Spontaneous prophage induction in a small subpopulation of cells which takes place in the absence of a known stimulus is an often observed, but poorly understood phenomenon. With the proposed project we aim to investigate the impact of stress responses and stochasticity fluctuations of key regulatory proteins on the spontaneous induction of the Corynebacterium glutamicum prophage CGP3 at the single cell level. We aim to combine classical microbiological approaches with stochastic modelling and the design of novel microfluidic devices for single cell studies to contribute to a better understanding of spontaneous prophage induction as a general phenomenon in bacterial populations.
References:
- List of publications (J. Frunzke)
- List of publications (W. Wiechert)
- List of publications (K. Nöh)
- List of publications (D. Kohlheyer)
Contact details:
PI Microbiology
Juniorprof. Dr. Julia Frunzke
Forschungszentrum Jülich
Institut für Bio- und Geowissenschaften
IBG-1: Biotechnologie
D-52425 Jülich
Tel.: +49-(0)2461-61-5430
Fax: +49-(0)2461-61-3953
j.frunzke(at)fz-juelich.de
Homepage Link
PIs Modelling
Prof. Dr. Wolfgang Wiechert
Forschungszentrum Jülich
Institut für Bio- und Geowissenschaften
IBG-1: Biotechnologie
D-52425 Jülich
Tel.: +49-(0)2461-61-5557
Fax: +49-(0)2461-61-3870
w.wiechert(at)fz-juelich.de
Homepage Link
Dr. Katharina Nöh
Forschungszentrum Jülich
Institut für Bio- und Geowissenschaften
IBG-1: Biotechnologie
D-52425 Jülich
Tel.: +49-(0)2461-61-9294
Fax: +49-(0)2461-61-3870
k.noeh(at)fz-juelich.de
Homepage Link
PI Microfluidics
Dr. Dietrich Kohlheyer
Forschungszentrum Jülich
Institut für Bio- und Geowissenschaften
IBG-1: Biotechnologie
D-52425 Jülich
Tel.: +49-(0)2461-61-2875
Fax: +49-(0)2461-61-3870
d.kohlheyer(at)fz-juelich.de
Homepage Link
Co-workers: PhD Students: Arun Nanda, Stefan Helfrich
References:
Frunzke
Nanda, A. M., Thormann, K. M. and Frunzke, J. (2015) Impact of spontaneous prophage induction on the fitness of bacterial populations and host-microbe interactions. J. Bacteriol., 197, 410-419.
Helfrich, S., Pfeifer, E., Krämer, C., Sachs, C. C., Wiechert, W., Kohlheyer, D., Nöh, K. and Frunzke, J. (2015) Live cell imaging of SOS and prophage dynamics in isogenic bacterial populations. Mol. Microbiol.
Donovan, C., Heyer, A., Pfeifer, E., Polen, T., Wittmann, A., Krämer, R., Frunzke, J. and Bramkamp, M. (2015) A prophage-encoded actin-like protein required for efficient viral DNA replication in bacteria. Nucleic Acids Res., 43, 5002-5016.
Grünberger, A., Probst, C., Helfrich, S., Nanda, A., Stute, B., Wiechert, W., Lieres, E. v., Nöh, K., Frunzke, J. and Kohlheyer, D. (2015) Spatiotemporal microbial single-cell analysis using a high-throughput microfluidics cultivation platform. Cytometry A.
Nanda, A. M., Heyer, A., Krämer, C., Grünberger, A., Kohlheyer, D. and Frunzke, J. (2014) Analysis of SOS-induced spontaneous prophage induction in Corynebacterium glutamicum at the single-cell level. J. Bacteriol., 196, 180-188.
Mustafi, N., Grünberger, A., Mahr, R., Helfrich, S., Nöh, K., Blombach, B., Kohlheyer, D. and Frunzke, J. (2014) Application of a genetically encoded biosensor for live cell imaging of L-valine production in pyruvate dehydrogenase complex-deficient Corynebacterium glutamicum strains. PLoS ONE, 9, e85731.
Baumgart, M., Unthan, S., Rückert, C., Sivalingam, J., Grünberger, A., Kalinowski, J., Bott, M., Noack, S. and Frunzke, J. (2013) Construction of a Prophage-Free Variant of Corynebacterium glutamicum ATCC 13032 for Use as a Platform Strain for Basic Research and Industrial Biotechnology. Appl. Environ. Microbiol., 79, 6006-6015.
Hentschel, E., Will, C., Mustafi, N., Burkovski, A., Rehm, N. and Frunzke, J. (2013) Destabilized eYFP variants for dynamic gene expression studies in Corynebacterium glutamicum. Microb Biotechnol, 6, 196-201.
Neumeyer, A., Hübschmann, T., Müller, S. and Frunzke, J. (2013) Monitoring of population dynamics of Corynebacterium glutamicum by multiparameter flow cytometry. Microb Biotechnol, 6, 157-167.
Frunzke, J., Bramkamp, M., Schweitzer, J.-E. and Bott, M. (2008) Population Heterogeneity in Corynebacterium glutamicum ATCC 13032 caused by prophage CGP3. J. Bacteriol., 190, 5111-5119.
Frunzke, J. and Bott, M. (2008) Regulation of iron homeostasis in Corynebacterium glutamicum. In Corynebacteria: genomics and molecular biologyCaister Academic Press, Norfolk, UK., pp. 241-266.
Wiechert
Helfrich, S., Pfeifer, E., Krämer, C., Sachs, C. C., Wiechert, W., Kohlheyer, D., Nöh, K. and Frunzke, J. (2015a) Live cell imaging of SOS and prophage dynamics in isogenic bacterial populations. Mol. Microbiol.
Grünberger, A., Probst, C., Helfrich, S., Nanda, A., Stute, B., Wiechert, W., Lieres, E. v., Nöh, K., Frunzke, J. and Kohlheyer, D. (2015) Spatiotemporal microbial single-cell analysis using a high-throughput microfluidics cultivation platform. Cytometry A.
Helfrich, S., Azzouzi, C. E., Probst, C., Seiffarth, J., Grünberger, A., Wiechert, W., Kohlheyer, D. and Nöh, K. (2015b) Vizardous: interactive analysis of microbial populations with single cell resolution. Bioinformatics.
Unthan, S., Grünberger, A., van Ooyen, J., Gätgens, J., Heinrich, J., Paczia, N., Wiechert, W., Kohlheyer, D. and Noack, S. (2014) Beyond growth rate 0.6: What drives Corynebacterium glutamicum to higher growth rates in defined medium. Biotechnol. Bioeng., 111, 359-371.
Grünberger, A., Wiechert, W. and Kohlheyer, D. (2014) Single-cell microfluidics: opportunity for bioprocess development. Curr. Opin. Biotechnol., 29C, 15-23.
Probst, C., Grünberger, A., Wiechert, W. and Kohlheyer, D. (2013a) Microfluidic growth chambers with optical tweezers for full spatial single-cell control and analysis of evolving microbes. J. Microbiol. Methods, 95, 470-476.
Probst, C., Grünberger, A., Wiechert, W. and Kohlheyer, D. (2013b) Polydimethylsiloxane (PDMS) Sub-Micron Traps for Single-Cell Analysis of Bacteria. Micromachines, 4, 357-369.
Grünberger, A., van Ooyen, J., Paczia, N., Rohe, P., Schiendzielorz, G., Eggeling, L., Wiechert, W., Kohlheyer, D. and Noack, S. (2012a) Beyond growth rate 0.6: Corynebacterium glutamicum cultivated in highly diluted environments. Biotechnol. Bioeng.
Grünberger, A., Paczia, N., Probst, C., Schendzielorz, G., Eggeling, L., Noack, S., Wiechert, W. and Kohlheyer, D. (2012b) A disposable picolitre bioreactor for cultivation and investigation of industrially relevant bacteria on the single cell level. Lab Chip, 12, 2060-2068.
Hou, B.-H., Takanaga, H., Grossmann, G., Chen, L.-Q., Qu, X.-Q., Jones, A. M., Lalonde, S., Schweissgut, O., Wiechert, W. and Frommer, W. B. (2011) Optical sensors for monitoring dynamic changes of intracellular metabolite levels in mammalian cells. Nat Protoc, 6, 1818-1833.
Nöh, K., Wahl, A. and Wiechert, W. (2006) Computational tools for isotopically instationary 13C labeling experiments under metabolic steady state conditions. Metab. Eng., 8, 554-577.
Kinder, M. and Wiechert, W. (1996) Stochastic simulation of biotechnical processes. Mathematics and Computers in Simulation 42 (2-3):17, 42, 171-178.
Nöh
Helfrich, S., Pfeifer, E., Krämer, C., Sachs, C. C., Wiechert, W., Kohlheyer, D., Nöh, K. and Frunzke, J. (2015a) Live cell imaging of SOS and prophage dynamics in isogenic bacterial populations. Mol. Microbiol.
Grünberger, A., Probst, C., Helfrich, S., Nanda, A., Stute, B., Wiechert, W., Lieres, E. v., Nöh, K., Frunzke, J. and Kohlheyer, D. (2015) Spatiotemporal microbial single-cell analysis using a high-throughput microfluidics cultivation platform. Cytometry A.
Helfrich, S., Azzouzi, C. E., Probst, C., Seiffarth, J., Grünberger, A., Wiechert, W., Kohlheyer, D. and Nöh, K. (2015b) Vizardous: interactive analysis of microbial populations with single cell resolution. Bioinformatics.
Mustafi, N., Grünberger, A., Mahr, R., Helfrich, S., Nöh, K., Blombach, B., Kohlheyer, D. and Frunzke, J. (2014) Application of a genetically encoded biosensor for live cell imaging of L-valine production in pyruvate dehydrogenase complex-deficient Corynebacterium glutamicum strains. PLoS ONE, 9, e85731.
Lieres, E. v., Niehoff, C. and Nöh, K. (2008) Particle Tracking and Robust Estimation of Azimuthal Averages from Confocal Laser Scanning Microscopy Data. In 5th European Congress on Computational Methods in Applied Sciences and Engeineering - ECCOMASVenice, Italy.
Nöh, K., Wahl, A. and Wiechert, W. (2006) Computational tools for isotopically instationary 13C labeling experiments under metabolic steady state conditions. Metab. Eng., 8, 554-577.
Kohlheyer
Helfrich, S., Pfeifer, E., Krämer, C., Sachs, C. C., Wiechert, W., Kohlheyer, D., Nöh, K. and Frunzke, J. (2015a) Live cell imaging of SOS and prophage dynamics in isogenic bacterial populations. Mol. Microbiol.
Grünberger, A., Probst, C., Helfrich, S., Nanda, A., Stute, B., Wiechert, W., Lieres, E. v., Nöh, K., Frunzke, J. and Kohlheyer, D. (2015) Spatiotemporal microbial single-cell analysis using a high-throughput microfluidics cultivation platform. Cytometry A.
Helfrich, S., Azzouzi, C. E., Probst, C., Seiffarth, J., Grünberger, A., Wiechert, W., Kohlheyer, D. and Nöh, K. (2015b) Vizardous: interactive analysis of microbial populations with single cell resolution. Bioinformatics.
Nanda, A. M., Heyer, A., Krämer, C., Grünberger, A., Kohlheyer, D. and Frunzke, J. (2014) Analysis of SOS-induced spontaneous prophage induction in Corynebacterium glutamicum at the single-cell level. J. Bacteriol., 196, 180-188.
Mustafi, N., Grünberger, A., Mahr, R., Helfrich, S., Nöh, K., Blombach, B., Kohlheyer, D. and Frunzke, J. (2014) Application of a genetically encoded biosensor for live cell imaging of L-valine production in pyruvate dehydrogenase complex-deficient Corynebacterium glutamicum strains. PLoS ONE, 9, e85731.
Unthan, S., Grünberger, A., van Ooyen, J., Gätgens, J., Heinrich, J., Paczia, N., Wiechert, W., Kohlheyer, D. and Noack, S. (2014) Beyond growth rate 0.6: What drives Corynebacterium glutamicum to higher growth rates in defined medium. Biotechnol. Bioeng., 111, 359-371.
Grünberger, A., Wiechert, W. and Kohlheyer, D. (2014) Single-cell microfluidics: opportunity for bioprocess development. Curr. Opin. Biotechnol., 29C, 15-23.
Probst, C., Grünberger, A., Wiechert, W. and Kohlheyer, D. (2013a) Microfluidic growth chambers with optical tweezers for full spatial single-cell control and analysis of evolving microbes. J. Microbiol. Methods, 95, 470-476.
Probst, C., Grünberger, A., Wiechert, W. and Kohlheyer, D. (2013b) Polydimethylsiloxane (PDMS) Sub-Micron Traps for Single-Cell Analysis of Bacteria. Micromachines, 4, 357-369.
Grünberger, A., van Ooyen, J., Paczia, N., Rohe, P., Schiendzielorz, G., Eggeling, L., Wiechert, W., Kohlheyer, D. and Noack, S. (2012a) Beyond growth rate 0.6: Corynebacterium glutamicum cultivated in highly diluted environments. Biotechnol. Bioeng.
Grünberger, A., Paczia, N., Probst, C., Schendzielorz, G., Eggeling, L., Noack, S., Wiechert, W. and Kohlheyer, D. (2012b) A disposable picolitre bioreactor for cultivation and investigation of industrially relevant bacteria on the single cell level. Lab Chip, 12, 2060-2068.