Matthias Heinemann

Matthias Heinemann
Born	July 1, 1972
Alma mater	RWTH Aachen University (PhD)
Awards	DuPont Young Professor Award (2011) [1] VIDI Award (2011) [2] Kent University – Award for Science and Business (2018) [3] VICI Award (2020) [4]
Scientific career
Institutions	University of Groningen ETH Zurich RWTH Aachen University
Thesis	Experimental analysis, modeling and dynamic simulation of thermodynamic and kinetic phenomena in gel-stabilized enzyme carriers. [5]  (2003)
Website	https://heinemannlab.eu/ https://www.rug.nl/research/molecular-systems-biology/ https://twitter.com/HeinemannLab

Matthias Heinemann (born July 1, 1972) is a professor of molecular systems biology at the University of Groningen. Heinemann leads an interdisciplinary lab of approximately 12 graduate students and post-doctoral scholars. ^[6] Until 2019, he served as the chairman of the Groningen Biomolecular Sciences and Biotechnology Institute, ^{[7] [8]} was a board member of the Dutch Origins Center ^[9] and the coordinator of EU ITN project MetaRNA. ^[10] Heinemann is a member of the Faculty of 1000. ^[11]

Education

Heinemann received his degree (Dipl.-Ing.) in environmental engineering from the University of Stuttgart. In 2003, he obtained a Ph.D. in biochemical engineering (summa cum laude) from the RWTH Aachen University, after which he joined the Bioprocess lab of ETH Zurich as a postdoc. In 2006, he joined the Institute of Molecular Systems Biology ^[12] of ETH Zurich as a group leader in the research unit of Uwe Sauer. In 2010, he moved to the University of Groningen as an associate professor, where he got promoted to full professor in 2013.

Research

Heinemann's research field is systems biology of microbial metabolism. Together with his lab members, he has made the following major contributions to the fundamental understanding of metabolism:

• found that cells can measure intracellular flux – the rate of metabolic activity – and use this information to regulate other metabolic fluxes, ^{[13] [14]}
• demonstrated that the intracellular flux state evolves as a trade-off between two principles – optimality under a given environmental condition and minimal adjustment to alternative conditions, ^[15]
• showed that flux-sensing can lead to bistability in metabolism ^[16] and to antibiotic tolerant persisters, ^[17] as well as it has relevance for aging in yeast, ^{[18] [19] [20]}
• discovered that the metabolism of yeast is an autonomous oscillator, ^{[21] [22]} together with the cell cycle machinery acting in a system of coupled oscillators, ^{[23] [24]} with the metabolic dynamics being due to the fact that biosynthetic processes are partially temporally segregated during the cell cycle, ^[25]
• found that an upper limit in Gibbs energy dissipation rate governs cellular metabolism. ^[26]

His lab developed new technologies and resources for metabolic studies on the single cell level and proteomics:

• developed the first method for single-cell metabolomics ^{[27] [14]} with Renato Zenobi (ETH Zurich) and for single-cell dynamic NAD(P)H measurement, ^[21]
• designed the first microfluidic device for microscopic monitoring of yeast cells, which allowed to observe yeast over its whole lifespan, ^{[28] [29]}
• developed molecular sensors to measure glycolytic flux in single yeast cells, ^{[30] [31]}
• generated the reference proteomics dataset for E. coli by quantifying the levels of expressed proteins over a wide range of growth conditions. ^{[32] [33]}

Overall, Heinemann has authored or co-authored about 90 peer-reviewed scientific articles. ^[34]

References

1. "DuPont". Archived from the original on October 15, 2012.
2. "VIDI".
3. "Kent University – Award for Science and Business (2018)".
4. "VICI".
5. "thesis".
6. "Group members | Molecular Systems Biology | GBB | Research | University of Groningen". www.rug.nl. 8 July 2011. Retrieved 2018-10-05.
7. "Management Team | Organisation | GBB | Research | University of Groningen". www.rug.nl. 15 February 2016. Retrieved 2018-10-05.
8. "Groningen Biomolecular Sciences and Biotechnology Institute (GBB) | Research | University of Groningen". www.rug.nl. 3 October 2012. Retrieved 2018-11-01.
9. "People – Origins Center". www.origins-center.nl. Retrieved 2018-10-05.
10. "RNA-based technologies for single-cell metabolite analysis | Projects | H2020 | CORDIS | European Commission". CORDIS | European Commission. Retrieved 2018-10-07.
11. "Matthias Heinemann - F1000Prime". f1000.com. Retrieved 2018-11-01.
12. "Institute of Molecular Systems Biology". www.imsb.ethz.ch. Retrieved 2018-11-01.
13. Kotte, Oliver; Zaugg, Judith B.; Heinemann, Matthias (2010-01-01). "Bacterial adaptation through distributed sensing of metabolic fluxes". Molecular Systems Biology. 6 (1): 355. doi:10.1038/msb.2010.10. ISSN   1744-4292. PMC   2858440 . PMID   20212527.
14. Kochanowski, Karl; Volkmer, Benjamin; Gerosa, Luca; Rijsewijk, Bart R. Haverkorn van; Schmidt, Alexander; Heinemann, Matthias (2013-01-15). "Functioning of a metabolic flux sensor in Escherichia coli". Proceedings of the National Academy of Sciences. 110 (3): 1130–1135. doi: 10.1073/pnas.1202582110 . ISSN   0027-8424. PMC   3549114 . PMID   23277571.
15. Schuetz, Robert; Zamboni, Nicola; Zampieri, Mattia; Heinemann, Matthias; Sauer, Uwe (2012-05-04). "Multidimensional Optimality of Microbial Metabolism". Science. 336 (6081): 601–604. doi:10.1126/science.1216882. ISSN   0036-8075. PMID   22556256. S2CID   16674761.
16. Kotte, Oliver; Volkmer, Benjamin; Radzikowski, Jakub L.; Heinemann, Matthias (2014-07-01). "Phenotypic bistability in Escherichia coli's central carbon metabolism". Molecular Systems Biology. 10 (7): 736. doi:10.15252/msb.20135022. ISSN   1744-4292. PMC   4299493 . PMID   24987115.
17. Radzikowski, Jakub Leszek; Vedelaar, Silke; Siegel, David; Ortega, Álvaro Dario; Schmidt, Alexander; Heinemann, Matthias (2016-09-01). "Bacterial persistence is an active σS stress response to metabolic flux limitation". Molecular Systems Biology. 12 (9): 882. doi:10.15252/msb.20166998. ISSN   1744-4292. PMC   5043093 . PMID   27655400.
18. Janssens, Georges E; Meinema, Anne C; González, Javier; Wolters, Justina C; Schmidt, Alexander; Guryev, Victor; Bischoff, Rainer; Wit, Ernst C; Veenhoff, Liesbeth M (2015-12-01). "Protein biogenesis machinery is a driver of replicative aging in yeast". eLife. 4: e08527. doi: 10.7554/eLife.08527 . ISSN   2050-084X. PMC   4718733 . PMID   26422514.
19. "New technique reveals causes of aging in yeast". EurekAlert!. Retrieved 2018-10-07.
20. Leupold, Simeon; Hubmann, Georg; Litsios, Athanasios; Meinema, Anne C.; Takhaveev, Vakil; Papagiannakis, Alexandros; Niebel, Bastian; Janssens, Georges; Siegel, David; Heinemann, Matthias (2019-04-09). "Saccharomyces cerevisiae goes through distinct metabolic phases during its replicative lifespan". eLife. 8. doi: 10.7554/eLife.41046 . ISSN   2050-084X. PMC   6467564 . PMID   30963997.
21. Papagiannakis, Alexandros; Niebel, Bastian; Wit, Ernst C.; Heinemann, Matthias (2017-01-19). "Autonomous Metabolic Oscillations Robustly Gate the Early and Late Cell Cycle". Molecular Cell. 65 (2): 285–295. doi: 10.1016/j.molcel.2016.11.018 . ISSN   1097-4164. PMID   27989441.
22. "New research paper challenges dogma of cell cycle control". EurekAlert!. Retrieved 2018-10-07.
23. Özsezen, Serdar; Papagiannakis, Alexandros; Chen, Haoqi; Niebel, Bastian; Milias-Argeitis, Andreas; Heinemann, Matthias (2019-10-04). "Inference of the High-Level Interaction Topology between the Metabolic and Cell-Cycle Oscillators from Single-Cell Dynamics". Cell Systems. 9 (4): 354–365.e6. doi: 10.1016/j.cels.2019.09.003 . ISSN   2405-4720. PMID   31606371.
24. Litsios, Athanasios; Huberts, Daphne H. E. W.; Terpstra, Hanna M.; Guerra, Paolo; Schmidt, Alexander; Buczak, Katarzyna; Papagiannakis, Alexandros; Rovetta, Mattia; Hekelaar, Johan; Hubmann, Georg; Exterkate, Marten (November 2019). "Differential scaling between G1 protein production and cell size dynamics promotes commitment to the cell division cycle in budding yeast" (PDF). Nature Cell Biology. 21 (11): 1382–1392. doi:10.1038/s41556-019-0413-3. ISSN   1476-4679. PMID   31685990. S2CID   207891139.
25. Takhaveev, Vakil; Özsezen, Serdar; Smith, Edward N.; Zylstra, Andre; Chaillet, Marten L.; Chen, Haoqi; Papagiannakis, Alexandros; Milias-Argeitis, Andreas; Heinemann, Matthias (February 2023). "Temporal segregation of biosynthetic processes is responsible for metabolic oscillations during the budding yeast cell cycle". Nature Metabolism. 5 (2): 294–313. doi: 10.1038/s42255-023-00741-x . hdl: 20.500.11850/601600 . ISSN   2522-5812.
26. Heinemann, Matthias; Leupold, Simeon; Niebel, Bastian (January 2019). "An upper limit on Gibbs energy dissipation governs cellular metabolism" (PDF). Nature Metabolism. 1 (1): 125–132. doi:10.1038/s42255-018-0006-7. ISSN   2522-5812. PMID   32694810. S2CID   104433703.
27. Amantonico, Andrea; Oh, Joo Yeon; Sobek, Jens; Heinemann, Matthias; Zenobi, Renato (2008-07-07). "Mass Spectrometric Method for Analyzing Metabolites in Yeast with Single Cell Sensitivity". Angewandte Chemie International Edition. 47 (29): 5382–5385. doi:10.1002/anie.200705923. ISSN   1433-7851. PMID   18543269.
28. Lee, Sung Sik; Vizcarra, Ima Avalos; Huberts, Daphne H. E. W.; Lee, Luke P.; Heinemann, Matthias (2012-03-27). "Whole lifespan microscopic observation of budding yeast aging through a microfluidic dissection platform". Proceedings of the National Academy of Sciences. 109 (13): 4916–4920. doi: 10.1073/pnas.1113505109 . ISSN   0027-8424. PMC   3324001 . PMID   22421136.
29. Huberts, Daphne H E W; Sik Lee, Sung; González, Javier; Janssens, Georges E; Vizcarra, Ima Avalos; Heinemann, Matthias (2013-05-02). "Construction and use of a microfluidic dissection platform for long-term imaging of cellular processes in budding yeast" (PDF). Nature Protocols. 8 (6): 1019–1027. doi:10.1038/nprot.2013.060. ISSN   1754-2189. PMID   23640166. S2CID   11836636.
30. Monteiro, Francisca; Hubmann, Georg; Takhaveev, Vakil; Vedelaar, Silke R; Norder, Justin; Hekelaar, Johan; Saldida, Joana; Litsios, Athanasios; Wijma, Hein J; Schmidt, Alexander; Heinemann, Matthias (December 2019). "Measuring glycolytic flux in single yeast cells with an orthogonal synthetic biosensor". Molecular Systems Biology. 15 (12): e9071. doi:10.15252/msb.20199071. ISSN   1744-4292. PMC   6920703 . PMID   31885198.
31. Ortega, Alvaro Darío; Takhaveev, Vakil; Vedelaar, Silke Roelie; Long, Yi; Mestre-Farràs, Neus; Incarnato, Danny; Ersoy, Franziska; Olsen, Lars Folke; Mayer, Günter; Heinemann, Matthias (November 2021). "A synthetic RNA-based biosensor for fructose-1,6-bisphosphate that reports glycolytic flux". Cell Chemical Biology. 28 (11): 1554–1568.e8. doi: 10.1016/j.chembiol.2021.04.006 .
32. Schmidt, Alexander; Kochanowski, Karl; Vedelaar, Silke; Ahrné, Erik; Volkmer, Benjamin; Callipo, Luciano; Knoops, Kèvin; Bauer, Manuel; Aebersold, Ruedi; Heinemann, Matthias (2015-12-07). "The quantitative and condition-dependent Escherichia coli proteome". Nature Biotechnology. 34 (1): 104–110. doi:10.1038/nbt.3418. ISSN   1087-0156. PMC   4888949 . PMID   26641532.
33. "New massive dataset of bacterial proteins". EurekAlert!. Retrieved 2018-10-07.
34. "Matthias Heinemann - Google Scholar Citations". scholar.google.com. Retrieved 2018-10-07.