Microscopy product ID: 3411
2D Image
Description | Zero tilt image of a 0.75 um section of blue green algae grown in low light conditions imaged with intermediate voltage transmission electron microscopy at 400 KeV, showing the chloroplasts and other internal structures. Contrast is reversed so that electron dense structures appear bright. |
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Description | Tar file containing unaligned, full size tilt images digitized from negatives. No fiducial mark files were found for this data. |
Segmentation
Description | Manual segmentation of the chloroplast and internal structures using Xvoxtrace 2.10 followed by surfacing with synu and Amira |
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Description | Zip file containing segmentation data for phaeo6. There were multiple versions of the reconstructions and segmentations saved, along with multiple trace files. It appears likely that chloro_newvolume.trace is the most current and high quality. Also contained are the files used for visualization in Amira. |
Reconstruction
Description | Single computed slice from a tomographic volume of a blue green algae grown under low light conditions. |
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Description | Zip file containing volume used for segmentation in Analyze 7.5 format (phaeo6.redo.hdr/img), along with another, slightly larger file (phaeo6.supvol.img/hdr) that was found in the same directory. The relationship between these two files is not known, but the contrast in the supvol version is better and there are fewer artifacts from the electron dense structures. File contains both .img and .hdr. file. |
Animation
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Description | Rotation loop of a tomographic reconstruction of a blue green algae exposed to low light conditions. Animation was created by combining a maximum intensity projection of the cell contents juxtaposed with the the rendered surfaces of the plasma membrane (blue), chloroplast outer membranes (yellow), the thylakoid membranes (light green) and the pyrenoid (blue-green). Movie was created by Casey Buitenhuys. |
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- Cite This Work
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Moisan, Tiffany; Sosinsky, Gina; Buitenhuys, Casey; Ellisman, Mark H. (2017). Microscopy product ID: 3411. In Cell Centered Database. UC San Diego Library Digital Collections. https://doi.org/10.6075/J0FT8KS4
- Date Issued
- 2017
- Research Team Head
- Researchers
- Technical Details
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Product type: SINGLE TILT. Microscopy type: IVEM. Instrument: JEOL 4000EX IVEM
Strain: Karsten
- Funding
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National Aeronautics and Space Administration
- Series
- Scientific Name
- Anatomy
- Topic
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- Language
- No linguistic content; Not applicable
- Related Resources
- Moisan TA, Ellisman MH, Buitenhuys CW, Sosinsky GE (2006). Differences in chloroplast ultrastructure of Phaeocystis antarctica in low and high light. Marine Biology, 149(6):1281-1290. https://doi.org/10.1007/s00227-006-0321-5
- Microscopy product 3411 at the Cell Centered Database: https://doi.org/10.7295/W9CCDB3411
Primary associated publication
Other version
- License
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Creative Commons Attribution 4.0 International Public License
- Rights Holder
- UC Regents
- Copyright
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Under copyright (US)
Use: This work is available from the UC San Diego Library. This digital copy of the work is intended to support research, teaching, and private study.
Constraint(s) on Use: This work is protected by the U.S. Copyright Law (Title 17, U.S.C.). Use of this work beyond that allowed by "fair use" or any license applied to this work requires written permission of the copyright holder(s). Responsibility for obtaining permissions and any use and distribution of this work rests exclusively with the user and not the UC San Diego Library. Inquiries can be made to the UC San Diego Library program having custody of the work.
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Research Data Curation Program, UC San Diego, La Jolla, 92093-0175 (https://lib.ucsd.edu/rdcp)
- Last Modified
2023-05-22