Publications

2017

Collective force generation by groups of migrating bacteria

Sabass, Stone, Shaevitz
PNAS, doi: 10.1073/pnas.1621469114, arXiv:1701.00524


2016

Automatically tracking neurons in a moving and deforming brain

Nguyen, Linder, Plummer, Shaevitz, Leifer
PLoS Comp. Biology, doi: 10.1371/journal.pcbi.1005517, arXiv:1610.04579

An unsupervised method for quantifying the behavior of interacting individuals

Klibaite, Berman, Cande, Stern, Shaevitz
Physical Biology, Volume 14, Number 1, arXiv:1609.09345

A Periplasmic Polymer Curves Vibrio cholerae and Promotes Pathogenesis

Bartlett, Bratton, Duvshani, Miguel, Sheng, Martin, Nguyen, Persat, Desmarais, Van Nieuwenhze, Huang, Zhu, Shaevitz, Gitai
Cell, doi: 10.1016/j.cell.2016.12.019

Predictability and hierarchy in Drosophila behavior

Berman, Bialek, Shaevitz
PNAS, doi: 10.1073/pnas.1607601113, arXiv:1605.03626

MreB Orientation Correlates with Cell Diameter in Escherichia coli

Ouzounov, Nguyen, Bratton, Jacobowitz, Gitai, Shaevitz
Biophysics Journal, doi:10.1016/j.bpj.2016.07.017, arXiv:1503.07789

The PSI-U1 snRNP interaction regulates male mating behavior in Drosophila

Wang, Taliaferro, Klibaite, Hilgers, Shaevitz, Rio
PNAS, doi: 10.1073/pnas.1600936113

Introduction to Optical Tweezers

Koch, Shaevitz
Chapter in "Optical Tweezers: Methods and Protocols"

Biophysical Measurements of Bacterial Cell Shape

Nguyen, Bratton, Shaevitz
Chapter in "Bacterial Cell Wall Homeostasis"
Volume 1440 in "Methods in Molecular Biology" p. 227-245


2015

Whole-brain calcium imaging with cellular resolution in freely behaving C. elegans

Nguyen, Shipley, Linder, Plummer, Shaevitz, Leifer
PNAS, doi:10.1073/pnas.1507110112; arXiv:1501.03463

The mechanism and function of MreB rotation: RodZ is a linker that mediates robust growth

Morgenstein, Bratton, Nguyen, Ouzounov, Shaevitz, Gitai
PNAS, doi:10.1073/pnas.1509610112

Directional reversals enable Myxococcus xanthus cells to produce collective one-dimensional streams during fruiting body formation

Thutupalli, Sun, Bunyak, Palaniappan, Shaevitz
Royal Society Interface, doi:10.1098/rsif.2015.0049; arXiv:1410.7230 

Simple experimental methods for determining the apparent focal shift in a microscope system

Bratton, Shaevitz
PLoS One, doi:10.1371/journal.pone.0134616


2014

Origins of E. coli growth rate and cell shape changes at high external osmolality 

Pilizota, Shaevitz
Biophysical Journal, doi:10.1016/j.bpj.2014.08.025

Passive Mechanical Forces Control Cell Shape Change during Drosophila Ventral Furrow Formation

Polyakov, He, Swan, Shaevitz, Kaschube, Wieschaus
Biophysical Journal, doi:10.1016/j.bpj.2014.07.013

De novo morphogenesis in L-forms via geometric control of cell growth

Billings, Ouzounov, Ursell, Desmarais, Shaevitz, Gitai, Huang
Molecular Microbiology, doi: 10.1111/mmi.12703

Myxococcus xanthus Gliding Motors Are Elastically Coupled to the Substrate as Predicted by the Focal Adhesion Model of Gliding Motility

Balagam, Litwin, Czerwinski, Sun, Kaplan, Shaevitz, Igoshin
PLoS Computational Biology doi:10.1371/journal.pcbi.1003619; arXiv:1401.3220

Spatial Covariance Reconstructive (SCORE) Super-Resolution Fluorescence Microscopy

Deng, Sun, Lin, Ma, Shaevitz
PLoS One doi:10.1371/journal.pone.0094807

Rod-like bacterial shape is maintained by feedback between cell curvature and cytoskeletal localization

Ursell, Nguyen, Monds, Colavin, Billings, Ouzounov, Gitai, Shaevitz, Huang
Proceedings of the National Academy of Sciences doi:10.1073/pnas.1317174111

The biophysics of Myxococcus xanthus motility

Czerwinski, Shaevitz
In Zhaomin Yang and Penelope I Higgs (Eds.), Myxobacteria: Genomics, Cellular and Molecular Biology Caister Academic Press, 2014.


2013

Wartel, Ducret, Thutupalli, Czerwinski, Le Gall, Mauriello, Bergham, Brun, Shaevitz, Mignot
PLoS Biology doi:10.1371/journal.pbio.1001728

Combining Modeling and Experiment to Understand Bacterial Growth

Shaevitz
Biophysical Journal doi:10.1016/j.bpj.2013.05.007

Efficient Multiple Object Tracking Using Mutually Repulsive Active Membranes

Deng, Coen, Sun, Shaevitz
PLoS ONE doi:10.1371/journal.pone.0065769; arXiv:1212.6209

Non-local interaction via diffusible resource prevents coexistence of cooperators and cheaters in a lattice model

Borenstein, Meir, Shaevitz, Wingreen
PLoS ONE doi:10.1371/journal.pone.0063304

The mechanics of shape in prokaryotes

Wang, Shaevitz
Frontiers in Bioscience doi:10.2741/S390


2012

The molecular origins of chiral growth in walled cells

Huang, Ehrhardt, Shaevitz
Current Opinions in Microbiology doi:10.1016/j.mib.2012.11.002

Fast, Multiphase Volume Adaptation to Hyperosmotic Shock by Escherichia coli

Pilizota, Shaevitz
PLoS ONE doi:10.1371/ journal.pone.0035205

Helical insertion of peptidoglycan produces elongation and chiral ordering of the bacterial cell wall

Wang, Furchtgott, Huang, Shaevitz
Proceedings of the National Academy of Sciences doi:10.1073/pnas.1117132109
BioEssays doi:10.1002/bies.201100148

2011

From individual cell motility to collective behaviors: insights from a prokaryote, Myxococcus xanthus

Zhang, Ducret, Shaevitz, Mignot
FEMS Microbiology Reviews doi:10.1111/j.1574-6976.2011.00307.x

Direct measurement of stress-stiffening and turgor pressure in live bacterial cells

Deng, Sun, Shaevitz
Physical Review Letters doi:10.1103/PhysRevLett.107.158101; arXiv:1104.1421
van Teeffelen, Wang, Furchtgott, Huang,  Wingreen, Shaevitz, Gitai
Proceedings of the National Academy of Sciences doi: 10.1073/pnas.1108999108
Proceedings of the National Academy of Sciences doi:10.1073/pnas.1101101108

Femtosecond diffractive imaging of biological cells [PDF]

Seibert, Boutet, Svenda, Ekeberg, Maia, Bogan, Timneanu, Barty, Hau-Riege, Caleman, Frank, Benner, Lee, Marchesini, Shaevitz, Fletcher, Bajt, Andersson, Chapman, Hajdu
Journal of Physics B: Atomic, Molecular and Optical Physics doi:10.1088/0953-4075/43/19/194015

The structure and Function of Bacterial Actin Homologs [PDF]

Shaevitz and Gitai
Cold Spring Harbor Perspectives in Biology  doi: 10.1101/cshperspect.a000364

An actin-like cytoskeleton contributes to cell mechanics in bacteria [PDF] [SI]

Wang, Arellano-Santoyo, Combs, Shaevitz
Proceedings of the National Academy of Sciences doi: 10.1073/pnas.0911517107

Measuring the Bending Stiffness of Bacterial Cells Using an Optical Trap [HTML]

Wang, Arellano-Santoyo, Combs, Shaevitz
Journal of Visual Experiments doi: 10.3791/2012

A Parallel Product-Convolution approach for representing the depth varying Point Spread Functions in 3D widefield microscopy based on principal component analysis [PDF]

Arigovindan, Shaevitz, McGowan, Sedat, Agard
Optics Express doi:10.1364/OE.18.006461

The cytoskeleton: I-beams of the cell [PDF]

Shaevitz and Nørrelykke
Physics Today 

The effect of aberrations on height calibration in three-dimensional microscopy and particle tracking [PDF]

Deng and Shaevitz

Applied Optics doi:10.1364/AO.48.001886

Bayesian Estimation of the Axial Position in Astigmatism-Based Three-Dimensional Particle Tracking [PDF]

Shaevitz
International Journal of Optics doi:10.1155/2009/896208

Active and Passive Mechanisms of Intracellular Transport and Localization in Bacteria [PDF]

Mignot and Shaevitz
Current Opinions in Microbiology doi:10.1016/j.mib.2008.10.005

Slow stress propagation in adherent cells [PDF]

Rosenbluth, Crow, Shaevitz, Fletcher
Biophysical Journal doi:10.1529/biophysj.108.139139

Massively parallel X-ray holography [PDF]

Marchesini, Boutet, Sakdinawat, Bogan, Bajt, Barty, Chapman, Frank, Hau-Riege, Szoke, Cui, Shapiro, Howells, Spence, Shaevitz, Lee, Hajdu, Seibert
Nature Photonics doi:10.1038/nphoton.2008.154

Curvature and torsion in growing actin networks [PDF]

Shaevitz and Fletcher
Physical Biology doi:10.1088/1478-3975/5/2/026006; arXiv:0709.0679

Super-resolution for a 3D world [PDF]

Shaevitz
Nature Methods doi:10.1038/nmeth0608-471

Load fluctuations drive actin network growth [PDF]

Shaevitz and Fletcher
PNAS doi: 10.1073/pnas.0702601104; arXiv:0708.1791 

Enhanced three-dimensional deconvolution microscopy using a measured depth-varying point spread function [PDF]

Shaevitz and Fletcher
Journal of the Optical Society of America A doi:10.1364/JOSAA.24.002622

Evidence that Focal Adhesion Complexes Power Bacterial Gliding Motility [PDF]

Mignot, Shaevitz, Hartzell, Zusman
Science doi:10.1126/science.1137223

Direct observation of base-pair stepping by RNA polymerase [PDF]

Abbondanzieri, Greenleaf, Shaevitz, Landick, Block
Nature (2005)

Picocalorimetry of Transcription by RNA Polymerase [PDF]

Abbondanzieri, Shaevitz, Block
Biophysical Journal (2005) 

Statistical Kinetics of Macromolecular Dynamics [PDF]

Shaevitz, Schnitzer, Block
Biophysical Journal (2005)

Spiroplasma Swim by a Processive Change in Body Helicity [PDF]

Shaevitz, Lee, Fletcher
Cell (2005)

Backtracking by single RNA polymerase molecules observed at near-base-pair resolution [PDF]

Shaevitz, Abbondanzieri, Landick, Block
Nature (2003)

Probing the kinesin reaction cycle with a 2D optical force clamp [PDF]

Block, Asbury, Shaevitz, Lang
Proceedings of the National Academy of Sciences (2003)

An Automated Two-Dimensional Optical Force Clamp for Single Molecule Studies [PDF]

Lang, Asbury, Shaevitz, Block
Biophysical Journal (2002)
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