Team:Heidelberg/Project/Visualization

From 2008.igem.org

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|width=450px | [[Image:graph21.jpg|350px|left|thumb|Bird view.]]  [[Image:graph22.jpg|350px|left|thumb|Top View.]]
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|width=450px | [[Image:graph21.jpg|350px|left|thumb|Fig. 5: Bird view of quantified microscopic scan in Figure 4.]]  [[Image:graph22.jpg|350px|left|thumb|Fig. 6: Top View. Compare to Figure 5.]]
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Revision as of 08:41, 29 October 2008


Contents

Killing - Colicin

Time series of killer and prey bacteria over 48 hours. Killer cells are marked with mCherry (red) and prey bacteria are marked with GFP (green). The intial ratio is 1:1, which can be recognized on the second and third frame (8h and 12h, respectively). Many prey and killer bacteria are grown after 38 hours (last three image frames). However, the faint green fluorescence (it is sharp!) indicates the weak prey metabolism due to the toxin. Toxin production and excretion is activated in killer bacteria by the signaling molecule autoinducer-1 (visit Project - Colicins for more biological information).

To see separate images click here

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Microscopic Scanning and Quantification of 2D bacterial landscapes

A scan of the bacterial density in a soft agar chamber (visit Notebook - Visualization for more technical information). For a proof of principle the chemotactic E. coli strain HCB33 is applied in the middle of the chamber. On the left side of the chamber is a 2% agar plug containing 10% of casamino acids. After ... hours the bacteria accumulate around the plug, because they sense the established gradient of amino acids. Calculation of the mean of each image and subtraction of the background leads to a quantitative 2D representation of the bacterial density landscape. This data can be compared to the 2D chemotactic modeling results based on a system of partial differential equations (visit Modeling - Chemotaxis/Colicins).

Remark: The scans are taken from two different experiments with equal settings due to the difficult adjustment of a constant focus.

After 0 hours

Fig. 1: Microscopic Scan of the 2D density landscape after addition of chemotactic bacteria in the center of the chamber. On the left end of the chamber a 2% agar plug containing 10% casamino acids is fixed.
Fig. 2: Bird view of microscopic scan after 0 hours. Quantification of each image from Figure 1 is done by calculation of the image mean minus the background.
Fig. 3: Top view. Same as Figure 2.

After ? hours

Fig. 4: Microscopic scan of density distribution after ? hours. The bacteria accumulate around the plug (dark image in second row).
Fig. 5: Bird view of quantified microscopic scan in Figure 4.
Fig. 6: Top View. Compare to Figure 5.

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Sensing test of Fusion Receptor with 2D Microscopy

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Sensing test of Fusion Receptor with Swarm Plates

Swarm assay 1
Swarm assay 2
Swarm assay 3
Swarm assay 4
Swarm assay 5

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