Team:KAIST-Korea/Projects/Modeling

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<a href="https://2011.igem.org/Team:KAIST-Korea/Projects">Projects > </a>
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<a href="https://2011.igem.org/Team:KAIST-Korea/Projects/Overview">Projects > </a>
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<h1 class="inner" style="font:bold 25px Times New Roman,San-serif; text-align:center; color:white;">Modeling Overview</h1>
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1. Overview </br>
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One of the main purposes of our iGEM project is to bridge the gap between synthetic biology and aesthetic art. In doing so, we want to take synthetic biology one step closer to humanity.<br></p>
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Our system, E.Casso is composed of two modules. Each module is a different strain of E. coli. We introduced the modules into disparate strains of E.coli because it is usually easier to engineer something by adopting the ‘divide and conquer’ strategy. The modules perform the following tasks: The first type (Brush E. coli) produces signals that determine the color among green, cyan, yellow, and red generated by adjacent, second type of E. coli. This is achieved through an inherent mechanism by which E. coli naturally communicate with each other, the quorum sensing. By exchanging signaling molecules termed quorum, E. coli can coordinate gene expression as a colony according to its local density. The second type (Dyestuff E. coli) receives quorum from the first type and produces corresponding fluorescent proteins. It also amplifies the signal made by the type 1 module and propagates it to the surrounding E. coli. In essence, we utilize cell-cell communication to coordinate the collective behavior of E. coli.
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Our final product is E.Casso, a system of two different E. coli engineered with the help of BioBricks. The first E. coli (referred to as the Brush E. coli) acts as the brush and determines the color of the second type of E. coli. The second E. coli (referred to as the Paint E. coli) produces proteins that fluoresce one of four colors green, cyan, yellow, and red. Ideally, a canvas of solid medium will be densely plated with the Paint E. coli and lightly plated or intentionally streaked with the Brush E. coli.<br></p>
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The communication between the Brush and Paint E. coli utilizes an innate system of communication commonly referred to as quorum sensing. In essence, a single Brush E. coli randomly selects one of four quorum, or signaling molecules, representing one of four colors green, cyan, yellow, and red, and sends them out for the Paint E. coli. Then, the Paint E. coli receives the quorum, produces the protein of respective color, and makes more of the same quorum for adjacent Paint E. coli.<br></p>
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This is akin to soaking a brush with any one of four colors and compressing it firmly against a point on a paper. As time goes by, the blob of paint on the paper will spread. Our genetically engineered E. coli will draw abstract paintings in a similar manner.
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The dry lab team modeled E.Casso with computer simulations and mathematical calculations. The steps involved in this model are thoroughly explained in the following sections:<br><br>
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The modeling procedure is divided into four parts.
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<h2 style="color:white;text-indent:30px;">Lists of Modeling</h2>
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A.Modeling the production of quorum by the first type of E. coli (Brush E. coli): Objective – observe that Brush E. coli produce enough quorums per some interval of time.
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  <li><a href="https://2011.igem.org/Team:KAIST-Korea/Projects/report_1" style="color:orange;">Quorum Production by the Brush E. coli</a></li>
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B.Modeling the diffusion of quorum: Objective – note the time scale in which quorum propagates from Brush E. coli to Dyestuff E. coli.
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  <li><a href="https://2011.igem.org/Team:KAIST-Korea/Projects/report_2" style="color:yellow;">Quorum Diffusion</a></li>
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  <li><a href="https://2011.igem.org/Team:KAIST-Korea/Projects/report_3" style="color:yellowgreen;">Fluorescence Production by the Paint E. coli</a></li>
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  <li><a href="https://2011.igem.org/Team:KAIST-Korea/Projects/report_4" style="color:skyblue;">Fluorescence Visibility Justification</a></li>
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C.Modeling the production of fluorescent proteins by the Dyestuff E. coli upon receiving quorum and projecting the time it takes for a noticeable amount of fluorescence to accumulate: Objective – observe the time it takes for enough fluorescence to build up.
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  <li><a href="https://2011.igem.org/Team:KAIST-Korea/Projects/report_5" style="color:purple;">E.Casso Computer Simulation</a></li>
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D.Modeling how the variation in E. coli distribution affects the final outcome: Objective – note how the ratio of the two E. coli and the method of seeding affect the resultant painting.
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Latest revision as of 19:53, 22 July 2011







Modeling Overview

Modeling Overview

One of the main purposes of our iGEM project is to bridge the gap between synthetic biology and aesthetic art. In doing so, we want to take synthetic biology one step closer to humanity.

Our final product is E.Casso, a system of two different E. coli engineered with the help of BioBricks. The first E. coli (referred to as the Brush E. coli) acts as the brush and determines the color of the second type of E. coli. The second E. coli (referred to as the Paint E. coli) produces proteins that fluoresce one of four colors green, cyan, yellow, and red. Ideally, a canvas of solid medium will be densely plated with the Paint E. coli and lightly plated or intentionally streaked with the Brush E. coli.

The communication between the Brush and Paint E. coli utilizes an innate system of communication commonly referred to as quorum sensing. In essence, a single Brush E. coli randomly selects one of four quorum, or signaling molecules, representing one of four colors green, cyan, yellow, and red, and sends them out for the Paint E. coli. Then, the Paint E. coli receives the quorum, produces the protein of respective color, and makes more of the same quorum for adjacent Paint E. coli.

The dry lab team modeled E.Casso with computer simulations and mathematical calculations. The steps involved in this model are thoroughly explained in the following sections:

Lists of Modeling

Modeling image

  1. Quorum Production by the Brush E. coli
  2. Quorum Diffusion
  3. Fluorescence Production by the Paint E. coli
  4. Fluorescence Visibility Justification
  5. E.Casso Computer Simulation

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