Team:Weimar-Heidelberg Arts/Project/Bacteria Game/Wetlab

From 2010.igem.org

(Difference between revisions)
(New page: <div id="content"> <a name="top" id="top"></a> <h1 id="firstHeading" class="firstHeading">GMU talk:Synthetic Biology/Bacteria Game/iGEM Wiki</h1> <div id="bodyContent"> ...)
 
(11 intermediate revisions not shown)
Line 1: Line 1:
-
<div id="content">
+
<html>
-
<a name="top" id="top"></a>
+
    <head>
-
+
        <style type="text/css">
-
<h1 id="firstHeading" class="firstHeading">GMU talk:Synthetic Biology/Bacteria Game/iGEM Wiki</h1>
+
          @import url("http://bbuegler.super-cell.org/css/style.css");
-
+
        </style>
-
<div id="bodyContent">
+
    </head>
-
<div id="contentSub"></div>
+
    <body>
-
+
-
<!-- start content -->
+
-
<p>iGem Wiki preparation page
+
-
</p>
+
<div id="box" class="background-project">
-
<table id="toc" class="toc" summary="Contents"><tr><td><div id="toctitle"><h2>Contents</h2></div>
+
-
<ul>
+
-
<li class="toclevel-1 tocsection-1"><a href="#Description"><span class="tocnumber">1</span> <span class="toctext">Description</span></a></li>
+
-
<li class="toclevel-1 tocsection-2"><a href="#Technical_Description"><span class="tocnumber">2</span> <span class="toctext">Technical Description</span></a></li>
+
-
<li class="toclevel-1 tocsection-3"><a href="#Wetlab_Notebook"><span class="tocnumber">3</span> <span class="toctext">Wetlab Notebook</span></a>
+
-
<ul>
+
-
<li class="toclevel-2 tocsection-4"><a href="#30.2F09.2F2010"><span class="tocnumber">3.1</span> <span class="toctext">30/09/2010</span></a></li>
 
-
<li class="toclevel-2 tocsection-5"><a href="#31.2F09.2F2010"><span class="tocnumber">3.2</span> <span class="toctext">31/09/2010</span></a></li>
 
-
<li class="toclevel-2 tocsection-6"><a href="#01.2F10.2F2010"><span class="tocnumber">3.3</span> <span class="toctext">01/10/2010</span></a></li>
 
-
</ul>
 
-
</li>
 
-
</ul>
 
-
</td></tr></table><script type="text/javascript"> if (window.bauhausShowTocToggle) { var tocShowText = "show"; var tocHideText = "hide"; var tocShowIcon = "http://web.uni-weimar.de/medien/wiki/skins/bauhausmedien/icons/down.gif"; var tocHideIcon = "http://web.uni-weimar.de/medien/wiki/skins/bauhausmedien/icons/up.gif"; var tocClearIcon= "http://web.uni-weimar.de/medien/wiki/skins/bauhausmedien/icons/clear.gif"; var tocResetIcon= "http://web.uni-weimar.de/medien/wiki/skins/bauhausmedien/icons/right.gif"; bauhausShowTocToggle(); } </script>
 
-
<h2><span class="editsectionIcon"><a href="/medien/wiki/index.php5?title=GMU_talk:Synthetic_Biology/Bacteria_Game/iGEM_Wiki&amp;action=edit&amp;section=1" title="Edit section: Description"><img src="/medien/wiki/skins/bauhausmedien/icons/edit.gif" border="0" alt="Edit section: Description"></a></span> <span class="mw-headline" id="Description">Description</span></h2>
+
<div id="content-menu">
-
<div class="thumb tright"><div class="thumbinner" style="width:182px;"><a href="/medien/wiki/File:IGEM_bgame_petri.jpg" class="image"><img alt="" src="/medien/wiki/images/thumb/IGEM_bgame_petri.jpg/180px-IGEM_bgame_petri.jpg" width="180" height="130" class="thumbimage" /></a> <div class="thumbcaption"><div class="magnify"><a href="/medien/wiki/File:IGEM_bgame_petri.jpg" class="internal" title="Enlarge"><img src="/medien/wiki/skins/common/images/magnify-clip.png" width="15" height="11" alt="" /></a></div>Bacteria Game</div></div></div>
+
    <ul>
-
<p>The Bacteria Game is a simple all-in-one kit to let homegrown bacteria compete against each other. March in lockstep with nature, breed your own creatures and become coach of your very own athletes. Simply use the included breeding kit to raise your own team and challenge your friends.
+
                        <li><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts">Supercell</a></li>
-
</p><p>Included is everything you need to start instantly:
+
        <li><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Project">Project</a></li>
-
</p>
+
<li><a class="currentlyhere" href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Products">Products</a></li>
-
<ul><li> 3 Petri dishes
+
        <li><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Team">Team</a></li>
-
</li><li> Bacteria starter set (bacteria culture, agar, toothpicks)
+
                        <li><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Collaboration">Collaboration</a></li>        
-
</li><li> 2 Game scenarios
+
        <li><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Diary">Diary</a></li>
-
</li><li> Different Game objects (barriers, forts)
+
        <li><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Sponsors">sponsors</a></li>
 +
    </ul>
 +
</div>
-
</li></ul>
+
<div id="product-time">
-
<p>Use the Agar to build different landscapes and as a nutrient for your creatures. Inculate your team onto the agar and watch the game begin. Use the included game objects to evolve your team.
+
<p><a href="https://2010.igem.org/Team:Weimar-Heidelberg_Arts/Project/Bacteria_Game">Return to the main Bacteria Game page</a>
-
</p>
+
<h2> <span class="mw-headline" id="Wetlab_Notebook"> Wetlab Notebook </span></h2>
-
<h2><span class="editsectionIcon"><a href="/medien/wiki/index.php5?title=GMU_talk:Synthetic_Biology/Bacteria_Game/iGEM_Wiki&amp;action=edit&amp;section=2" title="Edit section: Technical Description"><img src="/medien/wiki/skins/bauhausmedien/icons/edit.gif" border="0" alt="Edit section: Technical Description"></a></span> <span class="mw-headline" id="Technical_Description">Technical Description</span></h2>
+
-
<p>The concept of the game is based on the ability of some harmless wildtype bacteria to swim in soft media. Swimming enables the microbes to consume further nutrients if those in their vicinity are already consumed. All bacteria try to get away from the starting point as fast as possible to access fresh media. This mechanism can be employed for a game setup. Selection and culturing of best swimmers leads to propagation of ideal swimming characteristics. That is, why training may help gain a competitive edge. Those bacteria can easily be stored in the fridge with the supplied materials without any risk.
+
-
</p><p>The showdown competition is run by synthetic bacteria. Predators and prey communicate and regulate each other's density. Via molecular signals, the predator cells kill the prey while living prey rescues predators. The diverse and colorful crowd surrounding the spectacle was genetically engineered to carry different pigments which has been appreciated at the iGEM competition 2009.
+
-
</p>
+
-
<h2><span class="editsectionIcon"><a href="/medien/wiki/index.php5?title=GMU_talk:Synthetic_Biology/Bacteria_Game/iGEM_Wiki&amp;action=edit&amp;section=3" title="Edit section: Wetlab Notebook"><img src="/medien/wiki/skins/bauhausmedien/icons/edit.gif" border="0" alt="Edit section: Wetlab Notebook"></a></span> <span class="mw-headline" id="Wetlab_Notebook"> Wetlab Notebook </span></h2>
+
<ul><li> usage of <a href="https://2009.igem.org/Team:Cambridge" class="external text" rel="nofollow">E. chromi principle</a> (pigmented <i>E. coli</i> cells)  
<ul><li> usage of <a href="https://2009.igem.org/Team:Cambridge" class="external text" rel="nofollow">E. chromi principle</a> (pigmented <i>E. coli</i> cells)  
Line 63: Line 44:
</li></ul>
</li></ul>
-
<h3><span class="editsectionIcon"><a href="/medien/wiki/index.php5?title=GMU_talk:Synthetic_Biology/Bacteria_Game/iGEM_Wiki&amp;action=edit&amp;section=4" title="Edit section: 30/09/2010"><img src="/medien/wiki/skins/bauhausmedien/icons/edit.gif" border="0" alt="Edit section: 30/09/2010"></a></span> <span class="mw-headline" id="30.2F09.2F2010"> 30/09/2010 </span></h3>
+
<h3><span class="mw-headline" id="30.2F09.2F2010"> 30/09/2010 </span></h3>
<ul><li> <a href="https://2010.igem.org/Transformation" class="external text" rel="nofollow">transformation</a> of TOP10 cells with plasmids (see table 1) out of the registry following <a href="http://partsregistry.org/Help:Spring_2010_DNA_distribution#DNA_Kit_Plate_Instructions" class="external text" rel="nofollow">standard recommendations</a>
<ul><li> <a href="https://2010.igem.org/Transformation" class="external text" rel="nofollow">transformation</a> of TOP10 cells with plasmids (see table 1) out of the registry following <a href="http://partsregistry.org/Help:Spring_2010_DNA_distribution#DNA_Kit_Plate_Instructions" class="external text" rel="nofollow">standard recommendations</a>
</li><li> over-night growth on selective LB agar plates (10 g Tryptone, 5 g Yeast extract, 10 g NaCl and 15 g Agar ad 1 L ddH<sub>2</sub>O + required antibiotics)
</li><li> over-night growth on selective LB agar plates (10 g Tryptone, 5 g Yeast extract, 10 g NaCl and 15 g Agar ad 1 L ddH<sub>2</sub>O + required antibiotics)
Line 112: Line 93:
<p><br />
<p><br />
</p>
</p>
-
<h3><span class="editsectionIcon"><a href="/medien/wiki/index.php5?title=GMU_talk:Synthetic_Biology/Bacteria_Game/iGEM_Wiki&amp;action=edit&amp;section=5" title="Edit section: 31/09/2010"><img src="/medien/wiki/skins/bauhausmedien/icons/edit.gif" border="0" alt="Edit section: 31/09/2010"></a></span> <span class="mw-headline" id="31.2F09.2F2010"> 31/09/2010 </span></h3>
+
<h3> <span class="mw-headline" id="01.2F10.2F2010"> 01/10/2010 </span></h3>
<ul><li> inoculation of day cultures with colonies from the previous day
<ul><li> inoculation of day cultures with colonies from the previous day
<ul><li> in 5 mL LB + required antibiotic
<ul><li> in 5 mL LB + required antibiotic
Line 126: Line 107:
</li><li> inoculation of over-night cultures from the day cultures
</li><li> inoculation of over-night cultures from the day cultures
</li></ul>
</li></ul>
-
<h3><span class="editsectionIcon"><a href="/medien/wiki/index.php5?title=GMU_talk:Synthetic_Biology/Bacteria_Game/iGEM_Wiki&amp;action=edit&amp;section=6" title="Edit section: 01/10/2010"><img src="/medien/wiki/skins/bauhausmedien/icons/edit.gif" border="0" alt="Edit section: 01/10/2010"></a></span> <span class="mw-headline" id="01.2F10.2F2010"> 01/10/2010 </span></h3>
+
<h3><span class="editsectionIcon"> <span class="mw-headline" id="02.2F10.2F2010"> 02/10/2010 </span></h3>
<ul><li> preparation and conduction of microscopy experiments with predator-prey system following <a href="http://www.nature.com/nchembio/journal/v5/n12/extref/nchembio.244-S1.pdf" class="external text" rel="nofollow">liquid-phase protocols</a>
<ul><li> preparation and conduction of microscopy experiments with predator-prey system following <a href="http://www.nature.com/nchembio/journal/v5/n12/extref/nchembio.244-S1.pdf" class="external text" rel="nofollow">liquid-phase protocols</a>

Latest revision as of 17:31, 27 October 2010

Return to the main Bacteria Game page

Wetlab Notebook

  • usage of E. chromi principle (pigmented E. coli cells)
    • as a colorful crowd
      • plasmids available in iGEM Spring 2010 DNA Distribution (see table 1)
  • testing of a synthetic E.coli predator-prey system (Song et al., 2009), (Ballagaddé et al., 2008)
    • for final assault on the swarming plate and under the microscope
      • kindly provided by R. Smith (see table 2)
  • wildtype E. coli
    • for the game-kit
      • offered by A. Kern

30/09/2010

  • transformation of TOP10 cells with plasmids (see table 1) out of the registry following standard recommendations
  • over-night growth on selective LB agar plates (10 g Tryptone, 5 g Yeast extract, 10 g NaCl and 15 g Agar ad 1 L ddH2O + required antibiotics)
plasmid Part pigment color backbone registry location
table 1: used iGEM constructs
pLA01 BBa_K274110 red pSB1A2 2010 Kit Plate 3, 6J
pLA02 BBa_K274210 orange pSB1A2 2010 Kit Plate 3, 6N
pLA03 BBa_K274002 purple pSB1T3 2010 Kit Plate 3, 12B
pLA04 BBa_K274003 dark green pSB1K3 2010 Kit Plate 3, 20H
pLA05 BBa_K274004 light green pSB1K3 2010 Kit Plate 3, 20J
  • glycerol stocks (prepared directly after arrived) from predator and prey cells (see table 2) were plated on selective LB agar plates (s. a.)
sample name/function cell strain plasmid marker
table 2: used predator-prey system, gift from R. Smith
1a predator MG1655 ptetLuxRLasI-luxCcdA(SC101), placCcdBs-tetGFPuv(LVA) Cm, Kan
3a prey MG1655 pLasRLuxI-luxCcdBs, ptet-mCherry(ColE1) Cm, Kan


01/10/2010

  • inoculation of day cultures with colonies from the previous day
    • in 5 mL LB + required antibiotic
  • preparation of TB soft agar plates (10 g Tryptone, 5 g NaCl and 3 g Agar ad 1 L ddH2O + required antibiotics swarm plates) for swarming
    • inoculation by carefully pipetting 3 μL of liquid culture into the solidified agar
    • incubation of swarm plates at room temperature for 20 h
      • sufficient humidity was ensured by petri dishes filled with water
    • a photo was taken (by Canon EOS 5D Mark II) every 30 sec. for 6 h
  • inoculation of over-night cultures from the day cultures

02/10/2010

  • preparation and conduction of microscopy experiments with predator-prey system following liquid-phase protocols
    • snapshots were taken every second for one minute at beginning and at the very end of the experiments
    • time-lapse took 3 h with a picture each 20 seconds using given filters for GFPuv and mCherry

Retrieved from "http://2010.igem.org/Team:Weimar-Heidelberg_Arts/Project/Bacteria_Game/Wetlab"