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Identification

Personal identification

Full name
André Mateus

Citation names

  • Mateus, André

Author identifiers

Ciência ID
1D13-AD7D-015A
ORCID iD
0000-0001-6870-0677
Google Scholar ID
h34o6IgAAAAJ

Knowledge fields

  • Medical and Health Sciences - Basic Medicine - Pharmacology and pharmacy
  • Natural sciences - Biological Sciences - Molecular Biology
  • Natural sciences - Biological Sciences - Microbiology
  • Natural sciences - Biological Sciences - Biochemistry
Education
Degree Classification
2011/01/19 - 2016/04/22
Concluded
 Pharmaceutical Sciences (Doutoramento)
Uppsala Universitet, Sweden

Universidade de Lisboa, Portugal
"Intracellular unbound drug concentrations: methodology and application for understanding cellular drug exposure" (THESIS/DISSERTATION)
2004/09/01 - 2010/02/28
Concluded
 Pharmaceutical Sciences (Mestrado)
Universidade de Lisboa, Portugal
Affiliation

Science

Category
Host institution 		Employer
2022/02/01 - Current Principal Investigator (Research) Umeå Universitet, Sweden
Umeå Universitet, Sweden
2022/02/01 - Current Principal Investigator (Research) Laboratory for Molecular Infection Medicine Sweden, Sweden
Laboratory for Molecular Infection Medicine Sweden, Sweden
2017/02/01 - 2022/01/31 Postdoc (Research) European Molecular Biology Laboratory, Germany
European Molecular Biology Laboratory, Germany
2016/05/01 - 2016/12/31 Research Assistant (Research) Uppsala Universitet, Sweden
2011/01/01 - 2016/04/30 Research Trainee (Research) Uppsala Universitet, Sweden
Uppsala Universitet, Sweden
Projects

Grant

Designation Funders
2025/01/01 - 2029/12/31 Proteome functional characterization and modulation of the Archaeal microbiome
NA
Principal investigator
Knut Och Alice Wallenbergs Stiftelse
2023/05/01 - 2028/04/30 Proteome-wide Functional Interrogation and Modulation of Gut Microbiome Species
101076015
Principal investigator
European Research Council
Ongoing
2023/01/01 - 2026/12/31 Metabolism of carbohydrates by human gut microbiome species
2022-02958
Principal investigator
Umeå Universitet, Sweden
 Vetenskapsradet
Ongoing
Outputs

Publications

Journal article
  1. Nils Kurzawa; Isabelle Rose Leo; Matthias Stahl; Elena Kunold; Isabelle Becher; Anastasia Audrey; Georgios Mermelekas; et al. "Deep thermal profiling for detection of functional proteoform groups". Nature Chemical Biology (2023): https://doi.org/10.1038/s41589-023-01284-8.
    10.1038/s41589-023-01284-8
  2. Oihane Irazoki; Josy ter Beek; Laura Alvarez; André Mateus; Remy Colin; Athanasios Typas; Mikhail M. Savitski; et al. "d-amino acids signal a stress-dependent run-away response in Vibrio cholerae". Nature Microbiology (2023): https://doi.org/10.1038/s41564-023-01419-6.
    10.1038/s41564-023-01419-6
  3. Jacob Bobonis; Karin Mitosch; André Mateus; Nicolai Karcher; George Kritikos; Joel Selkrig; Matylda Zietek; et al. "Bacterial retrons encode phage-defending tripartite toxin–antitoxin systems". Nature (2022): https://doi.org/10.1038/s41586-022-05091-4.
    10.1038/s41586-022-05091-4
  4. Mateus, André; Kurzawa, Nils; Perrin, Jessica; Bergamini, Giovanna; Savitski, Mikhail M.. "Drug Target Identification in Tissues by Thermal Proteome Profiling". Annual Review of Pharmacology and Toxicology 62 1 (2022): 465-482. http://dx.doi.org/10.1146/annurev-pharmtox-052120-013205.
    10.1146/annurev-pharmtox-052120-013205
  5. Mateus, André; Shah, Malay; Hevler, Johannes; Kurzawa, Nils; Bobonis, Jacob; Typas, Athanasios; Savitski, Mikhail M.. "Transcriptional and Post-Transcriptional Polar Effects in Bacterial Gene Deletion Libraries". mSystems 6 5 (2021): http://dx.doi.org/10.1128/msystems.00813-21.
    10.1128/msystems.00813-21
  6. André Mateus; Malay Shah; Johannes Hevler; Nils Kurzawa; Jacob Bobonis; Athanasios Typas; Mikhail M. Savitski; Laura M. Sanchez. "Transcriptional and Post-Transcriptional Polar Effects in Bacterial Gene Deletion Libraries". mSystems 6 5 (2021): https://doi.org/10.1128/mSystems.00813-21.
    10.1128/mSystems.00813-21
  7. Viéitez, Cristina; Busby, Bede P.; Ochoa, David; Mateus, André; Memon, Danish; Galardini, Marco; Yildiz, Umut; et al. "High-throughput functional characterization of protein phosphorylation sites in yeast". Nature Biotechnology (2021): http://dx.doi.org/10.1038/s41587-021-01051-x.
    10.1038/s41587-021-01051-x
  8. Klünemann, Martina; Andrejev, Sergej; Blasche, Sonja; Mateus, Andre; Phapale, Prasad; Devendran, Saravanan; Vappiani, Johanna; et al. "Bioaccumulation of therapeutic drugs by human gut bacteria". Nature 597 7877 (2021): 533-538. http://dx.doi.org/10.1038/s41586-021-03891-8.
    10.1038/s41586-021-03891-8
  9. Mateus, Andre; Savitski, Mikhail M; Piazza, Ilaria. "The rise of proteome-wide biophysics". Molecular Systems Biology 17 7 (2021): http://dx.doi.org/10.15252/msb.202110442.
    10.15252/msb.202110442
  10. Potel, Clément M.; Kurzawa, Nils; Becher, Isabelle; Typas, Athanasios; Mateus, André; Savitski, Mikhail M.. "Impact of phosphorylation on thermal stability of proteins". Nature Methods 18 7 (2021): 757-759. http://dx.doi.org/10.1038/s41592-021-01177-5.
    10.1038/s41592-021-01177-5
  11. Selkrig, Joel; Stanifer, Megan; Mateus, André; Mitosch, Karin; Barrio-Hernandez, Inigo; Rettel, Mandy; Kim, Heeyoung; et al. "SARS-CoV-2 infection remodels the host protein thermal stability landscape". Molecular Systems Biology 17 2 (2021): http://dx.doi.org/10.15252/msb.202010188.
    10.15252/msb.202010188
  12. Ölander, Magnus; Wegler, Christine; Flörkemeier, Inken; Treyer, Andrea; Handin, Niklas; Pedersen, Jenny M.; Vildhede, Anna; et al. "Hepatocyte size fractionation allows dissection of human liver zonation". Journal of Cellular Physiology 236 8 (2021): 5885-5894. http://dx.doi.org/10.1002/jcp.30273.
    10.1002/jcp.30273
  13. Nimgaonkar, Ila; Archer, Nicholas F.; Becher, Isabelle; Shahrad, Mohammad; LeDesma, Robert A.; Mateus, André; Caballero-Gómez, Javier; et al. "Isocotoin suppresses hepatitis E virus replication through inhibition of heat shock protein 90". Antiviral Research 185 (2021): 104997. http://dx.doi.org/10.1016/j.antiviral.2020.104997.
    10.1016/j.antiviral.2020.104997
  14. Mateus, André; Hevler, Johannes; Bobonis, Jacob; Kurzawa, Nils; Shah, Malay; Mitosch, Karin; Goemans, Camille V.; et al. "The functional proteome landscape of Escherichia coli". Nature 588 7838 (2020): 473-478. http://dx.doi.org/10.1038/s41586-020-3002-5.
    10.1038/s41586-020-3002-5
  15. Kurzawa, Nils; Becher, Isabelle; Sridharan, Sindhuja; Franken, Holger; Mateus, André; Anders, Simon; Bantscheff, Marcus; Huber, Wolfgang; Savitski, Mikhail M.. "A computational method for detection of ligand-binding proteins from dose range thermal proteome profiles". Nature Communications 11 1 (2020): http://dx.doi.org/10.1038/s41467-020-19529-8.
    10.1038/s41467-020-19529-8
  16. Kurzawa, Nils; Mateus, André; Savitski, Mikhail M. "Rtpca: an R package for differential thermal proximity coaggregation analysis". Bioinformatics 37 3 (2020): 431-433. http://dx.doi.org/10.1093/bioinformatics/btaa682.
    10.1093/bioinformatics/btaa682
  17. Selkrig, Joel; Li, Nan; Hausmann, Annika; Mangan, Matthew S. J.; Zietek, Matylda; Mateus, André; Bobonis, Jacob; et al. "Spatiotemporal proteomics uncovers cathepsin-dependent macrophage cell death during Salmonella infection". Nature Microbiology 5 9 (2020): 1119-1133. http://dx.doi.org/10.1038/s41564-020-0736-7.
    10.1038/s41564-020-0736-7
  18. Martin, James K.; Sheehan, Joseph P.; Bratton, Benjamin P.; Moore, Gabriel M.; Mateus, André; Li, Sophia Hsin-Jung; Kim, Hahn; et al. "A Dual-Mechanism Antibiotic Kills Gram-Negative Bacteria and Avoids Drug Resistance". Cell 181 7 (2020): 1518-1532.e14. http://dx.doi.org/10.1016/j.cell.2020.05.005.
    10.1016/j.cell.2020.05.005
  19. Rendo, Veronica; Stoimenov, Ivaylo; Mateus, André; Sjöberg, Elin; Svensson, Richard; Gustavsson, Anna-Lena; Johansson, Lars; et al. "Exploiting loss of heterozygosity for allele-selective colorectal cancer chemotherapy". Nature Communications 11 1 (2020): http://dx.doi.org/10.1038/s41467-020-15111-4.
    10.1038/s41467-020-15111-4
  20. Mateus, André; Kurzawa, Nils; Becher, Isabelle; Sridharan, Sindhuja; Helm, Dominic; Stein, Frank; Typas, Athanasios; Savitski, Mikhail M. "Thermal proteome profiling for interrogating protein interactions". Molecular Systems Biology 16 3 (2020): http://dx.doi.org/10.15252/msb.20199232.
    10.15252/msb.20199232
  21. Banzhaf, Manuel; Yau, Hamish CL; Verheul, Jolanda; Lodge, Adam; Kritikos, George; Mateus, André; Cordier, Baptiste; et al. "Outer membrane lipoprotein NlpI scaffolds peptidoglycan hydrolases within multi-enzyme complexes in Escherichia coli". The EMBO Journal 39 5 (2020): http://dx.doi.org/10.15252/embj.2019102246.
    10.15252/embj.2019102246
  22. Ochoa, David; Jarnuczak, Andrew F.; Viéitez, Cristina; Gehre, Maja; Soucheray, Margaret; Mateus, André; Kleefeldt, Askar A.; et al. "The functional landscape of the human phosphoproteome". Nature Biotechnology 38 3 (2019): 365-373. http://dx.doi.org/10.1038/s41587-019-0344-3.
    10.1038/s41587-019-0344-3
  23. Imai, Yu; Meyer, Kirsten J.; Iinishi, Akira; Favre-Godal, Quentin; Green, Robert; Manuse, Sylvie; Caboni, Mariaelena; et al. "A new antibiotic selectively kills Gram-negative pathogens". Nature 576 7787 (2019): 459-464. http://dx.doi.org/10.1038/s41586-019-1791-1.
    10.1038/s41586-019-1791-1
  24. Filppula, Anne M.; Parvizi, Rezvan; Mateus, André; Baranczewski, Pawel; Artursson, Per. "Improved predictions of time-dependent drug-drug interactions by determination of cytosolic drug concentrations". Scientific Reports 9 1 (2019): http://dx.doi.org/10.1038/s41598-019-42051-x.
    10.1038/s41598-019-42051-x
  25. Mateus, André; Bobonis, Jacob; Kurzawa, Nils; Stein, Frank; Helm, Dominic; Hevler, Johannes; Typas, Athanasios; Savitski, Mikhail M. "Thermal proteome profiling in bacteria: probing protein state in vivo". Molecular Systems Biology 14 7 (2018): http://dx.doi.org/10.15252/msb.20188242.
    10.15252/msb.20188242
  26. Brochado, Ana Rita; Telzerow, Anja; Bobonis, Jacob; Banzhaf, Manuel; Mateus, André; Selkrig, Joel; Huth, Emily; et al. "Species-specific activity of antibacterial drug combinations". Nature 559 7713 (2018): 259-263. http://dx.doi.org/10.1038/s41586-018-0278-9.
    10.1038/s41586-018-0278-9
  27. Becher, Isabelle; Andrés-Pons, Amparo; Romanov, Natalie; Stein, Frank; Schramm, Maike; Baudin, Florence; Helm, Dominic; et al. "Pervasive Protein Thermal Stability Variation during the Cell Cycle". Cell 173 6 (2018): 1495-1507.e18. http://dx.doi.org/10.1016/j.cell.2018.03.053.
    10.1016/j.cell.2018.03.053
  28. Treyer, Andrea; Mateus, André; Wisniewski, Jacek R; Boriss, Hinnerk; Matsson, Pär; Artursson, Per. "Intracellular Drug Bioavailability: Effect of Neutral Lipids and Phospholipids". Molecular Pharmaceutics 15 6 (2018): 2224-2233. http://dx.doi.org/10.1021/acs.molpharmaceut.8b00064.
    10.1021/acs.molpharmaceut.8b00064
  29. Mateus, André; Gordon, Laurie J.; Wayne, Gareth J.; Almqvist, Helena; Axelsson, Hanna; Seashore-Ludlow, Brinton; Treyer, Andrea; et al. "Prediction of intracellular exposure bridges the gap between target- and cell-based drug discovery". Proceedings of the National Academy of Sciences 114 30 (2017): E6231-E6239. http://dx.doi.org/10.1073/pnas.1701848114.
    10.1073/pnas.1701848114
  30. Llona-Minguez, Sabin; Höglund, Andreas; Ghassemian, Artin; Desroses, Matthieu; Calderón-Montaño, José Manuel; Burgos Morón, Estefanía; Valerie, Nicholas C. K.; et al. "Piperazin-1-ylpyridazine Derivatives Are a Novel Class of Human dCTP Pyrophosphatase 1 Inhibitors". Journal of Medicinal Chemistry 60 10 (2017): 4279-4292. http://dx.doi.org/10.1021/acs.jmedchem.7b00182.
    10.1021/acs.jmedchem.7b00182
  31. Mateus, André; Treyer, Andrea; Wegler, Christine; Karlgren, Maria; Matsson, Pär; Artursson, Per. "Intracellular drug bioavailability: a new predictor of system dependent drug disposition". Scientific Reports 7 1 (2017): http://dx.doi.org/10.1038/srep43047.
    10.1038/srep43047
  32. Llona-Minguez, Sabin; Höglund, Andreas; Wiita, Elisee; Almlöf, Ingrid; Mateus, André; Calderón-Montaño, José Manuel; Cazares-Körner, Cindy; et al. "Identification of Triazolothiadiazoles as Potent Inhibitors of the dCTP Pyrophosphatase 1". Journal of Medicinal Chemistry 60 5 (2017): 2148-2154. http://dx.doi.org/10.1021/acs.jmedchem.6b01786.
    10.1021/acs.jmedchem.6b01786
  33. Mateus, André; Määttä, Tomi A.; Savitski, Mikhail M.. "Thermal proteome profiling: unbiased assessment of protein state through heat-induced stability changes". Proteome Science 15 1 (2016): http://dx.doi.org/10.1186/s12953-017-0122-4.
    10.1186/s12953-017-0122-4
  34. Almqvist, Helena; Axelsson, Hanna; Jafari, Rozbeh; Dan, Chen; Mateus, André; Haraldsson, Martin; Larsson, Andreas; et al. "CETSA screening identifies known and novel thymidylate synthase inhibitors and slow intracellular activation of 5-fluorouracil". Nature Communications 7 1 (2016): http://dx.doi.org/10.1038/ncomms11040.
    10.1038/ncomms11040
  35. Vildhede, A.; Mateus, A.; Khan, E. K.; Lai, Y.; Karlgren, M.; Artursson, P.; Kjellsson, M. C.. "Mechanistic Modeling of Pitavastatin Disposition in Sandwich-Cultured Human Hepatocytes: A Proteomics-Informed Bottom-Up Approach". Drug Metabolism and Disposition 44 4 (2016): 505-516. http://dx.doi.org/10.1124/dmd.115.066746.
    10.1124/dmd.115.066746
  36. Gordon, Laurie J.; Allen, Morven; Artursson, Per; Hann, Michael M.; Leavens, Bill J.; Mateus, André; Readshaw, Simon; et al. "Direct Measurement of Intracellular Compound Concentration by RapidFire Mass Spectrometry Offers Insights into Cell Permeability". Journal of Biomolecular Screening 21 2 (2015): 156-164. http://dx.doi.org/10.1177/1087057115604141.
    10.1177/1087057115604141
  37. Goncalves-Pereira, João; Silva, Nuno Elvas; Mateus, André; Pinho, Catarina; Povoa, Pedro. "Assessment of pharmacokinetic changes of meropenem during therapy in septic critically ill patients". BMC Pharmacology and Toxicology 15 1 (2014): http://dx.doi.org/10.1186/2050-6511-15-21.
    10.1186/2050-6511-15-21
  38. Mateus, André; Matsson, Pär; Artursson, Per. "A High-Throughput Cell-Based Method to Predict the Unbound Drug Fraction in the Brain". Journal of Medicinal Chemistry 57 7 (2014): 3005-3010. http://dx.doi.org/10.1021/jm401963n.
    10.1021/jm401963n
  39. Mateus, André; Matsson, Pär; Artursson, Per. "Rapid Measurement of Intracellular Unbound Drug Concentrations". Molecular Pharmaceutics 10 6 (2013): 2467-2478. http://dx.doi.org/10.1021/mp4000822.
    10.1021/mp4000822
Preprint
  1. Xin Zhou; Shaocun Zhu; Junhong Li; Andre Mateus; Ludvig J. Backman. "Mechanical loading modulates AMPK and mTOR signaling in myblasts". 2024. https://doi.org/10.1101/2024.02.02.578567.
    10.1101/2024.02.02.578567
  2. Garcia-Santamarina, Sarela; Kuhn, Michael; Devendran, Saravanan; Maier, Lisa; Driessen, Marja; Mateus, André; Mastrorilli, Eleonora; et al. "Emergence of community behaviors in the gut microbiota upon drug treatment". 2023. http://dx.doi.org/10.1101/2023.06.13.544832.
    10.1101/2023.06.13.544832
  3. Elisabetta Cacace; Vladislav Kim; Michael Knopp; Manuela Tietgen; Amber Brauer-Nikonow; Kemal Inecik; André Mateus; et al. "High-throughput profiling of drug interactions in Gram-positive bacteria". 2022. https://doi.org/10.1101/2022.12.23.521747.
    10.1101/2022.12.23.521747

Other

Other output
  1. Bacterial retrons encode tripartite toxin/antitoxin systems.. 2020. Bobonis, Jacob; Mateus, André; Birgit Pfalz; Sarela Garcia-Santamarina; Galardini, Marco; Callie Kobayashi; Stein, Frank; et al.
    doi.org/10.1101/2020.06.22.160168
  2. Phage proteins block and trigger retron toxin/antitoxin systems. 2020. Bobonis, Jacob; Mitosch, Karin; Mateus, André; Kritikos, George; Johanna R. Elfenbein; Savitski, Mikhail M.; Helene Andrews-Polymenis; Typas, Athanasios.
    doi.org/10.1101/2020.06.22.160242
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2022/08 Mapping the functional proteome landscape of bacteria with thermal proteome profiling 2022 ACS National Meeting
(Chicago, United States)
2020/06 The thermal proteome landscape of Escherichia coli 2020 Annual Conference of American Society for Mass Spectrometry
(Virtual)
2019/07 Bacterial proteomic landscape revealed by thermal proteome profiling New Approaches and Concepts in Microbiology
(Heidelberg, Germany)
2018/10 Probing protein state in bacteria by thermal proteome profiling
2018/03 Unbiased search of antibiotic targets by thermal proteome profiling Challenges and new concepts in antibiotics research
(Paris, France)
2017/05 Intracellular unbound drug concentrations: methodology and application for understanding cellular drug exposure 6th FIP Pharmaceutical Sciences World Congress
(Stockholm, Sweden)
2016/01 Impact of Intracellular Unbound Drug Concentrations on drug effects 7th Symposium on Pharmaceutical Profiling
(Uppsala, Sweden)
2015/11 Impact of intracellular unbound drug concentrations on target engagement VII Spanish Drug Discovery Network meeting
(Barcelona, Spain)
2015/01 A novel methodology to measure intracellular unbound drug concentrations PhysChem Forum 15
(Uppsala, Sweden)
2014/02 A novel methodology to measure the impact of active transport on intracellular unbound concentrations New Perspectives in ADME
(London, United Kingdom)

Supervision

Thesis Title
Role 		Degree Subject (Type)
Institution / Organization
2022/11/01 - Current Drug mechanism of action in gut microbiome species
Supervisor
2022/07/01 - Current Metabolism of carbohydrates by human gut microbiome species
Supervisor

Mentoring / Tutoring

Topic Student name
2019/04/22 - 2020/03/05 Supervision of internship Malay Shah
2018/04/07 - 2019/11/06 Supervision of Master thesis Johannes Hevler
2013/09/13 - 2014/02/03 Supervision of Master thesis Julia Maul
2012/09/04 - 2013/02/06 Supervision of Master thesis Alina Sohns
2012/01/10 - 2012/06/20 Supervision of Master thesis Amin Alimohammadi
Distinctions

Award

2022 Karl-Freudenberg Prize
Heidelberger Akademie der Wissenschaften, Germany
2016 Graduate Student Research Award
American Association of Pharmaceutical Scientists, United States
2010 Merit award for top students at University of Lisbon
Caixa Geral de Depositos, Portugal

Other distinction

2017 EMBL Interdisciplinary Postdoc fellowship (supported by EMBL and EU Marie Curie Actions Cofund grant)
European Commission Marie Sklodowska-Curie Actions, Belgium
2011 PhD scholarship
Fundação para a Ciência e a Tecnologia, Portugal