http://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&feed=atom&action=historyTeam:XMU-China/Project/Appoach - Revision history2024-03-28T09:54:42ZRevision history for this page on the wikiMediaWiki 1.16.0http://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=262492&oldid=prevFeiyi at 03:59, 29 October 20112011-10-29T03:59:03Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>One day, our instructor had Pu’er tea in his office and said to us that the tea wasn’t bitter at all. Instead, it tasted sweet because it had been treated with some special methods. One of team member found it an interesting topic. So she referred to some books for information about the fermentation of the Pu’er tea. She found that the concentration of bacteria in the fermentation process was the most important factor of determining the taste of the tea. The prevailing method used for controlling the concentration of bacteria is by controlling the concentration of the medium. We came up with the idea that fermentation technology can be simplified if bacteria can maintain at the optimum concentration by itself.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>One day, our instructor had Pu’er tea in his office and said to us that the tea wasn’t bitter at all. Instead, it tasted sweet because it had been treated with some special methods. One of team member found it an interesting topic. So she referred to some books for information about the fermentation of the Pu’er tea. She found that the concentration of bacteria in the fermentation process was the most important factor of determining the taste of the tea. The prevailing method used for controlling the concentration of bacteria is by controlling the concentration of the medium. We came up with the idea that fermentation technology can be simplified if bacteria can maintain at the optimum concentration by itself.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">We are inspired by a paper published on natrue[3]. And we thought that we could also use the method of synthetic biology to solve the problems which could be solved by traditional biology method and perhaps we could do even better and make great improvements. So we came up with the idea of making a series bacteria population-control devices.</ins></div></td></tr>
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</table>Feiyihttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=260358&oldid=prevXmuwendy: /* reference */2011-10-29T02:11:33Z<p><span class="autocomment">reference</span></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>==<del class="diffchange diffchange-inline">reference</del>==</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>==<ins class="diffchange diffchange-inline">Reference</ins>==</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[1] http://en.wikipedia.org/wiki/Pu-erh_tea</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[1] http://en.wikipedia.org/wiki/Pu-erh_tea</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[2] Baldwin T, Devine JH, Heckel, RC, Lin, JW, Shadel GS. The complete nucleotide sequence of the lux regulon of Vibrio fischeri and the luxABN region of Photobacterium leiognathi and the mechanism of control of bacterial bioluminescence[J]. Journal of Bioluminescence and Chemiluminescence, 1989, 4(1): 326-341.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[2] Baldwin T, Devine JH, Heckel, RC, Lin, JW, Shadel GS. The complete nucleotide sequence of the lux regulon of Vibrio fischeri and the luxABN region of Photobacterium leiognathi and the mechanism of control of bacterial bioluminescence[J]. Journal of Bioluminescence and Chemiluminescence, 1989, 4(1): 326-341.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[3] You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. Nature, 2004, 428(6985): 868-871.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[3] You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. Nature, 2004, 428(6985): 868-871.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[4]Philippe B,Martine C.Cell killing by the F plasmid CcdB protein involves poisoning of DNA-topoisomerase II complexes[J].Molecular Biology,1992,226(3):735-745.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[4]Philippe B,Martine C.Cell killing by the F plasmid CcdB protein involves poisoning of DNA-topoisomerase II complexes[J].Molecular Biology,1992,226(3):735-745.</div></td></tr>
</table>Xmuwendyhttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=260280&oldid=prevXmuwendy: /* The Final Product */2011-10-29T02:08:02Z<p><span class="autocomment">The Final Product</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== The Final Product ==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== The Final Product ==</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The device is designed to build a programmed bacterial death circuit, which is based on the quorum sensing system of Vibrio fischeri. The LuxI protein synthesizes a small, diffusible acyl-homoserinelactone (AHL) signaling molecule. The AHL accumulates as the cell density increases. At sufficiently high concentrations, it binds the LuxR, which induces the expression of the killer gene ccdB under the control of a promoter lux pR. Sufficiently high levels of CcdB which is a bacterial toxin that targets DNA gyrase cause cell death. Low cell density doesn’t have the ability to produce sufficient LuxR/AHL complex to activate the promoter lux pR. The programmed death circuit ends and the cell density increases. When the cells reach a certain concentration, the death circuit is restarted. Back and forth, the programmed death is achieved in the dynamic process of growth and death. In that way, the bacteria population is programmed to maintain one certain cell density. In order to control the expression of the killer protein ccdB, we designed a series of bacteria population-control devices using RBSs with different efficiency. The cell growth and fluorescent curves corresponding to different RBSs illustrate that the bacteria population was successfully controlled at different cell densities.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The device is designed to build a programmed bacterial death circuit, which is based on the quorum sensing system of Vibrio fischeri. The LuxI protein synthesizes a small, diffusible acyl-homoserinelactone (AHL) signaling molecule. The AHL accumulates as the cell density increases. At sufficiently high concentrations, it binds the LuxR, which induces the expression of the killer gene ccdB under the control of a promoter lux pR. Sufficiently high levels of CcdB which is a bacterial toxin that targets DNA gyrase cause cell death. Low cell density doesn’t have the ability to produce sufficient LuxR/AHL complex to activate the promoter lux pR. The programmed death circuit ends and the cell density increases. When the cells reach a certain concentration, the death circuit is restarted. Back and forth, the programmed death is achieved in the dynamic process of growth and death. In that way, the bacteria population is programmed to maintain one certain cell density. In order to control the expression of the killer protein ccdB, we designed a series of bacteria population-control devices using RBSs with different efficiency. The cell growth and fluorescent curves corresponding to different RBSs illustrate that the bacteria population was successfully controlled at different cell densities.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">==reference==</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[1] http://en.wikipedia.org/wiki/Pu-erh_tea</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[2] Baldwin T, Devine JH, Heckel, RC, Lin, JW, Shadel GS. The complete nucleotide sequence of the lux regulon of Vibrio fischeri and the luxABN region of Photobacterium leiognathi and the mechanism of control of bacterial bioluminescence[J]. Journal of Bioluminescence and Chemiluminescence, 1989, 4(1): 326-341.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[3] You L, Cox RS, Weiss R, Arnold FH. Programmed population control by cell-cell communication and regulated killing[J]. Nature, 2004, 428(6985): 868-871.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[4]Philippe B,Martine C.Cell killing by the F plasmid CcdB protein involves poisoning of DNA-topoisomerase II complexes[J].Molecular Biology,1992,226(3):735-745.</ins></div></td></tr>
</table>Xmuwendyhttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=251477&oldid=prevXmuwendy at 12:14, 28 October 20112011-10-28T12:14:25Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 iGEM .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One <del class="diffchange diffchange-inline">day,our </del>instructor had Pu’er tea in his <del class="diffchange diffchange-inline">office,and </del>said to us that <del class="diffchange diffchange-inline">this kind of </del>tea <del class="diffchange diffchange-inline">isn’t </del>bitter <del class="diffchange diffchange-inline">but </del>sweet because it <del class="diffchange diffchange-inline">is fermented</del>. One of team member <del class="diffchange diffchange-inline">felt </del>interesting. <del class="diffchange diffchange-inline">What’s more, </del>she found that the concentration of bacteria <del class="diffchange diffchange-inline">used for </del>fermentation <del class="diffchange diffchange-inline">is </del>the most important factor <del class="diffchange diffchange-inline">influencing </del>taste of the tea. <del class="diffchange diffchange-inline">At present, the usual </del>method controlling the concentration of bacteria is <del class="diffchange diffchange-inline">adjusting </del>the concentration of the medium. We <del class="diffchange diffchange-inline">thought: </del>if bacteria can <del class="diffchange diffchange-inline">keep </del>the optimum concentration by itself<del class="diffchange diffchange-inline">, fermentation technology can be simplified</del>.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 iGEM .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>One <ins class="diffchange diffchange-inline">day, our </ins>instructor had Pu’er tea in his <ins class="diffchange diffchange-inline">office and </ins>said to us that <ins class="diffchange diffchange-inline">the </ins>tea <ins class="diffchange diffchange-inline">wasn’t </ins>bitter <ins class="diffchange diffchange-inline">at all. Instead, it tasted </ins>sweet because it <ins class="diffchange diffchange-inline">had been treated with some special methods</ins>. One of team member <ins class="diffchange diffchange-inline">found it an </ins>interesting <ins class="diffchange diffchange-inline">topic</ins>. <ins class="diffchange diffchange-inline">So </ins>she <ins class="diffchange diffchange-inline">referred to some books for information about the fermentation of the Pu’er tea. She </ins>found that the concentration of bacteria <ins class="diffchange diffchange-inline">in the </ins>fermentation <ins class="diffchange diffchange-inline">process was </ins>the most important factor <ins class="diffchange diffchange-inline">of determining the </ins>taste of the tea. <ins class="diffchange diffchange-inline">The prevailing </ins>method <ins class="diffchange diffchange-inline">used for </ins>controlling the concentration of bacteria is <ins class="diffchange diffchange-inline">by controlling </ins>the concentration of the medium. We <ins class="diffchange diffchange-inline">came up with the idea that fermentation technology can be simplified </ins>if bacteria can <ins class="diffchange diffchange-inline">maintain at </ins>the optimum concentration by itself.</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:XMU_China_134beta.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|Figure 1: From brainstorm to our project i-''ccdB''.]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:XMU_China_134beta.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|Figure 1: From brainstorm to our project i-''ccdB''.]]</div></td></tr>
</table>Xmuwendyhttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=235772&oldid=prevIshuidi at 03:43, 6 October 20112011-10-06T03:43:29Z<p></p>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 <ins class="diffchange diffchange-inline">iGEM </ins>.We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:XMU_China_134beta.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|Figure 1: From brainstorm to our project i-''ccdB''.]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:XMU_China_134beta.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|Figure 1: From brainstorm to our project i-''ccdB''.]]</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>3.using the method of site-directed mutagenesis to modify the promoter lux pR,changing its efficiency</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>3.using the method of site-directed mutagenesis to modify the promoter lux pR,changing its efficiency</div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>4. performing these <del class="diffchange diffchange-inline">circuit</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>4. performing these <ins class="diffchange diffchange-inline">circuits</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== Aims ==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== Aims ==</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Bacteria concentration has significant impact on production of fermentation product. Product concentration is proportional with bacteria concentration at suitable special growth rate. The primary metabolite production is the case, such as amino acid and vitamin. However, for secondary metabolite production, such as antibiotic, the special growth rate should not be too high. Otherwise, it would generate negative impacts, such as fast consumption of nutrient substance, significant change of culture media, accumulation of toxic substance in culture media and significant decline of <del class="diffchange diffchange-inline">DO</del>, which would alter the metabolic pathway of bacteria. We aimed at constructing a series of bacteria can maintain at the different concentration by itself. We hope that our work can introduce a new way which controls the concentration of bacteria for fermentation process control technology.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Bacteria concentration has significant impact on production of fermentation product. Product concentration is proportional with bacteria concentration at suitable special growth rate. The primary metabolite production is the case, such as amino acid and vitamin. However, for secondary metabolite production, such as antibiotic, the special growth rate should not be too high. Otherwise, it would generate negative impacts, such as fast consumption of nutrient substance, significant change of culture media, accumulation of toxic substance in culture media and significant decline of <ins class="diffchange diffchange-inline">OD</ins>, which would alter the metabolic pathway of bacteria. We aimed at constructing a series of bacteria can maintain at the different concentration by itself. We hope that our work can introduce a new way which controls the concentration of bacteria for fermentation process control technology.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">The best cells reaction in the fermentation process control technology with new ways of concentration.</del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== The Final Product ==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== The Final Product ==</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The device is designed to build a programmed bacterial death circuit, which is based on the quorum sensing system of Vibrio fischeri. The LuxI protein synthesizes a small, diffusible acyl-homoserinelactone (AHL) signaling molecule. The AHL accumulates as the cell density increases. At sufficiently high concentrations, it binds the LuxR, which induces the expression of the killer gene ccdB under the control of a promoter lux pR. Sufficiently high levels of CcdB which is a bacterial toxin that targets DNA gyrase cause cell death. Low cell density doesn’t have the ability to produce sufficient LuxR/AHL complex to activate the promoter lux pR. The programmed death circuit ends and the cell density increases. When the cells reach a certain concentration, the death circuit is restarted. Back and forth, the programmed death is achieved in the dynamic process of growth and death. In that way, the bacteria population is programmed to maintain one certain cell density. In order to control the expression of the killer protein ccdB, we designed a series of bacteria population-control devices using RBSs with different efficiency. The cell growth and fluorescent curves corresponding to different RBSs illustrate that the bacteria population was successfully controlled at different cell densities.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The device is designed to build a programmed bacterial death circuit, which is based on the quorum sensing system of Vibrio fischeri. The LuxI protein synthesizes a small, diffusible acyl-homoserinelactone (AHL) signaling molecule. The AHL accumulates as the cell density increases. At sufficiently high concentrations, it binds the LuxR, which induces the expression of the killer gene ccdB under the control of a promoter lux pR. Sufficiently high levels of CcdB which is a bacterial toxin that targets DNA gyrase cause cell death. Low cell density doesn’t have the ability to produce sufficient LuxR/AHL complex to activate the promoter lux pR. The programmed death circuit ends and the cell density increases. When the cells reach a certain concentration, the death circuit is restarted. Back and forth, the programmed death is achieved in the dynamic process of growth and death. In that way, the bacteria population is programmed to maintain one certain cell density. In order to control the expression of the killer protein ccdB, we designed a series of bacteria population-control devices using RBSs with different efficiency. The cell growth and fluorescent curves corresponding to different RBSs illustrate that the bacteria population was successfully controlled at different cell densities.</div></td></tr>
</table>Ishuidihttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=234121&oldid=prev3Zleader at 01:14, 6 October 20112011-10-06T01:14:04Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Image:<del class="diffchange diffchange-inline">XMU_China_134</del>.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|Figure 1: From brainstorm to our project i-''ccdB''.]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Image:<ins class="diffchange diffchange-inline">XMU_China_134beta</ins>.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|Figure 1: From brainstorm to our project i-''ccdB''.]]</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline"><html></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline"><img src="http://partsregistry.org/wiki/images/4/41/XMU_China_block.jpg"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline"></html></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== Design ==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== Design ==</div></td></tr>
</table>3Zleaderhttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=234081&oldid=prev3Zleader at 01:09, 6 October 20112011-10-06T01:09:35Z<p></p>
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<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 01:09, 6 October 2011</td>
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<td colspan="2" class="diff-lineno">Line 4:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx figure 134xxxxxxxxxxxxxxxxxxxxxxxxxxxxx</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">[[Image:XMU_China_134.jpg|left|Figure 1: From brainstorm to our project i-''ccdB''|frame|</ins>Figure 1: From brainstorm to our project i-''ccdB''<ins class="diffchange diffchange-inline">.]]</ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Figure 1: From brainstorm to our project i-''ccdB''</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== Design ==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>== Design ==</div></td></tr>
</table>3Zleaderhttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=233221&oldid=prevXmuwendy at 23:40, 5 October 20112011-10-05T23:40:56Z<p></p>
<table style="background-color: white; color:black;">
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<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 23:40, 5 October 2011</td>
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<td colspan="2" class="diff-lineno">Line 4:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx figure <del class="diffchange diffchange-inline">100xxxxxxxxxxxxxxxxxxxxxxxxxxxxx</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx figure <ins class="diffchange diffchange-inline">134xxxxxxxxxxxxxxxxxxxxxxxxxxxxx</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Figure 1: From brainstorm to our project i-''ccdB''</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Figure 1: From brainstorm to our project i-''ccdB''</div></td></tr>
</table>Xmuwendyhttp://2011.igem.org/wiki/index.php?title=Team:XMU-China/Project/Appoach&diff=232389&oldid=prevHYD: Created page with "{{:Team:XMU-China/Hidden}} {{:Team:XMU-China/List}} In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams..."2011-10-05T21:52:57Z<p>Created page with "{{:Team:XMU-China/Hidden}} {{:Team:XMU-China/List}} In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams..."</p>
<p><b>New page</b></p><div>{{:Team:XMU-China/Hidden}}<br />
{{:Team:XMU-China/List}}<br />
<br />
In December 2010, we began thinking about project for 2011 .We tried to get inspiration from materials provided by iGEM teams in past three years. And we put forward many ideas. For example, we could construct a kind of E.coli which can decompose and detect carbinol harming human body. Another example is that we try to make E.coli have magneto taxis. We collected papers about those ideas. One day,our instructor had Pu’er tea in his office,and said to us that this kind of tea isn’t bitter but sweet because it is fermented. One of team member felt interesting. What’s more, she found that the concentration of bacteria used for fermentation is the most important factor influencing taste of the tea. At present, the usual method controlling the concentration of bacteria is adjusting the concentration of the medium. We thought: if bacteria can keep the optimum concentration by itself, fermentation technology can be simplified.<br />
<br />
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx figure 100xxxxxxxxxxxxxxxxxxxxxxxxxxxxx<br />
<br />
Figure 1: From brainstorm to our project i-''ccdB''<br />
<br />
== Design ==<br />
We know that Vibrio fischeri is typical bacterium of quorum-sensing. This bacterium was shown to coordinate their behavior via the secretion of specific signaling molecules in a population density-dependent manner. Lux Box, luxR and luxI are key control elements of quorum-sensing mechanism in Vibrio fischeri. In 2004,Arnold’s lab published a paper in NATURE Magazine, Programmed population control by cell–cell communication and regulated killing. They have built and characterized a ‘population control’ circuit that autonomously regulates the density of an Escherichia coli population. The cell density is broadcasted and detected by elements from a bacterial quorum-sensing system, which in turn regulate the death rate. We wanted to go further in this direction and did more research that makes the concentration of E.coli keep at different levels.<br />
<br />
<br />
== Different subprojects ==<br />
Our research attempted to decouple quorum-sensing mechanism in Vibrio fischeri, construct standard cell-cell communicating system, and analyze factors that influence communicating system on genetic level. Major works were listed as follows: <br />
<br />
1. constructing standard programmed cell-death circuits<br />
<br />
2. constructing a series of standard programmed cell-death circuits,which have different RBS sequences before splicing killer fusion gene lacZɑ-ccdB<br />
<br />
3.using the method of site-directed mutagenesis to modify the promoter lux pR,changing its efficiency<br />
<br />
4. performing these circuit<br />
<br />
<br />
== Aims ==<br />
Bacteria concentration has significant impact on production of fermentation product. Product concentration is proportional with bacteria concentration at suitable special growth rate. The primary metabolite production is the case, such as amino acid and vitamin. However, for secondary metabolite production, such as antibiotic, the special growth rate should not be too high. Otherwise, it would generate negative impacts, such as fast consumption of nutrient substance, significant change of culture media, accumulation of toxic substance in culture media and significant decline of DO, which would alter the metabolic pathway of bacteria. We aimed at constructing a series of bacteria can maintain at the different concentration by itself. We hope that our work can introduce a new way which controls the concentration of bacteria for fermentation process control technology.<br />
<br />
The best cells reaction in the fermentation process control technology with new ways of concentration.<br />
<br />
<br />
== The Final Product ==<br />
The device is designed to build a programmed bacterial death circuit, which is based on the quorum sensing system of Vibrio fischeri. The LuxI protein synthesizes a small, diffusible acyl-homoserinelactone (AHL) signaling molecule. The AHL accumulates as the cell density increases. At sufficiently high concentrations, it binds the LuxR, which induces the expression of the killer gene ccdB under the control of a promoter lux pR. Sufficiently high levels of CcdB which is a bacterial toxin that targets DNA gyrase cause cell death. Low cell density doesn’t have the ability to produce sufficient LuxR/AHL complex to activate the promoter lux pR. The programmed death circuit ends and the cell density increases. When the cells reach a certain concentration, the death circuit is restarted. Back and forth, the programmed death is achieved in the dynamic process of growth and death. In that way, the bacteria population is programmed to maintain one certain cell density. In order to control the expression of the killer protein ccdB, we designed a series of bacteria population-control devices using RBSs with different efficiency. The cell growth and fluorescent curves corresponding to different RBSs illustrate that the bacteria population was successfully controlled at different cell densities.</div>HYD