Alternate header for print version


Reconstruction
Display image description
Computed slice through an electron tomographic volume of an isolated mitochondrion from mouse liver from the no treatment condition.
Full resolution image description
Zip file (RudyA.zip) containing the reconstruction file in Analyze 7.5 format: RudyA.img/.hdr. The volume resolution was binned down 2X from the digitized images. A subvolume of this reconstruction was generated for manual segmentation. The subvolume along with the trace file is available through the segmentation download.
Volume_dimension
2017, 3006, 411
Volume scale
0.0014, 0.0014, 0.0014
Animation description
Animation through a portion of the tomographic volume. The volume was downsampled for ease of viewing.

Image 2D
Display image description
Zero degree tilt image from a tilt series collected using an intermediate voltage electron microscope through +/- 60 degrees of mitochondria isolated from mouse liver. Section thickness was 0.5 um.
Full resolution image description
Zip file containing the raw and pre-aligned (after cross correlation) tilt series in IMOD format (rudyacontrol.st); all accompanying files are included in the zip archive, although the aligned tilt series was not available.

Segmentation
Display image description
Segmentation of the cristae, inner and outer membranes was performed by manual tracing in the planes of highest resolution using Xvoxtrace version 2.18
Segmentation file description
Zip file containing the .trace file generated by Xvoxtrace containing the manual contours (RudyA.trace), the subvolume used for the tracing in Analyze 7.5 format (RudyAtrace.img/.hdr) and the surfaced contours in synu format (*.synu). The Viewdata file used by the program Synuview for assigning color and transparency was not submitted. Note that the Xvoxtrace files and synu files may be viewed using Jinx, available from the CCDB tool download page.

License
Attribution Only: This image is licensed under a Creative Commons Attribution License. View License Deed | View Legal Code

CCDB:3864*  Cite 
Project: P1714
Project name
Remodeling of Crista During Cytochrome C Release
Description
Proapoptotic BH3-only proteins induce Bax/Bak-dependent mitochondrial cristae remodeling independent of cytochrome c release and Bak oligomerization
Leader(s)
Ryuji Yamaguchi
Ph.D.
Collaborator(s)
Don Newmeyer; Lydia Lartigue; Guy Perkins
Ph.D.; Ray T Scott; Amruta Dixit;
Start date
unspecified
End date
unspecified
 
Experiment
Experiment ID
3458
Title
Cytochrome C Release Assay
Purpose
To determine the effect of pro-apoptotic peptides on mitochondrial morphology and cytochrome C release.
Experimenter(s)
Guy Perkins
Microscopy product
Microscopy product ID
3864
Instrument
JEOL4000EX IVEM
Microscopy type
IVEM
Product type
SINGLE TILT
Image basename
Rudy A
Subject
Species
mouse
Scientific name
Mus musculus
Strain
unknown
Group by
Drug treatment
Treatment
Mitochondria were incubated with added buffer at 37 degrees C for 12 min in AT buffer containing 10 mM KCl and centrifuged at 5200x g for 6 min.
Age class
unknown
Tissue section
Anatomical location
liver
Tissue product storage
liquid nitrogen
Thickness
0.5 µm
Specimen description
Organ
liver
Structure
mitochondrion
Imaging parameters
Type
Electron microscopy product
Recording medium
film
Magification
20000
Accelerating voltage
400 kV
Specimen preparation
Protocol used
Mouse liver mitochondria were prepared as described (Yamaguchi et al., 2006). Pelleted mitochondria were fixed with a 37 C solution of 2% paraformaldehyde, 2.5% glutaraldehyde (Ted Pella) in 0.15 M sodium cacodylate (pH 7.4), and then incubated for an additional 30 minutes on ice. Fixed samples were then rinsed 3 times for 3 minutes each with 0.15 M sodium cacodylate plus 3 mM calcium chloride (pH 7.4) on ice, post-fixed with 1 percent osmium tetroxide, 0.8% potassium ferrocyanide, 3 mM calcium chloride in 0.15 M sodium cacodylate (pH 7.4) for 60 minutes, and then washed 3 times for 3 minutes with ice-cold distilled water. The samples were stained overnight with 2% uranyl acetate at 4 degrees C, dehydrated in graded ethanol baths, and embedded in Durcupan ACM resin (Fluka).Sections from the embedded mitochondria samples were cut at thicknesses of nominally 500 nm. Sections were then stained 30 min in 2 percent aqueous uranyl acetate, followed by 15 min in lead salts. Fiducial cues consisting of 15 and 20 nm colloidal gold particles were deposited on opposite sides of the section
Imaging product type
Type
Single tilt
Description
singlet_desc
Min range
-60 degrees
Max range
60 degrees
Tilt increment
2 degrees
Notes
tilted using a computer controlled goniometer about an axis perpendicular to the optical axis of the microscope; specimens were pre-irradiated prior to tilt series acquisition