Publications

Advances made toward the automation of Molecular Microscopy sample preparation, data collection, and image processing has shifted this method from one suited for isolated observations to a high-throughput, tightly controlled technology that is applicable to large-scale, statistically relevant biotechnology and pharmaceutical applications. At NanoImaging Services, we are proud of a scientific team that played a pivotal role in this transformation.

General

Lyumkis, D., A. Moeller, A. Cheng, A. Herold, E. Hou, C. Irving, E.L. Jacovetty, P.-W. Lau, A.M. Mulder, J. Pulokas, J.D. Quispe, N.R. Voss, C.S. Potter, and B. Carragher. 2010. Automation in Single-Particle Electron Microscopy: Connecting the Pieces. Methods in Enzymology 483: 291-338.

Carragher, B. and C.S. Potter. 2008. Advanced Transmission Electron Microscopy in Drug Development. Preclinical World. 104-107.

O'Keefe, M.A., J. Turner, J. Musante, C. Hetherington, A.G. Cullis, B. Carragher, R. Jenkins, J. Milgrim, R. Milligan, C.S. Potter, L. Allard, D. Blom, L. Degenhardt, and W. Sides. 2004. Laboratory design for high-performance electron microscopy. Microscopy Today:8-14.

Pharmaceutical Applications

Biological Applications

Mulder, A.M., C. Yoshioka, A. H. Beck, A.E. Bunner, R.A. Milligan, C.S. Potter, B. Carragher, and J.R. Williamson. 2010. Visualizing Ribosome Biogenesis: Parallel Assembly Pathways for the 30S Subunit. Science. 330:673-7.

Lander, G.C., R. Khayat, R. Li, P.E. Prevelige, C.S. Potter, B. Carragher, and J.E. Johnson. 2009. The P22 tail machine at subnanometer resolution reveals the architecture of an infection conduit. Structure. 17:789-99.

Lau, P.W., C.S. Potter, B. Carragher, and I.J. MacRae. 2009.Structure of the human Dicer-TRBP complex by electron microscopy. Structure. 17:1326-32.

Mulder, A.M., A. Glavis-Bloom, C.A. Moores, M. Wagenbach, B. Carragher, L. Wordeman, and R.A. Milligan. 2009.A new model for binding of kinesin 13 to curved microtubule protofilaments. J Cell Biol. 185:51-7.

Ward, A., S. Mulligan, B. Carragher, G. Chang, and R.A. Milligan. 2009.Nucleotide dependent packing differences in helical crystals of the ABC transporter MsbA. J Struct Biol. 165:169-75.

Zidovska, A., H.M. Evans, K.K. Ewert, J. Quispe, B. Carragher, C.S. Potter, and C.R. Safinya. 2009.Liquid crystalline phases of dendritic lipid-DNA self-assemblies: lamellar, hexagonal, and DNA bundles. J Phys Chem B. 113:3694-703.

Zidovska, A., K.K. Ewert, J. Quispe, B. Carragher, C.S. Potter, and C.R. Safinya. 2009. Block liposomes from curvature-stabilizing lipids: connected nanotubes, -rods, or -spheres. Langmuir. 25:2979-85.

Zidovska, A., K.K. Ewert, J. Quispe, B. Carragher, C.S. Potter, and C.R. Safinya. 2009. Block liposomes vesicles of charged lipids with distinctly shaped nanoscale sphere-, pear-, tube-, or rod-segments. Methods Enzymol. 465:111-28.

Stagg, S.M., P. LaPointe, A. Razvi, C. Gurkan, C.S. Potter, B. Carragher, and W.E. Balch. 2008. Structural basis for cargo regulation of COPII coat assembly. Cell. 134:474-84.

Strable, E., D.E. Prasuhn, Jr., A.K. Udit, S. Brown, A.J. Link, J.T. Ngo, G. Lander, J. Quispe, C.S. Potter, B. Carragher, D.A. Tirrell, and M.G. Finn. 2008.Unnatural amino acid incorporation into virus-like particles. Bioconjug Chem. 19:866-75.

Zidovska, A., K.K. Ewert, J. Quispe, B. Carragher, C.S. Potter, and C.R. Safinya. 2009. The effect of salt and pH on block liposomes studied by cryogenic transmission electron microscopy. Biochim Biophys Acta. 1788:1869-76.

Lander, G.C., A. Evilevitch, M. Jeembaeva, C.S. Potter, B. Carragher, and J.E. Johnson. 2008.Bacteriophage lambda stabilization by auxiliary protein gpD: timing, location, and mechanism of attachment determined by cryo-EM. Structure. 16:1399-406.

Lander, G.C., L. Tang, S.R. Casjens, E.B. Gilcrease, P. Prevelige, A. Poliakov, C.S. Potter, B. Carragher, and J.E. Johnson. 2006. The structure of an infectious P22 virion shows the signal for headful DNA packaging. Science. 312:1791-5.

Stagg, S.M., C. Gurkan, D.M. Fowler, P. LaPointe, T.R. Foss, C.S. Potter, B. Carragher, and W.E. Balch. 2006. Structure of the Sec13/31 COPII coat cage. Nature. 439:234-8.

Sample Preparation

Yoshioka, C., B. Carragher, and C.S. Potter. 2010. Cryomesh: a new substrate for cryo-electron microscopy. Microsc Microanal. 16:43-53.

Quispe, J., J. Damiano, S.E. Mick, D.P. Nackashi, D. Fellmann, T.G. Ajero, B. Carragher, and C.S. Potter. 2007. An improved holey carbon film for cryo-electron microscopy. Microsc Microanal. 13:365-71.

Data Collection

Suloway, C., J. Shi, A. Cheng, J. Pulokas, B. Carragher, C.S. Potter, S.Q. Zheng, D.A. Agard, and G.J. Jensen. 2009. Fully automated, sequential tilt-series acquisition with Leginon. J Struct Biol. 167:11-8.

Smith, R., and B. Carragher. 2008. Software tools for molecular microscopy. J Struct Biol. 163:224-8.

Carragher, B., C.S. Potter, and F.J. Sigworth. 2007. Software tools for macromolecular microscopy. J Struct Biol. 157:1-2.

Yoshioka, C., J. Pulokas, D. Fellmann, C.S. Potter, R.A. Milligan, and B. Carragher. 2007. Automation of random conical tilt and orthogonal tilt data collection using feature-based correlation. J Struct Biol. 159:335-46.

Suloway, C., J. Pulokas, D. Fellmann, A. Cheng, F. Guerra, J. Quispe, S. Stagg, C.S. Potter, and B. Carragher. 2005. Automated molecular microscopy: the new Leginon system. J Struct Biol. 151:41-60.

Potter, C.S., J. Pulokas, P. Smith, C. Suloway, and B. Carragher. 2004. Robotic grid loading system for a transmission electron microscope. J Struct Biol. 146:431-40..

Image Processing

Voss, N.R., D. Lyumkis, A. Cheng, P.W. Lau, A. Mulder, G.C. Lander, E.J. Brignole, D. Fellmann, C. Irving, E.L. Jacovetty, A. Leung, J. Pulokas, J.D. Quispe, H. Winkler, C. Yoshioka, B. Carragher, and C.S. Potter. 2010. Atoolbox for ab initio 3-D reconstructions in single-particle electron microscopy. J Struct Biol. 169:389-98.

Lander, G.C., S.M. Stagg, N.R. Voss, A. Cheng, D. Fellmann, J. Pulokas, C. Yoshioka, C. Irving, A. Mulder, P.W. Lau, D. Lyumkis, C.S. Potter, and B. Carragher. 2009. Appion: an integrated, database-driven pipeline to facilitate EM image processing. J Struct Biol. 166:95-102.

Voss, N.R., C.K. Yoshioka, M. Radermacher, C.S. Potter, and B. Carragher. 2009. DoG Picker and TiltPicker: software tools to facilitate particle selection in single particle electron microscopy. J Struct Biol. 166:205-13.

Stagg, S.M., G.C. Lander, J. Quispe, N.R. Voss, A. Cheng, H. Bradlow, S. Bradlow, B. Carragher, and C.S. Potter. 2008.A test-bed for optimizing high-resolution single particle reconstructions. J Struct Biol. 163:29-39.

Stagg, S.M., G.C. Lander, J. Pulokas, D. Fellmann, A. Cheng, J.D. Quispe, S.P. Mallick, R.M. Avila, B. Carragher, and C.S. Potter. 2006. Automated cryoEM data acquisition and analysis of 284742 particles of GroEL. J Struct Biol. 155:470-81.

Mallick, S.P., B. Carragher, C.S. Potter, and D.J. Kriegman. 2005. ACE: automated CTF estimation. Ultramicroscopy. 104:8-29.

Carragher, B., D. Fellmann, F. Guerra, R. Milligan, F. Mouche, J. Pulokas, J. Quispe, C. Suloway, Y. Zhu, and C.S. Potter. 2004.Rapid routine structure determination of macromolecular assemblies using electron microscopy: current progress and remaining challenges. J. Synchrotron Rad. 11:83-85.

Zhu, Y., B. Carragher, R.M. Glaeser, D. Fellmann, C. Bajaj, M. Bern, F. Mouche, F. de Haas, R.J. Hall, D.J. Kriegman, S.J. Ludtke, S.P. Mallick, P.A. Penczek, A.M. Roseman, F.J. Sigworth, N. Volkmann, and C.S. Potter. 2004. Automatic particle selection: results of a comparative study. J Struct Biol. 145:3-14.