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Team:Groningen/Project/Coating
From 2013.igem.org
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| - | <h1> | + | <h1>The Future</h1> |
<h2>Overview</h2> | <h2>Overview</h2> | ||
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With our engineered <i>B. subtilis</i> possessing all the desired genes and modifications, we would be able to put it to work in our coating setup. | With our engineered <i>B. subtilis</i> possessing all the desired genes and modifications, we would be able to put it to work in our coating setup. | ||
</p> | </p> | ||
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<h2>Schematic overview</h2> | <h2>Schematic overview</h2> | ||
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| - | <tr><td><b>The spider silk gene and the Pdes promoter with CheY gene downstream of it are put in our backbone, and inserted into the <i>Bacillus subtilis</i> genome.</b></td></tr> | + | <tr><td><b>The spider silk gene and the Pdes (cold sensing) promoter with CheY (movement) gene downstream of it are put in our backbone, and inserted into the <i>Bacillus subtilis</i> genome.</b></td></tr> |
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| - | <tr><td><b>The implant is now coated by | + | <tr><td><b>The implant is now coated by the Coating GEMs and ready for use!</b></td></tr> |
</table> | </table> | ||
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<b>A heated implant hanging inside and in the centre of the bath</b></li> | <b>A heated implant hanging inside and in the centre of the bath</b></li> | ||
| - | This is what we want to coat. As the implant is providing a temperature gradient, no heating of the medium is required, saving energy that would be spend on heating the entire bath. | + | This is what we want to coat. As the implant is providing a temperature gradient, no heating of the medium is required, saving energy that would be spend on heating the entire bath (Figure 1). |
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</ul> | </ul> | ||
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| - | <font size="1">Figure 1: A possible setup for | + | <font size="1">Figure 1: A possible setup for our system </font> |
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These alternative procedures are adapted to the lack of a certain component, an assumption we make in our ideal situation, such as secretion of the spider silk protein. | These alternative procedures are adapted to the lack of a certain component, an assumption we make in our ideal situation, such as secretion of the spider silk protein. | ||
</p><br> | </p><br> | ||
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<h2>Procedure 1 - Ideal situation</h2> | <h2>Procedure 1 - Ideal situation</h2> | ||
<p> | <p> | ||
| - | + | <u>Step 1</u><br> | |
Initially the <i>B. subtilis</i> cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase. | Initially the <i>B. subtilis</i> cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase. | ||
This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low. | This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low. | ||
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<h2>Procedure 2 - No silk secretion</h2> | <h2>Procedure 2 - No silk secretion</h2> | ||
<p> | <p> | ||
| - | + | <u>Step 1</u><br> | |
Initially the <i>B. subtilis</i> cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase. | Initially the <i>B. subtilis</i> cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase. | ||
This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low. | This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low. | ||
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<h2>Procedure 3 - No heat motility</h2> | <h2>Procedure 3 - No heat motility</h2> | ||
<p> | <p> | ||
| - | + | <u>Step 1</u><br> | |
Initially the <i>B. subtilis</i> cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase. | Initially the <i>B. subtilis</i> cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase. | ||
This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low. | This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low. | ||
Latest revision as of 03:52, 5 October 2013
The Future
Overview
Applying the Coating to the implant is the end phase of our project. Here is an overview of what we would have up to this point:
- Backbone with IPTG inducable promoter for tranformation of Bacillus subtilis
- Spider silk genes put together with various components and separately put into backbones
- Our Bacillus subtilis immobilizes near heat
With our engineered B. subtilis possessing all the desired genes and modifications, we would be able to put it to work in our coating setup.
Schematic overview
|
| The spider silk gene and the Pdes (cold sensing) promoter with CheY (movement) gene downstream of it are put in our backbone, and inserted into the Bacillus subtilis genome. |
|
| The transformed B. subtilis is then put in a bath with a heated implant |
|
| The secreted spider silk with strep-tag attaches to the implant its streptavidin coating. The coating is processed with evaporation, treated with kosmotropic ions and heated thoroughly |
|
| The implant is now coated by the Coating GEMs and ready for use! |
Coating Setup
Our setup consists of the following components:
- A large, deep and circular bath To contain enough volume for a large culture
- Suitable growth medium for our B. subtilis strain Perhaps with agar to prevent turbulence caused by oxygenation.
- Fine bubble aeration Bacillus is a very aerobic bacterium. This system facilitates thorough and gentle aeration. The small bubbles will diffuse enough when released from below the deep bath.
- A heated implant hanging inside and in the centre of the bath This is what we want to coat. As the implant is providing a temperature gradient, no heating of the medium is required, saving energy that would be spend on heating the entire bath (Figure 1).
| Experimental setup for coating |
|---|
|
Figure 1: A possible setup for our system |
Remarks
Before going into the proposed procedures, it should be noted that this page covers aspects of our hypothetical situation. It is how we planned to proceed if the engineering of our B. subtilis would have been achieved earlier in our project. However, instead of assuming everything works as we intended, which would be the ideal situation, we have designed alternative procedures. These alternative procedures are adapted to the lack of a certain component, an assumption we make in our ideal situation, such as secretion of the spider silk protein.
Procedure 1 - Ideal situation
Step 1
Initially the B. subtilis cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase.
This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low.
Step 2
The cells are moved to the big volume of our setup, where The cells move around and grow further, though should still be in the exponential phase.
Influenced by the temperature gradient most cells should lose their ability to move near the implant.
This results in accumulation of cells in the heated area close to the implant.
Step 3
Expression of the spider silk protein is stimulated by addition of IPTG to the medium.
The secreted spider silk will attach to the implant.
Step 4
After the implant is fully coated, all medium is removed to let the spider silk proteins polymerize.
Procedure 2 - No silk secretion
Step 1
Initially the B. subtilis cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase.
This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low.
Step 2
The cells are moved to the big volume of our setup, where the cells move around and grow further, though should still be in the exponential phase.
Influenced by the temperature gradient most cells should lose their ability to move near the implant.
This results in accumulation of cells in the heated area close to the implant.
Step 3
Expression of the spider silk protein is stimulated by addition of IPTG to the medium.
The secreted spider silk will attach to the implant.
Step 4
After the implant is fully coated, all medium is removed to let the spider silk proteins polymerize.
Procedure 3 - No heat motility
Step 1
Initially the B. subtilis cells are grown in liquid medium (LB) at 37 °C until the culture is in the early exponential phase.
This can be detected as the culture is rapidly increasing in number of cells, while the total number of cells is still relatively low.
Step 2
The cells are moved to the big volume of our setup, where the cells move around and grow further, though should still be in the exponential phase.
Step 3
Expression of the spider silk protein is stimulated by addition of IPTG to the medium.
Step 4
The implant is swirled through the medium, because the implant is coated with streptavidin the silk with strep-tag will automatically attach itself to the implant.
Step 5
After the implant is fully coated, all medium is removed to let the spider silk proteins polymerize.
