Arabidopsis Flower in 3D

GRAND PRIZE WINNER in the 3rd ChloroFilms Contest: http://www.ChloroFilms.org

Watch the TRUE 3D version (anaglyph) of this video at: http://www.youtube.com/watch?v=zHqe_DZhG_U

Pixel-based images (JPEG) were digitally cleared using color-keying. This allowed visualization of internal structures in 3 dimensions. The technique is ideally suited for in situ hybridization analysis to detect mRNA in an anatomical context.

To illustrate the technique, we used 248 sections of an Arabidopsis flower that was paraffin-embedded and sectioned at 20 microns.

Sections were stained with Safranin and Fast Green and photographed with a consumer-grade camera mounted on a Nikon Eclipse 50i at 20X.

JPEG images were imported into Adobe After Effects, manually aligned and built into a 3D volume.

The last part of the video assigns a number to each section providing a catalog of the sections. This allows the researcher to quickly find a specific section(s) used in the reconstruction.

Acknowledgments: Flower provided by Prof. Robert Franks, North Carolina State University, Dept of Genetics. Distortion-free sections prepared by Research Associate Tan Tuong. Graphic consulting provided by Randy Gelman, BeltlineMedia, http://www.beltlinemedia.com

Submitted to ChloroFILMS Video Contest April 10, 2010.

For more information see Livingston et al, 2010, "3D volumes constructed from pixel-based images by digitally clearing plant and animal tissue" Journal of Microscopy. PDF is on my website: http://www.ars.usda.gov/Main/docs.htm?docid=19570

Contact: David Livingston, dpl@unity.ncsu.edu 919-515-4324

Category:

Science & Technology

Tags:

• yt:quality=high
• Arabidopsis
• 3D
• flower
• histology
• in situ hybridization
• Beethovens 5th
• music box
• Nikon Eclipse 50i
• Adobe After Effects
• digital clearing
• microscope
• JPEG images

[svanilla81]

Excellent! Stunning!

Bravo!

Marc