scholarly journals Software tools for automated transmission electron dmicroscopy

2018 ◽  
Author(s):  
Martin Schorb ◽  
Isabella Haberbosch ◽  
Wim JH Hagen ◽  
Yannick Schwab ◽  
David N Mastronarde
Keyword(s):  
Electron Microscopy ◽  
Software Tools ◽  
Cellular Biology ◽  
Serial Sections ◽  
High Throughput Data ◽  
Volume Imaging ◽  
Transmission Electron ◽  
Increasing Demand ◽  
Multiple Grids ◽  
3D Volume

AbstractIn the recent years, electron microscopy in the life sciences has witnessed increasing demand for high-throughput data collection in both structural and cellular biology. We present a combination of software tools that enable automated acquisition guided by image analysis for a wide variety of Transmission Electron Microscopy applications. Using these tools, we demonstrate dose-reduction in single particle cryo-EM experiments, fully automated acquisition of every single cell in a plastic section and automated targeting of features on serial sections for 3D volume imaging even across multiple grids.

Development of 200 kV Scanning-Transmission Electron Microscope

1974 ◽  
Vol 32 ◽  
pp. 410-411
Author(s):  
H. Koike ◽  
S. Sakurai ◽  
K. Ueno ◽  
M. Watanabe
Keyword(s):  
Electron Microscopy ◽  
Electron Microscope ◽  
Scanning Transmission Electron Microscope ◽  
The Other ◽  
Morphological Observation ◽  
Magnetic Domains ◽  
Transmission Electron ◽  
Scanning Transmission ◽  
Backscattered Electron ◽  
Increasing Demand

In recent years, there has been increasing demand for higher voltage SEMs, in the field of surface observation, especially that of magnetic domains, dislocations, and electron channeling patterns by backscattered electron microscopy. On the other hand, the resolution of the CTEM has now reached 1 ∼ 2Å, and several reports have recently been made on the observation of atom images, indicating that the ultimate goal of morphological observation has beem nearly achieved.

Collenchyma in Panicum maximum (Poaceae): localisation and possible role

2003 ◽  
Vol 51 (1) ◽  
pp. 69 ◽  
Author(s):  
Elder A. S. Paiva ◽  
Sílvia R. Machado
Keyword(s):  
Electron Microscopy ◽  
Leaf Blade ◽  
Sudden Change ◽  
Panicum Maximum ◽  
Vascular Bundles ◽  
Serial Sections ◽  
Adaxial Side ◽  
Transition Area ◽  
Transmission Electron ◽  
Phases Of Development

This work relates the occurrence and distribution of collenchyma in Panicum maximum Jacq. P.�maximum leaves were collected at different phases of development and sampled from both the base of the sheath and from the sheath–leaf blade transition area. For the stems, the study was made by using hand-cut sections of the internodal base. In the leaves, analyses of serial sections showed, at the base and sheath–leaf blade transition area, a sudden change of tissue at vascular bundle. The vascular bundles are surrounded by sclerenchyma, both in the sheath and the leaf blade, as well as by fibrous threads that occur on the adaxial side of the central bundles. However, at the base of the sheath and at the sheath–leaf blade transition area, sclerenchyma was substituted for collenchyma. In the stem, the substitution of sclerenchyma associated with vascular bundles for collenchyma occurs at the base of the internode, in the pulvinus region. The analyses from transmission electron microscopy showed the presence of lamellated cell wall and active protoplast in collenchyma cells.

scholarly journals Same Serial Section Correlative Light and Energy-filtered Transmission Electron Microscopy

2003 ◽  
Vol 51 (5) ◽  
pp. 605-612 ◽  
Author(s):  
Ying Ren ◽  
Michael J. Kruhlak ◽  
David P. Bazett-Jones
Keyword(s):  
Electron Microscopy ◽  
Transmission Electron Microscopy ◽  
Light Microscope ◽  
High Rate ◽  
Specific Cell ◽  
3D Analysis ◽  
Serial Sections ◽  
Correlative Imaging ◽  
Transmission Electron ◽  
Rate Of Success

Correlative imaging of a specific cell with both the light microscope and the electron microscope has proved to be a difficult task, requiring enormous amounts of patience and technical skill. We describe a technique with a high rate of success, which can be used to identify a particular cell in the light microscope and then to embed and thin-section it for electron microscopy. The technique also includes a method to obtain many uninterrupted, thin serial sections for imaging by conventional or energy-filtered transmission electron microscopy, to obtain images for 3D analysis of detail at the suborganelle level.

Electron Tomography of HEK293T Cells Using Scanning Electron Microscope–Based Scanning Transmission Electron Microscopy

2012 ◽  
Vol 18 (5) ◽  
pp. 1037-1042 ◽  
Author(s):  
Yun-Wen You ◽  
Hsun-Yun Chang ◽  
Hua-Yang Liao ◽  
Wei-Lun Kao ◽  
Guo-Ji Yen ◽  
...  
Keyword(s):  
Electron Microscopy ◽  
Transmission Electron Microscopy ◽  
Electron Microscope ◽  
Scanning Electron Microscope ◽  
Scanning Transmission Electron Microscopy ◽  
Electron Tomography ◽  
Transmission Electron ◽  
Scanning Transmission ◽  
3D Volume ◽  
Scanning Electron

AbstractBased on a scanning electron microscope operated at 30 kV with a homemade specimen holder and a multiangle solid-state detector behind the sample, low-kV scanning transmission electron microscopy (STEM) is presented with subsequent electron tomography for three-dimensional (3D) volume structure. Because of the low acceleration voltage, the stronger electron-atom scattering leads to a stronger contrast in the resulting image than standard TEM, especially for light elements. Furthermore, the low-kV STEM yields less radiation damage to the specimen, hence the structure can be preserved. In this work, two-dimensional STEM images of a 1-μm-thick cell section with projection angles between ±50° were collected, and the 3D volume structure was reconstructed using the simultaneous iterative reconstructive technique algorithm with the TomoJ plugin for ImageJ, which are both public domain software. Furthermore, the cross-sectional structure was obtained with the Volume Viewer plugin in ImageJ. Although the tilting angle is constrained and limits the resulting structural resolution, slicing the reconstructed volume generated the depth profile of the thick specimen with sufficient resolution to examine cellular uptake of Au nanoparticles, and the final position of these nanoparticles inside the cell was imaged.

Fine structure of Classopollis exines

1986 ◽  
Vol 64 (12) ◽  
pp. 3059-3074 ◽  
Author(s):  
John R. Rowley ◽  
Satish K. Srivastava
Keyword(s):  
Electron Microscopy ◽  
Transmission Electron Microscopy ◽  
Fine Structure ◽  
Upper Jurassic ◽  
Thin Sheets ◽  
Serial Sections ◽  
Thin Sections ◽  
Band Area ◽  
Transmission Electron ◽  
Oxidative Etching

Serial sections for light microscopy or transmission electron microscopy of two Classopollis pollen tetrads show that the exine structure, except for the nexine, has radially arranged rodlike units interwoven with transverse subunits. The nexine consists of strands or thin sheets except in the equatorial infratectal striate band area, where it is up to ca. 1 μm thick. Nexine is absent in the areas of the distal cryptopore and the subequatorial circumpolar infratectal canal. It is very thin or absent in the tetrad scar. Native contrast and reactivity to stain disappeared on immersion of thin sections in 1 M NaOH or HCl or in water. Reactivity to stains was regained after oxidizing the sections in KMnO4. Reactivity to stains appears to be dependent upon non-sporopollenin molecules embedded within exines. The above immersions remove stain reactive sites. Oxidative etching of sporopollenin exposes new sites. The specimens of Classopollis classoides Pflug studied and illustrated were picked from an Upper Jurassic sample (CRC 31519-2) collected at Osmington Mills locality, Dorset, England.

scholarly journals Variable opacity of glycogen in routine electron micrographs.

1977 ◽  
Vol 25 (9) ◽  
pp. 1069-1073 ◽  
Author(s):  
L E Thornell ◽  
M Sjöström ◽  
U Karlsson ◽  
E Cedergren
Keyword(s):  
Electron Microscopy ◽  
Transmission Electron Microscopy ◽  
Electron Micrographs ◽  
Periodic Acid ◽  
Frog Muscle ◽  
Nerve Terminals ◽  
Lead Citrate ◽  
Serial Sections ◽  
Transmission Electron ◽  
Reticular Zone

Glycogen in nerve terminals from the reticular zone of frog muscle was identified by transmission electron microscopy of both periodic acid-thiosemicarbazide-silverproteinate treated and UAc-PbCi-stained serial sections. A variable appearance of glycogen in the uranylacetate-lead citrate-stained nerve terminals was seen and is related to the preparative procedure. The study indicates the necessity of cytochemical identification for the assessment of glycogen organization in cells.

Centromere structure and chromosome number in mitosis of the colourless phytoflagellate Polytoma papillatum (Chlorophyceae, Volvocales, Chlamydomonadaceae)

Genome ◽  
1995 ◽  
Vol 38 (6) ◽  
pp. 1249-1254 ◽  
Author(s):  
Klaus Werner Wolf
Keyword(s):  
Electron Microscopy ◽  
Transmission Electron Microscopy ◽  
Chromosome Number ◽  
Higher Plants ◽  
Attachment Site ◽  
Dense Layer ◽  
Mitotic Metaphase ◽  
Serial Sections ◽  
Transmission Electron ◽  
Alternative Approach

Centromere structure is described in mitosis of the unicellular biflagellate alga Polytoma papillatum using transmission electron microscopy. The kinetochores are five-layered elements at the poleward surface of the chromosomes. The five layers consist of three dense plates interspersed by two transparent zones. The polemost dense layer serves as the attachment site for kinetochore microtubules and the innermost dense layer is intimately associated with the chromatin. The five-layered organization of the kinetochore in the alga is unusual. In animals, three-layered kinetochores are the rule. This type has also been found in some algae, while higher plants do not possess striated kinetochores. An attempt was made to determine the chromosome number of P. papillatum. Individual chromosomes could not be recognized with confidence, since there were numerous lateral contacts between the chromosomes throughout mitosis. An alternative approach, however, was successful. Counting the kinetochores in serial sections through mitotic metaphase and anaphase plates revealed a number of 15 chromosomes.Key words: anaphase, kinetochore, metaphase, microtubule.

scholarly journals A pre-embedding immunolabeling technique for basal lamina and extracellular matrix molecules.

1988 ◽  
Vol 36 (4) ◽  
pp. 453-458 ◽  
Author(s):  
M M Martins-Green ◽  
K T Tokuyasu
Keyword(s):  
Electron Microscopy ◽  
Transmission Electron Microscopy ◽  
Extracellular Matrix ◽  
Optical Microscopy ◽  
Basal Lamina ◽  
Serial Sections ◽  
Stages Of Development ◽  
Additional Advantage ◽  
Transmission Electron ◽  
Extracellular Matrix Molecules

We have developed a pre-embedding immunolabeling technique to identify basal lamina and extracellular matrix molecules in embryos at various stages of development. The technique works for both fluorescence optical microscopy (1-2.5-micron sections) and for transmission electron microscopy, and enables straigthforward correlation between the two. An additional advantage is the easy preparation of well-oriented serial sections, facilitating detailed studies of development.

scholarly journals Nucleoid Structure of Escherichia coli as Revealed by Scanning Transmission Electron Microscopy (STEM) and by 3D-Reconstruction of Z-Contrast Images of Serial Sections

2013 ◽  
Vol 19 (S2) ◽  
pp. 144-145
Author(s):  
B. Reiner ◽  
Y. Guo ◽  
E.W. Roth ◽  
N.H. Yazdi ◽  
R.C. Johnson ◽  
...  
Keyword(s):  
Electron Microscopy ◽  
Escherichia Coli ◽  
Transmission Electron Microscopy ◽  
3D Reconstruction ◽  
Scanning Transmission Electron Microscopy ◽  
Serial Sections ◽  
Transmission Electron ◽  
Scanning Transmission ◽  
Nucleoid Structure ◽  
Z Contrast

Extended abstract of a paper presented at Microscopy and Microanalysis 2013 in Indianapolis, Indiana, USA, August 4 – August 8, 2013.

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