User:Lytao

From 2011.igem.org

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<div id="HomeCenter">
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<div id="Titulos">
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Mad yeasts on Mars?
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<html lang="en">
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<style type="text/css">
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a {
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    padding: 30px 28px 30px 15px;
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#col_nav{
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/* end twitter */
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.col_list li{
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    font-family:"Comic Sans MS", cursive;
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    padding: 5px 15px;
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    background-color:transparent;
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/* TEAM PAGE */
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.bio {
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    padding-bottom: 20px;
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.bio img {
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</head>
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<html>
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<head>
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<!-- TODO: add pre/n buttons -->
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<script>
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$(document).ready(function(){
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  $('.bio').css('display','none');
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$('#yhlbio').fadeIn(500);
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  $('.col_list li').css('cursor','pointer');
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  $('.col_list li').hover(function() {
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    $(this).css('background-color','#91A3ED');
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    $('#'+name+'bio').fadeIn(500);
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<body>
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<div id="col_nav">
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    <div class="col_list">
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        <h2>Weeks</h2>
 +
<ul>
 +
    <li id="yhl">Jun 28-July 2</li>
 +
    <li id="swl">July 3-July 9</li>
 +
    <li id="zlc">July 10-July 16</li>
 +
    <li id="fzz">July 17-July 23</li>
 +
    <li id="shl">July 24-July 30</li>
 +
    <li id="ml">July 31-Aug 6</li>
 +
    <li id="mps">Aug 7-Aug 13</li>
 +
            <li id="yfl">Aug 14-Aug 20</li>
 +
    <li id="dz">Aug 21-Aug 27</li>
 +
    <li id="lna">Aug 28-Sep 3</li>
 +
    <li id="jhp">Sep 4-Sep 10</li>
 +
    <li id="xlz">Sep 11-Sep 17</li>
 +
            <li id="wyy">Sep 18-Sep 24</il>
 +
    <li id="ytl">Sep 25-Oct 1</li>
 +
            <li id="nw">Oct 2-Oct 8</li>
 +
            <li id="yz">Oct 9-Oct 15</il>
 +
         
 +
</ul>
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    </div><!-- end undergrads -->
</div>
</div>
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Under this curious title it is hidden the ambitious Project of Valencia iGEM team. In our project, we intend to present an intermediate scenario in the pathway towards the [[:Team:Valencia/Terraforming | terraforming of Mars]] (i. e., modifying the atmosphere and temperature of Mars in order to get the appropriate conditions to make it habitable for Terran living organisms). The idea is that, after preliminary changes devoted to make Mars conditions more suitable for life, it can be colonized by microorganisms that will accelerate some changes to make the planet conditions acceptable for plant life which, then, will be able to generate enough oxygen to eventually allow the colonization by animals, including humans.
 
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[[Image:Valencia_MarsTransition.jpg|690px|]]
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<div id="col_left">
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<div class="bio" id="yhlbio">
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<h1>Jun 28-July 2</h1>
 +
</html>
 +
2011.6.28
 +
----
 +
cultivate the bacteria of [http://partsregistry.org/Part:BBa_K557000 cheZ] deficiency(RP1616),and the Control group(RP437).
 +
check the resistibility of RP1616 and RP437
 +
result:both of the two groups are of none resistibility.
 +
members:Siwei Luo, Fangzhou Zhao, Zhilin Chen...
 +
2011.6.29
 +
----
 +
check the motility of RP1616 strain and RP437 strain
 +
cultivate Top10 strain
 +
result: the bacterial plaque of RP1616 is smaller than that of RP437, implying that RP1616 is of [http://partsregistry.org/Part:BBa_K557000 cheZ] deficiency, causing the decreased motility of the bacteria.
-
Obviously, we do not pretend to follow up all the process, but just to focus on the microorganisms’ colonization step, as motors of the atmosphere building and heating, two essential conditions on the Terraformation process.
 
-
A consequence of the low Martian atmospheric density, the global temperature on Mars depends mainly on the energy exchange between the planet surface and the solar radiation. Therefore, one way to increase the temperature of the planet would be the change of the albedo altering the color of the surface and making it darker.
+
6.30
-
[[:Team:Valencia/Project | Our proposal]] is that dark yeast cells would retain the arriving solar radiation and heat the surface. But, once the temperature reaches its optimum on the planetary surface, dark cells will no more be necessary and the color production should be switched off. In order to achieve that and taking advantage of Synthetic Biology principles, a [[:Team:Valencia/prion | switch based on prion proteins]] (on mad yeast!) will be used.
+
----
 +
prepare for the competent cell of Top10 strain cultivated on 6.29
 +
extract the genome of Top10 strain and use it as complates to run PCR of CheZ
 +
result: the concentration of PCR result is too low to continue the experiments.
-
On the other hand, a big deal with this approach is the resistance of the organism to violent thermal changes of the Martian surface (summer-winter, day-night) which under certain conditions can be in a range of 20ºC and -80ºC. Thus this work will be complemented with the implementation of the expression of a [[:Team:Valencia/lea | LEA (Late Embryogenesis Abundant) “antifreeze” protein]]. These proteins in both plants and animals are associated with tolerance to water stress resulting from desiccation and cold shock.
+
7.1
 +
----
 +
conduct PCR of CheZ again
 +
ligate the CheZ DNA segment to plasmid PSb1C3, and transform it into Top10 competent cells
 +
result:as the picture shows.
-
Summarizing, we are going to build a engineered yeast resistant to temperature changes and able to produce a dark pigment which will be the responsible of a global temperature increase on Mars.
+
7.2
 +
----
 +
pick up single colony from the Petri dish to reproduce, in which the competent cells are cultivated and use them colony PCR
 +
result:The bacteria grow up well on dishes with chloromycetin resistency，verifying that the transformation is successfull
 +
while the concentration of PCR product is pretty high,demonstrating that the plasmids indeed contains the sagment CheZ.
-
=The Valencia IGEM Team 2010=
 
-
[[Image:valencia_logo_loco_200.png|180px|right]]
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<html>
-
We have the 2010 IGEM team: 9 students from both Universitat de València and Universidad Politècnica de València, go to [[:Team:Valencia/Universities|The Universities]]. Most of us have backgrounds in Biology, Biotechnology, Chemistry, Engineering and Computer Sciences. We want to discover the enigmas of Synthetic Biology and now also the ones tha Mars puts on the table!!!! Go to [[:Team:Valencia/Team|The Team]]  page for more info on us. In the [[:Team:Valencia/Notebook/Calender|Notebook]] you can follow up our work in progress!!! and in [[:Team:Valencia/Gallery|Gallery]] you can see a bunch of pictures of the team working.
+
<div class="clear"></div>
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<br>
+
</div>
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=News=
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<div class="bio" id="swlbio">
-
[[Image:valencia_nasa.jpg|right|140px|NASA]]
+
<h1>July 3-July 9</h1>
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*02/11/2011 - Meeting with David Bergner, Deputy Chief of the [http://spacebiosciences.arc.nasa.gov/ Division of Space Biosciences], from [http://www.nasa.gov/centers/ames/home/index.html NASA Ames Research Center]. Discussed synthetic biology application in space bioscience.
+
</html>
-
<br><br><br>
+
7.3
-
[[Image:valencia_jamboree.jpg|left|200px|Jamboree 2010]]
+
----
-
'''Jamboree 2010 Highlights'''
+
extract the plasmids from the reproduced bacteria and send it to check the base sequence
 +
result: the concentration of the plasmids extracted is about 500ng/uL
-
[[Image:valencia_gold medal.jpg]]
+
7.4
-
*Gold Medal: Received a gold medal for the BioBricks we made and characterized, our human practice, our modeling  efforts, our Experimental mesurements and our great project!!!.
+
----
-
<br><br><br>
+
extract the standard parts LuxPR and Terminator from plate sent by iGEM registry 2010 and put them into Top10 strain by transformation
-
'''Valencia Team in the News'''
+
(LuxPr: Plate 2,24C  Terminator : Plate 1,6O)
-
[[Image:valencia_nota_publico.jpg|right|200px|IGEM Valencia team 2010 project explained]]
+
result: the bacteria on the plate with Amp resistency grows well
-
We are on the national news!!! Check out the article "Synthetic bacteria for Mars" (in spanish in the ''Publico'' news paper on Sunday May 23th).
+
7.5
 +
----
 +
pick up single colony from the Petri dish to reproduce in the liquid culture medium
-
The article reviews the last year project of the Valencia IGEM 2009 team and then explains this year project.
 
 +
7.6
 +
----
 +
extract plasmids containing LuxPR and Terminator and make enzyme digestion with EcoR1 and Spe1 in order to validate the existence of the two parts
 +
recieve part Toggle Switch and rbs-Ci-ter from PKU and conduct transformation
 +
 +
result: Due to the short length of LuxPR and Terminator, the result of the enzyme digestion is hard to examine by electrophoresis.
 +
 +
7.7
 +
----
 +
result: there are a few colonies with part Toggle switch grown while no colony of rbs-Ci-ter appeared.
 +
 +
7.8
 +
----
 +
pick up single colony with part Toggle switch .
 +
extract the standard parts LuxPR and Terminator from plate sent by iGEM registry 2011 and put them into Top10 strain by transformation
 +
 +
7.9
 +
----
 +
pick up single colony with LuxPR & terminator.
 +
extract plasmids containing toggle switch to conduct PCR.
 +
 +
process PCR with plasmids aptamer-CheZ
 +
result:as the picture shows.
 +
the base sequence of CheZ extracted before is proved right.
 +
 +
 +
 +
<html>
 +
<div class="clear"></div>
</div>
</div>
 +
 +
<div class="bio" id="zlcbio">
 +
<h1>July 10-July 16</h1>
 +
</html>
 +
7.10
 +
----
 +
ligate aptamer-CheZ with PSB1C3 plasmids
 +
 +
extract plasmids containing LuxPR and terminator
 +
result:the concentractions of plasmids LuxPR and terminator are both 600ng/ul
 +
 +
7.11
 +
----
 +
transform PSB1C3 containing aptamer-CheZ into bacteria and cultivate.
 +
7.12
 +
----
 +
carry out Double digestion of toggle switch and pSB1c3 and ligate them together.
 +
 +
pick up single colony from bacteria cultivated yesterday.
 +
 +
result: Both the location and the brightness of the electrophoretic bands correspond with our expectation.
 +
 +
7.14
 +
----
 +
transform the part rbs-ci-ter sent from PKU again into bacteria.
 +
check the colors of the colonies containing toggle switch.
 +
result: the ratio of red vs green is 8:25, verifying the function of toggle switch.
 +
 +
7.15
 +
----
 +
pick up the single colony from the plate yesterday and ten hours later extract the plasmids containing Ci-terminator.
 +
 +
 +
7.16
 +
----
 +
conduct PCR with the plasmids yesterday to reproduce rbs-ci-Term.
 +
result:failure
 +
 +
 +
<html>
 +
</div>
 +
 +
<div class="bio" id="fzzbio">
 +
<h1>July 17-July 23</h1>
 +
7.18-7.21
 +
----
 +
ligate the standard part Terminator to the end of toggle switch
 +
result: we conduct a enzyme digestion with EcoR1 and Pst1 to the final ligation product and the electrophoresis result shows that the ligation is successful.
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="shlbio">
 +
<h1>July 24-July 30</h1>
 +
7.22-7.29
 +
----
 +
perform the following experiments: PCR of rbs-ci-ter, enzyme digestion(E,S),ligation with LuxPR(standard part from IGEM registry digested by E,X),tranformation,plasmids extraction.
 +
result: the concentration of plasmids with ligation gene is as high as ...
 +
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="mlbio">
 +
<h1>July 31-Aug 6</h1>
 +
7.30-8.3
 +
----
 +
PCR of LuxPR-rbs-ci-ter, enzyme digestion(E,S),ligation with LuxPR(standard part from IGEM registry digested by E,X),tranformation,plasmids extraction.
 +
</div>
 +
 +
 +
<div class="bio" id="mpsbio">
 +
<h1>Aug 7-Aug 13</h1>
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
 +
<div class="bio" id="yflbio">
 +
<h1>Aug 14-Aug 20</h1>
 +
 +
</div>
 +
 +
 +
<div class="bio" id="nwbio">
 +
<h1></h1>
 +
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="ytlbio">
 +
<h1></h1>
 +
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="dzbio">
 +
<h1></h1>
 +
 +
</div>
 +
 +
<div class="bio" id="lnabio">
 +
<h1></h1>
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="jhpbio">
 +
<h1></h1>
 +
 +
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="yywbio">
 +
<h1></h1>
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="xlzbio">
 +
<h1></h1>
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="yzbio">
 +
<h1></h1>
 +
 +
<div class="clear"></div>
 +
</div>
 +
 +
<div class="bio" id="wyybio">
 +
<h1></h1>
 +
 +
<div class="clear"></div>
 +
</div>
 +
</div>
 +
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</body>
 +
</html>

Latest revision as of 03:00, 29 October 2011


Weeks

  • Jun 28-July 2
  • July 3-July 9
  • July 10-July 16
  • July 17-July 23
  • July 24-July 30
  • July 31-Aug 6
  • Aug 7-Aug 13
  • Aug 14-Aug 20
  • Aug 21-Aug 27
  • Aug 28-Sep 3
  • Sep 4-Sep 10
  • Sep 11-Sep 17
  • Sep 18-Sep 24
  • Sep 25-Oct 1
  • Oct 2-Oct 8
  • Oct 9-Oct 15

Jun 28-July 2

2011.6.28

cultivate the bacteria of [http://partsregistry.org/Part:BBa_K557000 cheZ] deficiency(RP1616),and the Control group(RP437). check the resistibility of RP1616 and RP437 result:both of the two groups are of none resistibility. members:Siwei Luo, Fangzhou Zhao, Zhilin Chen...

2011.6.29

check the motility of RP1616 strain and RP437 strain cultivate Top10 strain result: the bacterial plaque of RP1616 is smaller than that of RP437, implying that RP1616 is of [http://partsregistry.org/Part:BBa_K557000 cheZ] deficiency, causing the decreased motility of the bacteria.


6.30

prepare for the competent cell of Top10 strain cultivated on 6.29 extract the genome of Top10 strain and use it as complates to run PCR of CheZ result: the concentration of PCR result is too low to continue the experiments.

7.1

conduct PCR of CheZ again ligate the CheZ DNA segment to plasmid PSb1C3, and transform it into Top10 competent cells result:as the picture shows.

7.2

pick up single colony from the Petri dish to reproduce, in which the competent cells are cultivated and use them colony PCR result:The bacteria grow up well on dishes with chloromycetin resistency，verifying that the transformation is successfull while the concentration of PCR product is pretty high,demonstrating that the plasmids indeed contains the sagment CheZ.


July 3-July 9

7.3

extract the plasmids from the reproduced bacteria and send it to check the base sequence result: the concentration of the plasmids extracted is about 500ng/uL

7.4

extract the standard parts LuxPR and Terminator from plate sent by iGEM registry 2010 and put them into Top10 strain by transformation (LuxPr: Plate 2,24C Terminator : Plate 1,6O) result: the bacteria on the plate with Amp resistency grows well 7.5

pick up single colony from the Petri dish to reproduce in the liquid culture medium


7.6

extract plasmids containing LuxPR and Terminator and make enzyme digestion with EcoR1 and Spe1 in order to validate the existence of the two parts recieve part Toggle Switch and rbs-Ci-ter from PKU and conduct transformation

result: Due to the short length of LuxPR and Terminator, the result of the enzyme digestion is hard to examine by electrophoresis.

7.7

result: there are a few colonies with part Toggle switch grown while no colony of rbs-Ci-ter appeared.

7.8

pick up single colony with part Toggle switch . extract the standard parts LuxPR and Terminator from plate sent by iGEM registry 2011 and put them into Top10 strain by transformation

7.9

pick up single colony with LuxPR & terminator. extract plasmids containing toggle switch to conduct PCR.

process PCR with plasmids aptamer-CheZ result:as the picture shows. the base sequence of CheZ extracted before is proved right.


July 10-July 16

7.10

ligate aptamer-CheZ with PSB1C3 plasmids

extract plasmids containing LuxPR and terminator result:the concentractions of plasmids LuxPR and terminator are both 600ng/ul

7.11

transform PSB1C3 containing aptamer-CheZ into bacteria and cultivate. 7.12

carry out Double digestion of toggle switch and pSB1c3 and ligate them together.

pick up single colony from bacteria cultivated yesterday.

result: Both the location and the brightness of the electrophoretic bands correspond with our expectation.

7.14

transform the part rbs-ci-ter sent from PKU again into bacteria. check the colors of the colonies containing toggle switch. result: the ratio of red vs green is 8:25, verifying the function of toggle switch.

7.15

pick up the single colony from the plate yesterday and ten hours later extract the plasmids containing Ci-terminator.


7.16

conduct PCR with the plasmids yesterday to reproduce rbs-ci-Term. result:failure


July 17-July 23

7.18-7.21 ---- ligate the standard part Terminator to the end of toggle switch result: we conduct a enzyme digestion with EcoR1 and Pst1 to the final ligation product and the electrophoresis result shows that the ligation is successful.

July 24-July 30

7.22-7.29 ---- perform the following experiments: PCR of rbs-ci-ter, enzyme digestion(E,S),ligation with LuxPR(standard part from IGEM registry digested by E,X),tranformation,plasmids extraction. result: the concentration of plasmids with ligation gene is as high as ...

July 31-Aug 6

7.30-8.3 ---- PCR of LuxPR-rbs-ci-ter, enzyme digestion(E,S),ligation with LuxPR(standard part from IGEM registry digested by E,X),tranformation,plasmids extraction.

Aug 7-Aug 13

Aug 14-Aug 20

Retrieved from "http://2011.igem.org/User:Lytao"