USTC

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=== Our Project:<BR>Extensible Logic Circuit in Bacteria ===
=== Our Project:<BR>Extensible Logic Circuit in Bacteria ===
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Artificial Bio-Logic Circuit is composed of "logic gates" and "wires" like Digital Electronic Circuits. Though we have been enjoying the advantages of ultra-large-scale   electronic circuits in modern life, we still cannot implement a somewhat small-scale circuit <i>in vivo</i> with several levels of gates.
+
Artificial Bio-Logic Circuit is composed of "logic gates" and "wires" like Digital Electronic Circuits. Though we have been enjoying the advantages of ultra-large-scale electronic circuits in modern life, we still cannot implement a somewhat small-scale circuit <i>in vivo</i> with several levels of gates.
-
Our project is to provide a new method for building up a fully extensible bio-logic circuit in bacteria. A small piece of DNA containing <i>cis-</i>acting elements and favored for its small scale and potential to implement complicated logic computation <i>in vivo</i>, can be systematically built up and act as a gate. Meanwhile, artificial repressors with highly-specified DNA-recognition regions are able to transmit signals without mutual interference, just as copper wires. In this way, a circuit can be constructed regardless of the number of logic gates and the manner of connections between the wires.
+
Our project is to provide a new method for building up a fully extensible bio-logic circuit in bacteria. A small fragment of DNA containing cis-acting elements, favored for its small scale and potential to implement complex logic computation <i>in vivo</i>, can be systematically built up and act as a gate. Meanwhile, artificial repressors with highly-specific DNA-recognition regions are able to transmit signals without mutual interference, just as enameled wires. In this way, a circuit can be constructed regardless of the number of logic gates and the layout of the wires.
-
A demonstration system has also been assembled to show the practicality of this method.Just like Digital Electronic Circuits in early days, it is simple and ugly. But how will it appear in future?
+
A demonstration system has also been assembled to show the practicality of this method. Just like Digital Electronic Circuits in early days, it is simple and ugly. Nevertheless, how will it appear in future?
 +
<font color="#AAAAAA">''For detailed description, please click each hyperlink below.''</font>
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|width=330px style="padding: 5px" |
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[[Image:DSCN1243.png|330px]]
[[Image:DSCN1243.png|330px]]
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''From left to right''<BR>
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<font color="#AAAAAA">''From left to right''</font><BR>
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''Back row:'' [[USTC/ZhaoYun|Zhao Yun]], [[USTC/LiuZiqing|Liu ZQ]], [[USTC/MaXiaoyu|Ma XY]]<BR>
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<font color="#AAAAAA">''Back row:''</font> [[USTC/ZhaoYun|Zhao Yun]], [[USTC/LiuZiqing|Liu ZQ]], [[USTC/MaXiaoyu|Ma XY]]<BR>
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''Front row:'' [[USTC/MaRui|Ma Rui]], [[USTC/SuXiaofeng|Su XF]], [[USTC/DingBo|Ding Bo]], [[USTC/ZhanJian|Zhan Jian]]
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<font color="#AAAAAA">''Front row:''</font> [[USTC/MaRui|Ma Rui]], [[USTC/SuXiaofeng|Su XF]], [[USTC/DingBo|Ding Bo]], [[USTC/ZhanJian|Zhan Jian]]
<BR clear="both">
<BR clear="both">
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{| cellspacing="2px" cellpadding="20" border="0" style="padding: 0px; width: 750px
{| cellspacing="2px" cellpadding="20" border="0" style="padding: 0px; width: 750px
|-valign="top"
|-valign="top"
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|width=240px style="padding: 5px; background-color: #FFFF99" |
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|width=240px style="padding: 5px; background-color: #ccccff" |
<h3>Project</h3>
<h3>Project</h3>
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[[USTC/Introduction|Introduction]]
[[USTC/Introduction|Introduction]]
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|width=240px style="padding: 5px; background-color: #ccff99" |
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<!---
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<h3>Members</h3>
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<h3>Events</h3>
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<center>
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'''25/10/2007'''<br>
 
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Hard documenting ......
 
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'''18/09/2007'''<br>
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'''4 Graduates:'''<BR>
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[[USTC/JamboreeSchedule|Draft of our schedule for the Jamboree]].
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[[USTC/ZhanJian|Zhan Jian]]<BR>
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[[USTC/MaRui|Ma Rui]]<BR>
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[[USTC/DingBo|Ding Bo]]<BR>
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[[USTC/MaXiaoyu|Ma Xiaoyu]]<BR>
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'''04/09/2007'''<br>
 
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The second scheme of NAND gate has been built up and the rough data show that it works.
 
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More precise quantitative data is to be measured.
 
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'''02/09/2007'''<br>
 
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Double-reporters system version 2 has passed sequencing, and been confirmed by X-gal assay
 
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and fluorescence observation.
 
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[[USTC/Previous|'''Previous''']]
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'''3 Undergraduates:'''<BR>
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[[USTC/SuXiaofeng|Su Xiaofeng]]<BR>
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[[USTC/LiuZiqing|Liu Ziqing]]<BR>
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[[USTC/ZhaoYun|Zhao Yun]]
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|width=240px style="padding: 5px; background-color: #ccff99" |
 
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--->
 
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<h3>Statistics</h3>
 
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In less than 5 months, our
 
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<font color="#bb0000">Cosumption</font>
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'''3 Faculty Advisors:'''<BR>
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Prof. HY Liu<BR>
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Prof. JR Wu<BR>
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Prof. ZH Hou
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</center>
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'''4mL LB medium consumption'''<br>
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> 1400 tubes<br>
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'''Competence Strain we've made'''<br>
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~ 300 EP tubes<br>
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'''96-Well Plates we've used'''<br>
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~ 10 plates
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<h3>Snapshot</h3>
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<font color="#bb0000">Detection</font>
 
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'''Colony-PCR detection'''<br>
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[http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=USTC '''<font color="#bb0000">247</font> Part Sequences''']
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> 500 times<br>
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'''Fluorescence detection'''<br>
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> 100 times<br>
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'''DNA sequencing'''<br>
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~ 130 times
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'''<font color="#bb0000">123</font> Parts Submitted'''
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<font color="#bb0000">Measurement</font>
 
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'''Fluorescent Density measuring'''<br>
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'''77''' Synthesized Promoters
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> 200 times<br>
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'''ONPG assay'''<br>
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~ 70 times<br>
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'''11''' Novel Artificial Repressors
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'''~ 350''' New Strains
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'''~ 130''' DNA Strands Sequenced
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'''> 5000''' Colonies Screened
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<h3>Members</h3>
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'''~ 400''' Quantitative Assays
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<center>
 
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'''Graduates:'''<BR>
 
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[[USTC/ZhanJian|Zhan Jian]]<BR>
 
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[[USTC/MaRui|Ma Rui]]<BR>
 
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[[USTC/DingBo|Ding Bo]]<BR>
 
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[[USTC/MaXiaoyu|Ma Xiaoyu]]<BR>
 
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'''Undergraduates:'''<BR>
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<br>
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[[USTC/SuXiaofeng|Su Xiaofeng]]<BR>
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<br>
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[[USTC/LiuZiqing|Liu Ziqing]]<BR>
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<br>
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[[USTC/ZhaoYun|Zhao Yun]]
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[[USTC/Events|'''Previous Events''']]
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-
 
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'''Faculty Advisors:'''<BR>
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Prof. HY Liu<BR>
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Prof. JR Wu<BR>
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Prof. ZH Hou
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</center>
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|-valign="top"

Latest revision as of 10:51, 8 March 2011


USTC Logo.png

Today = new Date(); Jamboree = new Date("November 3, 2007"); msInADay = 1000 * 60 * 60 * 24; display = Math.floor((Jamboree.getTime() - Today.getTime())/msInADay); document.write(" " + display +" "); // </script></html>days left until the Jamboree! </font> -->

Our Project:
Extensible Logic Circuit in Bacteria

Artificial Bio-Logic Circuit is composed of "logic gates" and "wires" like Digital Electronic Circuits. Though we have been enjoying the advantages of ultra-large-scale electronic circuits in modern life, we still cannot implement a somewhat small-scale circuit in vivo with several levels of gates.

Our project is to provide a new method for building up a fully extensible bio-logic circuit in bacteria. A small fragment of DNA containing cis-acting elements, favored for its small scale and potential to implement complex logic computation in vivo, can be systematically built up and act as a gate. Meanwhile, artificial repressors with highly-specific DNA-recognition regions are able to transmit signals without mutual interference, just as enameled wires. In this way, a circuit can be constructed regardless of the number of logic gates and the layout of the wires.

A demonstration system has also been assembled to show the practicality of this method. Just like Digital Electronic Circuits in early days, it is simple and ugly. Nevertheless, how will it appear in future?

For detailed description, please click each hyperlink below.

DSCN1243.png

From left to right
Back row: Zhao Yun, Liu ZQ, Ma XY
Front row: Ma Rui, Su XF, Ding Bo, Zhan Jian


Project


Introduction


Core Logic Components:

Logic-Gate Promoters


Wires without Interference:

Repressor Evolution on Plates

Repressor Evolution in Silico


Peripheral Devices:

Inputs and Outputs


Extensible System:

A Demonstration

Further More


Members


4 Graduates:
Zhan Jian
Ma Rui
Ding Bo
Ma Xiaoyu


3 Undergraduates:
Su Xiaofeng
Liu Ziqing
Zhao Yun


3 Faculty Advisors:
Prof. HY Liu
Prof. JR Wu
Prof. ZH Hou

Snapshot


[http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=USTC 247 Part Sequences]

123 Parts Submitted


77 Synthesized Promoters

11 Novel Artificial Repressors


~ 350 New Strains

~ 130 DNA Strands Sequenced

> 5000 Colonies Screened

~ 400 Quantitative Assays






Previous Events

Resources

Modeling Utilities

Protocols

Sponsors

Service Providers

Gallery

Team Photos

Laboratory

[http://sg.ustc.edu.cn/mediawiki/index.php/IGEM_USTC_2007:USTCPhotos USTC Photos]

[http://sg.ustc.edu.cn/mediawiki/index.php/IGEM_USTC_2007:HuangshanPhotos Huangshan Mountain]

Links

[http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=USTC Parts Made by USTC iGEM 2007]

[http://partsregistry.org iGEM Standard Parts' Catalog ]

IGEM2007 Team List

[http://www.ustc.edu.cn Univ. of Sci. and Tech. of China ]

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