Joshua W. Shaevitz
and the Lewis-Sigler Institute for Integrative Genomics
Carl Icahn Lab, 244
Lab (609) 258-5959
Cellular and molecular biophysics; Shape, mechanics and motility
The cells that make up all living organisms come in a dizzying array of sizes and shapes, each with unique structural and mechanical properties. When many cells move they contort their bodies to glide along surfaces or swim through fluid. We are interested in the different physical strategies that mother nature has found to create the cellular and sub-cellular structures that perform these amazing feats.
One of the species we study, Spiroplasma melliferum, is a helix barely more than 100 nm across and a few microns long. How does this cell achieve its beautiful shape? When these cells swim they change the helicity of their entire bodies to produce movement. How does this work? How can a cell organize its contents in such a tightly packed space?
It was recently discovered that many, if not all, bacteria use an internal cytoskelton to define their shape, to guide intracellular organization and to produce movement. Our lab studies physical aspects of the prokaryotic cytoskeleton. What are the structural properties of the individual cytoskeletal filaments and how do they contribute to overall cell mechanics? Is mechanical stress induced by the cytoskeleton used to determine cell shape? Are these filaments used as tracks by molecular motors as they are in eukaryotes by kinesin and myosin? These are just some of the basic questions that our lab is interested in.
For this research, we are developing new instrumentation that combines mechanical perturbation of cells and molecules with visualization of key protein and macromolecular structures. Our toolbox includes unique combinations of optical microscopy, fluorescence and deconvolution microscopy, optical trapping, atomic force microscopy, as well as biophysical modeling and simulation.
Nguyen JP, Shipley FB, Linder AN, ... Shaevitz JW, Leifer AM. (2015) Whole-brain calcium imaging with cellular resolution in freely behaving Caenorhabditis elegans. Proc Natl Acad Sci U S A. [Epub ahead of print]
Morgenstein RM, Bratton BP, Nguyen JP, Ouzounov N, Shaevitz JW, Gitai Z. (2015) RodZ links MreB to cell wall synthesis to mediate MreB rotation and robust morphogenesis. Proc Natl Acad Sci U S A. [Epub ahead of print]
Bratton BP, Shaevitz JW. (2015) Simple Experimental Methods for Determining the Apparent Focal Shift in a Microscope System. PLoS One. 10(8): e0134616. Pubmed
Thutupalli S, Sun M, Bunyak F, Palaniappan K, Shaevitz JW. (2015) Directional reversals enable Myxococcus xanthus cells to produce collective one-dimensional streams during fruiting-body formation. J R Soc Interface. 12(109). Pubmed
Pilizota T, Shaevitz JW. (2014) Origins of Escherichia coli growth rate and cell shape changes at high external osmolality. Biophys J. 107:1962-9. Pubmed
Berman GJ, Choi DM, Bialek W, Shaevitz JW. (2014) Mapping the stereotyped behaviour of freely moving fruit flies. J R Soc Interface. 11: pii: 20140672. Pubmed
Polyakov O, He B, Swan M, Shaevitz JW, Kaschube M, Wieschaus E. (2014) Passive mechanical forces control cell-shape change during Drosophila ventral furrow formation. Biophys J. 107: 998-1010. Pubmed
Balagam R, Litwin DB, Czerwinski F, Sun M, Kaplan HB, Shaevitz JW, Igoshin OA. (2014) Myxococcus xanthus gliding motors are elastically coupled to the substrate as predicted by the focal adhesion model of gliding motility. PLoS Comput Biol. 10: e1003619. Pubmed
Deng Y, Sun M, Lin PH, Ma J, Shaevitz JW. (2014) Spatial Covariance Reconstructive (SCORE) super-resolution fluorescence microscopy. PLoS One. 9: e94807. Pubmed
Shaevitz JW. (2013) Combining modeling and experiment to understand bacterial growth. Biophys J. 104: 2573. Pubmed
Pilizota T, Shaevitz JW. (2013) Plasmolysis and cell shape depend on solute outer-membrane permeability during hyperosmotic shock in E. coli. Biophys J. 104: 2733-42. Pubmed
Deng Y, Coen P, Sun M, Shaevitz JW. (2013) Efficient multiple object tracking using mutually repulsive active membranes. PLoS One. 8: e65769. Pubmed
Borenstein DB, Meir Y, Shaevitz JW, Wingreen NS. (2013) Non-local interaction via diffusible resource prevents coexistence of cooperators and cheaters in a lattice model. PLoS One. 8: e63304. Pubmed
Wang S, Shaevitz JW. (2013) The mechanics of shape in prokaryotes. Front Biosci (Schol Ed). 5: 564-74. Pubmed
Pilizota T, Shaevitz JW. (2012) Fast, multiphase volume adaptation to hyperosmotic shock by Escherichia coli. PLoS One. 7: e35205. PubMed
van Teeffelen S, Shaevitz JW, Gitai Z. (2012) Image analysis in fluorescence microscopy: bacterial dynamics as a case study. Bioessays. 34: 427-36. PubMed
Wang S, Furchtgott L, Huang KC, Shaevitz JW. (2012) Helical insertion of peptidoglycan produces chiral ordering of the bacterial cell wall. Proc Natl Acad Sci. 109: E595-604. PubMed
Sun M, Wartel M, Cascales E, Shaevitz JW, Mignot T. (2011) Motor-driven intracellular transport powers bacterial gliding motility. Proc Natl Acad Sci. 108: 7559-64. PubMed
Shaevitz JW, Gitai Z. (2010) The structure and function of bacterial actin homologs. Cold Spring Harb Perspect Biol. 2: a000364. PubMed
Wang S, Arellano-Santoyo H, Combs PA, Shaevitz JW. (2010) Actin-like cytoskeleton filaments contribute to cell mechanics in bacteria. Proc Natl Acad Sci. 107: 9182-85. PubMed
Wang S, Arellano-Santoyo H, Combs PA, Shaevitz JW. (2010) Measuring the bending stiffness of bacterial cells using an optical trap. J Vis Exp. pii: 2012. PubMed
Deng Y, Shaevitz JW. (2009) Effect of aberration on height calibration in three-dimensional localization-based microscopy and particle tracking. Appl Opt. 48: 1886-90. PubMed
Shaevitz JW, Fletcher DA. (2008) Curvature and torsion in growing actin networks. Phys Biol. 5: 26006. PubMed
Shaevitz JW, Fletcher DA. (2007) Enhanced three-dimensional deconvolution microscopy using a measured depth-varying point spread function JOSA A. 24: 2622-27.
Mignot T, Shaevitz JW, Hartzell PL, Zusman DR. (2007) Evidence that focal adhesion complexes power bacterial gliding motility. Science. 315: 853-56. PubMed
Abbondanzieri EA, Greenleaf WJ, Shaevitz JW, Landick R, Block SM. (2005) Direct observation of base-pair stepping by RNA polymerase. Nature. 438: 460-65. PubMed
Abbondanzieri EA, Shaevitz JW, Block SM. (2005) Picocalorimetry of transcription by RNA polymerase. Biophys J. 89: L61-63. PubMed
Shaevitz JW, Block SM, Schnitzer MJ. (2005) Statistical kinetics of macromolecular dynamics. Biophys J. 89: 2277-85. PubMed
Shaevitz JW, Lee JY, Fletcher DA. (2005) Spiroplasma swim by a processive change in body helicity. Cell. 122: 941-45. PubMed
Shaevitz JW, Abbondanzieri EA, Landick R, Block SM. (2003) Backtracking by single RNA polymerase molecules observed at near-base-pair resolution. Nature. 426: 684-87. PubMed
Block SM, Asbury CL, Shaevitz JW, Lang MJ. (2003) Probing the kinesin reaction cycle with a 2D optical force clamp. Proc Natl Acad Sci. 100: 2351-56. PubMed.
Lang MJ, Asbury CL, Shaevitz JW, Block SM. (2002) An automated two-dimensional optical force clamp for single molecule studies. Biophys J. 83: 491-501. PubMed