Zernike Phase Contrast Cryo-Electron Microscopy and Tomography for Structure Determination at Nanometer and Subnanometer Resolutions

Zernike phase contrast cryo-electron microscopy (ZPC-cryoEM) is an emerging technique that is capable of producing higher image contrast than conventional cryoEM. By combining this technique with advanced image processing methods, we achieved subnanometer resolution for two biological specimens: 2D bacteriorhodopsin crystal and epsilon15 bacteriophage. For an asymmetric reconstruction of epsilon15 bacteriophage, ZPC-cryoEM can reduce the required amount of data by a factor of ~3, compared with conventional cryoEM. The reconstruction was carried out to 13 Å resolution without the need to correct the contrast transfer function. New structural features at the portal vertex of the epsilon15 bacteriophage are revealed in this reconstruction. Using ZPC cryo-electron tomography (ZPC-cryoET), a similar level of data reduction and higher resolution structures of epsilon15 bacteriophage can be obtained relative to conventional cryoET. These results show quantitatively the benefits of ZPC-cryoEM and ZPC-cryoET for structural determinations of macromolecular machines at nanometer and subnanometer resolutions.National Institutes of Health (U.S.) (Grant P41RR002250)National Institutes of Health (U.S.) (Grant R01AI0175208)National Institutes of Health (U.S.) (Grant PN1EY016525)Robert Welch Foundation (Q1242

Phase contrast electron microscopy: development of thin-film phase plates and biological applications

Phase contrast transmission electron microscopy (TEM) based on thin-film phase plates has been developed and applied to biological systems. Currently, development is focused on two techniques that employ two different types of phase plates. The first technique uses a Zernike phase plate, which is made of a uniform amorphous carbon film that completely covers the aperture of an objective lens and can retard the phase of electron waves by π/2, except at the centre where a tiny hole is drilled. The other technique uses a Hilbert phase plate, which is made of an amorphous carbon film that is twice as thick as the Zernike phase plate, covers only half of the aperture and retards the electron wave phase by π. By combining the power of efficient phase contrast detection with the accurate preservation achieved by a cryotechnique such as vitrification, macromolecular complexes and supermolecular structures inside intact bacterial or eukaryotic cells may be visualized without staining. Phase contrast cryo-TEM has the potential to bridge the gap between cellular and molecular biology in terms of high-resolution visualization. Examples using proteins, viruses, cyanobacteria and somatic cells are provided

Phase-plate electron microscopy: a novel imaging tool to reveal close-to-life nano-structures

After slow progress in the efforts to develop phase plates for electron microscopes, functional phase plate using thin carbon film has been reported recently. It permits collecting high-contrast images of close-to-life biological structures with cryo-fixation and without staining. This report reviews the state of the art for phase plates and what is innovated with them in biological electron microscopy. The extension of thin-film phase plates to the material-less type using electrostatic field or magnetic field is also addressed

Long-term monitoring of sediment runoff for an active sediment control in Joganji River

There were huge sediment yielding and deposition due to debris flows by breaking natural landslide dams which were formed by earthquake in 1858 at upstream reach of Joganji River. Sediment transportation is still active by debris flow and flow with bedload due to rainfall, though a lot of erosion control dams have been constructed. Continuously measuring sediment runoff for long term along a main river is necessary to evaluate the propagation of sediment after the huge events for sediment management in the basin using well hydrological information. Appropriate tools are selected and applied to monitoring in the area managed by Tateyama Mountain Area Sabo Office along Joganji River, using a Reid-type bedload slot sampler, robust-type hydrophone and velocity meter on the bed for bedload and turbidity meter for washload. Monitored data is concentratedly collected at the office to apply risk management for sediment movement due to heavy rainfall and so on. Several typical data and problems to solved were shown because it passed around twenty years since sediment monitoring started, and those are reported in present study

Nagayama K. Transmission electron microscopy with Zernike phase plate. Ultramicroscopy. 2001; 88:243–52. [PubMed: 11545320

Abstract The possibility of implementing a Zernike phase plate in a transmission electron microscope is investigated both theoretically and experimentally. The phase-retarding plate in the form of thin film with a hole in the center is positioned in the back-focal plane of the objective lens. The experiments show that the phase plate functions as predicted, producing a cosine-type phase contrast transfer function. Images of negatively stained horse spleen ferritin were highly improved in the contrast and the image-modulation, compared to those acquired without the phase plate. Charging and related difficulties were encountered during the phase plate experiments. In order to make the technique user-friendly a number of improvements have to be made, and are discussed in terms of the current level of technology and instrumentation.