Publications

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

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

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Newest first. * = co-first author.

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Preprints

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• B. Wang, A.E. Lin, J. Yuan, M.D. Koch, B. Adamson, N.S. Wingreen, Z. Gitai (2023) "Massively-parallel Microbial mRNA Sequencing (M3-Seq) reveals single-cell heterogeneities in bacteria". BioRxiv

• 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" BioRxiv

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Independent lab

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2023

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• 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.

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Postdoc

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2022

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• 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

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2021

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• 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

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2019

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• 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

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2017

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• 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.

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PhD

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• 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