Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf ·...
Transcript of Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf ·...
![Page 1: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/1.jpg)
Colorful E.coli Weave Time and Space
iGEM_Team_11 WHU_China
Wuhan_University
![Page 2: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/2.jpg)
Our University and Team
![Page 3: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/3.jpg)
Magic: Sichuan Opera
Sichuan Opera is a “ national treasure” in China.
![Page 4: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/4.jpg)
Oscillator(time)
Time
Y
X
E.coli Color Film (space)
Colorful E.coli Weave Time and Space
New Standards
![Page 5: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/5.jpg)
Oscillator
How do E.coli Weave Time?
![Page 6: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/6.jpg)
Reporter
GFP LsrR LsrK cI pLsrA/cI pLsrA
B2 B1
Oscillator: Gene Circuit Design
Time
Signal
LsrR LsrK
Design
Model
![Page 7: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/7.jpg)
• 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
![Page 8: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/8.jpg)
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
![Page 9: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/9.jpg)
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
![Page 10: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/10.jpg)
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
![Page 11: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/11.jpg)
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
![Page 12: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/12.jpg)
E.coli Color Film
How do E.coli Weave Space?
![Page 13: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/13.jpg)
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
![Page 14: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/14.jpg)
• 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
![Page 15: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/15.jpg)
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
![Page 16: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/16.jpg)
Color Film: Design of E.coli Color Film
![Page 17: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/17.jpg)
Orange Luciferase Lov/TAP
Max 450nm
pTrp
Blue strain
• Blue light sensor
• Yellow pigment reporting system
Color Film: Design of Blue Strain
![Page 18: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/18.jpg)
Blue Light Dark
Color Film: Results of Blue Light Sensor
![Page 19: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/19.jpg)
Color Film: Results of Blue Light Sensor
![Page 20: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/20.jpg)
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
![Page 21: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/21.jpg)
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
![Page 22: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/22.jpg)
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
![Page 23: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/23.jpg)
Application
E.coli Color Film
E.coli Weave Space.
Oscillator
E.coli Weave Time.
![Page 24: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/24.jpg)
Colorful logo Auto-changing mask
Future Work: Application
![Page 25: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/25.jpg)
Future Work: Application
Smart Lamp Post Tree
![Page 26: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/26.jpg)
Lizard+ Colorful E.coli =Chameleon!
People+ Colorful E.coli= Cloak of Invisibility
Future Work: Application
![Page 27: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/27.jpg)
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
![Page 28: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/28.jpg)
Biobricks Assembly
New Standards
Reverse Assembly
Golden Gate Method
New Standards
![Page 29: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/29.jpg)
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
![Page 30: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/30.jpg)
Golden Gate Method
Traditional Assembly Golden Gate Cloning
![Page 31: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/31.jpg)
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
![Page 32: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/32.jpg)
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
![Page 33: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/33.jpg)
Instructors: Prof Jiangbo Wang Prof Zhixiong Xie
Acknowledgement
Advisors: Prof Lin Guo Prof Xiaodong Zhang Yan Long
![Page 34: Colorful E.coli Weave Time and Space2011.igem.org/files/presentation/WHU-China_Championship.pdf · Colorful E.coli Weave Time and Space iGEM_Team_11 WHU_China Wuhan_University . Our](https://reader034.fdocuments.us/reader034/viewer/2022050123/5f5320ac33756976346b0d2d/html5/thumbnails/34.jpg)