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Colorful E.coli Weave Time and Space
iGEM_Team_11 WHU_China
Wuhan_University
Our University and Team
Magic: Sichuan Opera
Sichuan Opera is a “ national treasure” in China.
Oscillator(time)
Time
Y
X
E.coli Color Film (space)
Colorful E.coli Weave Time and Space
New Standards
Oscillator
How do E.coli Weave Time?
Reporter
GFP LsrR LsrK cI pLsrA/cI pLsrA
B2 B1
Oscillator: Gene Circuit Design
Time
Signal
LsrR LsrK
Design
Model
• The ODE(Ordinary Differential Equation):
Oscillator: Equation
1 2
1 1 2 2
3
3 3
1 2 11 1 1 2 1
1 2 2 1
2 13 2 2 2
2 1
(1 )
(1 )
n n
n n n n
n
n n
dx x xa b x a x
dt k x k x
dx xa x b x
dt k x
LsrR LsrK
0 5 10 15 20 25 30 35 40 45 500
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
Time
Concentr
ation
x1
x2
Deterministic Oscillations
0 5 10 15 20 25 30 35 40 45 500
100
200
300
400
500
600
700
800
TimeN
um
ber
of
mole
cule
s
x1
x2
Stochastic Oscillations
Oscillator: Simulation Diagram
LsrR LsrK
Oscillator: Bifurcation Diagram
a1 b2
X2 X2
0.8
0.6
0.4
0.2
0 0
0.05 0.1 0.15 0.2 0.25 0.35 0.3 0.4 0.5 0.45
0.8
0.6
0.4
0.2
0 0
0.2 0.4 0.6 0.8 1 1.2 1.4 1.6 1.8 2.0
X2 X2
0.8
0.6
0.4
0.2
0
0
1 2 3 4 5 6 a2
0.8
0.6
0.4
0.2
0 0
2 10 4 12 6 14 8 a3
Oscillator: Period Variation with Parameters
8
7
6
5
4
3
2
1
0 0.05 0.1 0.15 0.25 0.2 0.3 0.4 0.35 0.45
30
25
20
15
10
5
0 0.4 0.2 0.8 0.6 1 1.4 1.2 1.8 1.6 2
Period Period
0 0 0.5
10
8
6
4
2
0
0 1 2 4 5 6 a2
3
6
5
4
3
2
1
0 0
2 4 6 10 12 14 a3 8
X2 X2 a1 b2
Conclusion: Colorful E.coli Weave Time and Space
Time
Y
E.coli Color Film (space)
X
Oscillator(time)
Constructed mathematical models to analyze our oscillator.
0 5 10 15 20 25 30 35 40 45 500
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
Time
Concentr
ation
x1
x2
New Standards
E.coli Color Film
How do E.coli Weave Space?
Color Film: Advantages of E.coli Color Film
Traditional film E.coli color film
Complex Convenient
Expensive Cost less
Harmful Harmless
Pollution Environment friendly
Low resolution High resolution
28 600W 4000W
• How to construct?
• Light tricolor theory: red, green and blue can compose any light with different proportion.
• Also the complementary colors which are cyan, yellow and magenta can also compose any color with different proprtion.
Color Film: Mechanism of E.coli Color Film
Blue strain
• Blue light sensor
• Yellow pigment reporting system
Green strain
• Green light sensor
• Magenta pigment reporting system
Red strain
• Red light sensor
• Cyan pigment reporting system
Color Film: Design of E.coli Color Film
Color Film: Design of E.coli Color Film
Orange Luciferase Lov/TAP
Max 450nm
pTrp
Blue strain
• Blue light sensor
• Yellow pigment reporting system
Color Film: Design of Blue Strain
Blue Light Dark
Color Film: Results of Blue Light Sensor
Color Film: Results of Blue Light Sensor
Light sensor
CI
Pigment LuxR
B0034 C0051 B0010 B0012
K145150 B0034 C0062 B0034 Pigment coding gene
K091143 B0034 C0079 B0030 C0053 B0010 B0012
Color Film: Future Work—Amplify System
AHL
Light sensor
CI
LasR CII
Pigment LuxR
AHL
B0034 C0051 B0010 B0012
K145150 B0034 C0062 B0034 Pigment coding gene
K091143 B0034 C0079 B0030 C0053 B0010 B0012
Color Film: Future Work—Amplify System
Conclusion: Colorful E.coli Weave Time and Space
Time
Y
E.coli Color Film (space)
X
Oscillator(time)
Constructed one strain E.coli of sensing blue light. New Standards
Application
E.coli Color Film
E.coli Weave Space.
Oscillator
E.coli Weave Time.
Colorful logo Auto-changing mask
Future Work: Application
Future Work: Application
Smart Lamp Post Tree
Lizard+ Colorful E.coli =Chameleon!
People+ Colorful E.coli= Cloak of Invisibility
Future Work: Application
Conclusion: Colorful E.coli Weave Time and Space
Time
Y
E.coli Color Film (space)
X
Oscillator(time)
Constructed one strain E.coli of sensing blue light.
Constructed mathematical models to analyze our oscillator.
0 5 10 15 20 25 30 35 40 45 500
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
Time
Concentr
ation
x1
x2
New Standards
Biobricks Assembly
New Standards
Reverse Assembly
Golden Gate Method
New Standards
CHL
Tet
Tet
Tet
Tet
Amp
Amp
Amp
Amp
ATGC GTAC
GGTC ATGC
CCGC GCTT
GTAC CTAT Part1
Part2
Part3
Part 10
Golden Gate Method
Golden Gate Method
Traditional Assembly Golden Gate Cloning
Part 2
Amp
E X HindIII
S P HindIII
Part 1
Amp
E X HindIII
S P HindIII
Part 1
Amp
E X HindIII
S P HindIII
Part 2
HindIII
Part 1
HindIII HindIII
Part 1
Amp
E X HindIII
S P HindIII
part2 part1
part2 part1
part2 part1
Reverse Assembly
Summary: Colorful E.coli Weave Time and Space
Time
Y
E.coli Color Film (space)
X
Oscillator(time)
Constructed one strain E.coli of sensing blue light.
X Golden Gate Method; Reverse Assembly
Constructed mathematical models to analyze our oscillator.
0 5 10 15 20 25 30 35 40 45 500
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
Time
Concentr
ation
x1
x2
New Standards
Instructors: Prof Jiangbo Wang Prof Zhixiong Xie
Acknowledgement
Advisors: Prof Lin Guo Prof Xiaodong Zhang Yan Long