Difference between revisions of "Team:Newcastle/Protocols"

 
(49 intermediate revisions by 8 users not shown)
Line 1: Line 1:
−
{{Newcastle/navbar}}
+
{{Newcastle/navbar2}}
 
<html>
 
<html>
  
Line 10: Line 10:
 
     <!-- home
 
     <!-- home
 
     ================================================== -->
 
     ================================================== -->
−
     <section id="home" class="s-home target-section" data-parallax="scroll" data-image-src="https://static.igem.org/mediawiki/2018/2/2d/T--Newcastle--ResultsHeader.jpeg">
+
     <section id="home" class="s-home target-section" data-parallax="scroll" data-image-src="https://static.igem.org/mediawiki/2018/4/4c/T--Newcastle--2345234.png">
  
 
         <div class="overlay"></div>
 
         <div class="overlay"></div>
Line 19: Line 19:
 
             <div class="row home-content__main">
 
             <div class="row home-content__main">
  
−
                 <h3>Experiments</h3>
+
                 <h3>Alternative Roots</h3>
  
 
                 <h1>
 
                 <h1>
Line 35: Line 35:
 
             </div>
 
             </div>
  
−
            <div class="home-content__scroll">
 
−
                <a href="#protocol" class="scroll-link smoothscroll">
 
−
                    <span>Scroll Down</span>
 
−
                </a>
 
−
            </div>
 
  
−
            <div class="home-content__line"></div>
 
  
 
         </div> <!-- end home-content -->
 
         </div> <!-- end home-content -->
Line 75: Line 69:
 
           <td>Connor Trotter</td>
 
           <td>Connor Trotter</td>
 
           <td>General</td>
 
           <td>General</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/1/12/T--Newcastle--GlycerolStock.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/5/5a/T--Newcastle--GlycerolStock1.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
Line 81: Line 75:
 
           <td>Connor Trotter</td>
 
           <td>Connor Trotter</td>
 
           <td>General</td>
 
           <td>General</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/a/af/T--Newcastle--BacterialIsolation.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/7/72/T--Newcastle--BacIsolation1.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
Line 87: Line 81:
 
           <td>Connor Trotter</td>
 
           <td>Connor Trotter</td>
 
           <td>Chemotaxis</td>
 
           <td>Chemotaxis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/3/3a/T--Newcastle--Haemocytometer.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/8/89/T--Newcastle--Haemocytometer1.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
<tr>
 +
        <td>Seeding Cells in ibidi µ-Slide III 3-in-1 Chemotaxis Microscopy Slide</td>
 +
        <td>Connor Trotter</td>
 +
        <td>Chemotaxis</td>
 +
        <td><a href="https://static.igem.org/mediawiki/2018/7/7d/T--Newcastle--ibidiprotocol.pdf" style="color:green">View<a/></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
Line 93: Line 93:
 
           <td>Connor Trotter</td>
 
           <td>Connor Trotter</td>
 
           <td>Chemotaxis</td>
 
           <td>Chemotaxis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/e/eb/T--Newcastle--MinimalAgar.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/7/7f/T--Newcastle--MinAgar.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
       
 +
        <tr>
 +
        <td>0.75 % Agar Chemotaxis Assay</td>
 +
        <td>Connor Trotter</td>
 +
        <td>Chemotaxis</td>
 +
        <td><a href="https://static.igem.org/mediawiki/2018/4/47/T--Newcastle--0.5ProtocolRedone.pdf" style="color:green">View<a/></td>
 +
        </tr>
 +
        <tr>
 +
        <td>0.50 % Agar Chemotaxis Assay</td>
 +
        <td>Connor Trotter</td>
 +
        <td>Chemotaxis</td>
 +
        <td><a href="https://static.igem.org/mediawiki/2018/2/2a/T--Newcastle--0.5%25ProtocolRedoneTrue.pdf" style="color:green">View<a/></td>
 +
        </tr>
 +
        <tr>
 +
        <td>Growth Curve in Liquid Culture</td>
 +
          <td>Sadiya Quazi</td>
 +
          <td>Chemotaxis</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/6/6a/T--Newcastle--GCIL.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
        <tr>
 +
        <tr>
 +
        <td>Quantitative Capillary Assay</td>
 +
          <td>Connor Trotter</td>
 +
          <td>Chemotaxis</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/a/a1/T--Newcastle--CapillaryAssayChemo.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
 
 +
        <tr>
 +
          <td>Naringenin Kill Curve in Liquid Culture</td>
 +
          <td>Sadiya Quazi</td>
 +
          <td>Chemotaxis</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/7/76/T--Newcastle--NarKillCurves.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Planting Seeds in Agar-filled Microcentrifuge tubes</td>
+
           <td>Planting Seeds in Agar-Filled Microcentrifuge Tubes</td>
 
           <td>Lewis Tomlinson</td>
 
           <td>Lewis Tomlinson</td>
−
           <td>Endophyte Development</td>
+
           <td>Root Colonisation</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/5/5a/T--Newcastle--MCPlanting.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/e/e3/T--Newcastle--MCPlant.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Preparation and Staining of Microscopy samples</td>
+
           <td>Preparation and Staining of Microscopy Samples</td>
 
           <td>Lewis Tomlinson</td>
 
           <td>Lewis Tomlinson</td>
−
           <td>Endophyte Development</td>
+
           <td>Root Colonisation</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/6/69/T--Newcastle--Microscopy.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/b/bd/T--Newcastle--MScopy.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Planting Seeds in Agar-filled pipette-tip racks</td>
+
           <td>Planting Seeds in Agar-Filled Pipette-Tip Racks</td>
 
           <td>Lewis Tomlinson</td>
 
           <td>Lewis Tomlinson</td>
−
           <td>Endophyte Development</td>
+
           <td>Root Colonisation</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/9/9e/T--Newcastle--Rack.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/7/7d/T--Newcastle--RCK.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Re-isolating endophytes</td>
+
           <td>Re-isolating Endophytes</td>
 
           <td>Lewis Tomlinson</td>
 
           <td>Lewis Tomlinson</td>
−
           <td>Endophyte Development</td>
+
           <td>Root Colonisation</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/d/d7/T--Newcastle--ReIsolate.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/e/ef/T--Newcastle--RIso.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
<td>Electroporation of <I>Pseudomonas</I> sp.</td>
+
          <td>Electroporation of <I>Pseudomonas</I> sp.</td>
 
           <td>Frank Eardley</td>
 
           <td>Frank Eardley</td>
−
           <td>Endophyte Development</td>
+
           <td>Endophytic Chassis Development</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/3/30/T--Newcastle--ElectroporationProtocol.pdf" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/b/bc/T--NEWCASTLE--Electroporation.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Amplification of gblocks and gradient PCR</td>
+
          <td>MIC Opentrons Code (2 Plates)</td>
 +
          <td>Frank Eardley</td>
 +
          <td>Endophytic Chassis Development</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/a/af/T--Newcastle--KillCurveCodes.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
        <tr>
 +
          <td>MIC Protocol</td>
 +
          <td>Frank Eardley</td>
 +
          <td>Endophytic Chassis Development</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/3/39/T--Newcastle--MICProtocol.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
        <tr>
 +
          <td>MIC Plate Layout</td>
 +
          <td>Frank Eardley</td>
 +
          <td>Endophytic Chassis Development</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/b/bb/T--Newcastle--MICPlateLayout.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
        <tr>
 +
          <td>2-Part Gibson Assembly</td>
 +
          <td>Frank Eardley</td>
 +
          <td>Endophytic Chassis Development</td>
 +
          <td><a href="https://static.igem.org/mediawiki/2018/7/78/T--Newcastle--2PartGibson.pdf" style="color:green">View</a></td>
 +
        </tr>
 +
        <tr>
 +
           <td>Amplification of gBlocks and Gradient PCR</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/c/cb/T--Newcastle--GBlockAmp.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/8/87/T--Newcastle--GBAmp.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Colony PCR of transformed DH5α cells</td>
+
           <td>Colony PCR of Transformed DH5α Cells</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/f/fb/T--Newcastle--PCRtransform.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/a/a9/T--Newcastle--PCTransform.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>DPN1 digestion and purification</td>
+
           <td>DpnI Digestion and Purification</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/f/f3/T--Newcastle--DPN1digestion.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/b/b0/T--Newcastle--DPN1Diges.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Gel extraction and purification of the gblocks</td>
+
           <td>Gel Extraction and Purification of the gBlocks</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/d/d1/T--Newcastle--GBlockGelExt.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/c/cc/T--Newcastle--GBlockGel.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Gibson Assembly of gblocks and pSB1C3 backbone</td>
+
           <td>Gibson Assembly of gBlocks and pSB1C3 Backbone</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/0/02/T--Newcastle--Gibson.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/1/15/T--Newcastle--Gib.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Making chemically competent cells</td>
+
           <td>Making Chemically Competent Cells</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/f/ff/T--Newcastle--CompCell.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/a/a6/T--Newcastle--CCell.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Miniprep of transformed colonies</td>
+
           <td>Miniprep of Transformed Colonies</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/b/bf/T--Newcastle--Miniprep.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/0/02/T--Newcastle--MinPre.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Amplification, Purification and Quantification of the pSB1C3 backbone by PCR</td>
+
           <td>Amplification, Purification and Quantification of the pSB1C3 Backbone by PCR</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/c/c4/T--Newcastle--PCR.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/5/5f/T--Newcastle--PCReaction.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Quantifying DNA concentration</td>
+
           <td>Quantifying DNA Concentration</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/4/4f/T--Newcastle--QuantDNA.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/0/03/T--Newcastle--QuantifyingDNA.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Resuspending gblocks and primers</td>
+
           <td>Resuspending gBlocks and Primers</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/3/32/T--Newcastle--GBlockFragments.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/a/a0/T--Newcastle--GBlockFragmnt.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>SOC media preparation</td>
+
           <td>SOC Media Preparation</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/9/99/T--Newcastle--SOC.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/4/4e/T--Newcastle--SOC1.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
         <tr>
 
         <tr>
−
           <td>Transformation of the gblocks into pSB1C3</td>
+
           <td>Transformation of the Gibson assembly product into pSB1C3</td>
 
           <td>Heather Bottomley</td>
 
           <td>Heather Bottomley</td>
 
           <td>Naringenin Operon Biosynthesis</td>
 
           <td>Naringenin Operon Biosynthesis</td>
−
           <td><a href="https://static.igem.org/mediawiki/2018/2/2d/T--Newcastle--GBlockTransform.docx" style="color:green">View</a></td>
+
           <td><a href="https://static.igem.org/mediawiki/2018/1/15/T--Newcastle--GBTransform.pdf" style="color:green">View</a></td>
 
         </tr>
 
         </tr>
 
       </tbody>
 
       </tbody>
Line 244: Line 301:
  
 
     </div> <!-- end photoSwipe background -->
 
     </div> <!-- end photoSwipe background -->
 +
 +
<section id='team' class="s-services">
 +
 +
 +
        <div class="row section-header has-bottom-sep" data-aos="fade-up">
 +
                <div class="col-full">
 +
                            <br>
 +
<br>
 +
<br>
 +
<br>
 +
<h3 class="subhead"></h3>
 +
                <h1 class="display-2">References & Attributions</h1>
 +
            </div>
 +
 +
        </div>
 +
 +
 +
 +
 +
 +
 +
 +
 +
 +
<button class="collapsible">Click for References</button>
 +
<div class="content">
 +
              <div class="row about-desc" data-aos="fade-up">
 +
                <div class="col-full">
 +
 +
<p class="about-para"><font size="2"><strong>Attributions: Connor Trotter, Sadiya Quazi, Lewis Tomlinson, Frank Eardley, Heather Bottomley
 +
</strong><font></p>
 +
 +
 +
 +
 +
 +
 +
</div>
 +
</section>
 +
  
 
    
 
    
Line 254: Line 351:
 
     <script type="text/javascript" src="https://2018.igem.org/Template:Newcastle/JSmain?
 
     <script type="text/javascript" src="https://2018.igem.org/Template:Newcastle/JSmain?
 
     action=raw&ctype=text/javascript"></script>   
 
     action=raw&ctype=text/javascript"></script>   
 +
    <script>
 +
var coll = document.getElementsByClassName("collapsible");
 +
var i;
  
 +
for (i = 0; i < coll.length; i++) {
 +
  coll[i].addEventListener("click", function() {
 +
    this.classList.toggle("active");
 +
    var content = this.nextElementSibling;
 +
    if (content.style.maxHeight){
 +
      content.style.maxHeight = null;
 +
    } else {
 +
      content.style.maxHeight = content.scrollHeight + "px";
 +
    }
 +
  });
 +
}
 +
</script>
 
</body>
 
</body>
  
 
</html>
 
</html>
 
{{Newcastle/footer}}
 
{{Newcastle/footer}}

Latest revision as of 00:50, 18 October 2018

Alternative Roots/Protocols

Alternative Roots

Protocols

Overview

EXPERIMENTS

PROTOCOLS

Protocol Author Category PDF File
Glycerol Stock Preserves Connor Trotter General View
Bacterial Isolation from Freeze-Dried Pellet Connor Trotter General View
Cell Counting Connor Trotter Chemotaxis View
Seeding Cells in ibidi µ-Slide III 3-in-1 Chemotaxis Microscopy Slide Connor Trotter Chemotaxis View
Minimal A Salt Agar Chemotaxis Assay Connor Trotter Chemotaxis View
0.75 % Agar Chemotaxis Assay Connor Trotter Chemotaxis View
0.50 % Agar Chemotaxis Assay Connor Trotter Chemotaxis View
Growth Curve in Liquid Culture Sadiya Quazi Chemotaxis View
Quantitative Capillary Assay Connor Trotter Chemotaxis View
Naringenin Kill Curve in Liquid Culture Sadiya Quazi Chemotaxis View
Planting Seeds in Agar-Filled Microcentrifuge Tubes Lewis Tomlinson Root Colonisation View
Preparation and Staining of Microscopy Samples Lewis Tomlinson Root Colonisation View
Planting Seeds in Agar-Filled Pipette-Tip Racks Lewis Tomlinson Root Colonisation View
Re-isolating Endophytes Lewis Tomlinson Root Colonisation View
Electroporation of Pseudomonas sp. Frank Eardley Endophytic Chassis Development View
MIC Opentrons Code (2 Plates) Frank Eardley Endophytic Chassis Development View
MIC Protocol Frank Eardley Endophytic Chassis Development View
MIC Plate Layout Frank Eardley Endophytic Chassis Development View
2-Part Gibson Assembly Frank Eardley Endophytic Chassis Development View
Amplification of gBlocks and Gradient PCR Heather Bottomley Naringenin Operon Biosynthesis View
Colony PCR of Transformed DH5α Cells Heather Bottomley Naringenin Operon Biosynthesis View
DpnI Digestion and Purification Heather Bottomley Naringenin Operon Biosynthesis View
Gel Extraction and Purification of the gBlocks Heather Bottomley Naringenin Operon Biosynthesis View
Gibson Assembly of gBlocks and pSB1C3 Backbone Heather Bottomley Naringenin Operon Biosynthesis View
Making Chemically Competent Cells Heather Bottomley Naringenin Operon Biosynthesis View
Miniprep of Transformed Colonies Heather Bottomley Naringenin Operon Biosynthesis View
Amplification, Purification and Quantification of the pSB1C3 Backbone by PCR Heather Bottomley Naringenin Operon Biosynthesis View
Quantifying DNA Concentration Heather Bottomley Naringenin Operon Biosynthesis View
Resuspending gBlocks and Primers Heather Bottomley Naringenin Operon Biosynthesis View
SOC Media Preparation Heather Bottomley Naringenin Operon Biosynthesis View
Transformation of the Gibson assembly product into pSB1C3 Heather Bottomley Naringenin Operon Biosynthesis View




References & Attributions

Attributions: Connor Trotter, Sadiya Quazi, Lewis Tomlinson, Frank Eardley, Heather Bottomley