Adress

• Department of General Biochemistry
• Faculty of Biochemistry, Biophysics and Biotechnology
• Jagiellonian University
• ul. Gronostajowa 7
• 30-387 Kraków
• Room: C145
• Phone: 12 664 62 18
• E–mail: mateusz.wilamowski@uj.edu.pl

Research Gate

https://www.researchgate.net/profile/Mateusz-Wilamowski

Google Scholar

https://scholar.google.com/citations?user=ENmztlQAAAAJ&hl=pl

Education

2013 – Mar 1^st 2019   Doctorate in Biochemistry at the Faculty of Biochemistry, Biophysics and Biotechnology of the Jagiellonian University.

2008 - 2013                Graduate of Biophysics at the Faculty of Biochemistry, Biophysics and Biotechnology of the Jagiellonian University.

Employment

Oct. 2020 – present       Adjunct at the Faculty of Biochemistry, Biophysics and Biotechnology of the Jagiellonian University

Jun 2019 – Oct. 2020     Postdoctoral scholar in the Department of Biochemistry and Molecular Biology at the University of Chicago

(PI: Prof. Andrzej Joachimiak)

Jun 2019 – Oct. 2020     Resident Associate in the Advance Protein Characterization  Facility at the Argonne National Laboratory

Jan 2019 – May 2019     Teaching Assistant in the Laboratory of General Biochemistry at the Jagiellonian University (PI: Prof. Jolanta Jura).

Oct 2017 – Dec 2018     Scientific Assistant in the Laboratory of General Biochemistry at the Jagiellonian University

Scholarships

Feb 2018 – Jun 2018  Graduate Student Program in the Structural Biology Center at the Argonne National Laboratory, USA (PI Prof. Andrzej Joachimiak)

Research Grants - Principal Investigator

• National Center of Science - Sonata 19: 2023/51/D/NZ1/00952: Structure of human N4BP1 ribonuclease together with RNA decapping proteins.
• Minigrant WBBiB POB BioS: U1U/P03/NO/64.28: Role of phosphorylation of the serine 344 of the MCPIP1 for its nuclease activity.

Awards

• 2022 - the third-degree prize awarded by the Rector of Jagiellonian University for scientific achievements
• 2019 - PhD Dissertation defended with honors
• 2017 - Jan Zurzycki Scholarship from the KNOW awarded for publications during doctoral studies

Research interests

Macromolecular crystallography, cryo-EM, cryoSPARC, serial synchrotron crystallography, time-resolved crystallography, recombinant protein expression and purification, structural genomics, mammalian protein expression systems, Expi293/ExpiCHO, protein chromatography, fluorescence spectroscopy, circular dichroism, molecular cloning, qPCR, western blot, immunoprecipitation, identification of protein complexes.

Publications

• 1. Pydyn, N., Ferenc, A., Trzos, K., Pospiech, E., Wilamowski, M., Mucha, O., Major, P., Kadluczka, J., Rodrigues, P. M., Banales, J. M., Herranz, J. M., Avila, M. A., Hutsch, T., Malczak, P., Radkowiak, D., Budzynski, A., Jura, J., & Kotlinowski, J. (2024). MCPIP1 Inhibits Hepatic Stellate Cell Activation in Autocrine and Paracrine Manners, Preventing Liver Fibrosis. Cellular and Molecular Gastroenterology and Hepatology, 17(6), 887–906.
• 2. Figiel, M., Szubert, F., Luchinat, E., Bonarek, P., Baranowska, A., Wajda-Nikiel, K., Wilamowski, M., Miłek, P., Dziedzicka-Wasylewska, M., Banci, L., Górecki, A. (2023). Zinc controls operator affinity of human transcription factor YY1 by mediating dimerization via its N-terminal region. Biochim Biophys Acta Gene Regul Mech. 1866(1):194905.
• 3. Wilamowski, M., Sherrell, D.A., Kim, Y., Lavens, A., Henning, R. W., Lazarski, K., Shigemoto, A., Endres, M., Maltseva, N., Babnigg, G., Burdette, S. C., Srajer, V.,  Joachimiak, A. (2022). Time-resolved β-lactam cleavage by L1 metallo-β-lactamase. Nature Communications, 13(1), 7379
• 4. Sherrell, D. A., Lavens, A., Wilamowski, M., Kim, Y., Chard, R., Lazarski, K., Rosenbaum, G., Vescovi, R., Johnson, J. L., Akins, C., Chang, C., Michalska, K., Babnigg, G., Foster, I.,  Joachimiak, A. (2022). Fixed-target serial crystallography at the Structural Biology Center. Journal of Synchrotron Radiation, 29(5), 1141–1151.
• 5. Wilamowski, M., Sherrell, D.A., Minasov, G., Kim, Y., Shuvalova, L., Lavens, A., Chard, R.,  Maltseva, N., Jedrzejczak, R.,  Rosas-Lemus, M., Saint, N.,  Foster, I.T., Michalska, K.,  Satchell, K.J.F, Joachimiak, A. (2021) 2′-O methylation of RNA cap in SARS-CoV-2 captured by serial crystallography. Proceedings of the National Academy of Sciences of the United States of America, 118 (21) e2100170118.
• 6. Wilamowski, M., Hammel, M., Leite, W., Zhang, Q., Kim, Y., Weiss, K.L., Jedrzejczak, R., Rosenberg, D.J., Fan, Y., Wower, J., Bierma, J.C., Sarker, A.H., Tsutakawa, S.E., Pingali, S.V., O'Neill, H.M., Joachimiak, A., Hura, G.L. (2021) Transient and stabilized complexes of Nsp7, Nsp8, and Nsp12 in SARS-CoV-2 replication. Biophysical Journal, 120(15), 3152 – 3165.
• 7. Kim, Y., Wower, J., Maltseva, N., Chang, C., Jedrzejczak, R., Wilamowski, M., Kang, S., Nicolaescu, V., Randall, G., Michalska, K., Joachimiak, A. (2021) Tipiracil binds to uridine site and inhibits Nsp15 endoribonuclease NendoU from SARS-CoV-2. Nature Communications Biology, 4(1), 193.
• 8. Hodge, C.D., Rosenberg, D.J., Grob, P., Wilamowski, M., Joachimiak, A., Hura, G.L.,Hammel, M. (2021) Rigid monoclonal antibodies improve detection of SARS-CoV-2 nucleocapsid protein. mAbs, 13(1), 1905978.
• 9. Dobosz, E., Wadowska, M., Kaminska, M., Wilamowski, M., Honarpisheh, M., Bryzek, D., Potempa, J., Jura, J., Lech, M., Koziel, J. (2021) MCPIP-1 Restricts Inflammation via Promoting Apoptosis of Neutrophils. Frontiers in Immunology, 12, 627922.
• 10. Gasiorek, A., Dobosz, E., Potempa, B., Ciaston, I., Wilamowski, M., Oruba, Z., Lamont, R., Jura, J., Potempa, J., Koziel, J. (2021) Subversion of LPS signaling in gingival keratinocytes via MCPIP-1 degradation as a novel pathogenic strategy of inflammophilic pathobionts, mBio
• 11. Kim, Y., Jedrzejczak, R., Maltseva, N.I., Wilamowski, M., Endres, M., Godzik, A., Michalska, K., Joachimiak, A. (2020) Crystal structure of Nsp15 endoribonuclease NendoU from SARS-CoV-2. Protein Science, 29(7), 1596-1605.
• 12. Pajdzik, K., Wilamowski, M., Żurawek, D., Stopa, K.B., Nodzyński, M., Kalita, A., Jura, J. (2020) Anterior gradient 2 promotes tumorigenesis through upregulation of CCAAT‐enhancer binding protein beta and hypoxia‐inducible factor‐2α and subsequent secretion of interleukin‐6, interleukin‐8, and vascular endothelial growth factor in the Caki‐1 clear cell renal cell carcinoma cell line. IUBMB Life, 72(8), 1807-1818.
• 13. Kim, Y., Maltseva, N., Wilamowski, M., Tesar, C., Endres, M., Joachimiak, A. (2020) Structural and biochemical analysis of the metallo-β-lactamase L1 from emerging pathogen Stenotrophomonas maltophilia revealed the subtle but distinct di-metal scaffold for catalytic activity. Protein Science, 29(3), 723-743.
• 14. Wilamowski, M., Gorecki, A., Dziedzicka-Wasylewska, M., Jura, J. (2018) Substrate specificity of human MCPIP1 endoribonuclease. Scientific Reports, 8:7381, 1-14.
• 15. Kotlinowski, J., Bukowska-Strakova, K., Koppolu, A., Kosińska, J., Pydyn, N., Stawinski, P., Wilamowski, M., Nowak, W., Józkowicz, A., Baran,J., Płoski,R., Jura,J. (2019) A novel monoallelic truncating mutation in the NFKB2 gene associated with subclinical common variable immunodeficiency. Frontiers in Genetics, 10, 140.
• 16. Lichawska-Cieslar, A., Pietrzycka, R., Ligeza, J., Kulecka, M., Paziewska, A., Kalita, A., Dolicka, D., Wilamowski, M., Miekus, K., Ostrowski, J., Mikula, M., Jura, J. (2018) RNA sequencing reveals widespread transcriptome changes in a renal carcinoma cell line. Oncotarget, 9, 8597–8613.
• 17. Lipert, B.*, Wilamowski, M.*, Gorecki, A., Jura, J. (2017) MCPIP1, alias Regnase-1 binds and cleaves mRNA of C/EBPβ. PLoS One, 12:3, 1-14.
• 18. Dobosz, E., Wilamowski, M., Lech, M., Bugara, B., Jura, J., Potempa, J., Koziel, J. (2016) MCPIP-1, Alias Regnase-1, Controls Epithelial Inflammation by Posttranscriptional Regulation of IL-8 Production. Journal of Innate Immunity., 8, 564-578.
• 19. Górecki, A., Bonarek, P., Górka, A. K., Figiel, M., Wilamowski, M., Dziedzicka-Wasylewska, M. (2015) Intrinsic disorder of human Yin Yang 1 protein. Proteins: Structure, Function, and Bioinformatics., 83, 1284–1296.

Oral Presentations at Scientific Meetings

• 1. Wilamowski, M. et al. Mechanism of N4BP1 RNase action as a component of decapping complex, COINS; Wilno, Lithuania 2025
• 2. Wilamowski, M. et al. The molecular mechanism underlying N4BP1’s RNase activity in selected protein complexes, Nexus of Science Meetup, Krakow, Poland 2025
• 3. Wilamowski, M. et al. Understanding the structure of N4BP1 and its role as an RNase in mRNA Decapping, RNA Biology and Medicine - Symposium, Krakow, Poland 2025
• 4. Wilamowski, M. et al. Structural Insights into N4BP1 as an RNase within the mRNA Decapping Machinery, 2nd Polish RNA Biology Meeting; Poznan, Poland 2025
• 5. Wilamowski, M. et al. Roles of MCPIP1 and N4BP1 endonucleases in mRNA turnover: insights into their complexes, Protein DICES, Warsaw, Poland 2025
• 6. Wilamowski, M. et al. Time-resolved Cleavage of β-lactam Antibiotic by Metallo β-lactamase from S. maltophilia. EMBO Workshop - Time-resolved spectroscopy meets time-resolved crystallography: The future of dynamic photobiology, Heidelberg, Germany 2023
• 7. Wilamowski, M. et al. Time-Resolved Snapshots of Antibiotic Cleavage by L1 Metallo-β-Lactamase, APS users meeting, Argonne National Laboratory, USA 2021
• 8. Wilamowski, M. et al. Pink Beam Serial Crystallography Revealed Enzymatic States of L1 Metallo-β-Lactamase During Moxalactam Hydrolysis, BioCARS Seminars, Chicago, USA 2021
• 9. Wilamowski, M. et al. Serial Crystallography Reveals Cap Methylation in SARS-CoV-2, The Joint Meeting of the Polish Synchrotron Radiation Society and SOLARIS Users, Krakow, Poland 2020
• 10. Wilamowski, M. et al. Methylation of viral mRNA Cap by Nsp10/16 2′O MTase from SARSCoV-2, XLVIII Winter School From Proton to Proteome, Krakow, Poland 2021
• 11. Wilamowski, M. et al. Progress on MCPIP1 endoribonuclease, Argonne National Laboratory, USA 2018

Poster Presentations at Scientific Meetings

• 1. Graca, A., Pilat, P., Jura, J., Wilamowski, M., „RNA meets protein Decay” EMBO; Vienna, Austria 2025
• 2. Pilat, P., Wilamowski, M., Jura, J., N4BP1 RNase uses tandem KH domains to associate with EDC4 and mRNA decapping factors in P-bodies, FEBS Open Bio 15, Istanbul, Turkey 2025
• 3. Graca, A., Jura, J., Wilamowski, M. Role of zinc ions in the structure and activity of the MCPIP1 dimer, 52nd Winter School „Biotechnology today – from molecules to organisms”, Krakow, Poland 2025
• 4. Graca, A., Pilat, P., Jura, J., Wilamowski, M. Comparing bacterial and mammalian expression systems to study the mechanism of N4BP1 in the mRNA decapping complex, 6th BIO Life Science Congress, Poznan, Poland 2025
• 5. Rapacz, K., Graca, A., Jura, J., Wilamowski, M. Investigation of the mechanism of interaction between EDC4 and N4BP1 RNase by analyzing the structure of EDC4, and determination of the significance of its structural motifs in the complex with N4BP1, Nexus of Science Meetup, Krakow, Poland 2025
• 6. Pilat, P., Wilamowski, M., Jura, J., KH domains-mediated association of N4BP1 with the mRNA decapping machinery, 2nd Polish RNA Biology Meeting; Poznan, Poland 2025
• 7. Pilat, P., Wilamowski, M., Jura, J., N4BP1 RNase utilizes tandem KH domains to interact with EDC4 and mRNA decapping factors In P-Bodies, COINS; Wilno, Lithuania 2025
• 8. Galka, M., Horbulia, Y., Kwitniewski, M., Jura, J., Wilamowski, M., From prediction to verification: bioinformatic analysis of Regnase-1 as an example of the necessity to integrate computational modeling and experimental research, BioMeeting, Maslow, Poland 2025
• 9. Gałka, M., Grzesiak, A., Yakymenko, D,. Zhuravel, M., Kowalska, M., Natanek, D., Horbulia, Y., Wilamowski, M., Analiza strukturalna wariantu polimorficznego ludzkiego białka RIO2 zaangażowanego w dojrzewanie podjednostki pre-40S rybosomu, Nexus of Science Meetup, Krakow, Poland 2025
• 10. Gałka, M., Grzesiak, A., Zhuravel, M., Kowalska, M., Natanek, D., Horbulia, Y., Wilamowski, M., Bioinformatyczna analiza strukturalno-funkcjonalna wariantu polimorficznego ludzkiego białka Rio2 zaangażowanego w dojrzewanie podjednostki pre-40S rybosomu, Ogólnopolska Konferencja "Biotechnologia niejedno ma imię", Poznan, Poland 2025
• 11. Pilat, P., Wilamowski, M., Jura, J., N4BP1 RNase binds to EDC4 and decapping complex in P-bodies, FEBS Open Bio 14, Milano, Italy 2024
• 12. Joachimiak, A., Osipiuk, J., Wilamowski, M., Maltseva, N., Tesar, C., Chang, C., Endres, M., Stols, L., Tan, K., Michalska, K., Kim, Y. Structural studies of SARS-CoV-2 proteins and their complexes, XXVI IUCr Congress, Melbourne, Australia 2023
• 13. Pilat, P., Wilamowski, M., Jura, J., Investigation of the role of N4BP1 protein in P-bodies, FEBS Open Bio 13, Tours, France 2023
• 14. Pilat, P., Wilamowski, M., Jura, J., Determination of cellular functions and localization of N4BP1 protein and identification of its binding partners, XLIX Winter School “Omics research – from methodology to application”, Krakow, Poland 2022
• 15. Pilat, P., Wilamowski, M., Jura, J., Identification of partners interacting with N4BP1 protein and determination of its cellular functions and localization. Gliwice Scientific Meetings, Gliwice, Poland 2021
• 16. Pajdzik, K., Wilamowski, M., Stopa, K., Nodzynski, M., Jura, J., Anterior gradient 2 stabilizes the hypoxia-inducible factor-2 alpha in a human clear cell renal carcinoma cell line Caki-1, FEBS Open Bio 9, Krakow, Polska 2019
• 17. Tyka, K., Brydde, T.H., Wilamowski, M., Jura, J., Marzec, T., Gurgul-Convey, E., MCPIP1 regulates insulin biosynthesis and glucose-stimulated insulin secretion, FEBS Open Bio 9, Krakow, Polska 2019
• 18. Wilamowski, M., Górecki, A., Jura, J. 18th Annual RiboClub Meeting in Orford, Canada 2017
• 19. Wilamowski, M., Górecki, A., Jura, J. EMBO | EMBL Symposium: The Complex Life of mRNA; EMBL Heidelberg, Germany 2016

Workshops

• RNA-Seq Data Analysis Workshop; Uniwersytet Jagielloński, Kraków, 2019
• MST Symposium & Workshop; Nano Temper Technologies, Kraków, 2015

Others

• Advisor of Diploma Theses at Jagiellonian University – defended 2 MSc and 4 BSc
• Scientific Advisor to N.zyme – Biochemistry Student’s Association at Jagiellonian University
• awarded beamtime at free-electron laser LCLS, synchrotrons APS, SSRL, and neutron light source NLS in the USA.