Team:Utah State/Achievements

From 2009.igem.org

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               <b><i>BioBricks without Borders:</b></i></font>
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               <b><i>JUDGING CRITERIA</b></i></font>
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               <p><font face="Helvetica, Arial, San Serif" color =green>Investigating a multi-host BioBrick vector and secretion of cellular products</font></p><HR>
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<p> <font size="2.5" face=" Tahoma, Helvetica, Arial" color =#000000><b>The requirements to earn a Bronze Medal are:</b><br>
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Register the team, have a great summer, and have fun attending the Jamboree.<br>
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<font size="3" face="Helvetica, Arial, San Serif" color =#231f20><b><i>In fulfillment of the requirements for the Gold Medal, the 2009 Utah State iGEM Team did the following:</b></i></font><br>
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Successfully complete and submit a Project Summary form.<Br>
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Create and share a Description of the team's project via the iGEM wiki (see TUDelft 2008 for a great example).<br>
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<a name="bronze"></a>
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Present a Poster and Talk at the iGEM Jamboree (watch the Heidelberg 2008 video for a great example).<br>
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<font size="2.5" face="Helvetica, Arial, San Serif" color =#231f20><b>Bronze Medal Requirements</b></font>
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Enter information detailing at least one new standard BioBrick Part or Device in the Registry of Parts<br>
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Entered information for each new part or device should at least include primary nucleic acid sequence, description of function, authorship, any relevant safety notes, and an acknowledgement of sources and references. Consider BBa_J45004 as one example (be sure to check Main, Design Page, and Experiences sub-pages for this part).<br>
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    <li>Completed the registration requirements and Project Summary form.</li>
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Teams are currently expected to design and contribute standard biological parts that conform to the accepted BioBrick standards for physical assembly. Non-BioBrick parts will not be recognized by iGEM 2009 judges unless they have specific approval. The two specific BioBrick physical assembly schemes that the judges will recognize by default are (i) Tom Knight's original assembly standard and (ii) Ira Phillips fusion assembly standard.<br>
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  <li>Prepared and will present a poster and talk at the 2009 Jamboree.</li>
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[Special Note. A discussion has been initiated by the BioBricks Standards Working Group to consider updating the BioBrick assembly standard in time for June 1. Check back for any updates on acceptable BioBrick assembly standards.]<br>
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    <li>Entered all necessary information detailing 62 BioBricks into the Registry of Standard Parts.</li>
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Any new Devices that are based on gene expression are expected to conform to the PoPS device boundary standard. See chapter 3 of the book, Adventures in Synthetic Biology, for more information about common signal carriers and PoPS.<br>
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    <li>Designed parts in conformity with accepted BioBrick standards.</li>
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Submit DNA for at least one new BioBrick Part or Device to the Registry of Parts.<br>
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    <li>DNA for 49 BioBricks entered in the Registry were sent in to iGEM headquarters. The majority of these parts were confirmed with DNA sequencing.</li>
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The submitted DNA must be associated with a Part or Device for which you have entered information describing the part or device, and must conform to the BioBrick standards for Parts or Devices (see above).<br><br>
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<b>The requirements to earn a Silver Medal, in addition to the Bronze Medal requirements, are:<br></b>
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Demonstrate that at least one new BioBrick Part or Device of your own design and construction works as expected.<br>
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Characterize the operation of at least one new BioBrick Part or Device and enter this information on the Parts or Device page via the Registry of Parts (see BBa_F2620 for an exemplar).<br><br>
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<b>The requirements to earn a Gold Medal, in addition to the Silver Medal requirements, are any one OR more of the following:<br></b>
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<font size="2.5" face="Helvetica, Arial, San Serif" color =#231f20><b>Silver Medal Requirements</b></font>
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Characterize or improve an existing BioBrick Part or Device and enter this information back on the Registry.<br>
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Help another iGEM team by, for example, characterizing a part, debugging a construct, or modeling or simulating their system.<br>
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    <li>Demonstrated that several submitted BioBricks work as expected.</li>
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Develop and document a new technical standard that supports the (i) design of BioBrick Parts or Devices, or (ii) construction of BioBrick Parts or Devices, or (iii) characterization of BioBrick Parts or Devices, or (iv) analysis, modeling, and simulation of BioBrick Parts or Devices, or (v) sharing BioBrick Parts or Devices, either via physical DNA or as information via the internet.<br>
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          <p class="margin">- The composite lac promoter/RBS/GFP/terminator (<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K208045"><b><font color=#009900>BBa_K208045</font></b></a>).  This composite was demonstrated by the presence of GFP visualized on a UV transilluminator. The GFP protein was also visualized using SDS polyacrylamide gel electrophoresis.  See pictures on Wiki.  </p>  
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Outline and detail a new approach to an issue of Human Practice in synthetic biology as it relates to your project, such as safety, security, ethics, or ownership, sharing, and innovation.</p><br>
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          <p class="margin">- New GFP reporter (<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K208000"><b><font color=#009900>BBa_K208000</font></b></a>).  This reporter, with an excitation/emission of 395/509, was shown to be functional using the novel composite construct BBa_K2208045 (lac promoter/RBS/GFP/terminator).  Picture on Wiki under part BBa_K2208045. </p>
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          <p class="margin">- The composite lac promoter/RBS (<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K208010"><b><font color=#009900>BBa_K208010</font></b></a>).  This was demonstrated using the composite construct BBa_K2208045.  Picture on Wiki under part BBa_K2208045.  This composite part is extremely useful because it alleviates the need to work with extremely small ribosomal BioBrick components. </p> 
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            <p>  <font size="4" face="Helvetica, Arial, San Serif" color =green>OUR SITE IS STILL UNDER CONSTRUCTION AND OUR INFORMATION IS BEING ADDED.  PLEASE COME BACK IN A FEW WEEKS TO SEE OUR PROJECT!</font></p>
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          <p class="margin">- Lac promoter/RBS/Gene III/Phasin/terminator (<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K208038"><b><font color=#009900>BBa_K208038</font></b></a>).  This was demonstrated through the detection of phasin proteins isolated from supernatant samples using SDS polyacrylamide gel electrophoresis.  Picture on Wiki. </p>
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          <p class="margin">- Phasin gene (<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K208001"><b><font color=#009900>BBa_K208001</font></b></a>).  A protein of the correct size was detected in SDS polyacrylamide gel electrophoresis from cells having this construct that was not detected in the control samples.  
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          <p class="margin">- Gene III secretion tag (<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K208002"><b><font color=#009900>BBa_K208002</font></b></a>).  The phasin protein from part BBa_K208038 was detected outside the cell, thus demonstrating the functionality of this Gene III secretion tag.</p>
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    <li>Characterized the GFP reporter (BBa_K208000) (1) showing GFP expression over time and (2) showing sensitivity of IPTG induction.</li>
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<a name="gold"></a>
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<font size="2.5" face="Helvetica, Arial, San Serif" color =#231f20><b>Gold Medal Requirements</b></font>
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    <li>Improved upon the existing set of GFP BioBrick parts by constructing a GFP with a larger Stokes shift (395/509nm), making for easier downsteam analysis.  The bright fluorescence can very easily be seen on a standard UV transilluminator.  As GFP is one of the most commonly used reporters, the introduction of this new and improved BioBrick part should be of great benefit to the iGEM community.</li>  
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    <li>Our initial plans for our 2009 team was in part to continue the 2008 Hawaii team’s project, “Cyanobacteria Toolkit,” by making the pRL1383a vector an effective broad-host vector.  When this vector proved ineffective, we made efforts to troubleshoot.  We had much correspondence with the advisors of the Hawaii team, including a conference call mid-summer.  Since most of their parts were not included in the 2009 iGEM distribution, we had them send many of the parts they used.  After numerous approaches and attempts to convert pRL1383a into BioBrick format, we finally decided that the vector was either mischaracterized or altered in some unknown way.  </li>  
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    <li>As thoroughly explained in our Wiki, one of the primary goals of our project has been to expand the BioBrick world to organisms other than E. coli.  We have documented the many benefits that would come from such an achievement.  Though the pRL1383a vector efforts were unsuccessful, we did successfully express the vector pCPP33 in E. coli, Pseudomonas putida, Synechocystis pcc 6803, and Rhodobacter sphaeroides.  This vector now has only to be put in BioBrick format. </li>
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    <li>In reference to our ethics section (https://2009.igem.org/Team:Utah_State/ETHICS), our team has taken specific measures to follow our suggested proposals.  In the education of our team, we discussed the potential benefits of a standard secretion system but also discussed the potential of our designed secretion pathways to be used in a malevolent manner. As a team, we acknowledge the importance of high moral accountability and commitment to safety and security. Additionally, in an effort to foster the sharing of information in our community, upon completion of the jamboree we will submit an article to be released in our school newspaper and in the College of Engineering website. This winter we are also hosting a lecture by Drew Endy addressing synthetic biology which will be open to the public. We hope to act as ambassadors to foster support and excitement in our own community.</li>
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Latest revision as of 04:21, 12 November 2009

USU iGem Untitled Document

JUDGING Bronze
Silver
Gold
JUDGING CRITERIA
In fulfillment of the requirements for the Gold Medal, the 2009 Utah State iGEM Team did the following:

Bronze Medal Requirements
  • Completed the registration requirements and Project Summary form.
  • Prepared and will present a poster and talk at the 2009 Jamboree.
  • Entered all necessary information detailing 62 BioBricks into the Registry of Standard Parts.
  • Designed parts in conformity with accepted BioBrick standards.
  • DNA for 49 BioBricks entered in the Registry were sent in to iGEM headquarters. The majority of these parts were confirmed with DNA sequencing.

Silver Medal Requirements
  • Demonstrated that several submitted BioBricks work as expected.

    • - The composite lac promoter/RBS/GFP/terminator (BBa_K208045). This composite was demonstrated by the presence of GFP visualized on a UV transilluminator. The GFP protein was also visualized using SDS polyacrylamide gel electrophoresis. See pictures on Wiki.

    - New GFP reporter (BBa_K208000). This reporter, with an excitation/emission of 395/509, was shown to be functional using the novel composite construct BBa_K2208045 (lac promoter/RBS/GFP/terminator). Picture on Wiki under part BBa_K2208045.

    - The composite lac promoter/RBS (BBa_K208010). This was demonstrated using the composite construct BBa_K2208045. Picture on Wiki under part BBa_K2208045. This composite part is extremely useful because it alleviates the need to work with extremely small ribosomal BioBrick components.

    - Lac promoter/RBS/Gene III/Phasin/terminator (BBa_K208038). This was demonstrated through the detection of phasin proteins isolated from supernatant samples using SDS polyacrylamide gel electrophoresis. Picture on Wiki.

    - Phasin gene (BBa_K208001). A protein of the correct size was detected in SDS polyacrylamide gel electrophoresis from cells having this construct that was not detected in the control samples.

    - Gene III secretion tag (BBa_K208002). The phasin protein from part BBa_K208038 was detected outside the cell, thus demonstrating the functionality of this Gene III secretion tag.

  • Characterized the GFP reporter (BBa_K208000) (1) showing GFP expression over time and (2) showing sensitivity of IPTG induction.

Gold Medal Requirements
  • Improved upon the existing set of GFP BioBrick parts by constructing a GFP with a larger Stokes shift (395/509nm), making for easier downsteam analysis. The bright fluorescence can very easily be seen on a standard UV transilluminator. As GFP is one of the most commonly used reporters, the introduction of this new and improved BioBrick part should be of great benefit to the iGEM community.
  • Our initial plans for our 2009 team was in part to continue the 2008 Hawaii team’s project, “Cyanobacteria Toolkit,” by making the pRL1383a vector an effective broad-host vector. When this vector proved ineffective, we made efforts to troubleshoot. We had much correspondence with the advisors of the Hawaii team, including a conference call mid-summer. Since most of their parts were not included in the 2009 iGEM distribution, we had them send many of the parts they used. After numerous approaches and attempts to convert pRL1383a into BioBrick format, we finally decided that the vector was either mischaracterized or altered in some unknown way.
  • As thoroughly explained in our Wiki, one of the primary goals of our project has been to expand the BioBrick world to organisms other than E. coli. We have documented the many benefits that would come from such an achievement. Though the pRL1383a vector efforts were unsuccessful, we did successfully express the vector pCPP33 in E. coli, Pseudomonas putida, Synechocystis pcc 6803, and Rhodobacter sphaeroides. This vector now has only to be put in BioBrick format.
  • In reference to our ethics section (https://2009.igem.org/Team:Utah_State/ETHICS), our team has taken specific measures to follow our suggested proposals. In the education of our team, we discussed the potential benefits of a standard secretion system but also discussed the potential of our designed secretion pathways to be used in a malevolent manner. As a team, we acknowledge the importance of high moral accountability and commitment to safety and security. Additionally, in an effort to foster the sharing of information in our community, upon completion of the jamboree we will submit an article to be released in our school newspaper and in the College of Engineering website. This winter we are also hosting a lecture by Drew Endy addressing synthetic biology which will be open to the public. We hope to act as ambassadors to foster support and excitement in our own community.



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