Difference between revisions of "Team:Chalmers Gothenburg/Parts"

(Prototype team page)
 
 
(5 intermediate revisions by 2 users not shown)
Line 1: Line 1:
−
{{Chalmers_Gothenburg}}
+
{{:Team:Chalmers_Gothenburg/bootstrap}}
 +
{{:Team:Chalmers_Gothenburg/style}}
 +
{{:Team:Chalmers_Gothenburg/jquery}}
 +
{{:Team:Chalmers_Gothenburg/script}}
 +
 
 
<html>
 
<html>
  
 +
  <head>
 +
    <meta charset="utf-8">
 +
   
 +
  <title>Chalmers Gothenburg iGEM 2016</title>
 +
  </head>
  
 +
  <body><div class="achievements">
 +
   
 +
    <div id="header_navbar_wrapper">
 +
        </html>{{:Team:Chalmers_Gothenburg/header_navbar}}<html>
 +
    </div>
 +
   
 +
    <div class="wrap"> <!--To limit the width of the site-->
  
 +
         
 +
        <div class="header">
 +
    <div class="header-text">ACHIEVEMENTS</div>
 +
    <div class="header-subtitle">Parts</div>
 +
    </div>
 +
     
 +
      <div class="wrap-content-no-side-nav">
  
 +
        <h3>pAQR1 – <a href="http://parts.igem.org/Part:BBa_K2030000">BBa_K2030000</a></h3>
  
 +
        <p class="text">The promoter to the <i>AQR1</i> gene. <i>AQR1</i> codes for a transporter that enhances secretion of excess amino acids. The transcription of <i>AQR1</i> is induced by amino acids [1].</p>
 +
        <p class="text">The part was taken from the <i>S. cerevisiae</i> genome.</p>
  
−
<div class="column full_size">
+
 +
        <h3>pPCK1 – <a href="http://parts.igem.org/Part:BBa_K2030001">BBa_K2030001</a></h3>
  
 +
        <p class="text">The promoter to the <i>PCK1</i> gene. <i>PCK1</i> codes for phosphoenolpyruvate carboxykinase, an enzyme involved in converting oxaloacetate into phosphoenolpyruvate and carbon dioxide [2]. The promoter pPCK1 has an activity which is induced by acetate, glycerol or ethanol [3].</p>
 +
        <p class="text">The part was taken from the <i>S. cerevisiae</i> genome.</p>
  
−
<p>Each team will make new parts during iGEM and will submit them to the Registry of Standard Biological Parts. The iGEM software provides an easy way to present the parts your team has created. The <code>&lt;groupparts&gt;</code> tag (see below) will generate a table with all of the parts that your team adds to your team sandbox.</p>
 
−
<p>Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without needing to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.</p>
 
  
 +
        <h3>Acetate kinase (<i>AckA</i>) – <a href="http://parts.igem.org/Part:BBa_K2030002">BBa_K2030002</a></h3>
  
−
</div>
+
        <p class="text">The coding region of the <i>AckA</i> gene. The gene codes for acetate kinase, an enzyme which is part of the Phosphate acetyltransferase-acetate kinase pathway and is responsible for catalyzing the conversion of acetyl-CoA into acetate [4].</p>
 +
        <p class="text">The part was taken from the <i>Synechocystis</i> genome.</p>
  
  
 +
        <h3>pPYK2 – <a href="http://parts.igem.org/Part:BBa_K2030003">BBa_K2030003</a></h3>
  
 +
        <p class="text">The promoter to the <i>PYK2</i> gene. <i>PYK2</i> codes for pyruvate kinase, an essential enzyme in the glycolysis that catalyzes the conversion of phosphoenolpyruvate and ADP into pyruvate and ATP [5]. Transcription of <i>PYK2</i> is repressed by glucose [6].</p>
 +
        <p class="text">The part was taken from the <i>S. cerevisiae</i> genome.</p>
  
  
−
<div class="column half_size">
+
        <h3>pGLN1 – <a href="http://parts.igem.org/Part:BBa_K2030004">Bba_K2030004</a></h3>
−
<div class="highlight">
+
−
<h5>Note</h5>
+
−
<p>Note that parts must be documented on the <a href="http://parts.igem.org/Main_Page"> Registry</a>. This page serves to <i>showcase</i> the parts you have made. Future teams and other users and are much more likely to find parts by looking in the Registry than by looking at your team wiki.</p>
+
−
</div>
+
−
</div>
+
  
 +
        <p class="text">The promoter to the <i>GLN1</i> gene. <i>GLN1</i> codes for glutamine synthetase, catalyzing the conversion of glutamate and ammonia into glutamine [7]. This part was not sent into the part registry due to it having illegal restriction sites for biobricks.</p>
  
 +
        <p class="text">The part was taken from <i>S. cerevisiae</i> genome.</p>
  
  
−
<div class="column half_size">
 
  
−
<h5>Adding parts to the registry</h5>
 
−
<p>You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry">Add a Part to the Registry</a> link.</p>
 
−
<p>We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better you will remember all the details about your parts. Remember, you don't need to send us the DNA sample before you create an entry for a part on the Registry. (However, you <b>do</b> need to send us the DNA sample before the Jamboree. If you don't send us a DNA sample of a part, that part will not be eligible for awards and medal criteria.)</p>
 
−
</div>
 
  
 +
        <h2>References</h2>
 +
       
 +
        <div class="reference_list">
 +
          <ul>
 +
            <li>[1]&nbsp;&nbsp; Velasco I, Tenreiro S, Calderon IL, André B. <i>Saccharomyces cerevisiae Aqr1</i> Is an Internal-Membrane Transporter Involved in Excretion of Amino Acids. Eukaryotic Cell. 2004;3(6):1492-503.</li>
  
 +
            <li>[2]&nbsp;&nbsp; Valdés-Hevia MD, de la Guerra R, Gancedo C. Isolation and characterization of the gene encoding phosphoenolpyruvate carboxykinase from <i>Saccharomyces cerevisiae</i>. FEBS Letters. 1989;258(2):313-6.</li>
  
 +
            <li>[3]&nbsp;&nbsp; Weinhandl K, Winkler M, Glieder A, Camattari A. Carbon source dependent promoters in yeasts. MICROBIAL CELL FACTORIES. 2014;13(1):5.</li>
  
 +
            <li>[4]&nbsp;&nbsp; Anfelt J, Kaczmarzyk D, Shabestary K, Renberg B, Rockberg J, Nielsen J, et al. Genetic and nutrient modulation of acetyl-CoA levels in <i>Synechocystis</i> for n-butanol production. MICROBIAL CELL FACTORIES. 2015;14(1):167.</li>
  
−
<div class="column half_size">
+
            <li>[5]&nbsp;&nbsp; Burke RL, Tekamp-Olson P, Najarian R. The isolation, characterization, and sequence of the pyruvate kinase gene of <i>Saccharomyces cerevisiae</i>. Journal of Biological Chemistry. 1983;258(4):2193-201.</li>
  
−
<h5>What information do I need to start putting my parts on the Registry?</h5>
+
            <li>[6]&nbsp;&nbsp; Boles E, Schulte F, Miosga T, Freidel K, Schlüter E, Zimmermann FK, et al. Characterization of a glucose-repressed pyruvate kinase (Pyk2p) in <i>Saccharomyces cerevisiae</i> that is catalytically insensitive to fructose-1,6-bisphosphate. Journal of Bacteriology. 1997;179(9):2987-93.</li>
−
<p>The information needed to initially create a part on the Registry is:</p>
+
−
<ul>
+
−
<li>Part Name</li>
+
−
<li>Part type</li>
+
−
<li>Creator</li>
+
−
<li>Sequence</li>
+
−
<li>Short Description (60 characters on what the DNA does)</li>
+
−
<li>Long Description (Longer description of what the DNA does)</li>
+
−
<li>Design considerations</li>
+
−
</ul>
+
  
−
<p>
+
            <li>[7]&nbsp;&nbsp; Petrovska I, Nuske E, Munder M, Kulasegaran G, Malinovska L, Kroschwald S, et al. Filament formation by metabolic enzymes is a specific adaptation to an advanced state of cellular starvation. ELIFE. 2014;3(3):e02409-.</li>
−
We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. </p>
+
            </ul>
 +
          </div>
  
−
</div>
 
  
  
−
<div class="column half_size">
+
      </div>
−
 
+
      </html>{{:Team:Chalmers_Gothenburg/footer}}<html>
−
<h5>Inspiration</h5>
+
    </div>
−
<p>We have a created  a <a href="http://parts.igem.org/Well_Documented_Parts">collection of well documented parts</a> that can help you get started.</p>
+
  </div></body>
−
 
+
−
<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
+
−
<ul>
+
−
<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
+
−
<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
+
−
<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
+
−
</ul>
+
−
</div>
+
−
 
+
−
<div class="column full_size">
+
−
<h5>Part Table </h5>
+
−
<div class="highlight">
+
−
 
+
−
 
+
−
</html>
+
−
<groupparts>iGEM2016 Example</groupparts>
+
−
<html>
+
−
</div>
+
−
</div>
+
  
  

Latest revision as of 13:49, 19 October 2016

Chalmers Gothenburg iGEM 2016

ACHIEVEMENTS
Parts

pAQR1 – BBa_K2030000

The promoter to the AQR1 gene. AQR1 codes for a transporter that enhances secretion of excess amino acids. The transcription of AQR1 is induced by amino acids [1].

The part was taken from the S. cerevisiae genome.

pPCK1 – BBa_K2030001

The promoter to the PCK1 gene. PCK1 codes for phosphoenolpyruvate carboxykinase, an enzyme involved in converting oxaloacetate into phosphoenolpyruvate and carbon dioxide [2]. The promoter pPCK1 has an activity which is induced by acetate, glycerol or ethanol [3].

The part was taken from the S. cerevisiae genome.

Acetate kinase (AckA) – BBa_K2030002

The coding region of the AckA gene. The gene codes for acetate kinase, an enzyme which is part of the Phosphate acetyltransferase-acetate kinase pathway and is responsible for catalyzing the conversion of acetyl-CoA into acetate [4].

The part was taken from the Synechocystis genome.

pPYK2 – BBa_K2030003

The promoter to the PYK2 gene. PYK2 codes for pyruvate kinase, an essential enzyme in the glycolysis that catalyzes the conversion of phosphoenolpyruvate and ADP into pyruvate and ATP [5]. Transcription of PYK2 is repressed by glucose [6].

The part was taken from the S. cerevisiae genome.

pGLN1 – Bba_K2030004

The promoter to the GLN1 gene. GLN1 codes for glutamine synthetase, catalyzing the conversion of glutamate and ammonia into glutamine [7]. This part was not sent into the part registry due to it having illegal restriction sites for biobricks.

The part was taken from S. cerevisiae genome.

References

  • [1]   Velasco I, Tenreiro S, Calderon IL, André B. Saccharomyces cerevisiae Aqr1 Is an Internal-Membrane Transporter Involved in Excretion of Amino Acids. Eukaryotic Cell. 2004;3(6):1492-503.
  • [2]   Valdés-Hevia MD, de la Guerra R, Gancedo C. Isolation and characterization of the gene encoding phosphoenolpyruvate carboxykinase from Saccharomyces cerevisiae. FEBS Letters. 1989;258(2):313-6.
  • [3]   Weinhandl K, Winkler M, Glieder A, Camattari A. Carbon source dependent promoters in yeasts. MICROBIAL CELL FACTORIES. 2014;13(1):5.
  • [4]   Anfelt J, Kaczmarzyk D, Shabestary K, Renberg B, Rockberg J, Nielsen J, et al. Genetic and nutrient modulation of acetyl-CoA levels in Synechocystis for n-butanol production. MICROBIAL CELL FACTORIES. 2015;14(1):167.
  • [5]   Burke RL, Tekamp-Olson P, Najarian R. The isolation, characterization, and sequence of the pyruvate kinase gene of Saccharomyces cerevisiae. Journal of Biological Chemistry. 1983;258(4):2193-201.
  • [6]   Boles E, Schulte F, Miosga T, Freidel K, Schlüter E, Zimmermann FK, et al. Characterization of a glucose-repressed pyruvate kinase (Pyk2p) in Saccharomyces cerevisiae that is catalytically insensitive to fructose-1,6-bisphosphate. Journal of Bacteriology. 1997;179(9):2987-93.
  • [7]   Petrovska I, Nuske E, Munder M, Kulasegaran G, Malinovska L, Kroschwald S, et al. Filament formation by metabolic enzymes is a specific adaptation to an advanced state of cellular starvation. ELIFE. 2014;3(3):e02409-.