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Architecture of simian immunodeficiency
virus determined using cryo-electron tomography. See article
by Sougrat et al (2007). |
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Khursigara. C.M, Wu, X., and
Subramaniam, S. (2008)
Chemoreceptors in Caulobacter crescentus: trimers of receptor dimers
in a partially ordered hexagonally packed array.
J. Bacteriol. (in press). |
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Liu, J., Bartesaghi. A., Borgnia,
M. J., Sapiro. G. and Subramaniam, S.
(2008)
Molecular architecture of native gp120 trimers.
Nature (in press). |
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Narasimha, R, Aganj, I., Borgnia,
M. J., Bennett, A., Zabransky, D., Sapiro, G., McLaughlin, S., Milne,
J. L. S. and Subramaniam, S. (2008)
Automated denoising and feature identification
in electron tomograms of viruses and cells.
J. Struct. Biol. (in press). |
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Borgnia, M. J., Subramaniam,
S. and Milne, J. L. S. (2008)
Three-Dimensional Imaging of the Highly
Bent Architecture of Bdellovibrio bacteriovorus by Using Cryo-Electron
Tomography.
J. Bact. 190(7): 2588-2596. |
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Bartesaghi, A., Sprechman,
P., Liu, J., Randall, G., Sapiro, G. and Subramaniam, S. (2008) Classification
and 3D averaging with missing wedge correction in biological electron
tomography.
J. Struct. Biol. 162(3): 436-450. |
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Nanavati, D.,
Gucek, M., Milne, J. L. S., Subramaniam, S. and Markey, S. (2008)
Stoichiometry and absolute quantification of proteins with mass spectrometry
using fluorescent and isotope labeled concatenated peptide standards.
Mol. Cell. Proteomics 7: 442-447. |
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Lengyel, JS, Milne JLS, and
Subramaniam S. (2008)
Electron tomography in Nanoparticle Imaging
and Analysis.
Nanomedicine 3(1): 125-131. |
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Lengyel, J.S., Stott, K.M.,
Wu, X., Brooks, B.R., Balbo, A., Schuck, P., Perham, R.N., Subramaniam
S., and Milne. J.L.S. (2008)
Extended polypeptide linkers establish
the spatial architecture of a pyruvate dehydrogenase.
Structure, 16: 93-103. |
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Subramaniam S., Bartesaghi,
A., Liu, J., Bennett, A. E., and Sougrat, R. (2007)
Electron tomography of viruses.
Current Opinion in Structural Biology 17(5): 596-602. |
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Liu J, McBride MJ, Subramaniam
S. (2007)
Cell-surface filaments of the gliding bacterium Flavobacterium
johnsoniae revealed by cryo-electron tomography.
J. Bacteriol. 189(20): 7503-7506. |
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Bennett, A. E., Liu, J., Van
Ryk, D., Bliss, D., Arthos, J., Henderson, R. M. and Subramaniam, S. (2007)
Cryo
electron tomographic analysis of an HIV neutralizing protein and its complex
with native viral gp120.
J. Biol. Chem. 282(38): 27754-27759. |
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Sougrat, R., Bartesaghi,
A., Lifson, J.,D. Benett, A., E., Bennett, A. E., Zabransky, D. and
Subramaniam, S. (2007)
Electron tomography of the contact between
T-cells and SIV/HIV-1: Implications for viral entry.
PLoS Pathogens 3(5): e63. |
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Lefman, J., Morrison, R. and
Subramaniam, S. (2006)
Automated 100-Position Specimen Loader and Image
Acquisition System for Transmission Electron Microscopy
J. Struct. Biol. 158(3): 318-326. |
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Zhang, P., Khursigara,
C. M., Hartnell, L. and Subramaniam, S. (2007)
Direct visualization
of E.coli chemotaxis receptor arrays using cryo-electron microscopy.
Proc. Natl. Acad. Sci. USA 104(10): 3777-3781. |
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Zhang, P., Weis, R.
M., Peters, P. J. and Subramaniam , S. (2007)
Electron tomography
of bacterial chemotaxis receptor assemblies.
Meth. Cell Biol. 79:
373-384. |
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Subramaniam, S. (2006)
The
SIV surface spike imaged by electron tomography: One leg or three?
PLoS Pathog 2, e91. |
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Heymann, J., Hayles,
M., Gestmann, I., Giannuzzi, L., Lich, L., and Subramaniam, S. (2006)
Site-specific
3D Imaging of Cells and Tissues With a Dual Beam Microscope.
J. Struct. Biol. 155: 63-73. |
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Milne, J.L.S., Wu, X.,
Borgnia, M.J.B., Lengyel, J.S., Brooks, B.R., Shi, D., Perham, R.N.
and Subramaniam, S. (2006)
Molecular Structure Of A 9 Mda Icosahedral
Pyruvate Dehydrogenase Sub-Complex Containing The E2 And E3 Enzymes
Using Cryo-Electron Microscopy.
J. Biol. Chem. 281: 4364-4370. |
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Bartesaghi, A., Sapiro
G. and Subramaniam, S. (2005)
An energy-based 3D segmentation approach
for the quantitative interpretation of electron tomograms.
IEEE Trans. Image Proc. 14: 1314-1323. |
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Subramaniam,S. (2005)
Bridging
the imaging gap: Visualizing subcellular architecture with electron
tomography.
Curr. Opin.Microbiology
8: 316-322. |
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Zhang, P., Land, W.,
Lee, S., Juliani, J., Lefman, J., Smith, S., Germain, D., Kessel,
M., Leapman, R., Rouault, T.A., and Subramaniam, S. (2005)
Electron
tomography of degenerating neurons in mice with abnormal regulation
of iron metabolism.
J. Struct. Biol. 150: 144-153. |
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Zhang, P., Bos, E., Heymann,
J., Gnaegi, H., Kessel, M., Peters, P. and Subramaniam, S. (2004)
Direct
visualization of receptor arrays in frozen-hydrated sections and
plunge-frozen specimens of E.coli engineered to overproduce the chemotaxis
receptor.
Tsr J. Microsc. 216: 76-83. |
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Lefman, J., Zhang, P.,
Hirai, T., Weis, R. M., Juliani, J. Bliss, D., Kessel, M., Bos, E.,
Peters, P. J. and Subramaniam, S. (2004)
3D electron microscopic
imaging of membrane invaginations in E.coli overproducing the chemotaxis
receptor Tsr.
J. Bacteriol 186: 5052-5061. |
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Shen, W.,
Zhang, P., Germain, D., Rouault, T. and Subramaniam, S. (2004)
A
template propagation method for segmentation of filamentous structures
in electron tomograms.
IEEE ISBI 2004 (Biomedical Imaging). |
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Bartesaaghi, A., Sapiro,
G., Lee. S., Lefman, J. and Subramaniam, S. (2004)
A new approach
for 3D segmentation of cellular tomograms obtained using three-dimensional
electron microscopy.
IEEE ISBI 2004 (Biomedical Imaging). |
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Borgnia, M. J., Shi, D., Zhang, P. and Milne, J.L.S. (2004)
Visualization of
a-helical features in a density map constructed using 9 molecular images of
the 1.8 MDa icosahedral core of pyruvate dehydrogenase.
J. Struct. Biol 147: 136-145. |
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Subramaniam, S. and Milne,
J.L.S. (2004)
Three-dimensional electron microscopy at molecular
resolution.
Ann. Rev. Biophys. Biomol. Struct . 33: 141-155. |
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Wu, X., Milne, J. L.
S., Borgnia, M., Rostapshov, A., Subramaniam, S. and Brooks, B.
R. (2003)
A core-weighted fitting method for docking atomic structures
into low resolution maps: Application to electron cryo-microscopy.
J Struct Biol.141(1): 63-76. |
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Hirai, T., Heymann, J.
and Subramaniam, S. (2003)
A structural model for 12-helix transporters
in the Major Facilitator Superfamily.
J Bacteriol. 185(5): 1712-1718. |
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Zhang, P., Borgnia, M.,
Mooney, P., Shi, D., Pan, M., O'Herron, P., Mao, A., Brogan, D.,
Milne, J.L.S. and Subramaniam, S. (2003)
Automated image acquisition
and processing using a new generation of 4K x 4K CCD cameras for
cryo electron microscopic studies of macromolecular assemblies.
J Struct Biol. 143(2): 135-144. |
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Weis, R. M., Hirai, T.,
Chalah, A., Kessel, M., Peters, P. J. and Subramaniam , S. (2003)
Electron
microscopic analysis of membrane assemblies formed by the bacterial
chemotaxis receptor Tsr.
J Bacteriol. 185(12): 3636-3643. |
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Subramaniam, S., Zhang,
P., Lefman, J., Juliani, J., and Kessel, M. (2003)
Electron tomography:
A powerful tool for three-dimensional cellular microscopy.
ASM News 60: 240-245. |
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Hirai, T. and Subramaniam,
S. (2003)
Structural insights into the mechanism of proton pumping
by bacteriorhodopsin.
FEBS Lett. 545(1): 2-8. |
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Heymann, J., Hirai, T.,
Shi, D. and Subramaniam, S. (2003)
Projection structure of the bacterial
oxalate transporter at 3.4 Å resolution.
J Struct Biol. 144(3): 320-326. |
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Subramaniam, S., Hirai,
T. and Henderson, R. (2002)
From structure to mechanism: Electron
crystallographic analysis of bacteriorhodopsin.
Philos Transact Ser A Math Phys Eng Sci. 360(1794): 859-874. |
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Hirai, T., Heymann, J.,
Shi, D., Sarker, R., Maloney, P. C. and Subramaniam, S. (2002)
Three
dimensional structure of a bacterial oxalate transporter.
Nat Struct Biol. 9(8): 597-600. |
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Milne, J.L.S., Shi, D.,
Rosenthal, P.B., Sunshine, J., Domingo, G., Wu, X. -W, Broooks, B.
R., Perham, R.N., Henderson, R. and Subramaniam, S.(2002)
Molecular
architecture and functional mechanism of an icosahedral pyruvate
dehydrogenase multienzyme complex.
EMBO J. 21(21): 5587-5598. |
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Tittor, J., Paula, S.,
Subramaniam, S., Heberle, J., Henderson, R. and Oesterhelt, D. (2002)
Proton
Translocation by Bacteriorhodopsin in the Absence of Substantial
Conformational Changes.
J Mol Biol. 319(2): 555-65. |
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Zhang, P., Beatty, A.,
Milne, J.L.S., and Subramaniam, S. (2001)
Automated data collection with a Tecnai 12 electron microscope:
Applications for molecular imaging by cryo-microscopy.
J Struct Biol. 135(3): 251-261. |
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Heymann, J., Sarker,
R., Hirai, T., Shi, D., Milne, J.L.S., Maloney, P.C. and Subramaniam,
S. (2001)
Projection structure and molecular architecture of OxlT, a membrane
transporter.
EMBO J. 20(16): 4408-4413. |
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Subramaniam, S. and R.
Henderson (2000)
Crystallographic Analysis of Protein Conformational Changes in the
Bacteriorhodopsin Photocycle.
Biochim Biophys Acta 1460(1): 157-165. |
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Subramaniam, S. and Henderson,
R. (2000)
Molecular mechanism for vectorial proton translocation by bacteriorhodopsin.
Nature 406(6796): 653-657. |
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Heymann, J. and Subramaniam,
S. (2000)
Integration of deletion mutants of bovine rhodopsin into the membrane
of the endoplasmic reticulum.
Mol Membr Biol 17(3): 165-174. |
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Faruqi, A.R. and Subramaniam,
S. (2000)
Applications of CCD detectors in high resolution electron microscopy.
Q Rev Biophys 33: 1-27. |
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Subramaniam, S. and Henderson
R. (1999)
Electron Crystallography of Bacteriorhodopsin with Millisecond Time
Resolution
J Struct Biol 128(1): 19-25. |
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Subramaniam, S. (1999)
The Structure of Bacteriorhodopsin: An Emerging Consensus.
Curr Opin Struct Biol 9(4): 462-468. |
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Subramaniam, S., Lindahl,
M., Bullough, P., Faruqi, A.R., Tittor, J., Oesterhelt, D., Lanyi,
J. and Henderson, R. (1999)
Protein Conformational Changes in the Bacteriorhodopsin Photocycle.
J Mol Biol 287(1): 145-61. |
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Faruqi, A.R., Henderson,
R. and Subramaniam, S. (1999)
Cooled CCD Detector with Tapered Fibre Optics for Recording Electron
Diffraction Patterns.
Ultramicroscopy 75: 235-250. |
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