Publications

Bacterial biophysics

Using conditional independence tests to elucidate causal links in cell cycle regulation in Escherichia coli, P. Kar, S. Tiruvadi-Krishnan, Jaana Männik, Jaan Männik, A. Amir, Proc. Natl. Acad. Sci. U. S. A. 120 (2023) e2214796120. doi:10.1073/pnas.221479612  

Cell cycle-dependent recruitment of FtsN to the divisome in Escherichia coli, Jaana Männik, S. Pichoff, J. Lutkenhaus, Jaan Männik,mBio 13 (2022) e02017-22. doi:10.1128/mbio.02017-22

Coupling between DNA replication, segregation, and the onset of constriction in Escherichia coli, S. Tiruvadi-Krishnan, Jaana Männik, P. Kar, J. Lin, A. Amir, Jaan Männik, Cell Reports 38 (2022) 110539. doi:10.1016/j.celrep.2022.110539

Distinguishing different modes of growth using single-cell data, P. Kar, S. Tiruvadi-Krishnan, Jaana Männik, Jaan Männik, A. Amir, eLife 10 (2021) e72565. doi:10.7554/eLife.72565

Lab-on-a-chip based mechanical actuators and sensors for single-cell and organoid culture studies, Jaan Männik, T. F. Teshima, B. Wolfrum, D. Yang, J. Appl. Phys. 129, 210905 (2021). doi: 10.1063/5.0051875

Transient membrane-linked FtsZ assemblies precede Z-ring formation in Escherichia coli, B. E. Walker, Jaana Männik, Jaan Männik, Cur. Biol. 30 (2020) 1. doi: 10.1016/j.cub.2019.12.02

The effects of polydisperse crowders on the compaction of the Escherichia coli nucleoid, D. Yang, Jaana Männik, S. T. Retterer, Jaan Männik, Mol. Microbiol. 113 (2020) 1022–1037. doi: 10.1111/mmi.14467

Editorial: The Bacterial Cell: Coupling between Growth, Nucleoid Replication, Cell Division, and Shape Volume 2. A. Amir, J. Männik, C.L. Woldringh, and A. Zaritsky, Front. Microbiol. 10 (2019) 2056. doi: 10.3389/fmicb.2019.02056.

Does the nucleoid determine cell dimensions in Escherichia coli? A. Zaritsky, W. Vollmer, J. Männik, and C.L. Liu, Front. Microbiol. 10 (2019) 1717. doi: 10.3389/fmicb.2019.01717.

Cell cycle-dependent regulation of FtsZ in Escherichia coli in slow growth conditions, J.Männik, B. E. Walker, J. Männik, Mol. Microbiol. 110 (2018) 1030–1044. doi:10.1111/mmi.14135.

Analysis of factors limiting bacterial growth in PDMS mother machine devices, D. Yang, A. D. Jennings, E. Borrego, S. T. Retterer, J. Männik Front. Microbiol. 9 (2018) 871. doi: 10.3389/fmicb.2018.00871.

Kinetics of large-scale chromosomal movement during asymmetric cell division in Escherichia coli, J.Männik, M. W. Bailey, J. C. O’Neill, J. Männik,  PLOS Genetics 13 (2017) e1006638. doi: 10.1371/journal.pgen.1006638.

The role of MatP, ZapA, and ZapB in chromosomal organization and dynamics in Escherichia coli. J. Männik, D. E. Castillo, D. Yang, G. Siopsis, and J. Männik, Nucleic Acids Res. 44 (2016) 1216. doi: 10.1093/nar/gkv1484.

Editorial: The bacterial cell: coupling between growth, nucleoid replication, cell division and shape, J. Männik, C. L. Woldringh, A. Zaritsky, Front. Microbiol. 7 (2016) 116. doi:10.3389/fmicb.2016.00116.

Characterization of small microfluidic valves for studies of mechanical properties of bacteria, D. Yang, C. M. Greer, B. P. Jones, A. D. Jennings, S. T. Retterer, and J. Männik, J. Vac. Sci. Technol. B 33, (2015) 06F202. doi: 10.1116/1.4929883.

Spatial coordination between chromosomes and cell division proteins in Escherichia coli. J. Männik and M. W. Bailey Front. Microbiol. 6 (2015) 306. doi: 10.3389/fmicb.2015.00306.

Evidence for divisome localization mechanisms independent of the Min system and SlmA in Escherichia coli, M. W. Bailey, P. Bisicchia, B. T. Warren, D. J. Sherratt and J. Männik, PLOS Genetics (2014) 0.1371/journal.pgen.1004504.

Robustness and accuracy of cell division in Escherichia coli in diverse cell shapes, J. Männik, F. Wu, F. J. H. Hol, P. Bisicchia, D. Sherratt, J. E. Keymer and C. Dekker, Proc. Natl. Acad. Sci. U. S. A.  109 (2012) 6957.

Bacteria in submicron channels and microvalves, J. Männik, F. Sekhavati, J. E. Keymer and C. Dekker, published in Proceedings of microTAS 2010, pp. 1344-46, Groningen, the Netherlands, 2010.

Bacterial growth and motility in sub-micron constrictions, J. Männik, R. Driessen, J. E. Keymer and C. Dekker, Proc. Natl. Acad. Sci. U. S. A. 106 (2009) 14861.

Books

The bacterial cell: coupling between growth, nucleoid replication, cell division and shape, Vol. 2, eds. A. Amir, J. Männik, C. L. Woldringh and A. Zaritsky (Frontiers Media, Lausanne, 2019). ISBN 978-2-88963-156-8; doi: 10.3389/978-2-88963-156-8.

The bacterial cell: coupling between growth, nucleoid replication, cell division and shape, eds. A. Zaritsky, C. L. Woldringh and J. Männik (Frontiers Media, Lausanne, 2016). ISBN 978-2-88919-817-7; doi: 10.3389/978-2-88919-817-7.

 

Carbon nanotube biosensors

Influence of electrolyte composition on liquid-gated carbon-nanotube and graphene transistors , I. Heller, S. Chatoor, J. Männik, M. A. G. Zevenbergen, C. Dekker, and S. G. Lemay, J. Am. Chem. Soc. 132 (2010) 17149.

Charge Noise in Graphene Transistors, I. Heller, S. Chatoor, J. Männik, M. A. G. Zevenbergen, J. B. Oostinga, A. F. Morpurgo, C. Dekker, and S. G. Lemay, Nano Lett. 10 (2010) 1563.

Comparing weak and strong gate-coupling regimes for nanotube and graphene transistors, I. Heller, S. Chatoor, J. Männik, M. A. G. Zevenbergen, C. Dekker, and S. G. Lemay, Phys. Stat. Sol. 3 (2009) 190.

Optimizing the signal-to-noise ratio for biosensing with carbon nanotube transistors, I. Heller, J. Männik, S. G. Lemay and C. Dekker, Nano Lett. 9 (2009) 377.

Charge Noise in Liquid-Gated Single-Wall Carbon Nanotube Transistors, J. Männik, I. Heller, A. M. Jannsens, S. G. Lemay and C. Dekker, Nano Lett. 8 (2008) 685.

Identifying the Mechanism of Biosensing with Carbon Nanotube Transistors, I. Heller, A. M. Jannsens, J. Männik, E. D. Minot, S. G. Lemay and C. Dekker, Nano Lett. 8 (2008) 591.

 

Quantum computation with Josphson junctions

Crossover from Kramers to Phase-Diffusion Switching in Moderately Damped Josephson Junctions, J. Männik, S. Li, W. Qiu, W.Chen, V. Patel, J.E. Lukens Phys. Rev. B71 (2005) 220509.

Effect of Measurement on the Periodicity of the Coulomb Staircase of a Superconducting Box, J. Männik and J. E. Lukens, Phys. Rev. Lett. 92 (2004) 057004.

Tunable Transformer for Qubits Based on Flux States,  T. V. Filippov, S. K. Tolpygo, J. Männik  and J. E. Lukens, IEEE Trans. Appl. Supercondt. 13 (2003) 1005.