Bhattacharyya, S. et al. Efflux-linked accelerated evolution of antibiotic resistance at a population edge. Mol Cell 82, 4368-4385.e6. dio: 10.1016/j.molcel.2022.10.024



Ho, K. & Harshey, R. M. Goodbye PAM: Phage λ’s Red recombination system cripples PAMs and helps dodge CRISPR attacks. Cell Host & Microbe 29, 1469–1471. doi: 10.1016/j.chom.2021.09.011



Bhattacharyya S., Walker, D.M. and Harshey, R.M. Dead cells release a 'necrosignal' that activates antibiotic survival pathways in bacterial swarming. Nature Comm. 11(1):4157. doi: 10.1038/s41467-020-17709-0.

Walker D.M. and Harshey R.M. Deep sequencing reveals new roles for MuB in transposition immunity and target-capture, and redefines the insular Ter region of E. coli  Mob DNA. 11:26. doi: 10.1186/s13100-020-00217-9.

Partridge, J.D., Nhu, N.T.Q., Dufour, Y. and Harshey, R.M. Tumble Suppression is a Conserved Feature of Swarming Motility. mBio. doi: 10.1128/mBio.01189-20

Partridge, J.D. and Harshey, R.M. Investigating Flagella-Driven Motility in Escherichia coli by Applying Three Estalished Techniques in a series. J. Vis. Exp. doi: 10.3791/61364.

Walker, D.M., Freddolino, P.L. and Harshey, R.M. A Well-Mixed E. coli Genome: Widespread Contacts Revealed by Tracking Mu Transposition. Cell. doi: 10.1016/j.cell.2020.01.031


Nieto, V., Partridge, J.D., Severin, G.B., Lai, R.Z., Waters, C.M., Parkinson, J.S. and Harshey, R.M. Under Elevated c-di-GMP in Escherichia coli, YcgR Alters Flagellar Motor Bias and Speed Sequentially, with Additional Negative Control of the Flagellar Regulon via the Adaptor Protein RssB. J. Bacteriol.  doi: 10.1128/JB.00578-19

Partridge, J.D., Nhu, N.T.Q., Dufour, Y.S., and Harshey, R.M. Escherichia coli remodels the chemotaxis pathway for swarming. mBio. Mar 10;2: doi: 10.1128/mBio.00316-19


Bhattacharyya, S., Soniat, M.M., Walker, D., Jang, S., Finkelstein, I.J., and Harshey, R.M. Phage Mu Gam protein promotes NHEJ in concert with Escherichia coli ligase. Proc. Natl. Acad. Sci. Dec 11;115(50):  E11614-E11622. doi: 10.1073/pnas.1816606115

Partridge, J.D., Ariel, G., Schvartz, O., Harshey, R.M., and Be'er, A. The 2D architecture of a bacterial swarm has implications for antibiotic tolerance. Sci. Rep. Oct 25;8(1):  15823. doi: 10.1038/s41598-018-34192-2


H. K. Kim and R. M. Harshey. A diguanylate cyclase acts as a cell division inhibitor in a two-step response to reductive and envelope stresses. MBio. Aug 9;7(4). pii: e00822-16. doi: 10.1128/mBio.00822-16



G. Ariel, A. Rabani, S. Benisty, J. D. Partridge, R. M. Harshey and A. Be'er. Swarming Bacteria Migrate by Levy Walk. Nature Comm. Sep 25;6:8396. doi: 10.1038/ncomms9396

R. M. Harshey and J. D. Partridge. Shelter in a SwarmJ. Mol. Biol. Aug 12. pii: S0022-2836(15)00448-9. doi: 10.1016/j.jmb.2015.07.025
S. Jang and R. M. Harshey. Repair of transposable phage Mu DNA insertions begins only when the E. coli replisome collides with the trasnpososome. Mol. Microbiol. Aug;97(4):746-58. doi: 10.1111/mmi.13061
J. D. Partridge, V. Nieto and R. M. Harshey. A new player at the flagellar motor: FliL controls both motor output and bias. MBio. Feb 24;6(2):e02367. doi: 10.1128/mBio.02367-14
J. Lee, A. F. Monzingo, A. T. Keatinge-Clay and R. M. Harshey. Structure of Salmonella FlhE, conserved member of a flagellar type III secretion operon. J. Mol. Biol. Mar;427:1254062 doi: 10.1016/j.jmb.2014.11.022
R.M. Harshey. Transposable Phage Mu. Microbiol. Spectr. Oct;2(5) doi: 10.1128/microbiolspec.MDNA3-0007-2014
W. Choi, S. Jang and R. M. Harshey. Mu transpososome and RecBCD nuclease collaborate in the repair of simple Mu insertions. Proc. Natl. Acad. Sci. USA. Sep 30;111(39):14112-7. doi: 10.1073/pnas.1407562111
W. Choi, R. P. Saha, S. Jang and R. M. Harshey. Controlling DNA degradation from a distance: a new role for the Mu transposition enhancer. Mol. Microbial. Nov;94(3):595-608. doi: 10.1111/mmi.12781


R. P. Saha, Z. Lou, L. Meng and R. M. Harshey. Transposable prophage Mu is organized as a stable chromosomal domain of E. coli. Plos Genetics. Nov;9(11):e1003902. doi: 10.1371/journal.pgen.1003902

J. D. Partridge and R. M. Harshey. Swarming: flexible roaming plans. J. Bacteriol. Mar;195(5):909-18. doi: 10.1128/JB.02063-12

J. D. Partridge and R. M. Harshey. More than motility: Salmonella flagella contribue to overriding friction and facilitating colony hydration during swarming. J. Bacteriol. Mar;195(5):919-29. doi: 10.1128/JB.02064-12


M. D. Lazova, M. T. Butler, T. S. Shimizu and R. M. Harshey. Salmonella chemoreceptors McpB and McpC mediate a repellent response to L-cystine: a potential mechanism to avoid oxidative conditions. Mol. Microbiol. May;84(4):697-711. doi: 10.1111/j.1365-2958.2012.08051.x
Harhsey, R.M. The Mu story: how a maverick phage moved the field forward. Mob DNA. Dec 5;3(1):21. doi: 10.1186/1759-8753-3-21

S. Jang. S. J. Sandler and R. M. Harshey.  Mu insertions are repaired by the double strand break repair pathway of E. coli. PLoS Genetics. Apr;8(4):e1002642.  doi: 10.1371/journal.pgen.1002642

J. Lee, and R. M. Harshey. Loss of FlhE in the flagellar type III secretion system allows proton inflx into Salmonella and E. coli. Mol Microbial. May;84(3):550-65. doi: 10.1111/j.1365-2958.2012.08043


A. Be’er and R. M. Harshey. Collective motion of surfactant-producing bacteria imparts superdiffusivity to their upper surface. Biophys. J. 101:1017-24. doi: 10.1016/j.bpj.2011.07.019

J. Ge, Z. Lou, H. Cui, L. Shang and R. M. Harshey. Analysis of phage Mu DNA transposition by whole-genome E. coli tiling arrays reveals a complex relationship to distribution of large selection protein B, transcription and chromosome architectural elements. J. Biosci. Sep;36(4):587-601. PubMed PMID: 21857106


K. Paul. V. Nieto, W. C. Carliquist, D. F. Blair and R. M. Harshey. The c-di-GMP binding protein YcgR controls flagellar motor direction and speed to affect chemotaxis by a 'backstop break' mechanism. Mol. Cell. Apr 9;38(1):128-39. doi: 10.1016/j.molcel.2010.03.001

W. Choi and R. M. Harshey. DNA repair by the cryptic endonuclease activity of Mu transposase. Proc. Natl. Acad. Sci. USA. Jun 1;107(22):10014-9. doi: 10.1073/pnas.0912615107


M. Butler, Q. Wang and R. M. Harshey. Cell density and mobility protect swarming bacteria against antibiotic.Proc. Natl. Acad. Sci. USA. Feb 23;107(8):3776-81. doi: 10.1073/pnas.0910934107

R. P. Alexander, A. C. Lowenthal, R. M. Harshey and K. M. Ottemann. CheV: CheW-like coupling proteins at the core of the chemotaxis signaling network. Trends Microbial. Nov;18(11):494-503. doi: 10.1016/j.tim.2010.07.004
J. Ge, Z. Lou and R. M. Harshey. Immunity of replicating Mu to self-integration: a novel mechanism employing MuB protein. Mob DNA. Feb 1;1(1):8. doi: 10.1186/1759-8753-1-8