Publications

Please contact Dr. Koch for PDF copies of the articles below if you do not have electronic access otherwise.

​

Please also see Dr. Koch's Google Scholar profile.

​

Newest first. * = co-first author. Koch lab members in red.

​

Preprints

​

• V.L. Taylor, M. Shah, P.H. Patel, A. Yusuf, C.M. Burk, Z. Gitai, A.R. Davidson, M.D. Koch, K.L. Maxwell (2024) "Prophages block cell surface receptors to ensure survival of their viral progeny". bioRxiv.

• E. Han, C. Fei, R. Alert, K. Copenhagen, M.D. Koch, N.S. Wingreen, J.W. Shaevitz (2023) "Local polar order controls mechanical stress and triggers layer formation in developing Myxococcus xanthus colonies". arXiv.

​

Independent lab

​

2023

​​

• K. Schroven, L. Putzeys, A. Kerremans, P.-J. Ceyssens, M. Vallino, J. Paeshuyse, F. Haque, A. Yusuf, M.D. Koch, R. Lavigne (2023) "The phage-encoded PIT4 protein affects multiple two-component systems of Pseudomonas aeruginosa". Microbiology Spectrum.

• J.S. Palalay, A.N. Simsek, J. Reed, M.D. Koch, B. Sabass, J.E. Sanfilippo (2023) "Shear force enhances adhesion of Pseudomonas aeruginosa by counteracting pilus-driven surface departure". PNAS.

• G.C. Padron, A.M. Shuppara, A. Sharma, M.D. Koch, J.S. Palalay, J.N. Radin, T.E. Kehl-Fie, J.A. Imlay, J.E. Sanfilippo (2023) "Shear rate sensitizes bacterial pathogens to H2O2 stress". PNAS.

​

Postdoc

​

2024

​

• A.N. Simsek*, M.D. Koch*, J.E. Sanfilippo, Z. Gitai, G. Gompper, B. Sabass (2023) "Type-IV pili tune an adhesion-migration trade-off during surface colonization of Pseudomonas aeruginosa". PRX Life.

• J. Thongchol, Z. Yu, L. Harb, Y. Lin, M.D. Koch, M. Theodore, U. Narsaria, J.W. Shaevitz, Z. Gitai, Y. Wu, J. Zhang, L. Zeng (2024) "Removal of Pseudomonas Type IV Pili by a Small RNA Virus". Science.

​

2023

​

• B. Wang, A.E. Lin, J. Yuan, M.D. Koch, N.S. Wingreen, B. Adamson, Z. Gitai (2023) "Single-cell massively-parallel multiplexed microbial sequencing (M3-Seq) identifies rare bacterial populations and profiles phage infection". Nature Microbiology.

​

2022

​

• M.D. Koch and J.W. Shaevitz (2022) "Art Ashkin and the origins of optical trapping and particle manipulation”. Methods in Molecular Biology Vol 2478: Optical Tweezers – Methods and Protocols, 2nd ed.

• M.D. Koch, M.E. Black, E. Han, J.W. Shaevitz, Z. Gitai (2022) "Pseudomonas aeruginosa distinguishes surfaces by stiffness using retraction of type IV pili" PNAS

​

2021

​

• M.D. Koch, C. Fei, N.S. Wingreen, J.W. Shaevitz, and Z. Gitai (2021) "Competitive binding of independent extension and retraction motors explains the quantitative dynamics of type IV pili" PNAS

• R.J. Scheffler, Y. Sugimoto, B.P. Bratton, C.K. Ellison, M.D. Koch, M.S. Donia, Z. Gitai (2021) "Pseudomonas aeruginosa detachment from surfaces via a self-made small molecule". Journal of Biological Chemistry

​

2019

​

• A. Simsek, A. Braeutigam, M.D. Koch, J.W. Shaevitz, Y. Huang, G. Gompper, B. Sabass (2019) "Substrate-rigidity dependent migration of an idealized twitching bacterium". Soft Matter

• J.E. Sanfilippo*, A. Lorestani*, M.D. Koch, B.P. Bratton, A. Siryaporn, H.A. Stone, Z. Gitai (2019) "Microfluidic-based transcriptomics reveal force-independent bacterial rheosensing". Nature Microbiology

​

2017

​

• B. Sabass, M.D. Koch, G. Liu, H.A. Stone, and J.W. Shaevitz (2017) "Force generation by groups of migrating bacteria". PNAS

• M.D. Koch and J.W. Shaevitz (2017) "Introduction to Optical Tweezers". Methods in Molecular Biology Vol. 1486: Optical Tweezers – Methods and Protocols, 1st ed.

​

PhD

​

• J. Roth*, M.D. Koch*, and A. Rohrbach (2018) "Dynamics of a protein chain motor driving helical bacteria under stress". Biophysical Journal

• M.D. Koch and A. Rohrbach (2018) "Label-free imaging and bending analysis of microtubules by ROCS microscopy and optical trapping". Biophysical Journal

• M.D. Koch, N. Schneider, P. Nick, and A. Rohrbach (2017) "Single microtubules and small networks become significantly stiffer on short time-scales upon mechanical stimulation". Scientific Reports

• M.D. Koch and A. Rohrbach (2014) "How to calibrate an object-adapted optical trap for force sensing and interferometric shape tracking of asymmetric structures". Optics Express

• M.D. Koch, J. Roth, and A. Rohrbach (2014) "Bakterien gefangen im Licht". BIOspektrum (Invited news article)

• M.D. Koch and A. Rohrbach (2012) "Object-adapted optical trapping and shape-tracking of energy-switching helical bacteria". Nature Photonics