Igor Stuparević, PhD

Biography

PERSONAL DATA

Home address                                                          Work address
Zorkovačka 4                                                           Pierottijeva 6
10 000 Zagreb, Croatia                                             10 000 Zagreb, Croatia
E-mail: istupare@gmail.com                                      istuparevic@pbf.hr
Telephone: +385 98 980 35 49                                  +385 1 4605 153

                                                                              Web page: www.sccwtrans.pbf.hr

RESEARCH INTERESTS

• Study of microbiology and biochemistry of the yeast cell wall
• Study of yeast cell wall transcriptome
• Investigation of interaction among cell wall constituents that may be responsible for the incorporation of proteins into the cell wall
• Study of various mRNA processing and packaging events known as mRNP biogenesis
• Study of the mechanism controlling Rrp6 protein localization and stability
• The functional characterization of selected meiotic lncRNAs that are targeted by Rrp6 during mitosis
• Investigation the roles of lncRNAs during reproduction
• Investigation of role of different proteins which assists Rrp6p in the targeting and degradation of aberrant mRNPs
• Study of co-transcriptional recruitment of exosome cofactors

EDUCATION

2004-2010, Faculty of Science, University of Zagreb, Croatia; PhD biochemistry
Thesis: Identification and role of alkali-extractable Saccharomyces cerevisiae cell wall proteins
Supervisor: Dr. Vladimir Mrša

1998-2004, Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia
MSc molecular biotechnology, with Major in Molecular Biology, Biochemistry, Genetics and Microbiology

WORK EXPERIENCE

Research

March 2021 – present, Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia

• Associate professor
• Field: yeast cell wall transcriptome
• Courses: Molecular Biology; Biochemistry I; Biochemistry II; Protein Purification and Characterization; Biochemical Analytics
• Main tasks: facilitation of problem solving and quantitative analysis, demonstration of different laboratory methods and techniques, presentation of seminaries, consultations for students and participation in monitoring of students’ achievement
• Approximately 300 work hours per year

March 2016 – 2021, Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia

• Assistant professor
• Field: yeast cell wall transcriptome
• Courses: Molecular Biology; Biochemistry I; Biochemistry II; Protein Purification and Characterization; Biochemical Analytics
• Main tasks: facilitation of problem solving and quantitative analysis, demonstration of different laboratory methods and techniques, presentation of seminaries, consultations for students and participation in monitoring of students’ achievement
• Approximately 300 work hours per year

 January 2015 – March 2016, Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia

• Researcher and Teaching Assistant
• Field: mRNP biogenesis and yeast cell wall
• Courses: Molecular Biology; Biochemistry I; Biochemistry II; Protein Purification and Characterization; Biochemical Analytics

 February 2013 –December 2014 Inserm U1085-IRSET, University of Rennes 1, F-35042 Rennes, France

• Postdoctoral researcher
• Field: meiotic progression via transcriptional regulation in yeast
• Methodology used: Immunofluorescent staining, Fluorescence activated cell sorting, ChIP (chromatin immunoprecipitation), micromanipulation, molecular biology techniques (RNA and DNA manipulation and cloning), SDS-PAGE and Western blot

 Mai 2012 – January 2013,Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia

• Researcher and Teaching Assistant
• Field: molecular organization of yeast cell wall
• Methodology used: yeast culture and genetics, protein isolation from yeast cell wall, SDS-PAGE and Western blot , molecular biology techniques (DNA manipulation and cloning), protein purification (ion  exchange, gel  chromatography and affinity chromatography), microscopy
• Courses: Biochemistry I; Protein Purification and Characterization

 November 2010 -  April 2012, CNRS, CBM (Centre de Biophysique Molécularie), Orleans, France

• Postdoctoral researcher
• Field: transcription elongation and mRNP biogenesis
• Methodology used: RNA isolation and manipulation, Northern blot analysis, ChIP (chromatin immunoprecipitation), micromanipulation, molecular biology techniques (DNA manipulation and cloning), SDS-PAGE and Western blot

 December 2004 – October 2010, Faculty of Science, University of Zagreb, Croatia

• PhD student
• Field: molecular organization of yeast cell wall
• Methodology used: yeast culture and genetics, protein isolation from yeast cell wall and Western blot analysis, molecular biology techniques (DNA manipulation and cloning), protein purification (ion exchange, gel chromatography and affinity chromatography), microscopy

 OTHER

Awards and fellowships
FEMS grant for 2nd FEMS Congress of European Microbiologists in Madrid 4-8 July 2006
Biotechnical Foundation Award for 2006
FEBS grant for 7th Young Scientist Forum “Molecular Networks” in Vienna 5-7 July 2007
University of Zagreb Rector’s Award 2002
Professional memberships
FEBS society, FEMS society
Languages
Croatian - mother tongue;English - active knowledge; German, Franch - passive knowledge

PUBLICATIONS

Stuparevic, I., Novačić, A., Rahmouni, A. R., Fernandez, A., Lamb, N., & Primig, M. Regulation of the conserved 3′‐5′ exoribonuclease EXOSC10/Rrp6 during cell division, development and cancer. // Biol Rev Camb Philos Soc. 2021 Feb 18.

Novačić A, Beauvais V, Oskomić M, Štrbac L, Le Dantec A, Rahmouni AR and Stuparević I. Yeast RNA exosome activity is necessary for maintaining cell wall stability through proper protein glycosylation. // Mol Biol Cell. 2021 Mar 1;32(5):363-375.

Stuparevic I, Moreau K and Rahmouni AR. Use of bacterial Rho helicase to gain new insights into the targeting mechanism of nuclear RNAs by the exosome-associated exoribonuclease Rrp6 and its cofactors in yeast. // Periodicum biologorum, 2020, 147-153.

Novačić A, Vučenović I, Primig M, Stuparević I. Non-coding RNAs as cell wall regulators in Saccharomyces cerevisiae. // Crit Rev Microbiol. 2020 Jan 29:1-11.

Xie B, Becker E, Stuparevic I, Wery M, Szachnowski U, Morillon A, Primig M. The anti-cancer drug 5-fluorouracil affects cell cycle regulators and potential regulatory long non-coding RNAs in yeast. // RNA Biol. 2019 Feb 13:1-15.

Bubic, A, Mrnjavac, N, Stuparevic, I, Lyczek, M, Wielgus-Kutrowska, B, Bzowska, A, Luic, M, Asler, IL. In the quest for new targets for pathogen eradication: the adenylosuccinate synthetase from the bacterium Helicobacter pylori//J Enzym Inhib Med Ch. 2018 Sep;  33(1 ): 1405-1414.

Grbavac A, Čanak I, Stuparević I, Teparić R, Mrša V. Proteolytic processing of the Saccharomyces cerevisiae cell wall protein Scw4 regulates its activity and influences its covalent binding to glucan//Biochim Biophys Acta. 2017 Mar;1864(3):507-515.

Gely-Pernot A, Hao C, Becker E, Stuparevic I, Kervarrec C, Chalmel F, Primig M, Jégou B, Smagulova F. The epigenetic processes of meiosis in male mice are broadly affected by the widely used herbicide atrazine//BMC Genomics. 2015 Oct 30; 16:885.

Liu Y, Stuparevic I., Xie B., Becker E., Law M., Primig M. The conserved histone deacetylase Rpd3 and the DNA binding regulator Ume6 repress BOI1’s meiotic transcript isoform during vegetative growth in Saccharomyces cerevisiae// Mol Microbiol. 2015 May 96(4):861-74.

Stuparevic I., Becker E., Law M., Primig M. The histone deacetylase Rpd3/Sin3/Ume6 complex represses an acetate-inducible isoform of VTH2 in fermenting budding yeast cells// FEBS Letters 2015 Apr 2; 589(8):924-32.

Becker E., Liu Y., Lardenois A., Walther T., Horecka J., Stuparevic I., Law M., Lavigne R., Evrard B., Demougin P., Riffle M., Strich R., Davis RW, Pineau C., Primig M. Integrated RNA- and protein profiling of fermentation and respiration in diploid budding yeast provides insight into nutrient control of cell growth and development// Journal of Proteomics, 2015 Feb 4; 119C:30-44.

Lardenois A, Stuparevic I, Liu Y, Law MJ, Becker E, Smagulova F, Waern K, Guilleux MH, Horecka J, Chu A, Kervarrec C, Strich R, Snyder M, Davis RW, Steinmetz LM, Primig M. The conserved histone deacetylase Rpd3 and its DNA binding subunit Ume6 control dynamic transcript architecture during mitotic growth and meiotic development// Nucleic Acids Res. 2015 Jan 9; 43(1):115-28.

Mosrin-Huaman C, Hervouet-Coste N, Le Dantec A, Stuparevic I. and Rahmouni A.R. Bacterial Rho helicase: a new tool to dissect mRNP biogenesis and quality control in yeast// Trends in Cell and Molecular Biology 9 (2014) 79-93.

Stuparević, I., Mosrin-Huaman, C., Hervouet-Coste, N., Remenarić, M. and Rahmouni, A.R. Co-transcriptional recruitment of Rrp47p, Mpp6p and two distinct TRAMP complexes assists Rrp6p in the targeting and degradation of aberrant mRNPs // J. Biol. Chem. 288 (2013) 31816-31829.  

Teparić, R., Stuparević, I. and Mrša, V. Incorporation of homologous and heterologus proteins in Saccharomyces cerevisiae cell wall // Food Technology and Biotechnology 48 (2010) 317-328.

Kovacs, M., Stuparević, I., Mrša, V. and Maraz, A. Characterization of Ccw7p cell wall proteins and the encoding genes of Saccharomyces cerevisiae wine yeast strains // FEMS Yeast Research 8 (2008) 1115-1126.

Teparić, R., Stuparević, I. and Mrša, V. Binding assay for incorporation of alkali-extractable proteins in the Saccharomyces cerevisiae cell wall // Yeast 24 (2007) 259-266.

Teparić, R., Stuparević, I. and Mrša, V. Increased mortality of Saccharomyces cerevisiae cell wall protein mutants // Microbiol-SGM 10 (2004) 3145-3150.