroslaw Dabowski), Springer International Publishing, 2016, ISBN:978-3-319-25338-1 (Print).

Bölüm yazarları / Chapter authors: Alkim, C., Turanli-Yildiz, B., Cakar, Z.P., Bölüm başlığı / Chapter title: ‘Evolutionary engineering of yeast’, Kitap adı / Book title: Yeast Metabolic Engineering Methods and Protocols (editor: Valeria Mapelli), Springer Protocols, (Methods in Mol. Biology, Vol. 1152, 2014), Humana Press, 2014, ISBN: 978-1-4939-0562-1 (Print), 978-1-4939-0563-8 (Online).

Bölüm yazarları / Chapter authors: Turanli-Yildiz, B., Alkim, C., Cakar, Z.P., Bölüm başlığı / Chapter title: ‘’Protein engineering methods and applications’’, Kitap adı / Book title: Protein Engineering (editor: Prof. Dr. Pravin T.P. Kaumaya), InTech Publishers, 2012, ISBN: 978-953-307-830-4

Ödüller / Awards

En İyi Poster Üçüncülük Ödülü / Third best poster award, Poster başlığı / Poster title: Chronological life span of stress-resistant Saccharomyces cerevisiae mutants obtained by inverse metabolic engineering, Yazarlar / Authors: M. Arslan, Y. Surmeli, A. Topaloglu ve Z.P. Cakar, Uluslararası İTÜ Moleküler Biyoloji ve Genetik Öğrenci Kongresi’17 / International ITU Molecular Biology & Genetics Student Congress’17, 6-8 Ekim/October 2017, Istanbul, Turkey.

Kayda Değer Telif Eser Ödülü (Mansiyon) / Honorable Mention for the Best Books Authored (Kitap adı / Book title: Gıda Biyoteknolojisi / Food Biotechnology, Editor: N. Aran, Bölüm yazarları / Chapter authors: Yesiladali S.K., Cakar, Z.P., Tamerler, C., Bölüm başlığı / Chapter title: Gıda Endüstrisinde Fermentasyon Teknolojileri / Fermentation Technologies in Food Industry), Türkiye Bilimler Akademisi (TÜBA) / the Turkish Academy of Sciences (TUBA), Turkey, 2014.

Eser Tümen Üstün Başarı Ödülü (Biyoloji Alanı) / Eser Tümen Excellence Award in Biology: ‘Metabolic engineering of industrially important microorganisms‘, Feyzi Akkaya Scientific Activities Support Fund (FABED), Turkey, 2012.

Plastik Teknolojileri Araştırma Mansiyon Ödülü / Honorable Mention for Research on Plastic Technologies, Türk Plastik Sanayicileri Araştırma Geliştirme ve Eğitim Vakfı / Turkish Plastic Industry Foundation (PAGEV), Turkey, 2005.

Bölüm Birinciliği, Boğaziçi Üniversitesi, Moleküler Biyoloji ve Genetik Bölümü (Çift Anadal Programı) / Highest grade point average (GPA) in the graduating class of Molecular Biology and Genetics (Double Major Program), Bogazici University, Istanbul, Turkey, 1995.

Bölüm İkinciliği, Boğaziçi Üniversitesi, Kimya Müh. Bölümü / Honours degree, second highest grade point average (GPA) in the graduating class of Chemical Engineering, Bogazici University, Istanbul, Turkey, 1994.

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