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Title: Mesoscale imaging with cryo-light and X-rays: Larger than molecular machines, smaller than a cell: Mesoscale imaging with cryo-light and X-rays

Journal Article · · Biology of the Cell
 [1];  [1];  [1];  [1];  [2];  [2]
  1. Univ. of California, San Francisco, CA (United States)
  2. Univ. of California, San Francisco, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

In the context of cell biology, the term mesoscale describes length scales ranging from that of an individual cell, down to the size of the molecular machines. In this spatial regime, small building blocks self‐organise to form large, functional structures. A comprehensive set of rules governing mesoscale self‐organisation has not been established, making the prediction of many cell behaviours difficult, if not impossible. Our knowledge of mesoscale biology comes from experimental data, in particular, imaging. Here, we explore the application of soft X‐ray tomography (SXT) to imaging the mesoscale, and describe the structural insights this technology can generate. We also discuss how SXT imaging is complemented by the addition of correlative fluorescence data measured from the same cell. This combination of two discrete imaging modalities produces a 3D view of the cell that blends high‐resolution structural information with precise molecular localisation data.

Research Organization:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
Grant/Contract Number:
AC02-05CH11231; DE‐AC02‐05CH11231
OSTI ID:
1379651
Alternate ID(s):
OSTI ID: 1401243
Journal Information:
Biology of the Cell, Vol. 109, Issue 1; ISSN 0248-4900
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 23 works
Citation information provided by
Web of Science

References (93)

Cryogenic preservation of virus-infected cells used as immunofluorescent assay substrates journal September 1987
Cryo-electron tomography of cells: connecting structure and function journal June 2008
Nuclear structure in cancer cells journal September 2004
An oscillating cryo-knife reduces cutting-induced deformation of vitreous ultrathin sections journal October 2003
Building and breeding molecules to spy on cells and tumors journal November 2004
cellPACK: a virtual mesoscope to model and visualize structural systems biology journal December 2014
High resolution protein localization using soft X-ray microscopy journal March 2001
Soft X-ray microscopy to 25nm with applications to biology and magnetic materials
  • Denbeaux, G.; Anderson, E.; Chao, W.
  • Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, Vol. 467-468 https://doi.org/10.1016/S0168-9002(01)00480-6
journal July 2001
Correlative 3D superresolution fluorescence and electron microscopy reveal the relationship of mitochondrial nucleoids to membranes journal April 2012
Computed tomography of cryogenic biological specimens based on X-ray microscopic images journal August 2000
Molecular imaging in drug discovery and development journal February 2003
Axial tomographic confocal fluorescence microscopy journal April 2002
Focus gradient correction applied to tilt series image data used in electron tomography journal July 2003
Toward Developmental Connectomics of the Human Brain journal March 2016
Glass-forming microemulsions: vitrification of simple liquids and electron microscope probing of droplet-packing modes journal December 1984
Super-Resolution Microscopy Using Standard Fluorescent Proteins in Intact Cells under Cryo-Conditions journal June 2014
Breaking the Diffraction Barrier: Super-Resolution Imaging of Cells journal December 2010
The development of cryo-EM into a mainstream structural biology technique journal December 2015
APSY-NMR for protein backbone assignment in high-throughput structural biology journal November 2014
Structure-From-Motion Without Correspondence From Tomographic Projections by Bayesian Inversion Theory journal February 2007
The Topological Organization of the Inactive X Chromosome in its Native State journal January 2014
Imaging and characterizing cells using tomography journal September 2015
Life at the mesoscale: the self-organised cytoplasm and nucleoplasm journal February 2015
The Reconstruction of a Three-Dimensional Structure from Projections and its Application to Electron Microscopy journal June 1970
A three-dimensional statistical approach to improved image quality for multislice helical CT: Improved statistical reconstruction for multislice helical CT journal October 2007
TiO2 nanoparticles as a soft X-ray molecular probe journal January 2008
Cryo-electron microscopy of vitrified insect flight muscle journal September 1984
Resolving new ultrastructural features of cytokinetic abscission with soft-X-ray cryo-tomography journal June 2016
Correlative microscopy methods that maximize specimen fidelity and data completeness, and improve molecular localization capabilities journal October 2013
Visualizing Cell Architecture and Molecular Location Using Soft X-Ray Tomography and Correlated Cryo-Light Microscopy journal May 2012
New directions in X-ray microscopy journal July 2011
Analysis of ER-mitochondria contacts using correlative fluorescence microscopy and soft X-ray tomography of mammalian cells journal June 2015
Quantitatively Imaging Chromosomes by Correlated Cryo-Fluorescence and Soft X-Ray Tomographies journal October 2014
Picking Faces out of a Crowd book January 2012
High-aperture cryogenic light microscopy journal July 2009
X-Ray Holographic Imaging of Hydrated Biological Cells in Solution journal January 2015
Automatic alignment and reconstruction of images for soft X-ray tomography journal February 2012
Towards an atlas of mammalian cell ultrastructure by cryo soft X-ray tomography journal February 2012
A local update strategy for iterative reconstruction from projections journal January 1993
Cryo- Electron Tomography and Fluorescence Microscopy of Unicellular Algae in Vitreous Cryosections journal August 2005
Quantum Dots as Cellular Probes journal August 2005
Comparative Connectomics journal May 2016
Reconstruction of Three Dimensional Structures from Electron Micrographs journal January 1968
Soft X-ray tomography and cryogenic light microscopy: the cool combination in cellular imaging journal November 2009
The ribosome at improved resolution: New techniques for merging and orientation refinement in 3D cryo-electron microscopy of biological particles journal March 1994
Marker-free image registration of electron tomography tilt-series journal April 2009
Cryo-electron microscopy of vitreous sections of native biological cells and tissues journal October 2004
Deterministic edge-preserving regularization in computed imaging journal January 1997
Recent advancement in the challenges to connectomics journal December 2015
The Fluorescent Toolbox for Assessing Protein Location and Function journal April 2006
The march of structural biology journal May 2002
Quantitative analysis of yeast internal architecture using soft X-ray tomography journal December 2010
Hard X-ray imaging of bacterial cells: nano-diffraction and ptychographic reconstruction journal January 2012
Progress Towards Mammalian Whole-Brain Cellular Connectomics journal June 2016
Computed Tomography of Cryogenic Cells journal February 2002
Cryo-scanning transmission electron tomography of vitrified cells journal February 2014
Cytopathology of false negatives preceding cervical carcinoma journal October 1996
Visualizing cells at the nanoscale journal February 2009
Biological soft X-ray tomography on beamline 2.1 at the Advanced Light Source journal October 2014
Multimodal nanoparticles as alignment and correlation markers in fluorescence/soft X-ray cryo-microscopy/tomography of nucleoplasmic reticulum and apoptosis in mammalian cells journal November 2014
Putting Molecules in Their Place: PUTTING MOLECULES IN THEIR PLACE journal December 2013
Correlative cryogenic tomography of cells using light and soft x-rays journal August 2014
Low-dose three-dimensional hard x-ray imaging of bacterial cells journal January 2012
A Splitting-Based Iterative Algorithm for Accelerated Statistical X-Ray CT Reconstruction journal March 2012
A guide to choosing fluorescent proteins journal November 2005
Vitrification of pure Water for Electron Microscopy journal December 1981
Digestive Vacuole Membrane in Plasmodium falciparum -Infected Erythrocytes: Relevance to Templated Nucleation of Hemozoin journal November 2013
Correlative VIS-fluorescence and soft X-ray cryo-microscopy/tomography of adherent cells journal February 2012
Unified 3-D structure and projection orientation refinement using quasi-Newton algorithm journal January 2005
The Theory of Everything journal January 2000
Correlated 3D Light and Electron Microscopy: Use of High Voltage Electron Microscopy and Electron Tomography for Imaging Large Biological Structures journal September 2000
Progress in protein crystallography journal February 2016
X-ray Tomography Generates 3-D Reconstructions of the Yeast, Saccharomyces cerevisiae , at 60-nm Resolution journal March 2004
Robust uncertainty principles: exact signal reconstruction from highly incomplete frequency information journal February 2006
Structural Biology and Drug Discovery journal June 2006
Nanoscale 3D cellular imaging by axial scanning transmission electron tomography journal August 2009
The relevance of dose-fractionation in tomography of radiation-sensitive specimens journal October 1995
Imaging endosomes and autophagosomes in whole mammalian cells using correlative cryo-fluorescence and cryo-soft X-ray microscopy (cryo-CLXM) journal August 2014
The middle way journal January 2000
Iterative reconstruction methods in X-ray CT journal April 2012
T Cells Kill Bacteria Captured by Transinfection from Dendritic Cells and Confer Protection in Mice journal May 2014
Illuminating Single Molecules in Condensed Matter journal March 1999
Alignment of tomographic projections using an incomplete set of fiducial markers journal January 1991
Imaging cellular architecture with X-rays journal October 2010
Scanning transmission electron microscopy through-focal tilt-series on biological specimens journal October 2015
Soft X-ray microscopy at a spatial resolution better than 15 nm journal June 2005
Correlative Photoactivated Localization and Scanning Electron Microscopy journal October 2013
Cryoelectron microscopy of vitrified sections: a new challenge for the analysis of functional nuclear architecture journal December 2005
Organization of Interphase Microtubules in Fission Yeast Analyzed by Electron Tomography journal March 2007
Visualizing and quantifying cell phenotype using soft X-ray tomography journal January 2012
Cryo-electron microscopy of vitrified specimens journal May 1988
The improved Thomas-Fermi model : chemical and ionization potentials in atoms journal January 1984
Transformation in Escherichia coli: cryogenic preservation of competent cells. journal January 1977

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