Difference between revisions of "Team:UCSC/Fermentation"

 
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             <li><a href="https://2015.igem.org/Team:UCSC/Fermentation">Fermentation</a></li>
 
             <li><a href="https://2015.igem.org/Team:UCSC/Fermentation">Fermentation</a></li>
 
             <li><a href="https://2015.igem.org/Team:UCSC/Field">Field</a></li>
 
             <li><a href="https://2015.igem.org/Team:UCSC/Field">Field</a></li>
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            <li><a href="https://2015.igem.org/Team:UCSC/Attributions">Attributions</a></li>
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           </ul>
 
           </ul>
 
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         <li><a href="https://2015.igem.org/Team:UCSC/Project">Project</a></li>
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         <li><a href="https://2015.igem.org/Team:UCSC/Description">Project</a></li>
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        <li><a href="https://2015.igem.org/Team:UCSC/Outreach">Outreach</a></li>
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          <li class="dropdown"><a class="dropdown-toggle" data-toggle="dropdown" href="#">Human Practices<span class="caret"></span></a>
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         <li class="dropdown"><a class="dropdown-toggle" data-toggle="dropdown" href="#">Notebook<span class="caret"></span></a>
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          <ul class="dropdown-menu">
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            <li><a href="https://2015.igem.org/Team:UCSC/Practices">Outreach</a></li>
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            <li><a href="https://2015.igem.org/Team:UCSC/Bioethics">Bioethics</a></li>
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          </ul>
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         </li>        <li class="dropdown"><a class="dropdown-toggle" data-toggle="dropdown" href="#">Notebook<span class="caret"></span></a>
 
           <ul class="dropdown-menu">
 
           <ul class="dropdown-menu">
 
             <li><a href="https://2015.igem.org/Team:UCSC/Logs">Logs</a></li>
 
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         <li><a href="https://2015.igem.org/Team:UCSC/Safety">Safety</a></li>
 
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        <li><a href="https://2015.igem.org/Team:UCSC/Parts">Parts</a></li>
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             <li><a href="https://2015.igem.org/Team:UCSC/FOCUS_Works">How it works</a></li>
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             <li><a href="https://2015.igem.org/Team:UCSC/Medal_Fulfillment">Medal Fulfillment</a></li>
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            <li><a href="https://2015.igem.org/Team:UCSC/Results">Results</a></li>
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            <li><a href="https://2015.igem.org/Team:UCSC/Software">Software</a></li>
 
              
 
              
 
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<h1> Fermentation: Butanol </h1>
 +
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 +
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<div class="col-md-12">
 +
<b>Background:</b>
 +
<p style="text-align: center;">With our world’s rapid industrial growth and increasing globalization of the consumer market, we have created an energy crisis that our planet can’t sustain for much longer. Rising demand for high energy liquid fuel has only driven us further to our dependency on a resource that is quickly depleting around the world; this is of course fossil fuels. We must, as a single people, begin looking for a renewable or at a minimum a live carbon solution if we are to have any chance of preventing a global catastrophe that will endanger all that humanity has achieved in our brief existence. However the reality of the situation is that the technology and resources to rectify our predicament already exist and have so for several years.
 +
Bio-Butanol is a viable and greater alternative to current fossil fuels, due to bio-butanol’s carbon sequestering of today’s plants. Fossil fuels rely on atmospheric carbon that died millions of years ago while bio-butanol relies on sources that were grown within that year. Expansion of current methods could greatly reduce the impact and even slow the destruction of the planet, however if we hope to halt the issue definitively, we must take responsibility for our energy harvesting and use our technologies to their fullest potential.
 +
Existing bio-butanol production relies on an engineered Clostridium acetobutylicum that converts sugars into the desired 1-butanol, via its solventogenic pathway. However, as many researchers and industrialists have noted, working with the Clostridium has proven difficult due to its additional byproducts: butyrate, acetone, and ethanol making the control over the yield of butanol difficult. Along with a short and spore forming life cycle Clostridium is far from an excellent producer of butanol. </p>
 +
</div>
 +
 +
<div class="col-md-6">
 +
<b>Aims:</b>
 +
<p style="text-align: left;">
 +
 +
The aim was to produce butanol through this fermentation pathway. The focus was converting glucose to butanol by creating two fusion genes to complete the pathway from Butyryl Coa to Butanol. One from Shewanella and one consisting of native ACD and Aldy genes from HVO.
 +
In addition, we wished to grow multiple cultures both aerobically and anaerobically, and at different pHs, to test solvent production without modification. We were looking for butyric acid and/or butanol in our samples.
 +
<br/>
 +
<img src="https://static.igem.org/mediawiki/2015/7/74/CAC_pathway.png" />
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</p>
 +
<p style="font-size: 10px;">  García, V., Challenges in biobutanol production: How to improve the efficiency? Renewable and Sustainable Energy Reviews 15, 964–980 (2011). </p>
 +
</p>
 +
</div>
 +
 +
<div="col-md-6">
 +
<b>Achievements:</b>
 +
<p style="text-align:left;">
 +
 +
We were able to create one assembled fusion gene. We also designed multiple linkers (refer to parts) to complete the designed fusion gene.
 +
<br />
 +
<img src= "https://static.igem.org/mediawiki/2015/b/bd/Linker_assembly.png" style="width: 50%; height 50%;" />
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<table style="width: 1230px; text-align: center;">
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<td>
 +
View our <a href="https://2015.igem.org/Team:UCSC/Logs">Notebook</a> for our methodology that lead to our results.
 +
</td>
 +
</tr>
 +
</table>
 +
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                    <tr>
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                        <td>
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                            <p><b>Alonzo Lee</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/c/c0/T7juPEQ.jpg" style=" width: 236px; height: 355px;" />
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                        </td>
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                        <td>
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                            <ul class="list-unstyled">
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                                <li><span>Biomolecular Engineering<br /> Cowell College (UCSC)<br /> 4th Year<br /> Overseer of all projects&nbsp;<br /> From: Sacramento, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
                <table style=" width: 500px; padding: 0px; margin: auto;">
 +
                    <tr>
 +
                        <td style=" padding: 0px;">
 +
                            <p class="left">
 +
                                <i>"I started this project nervous and afraid about my ability to not only perform in a laboratory setting but as a captain as well. Yet now that have gone through iGEM I have become both an experienced researcher and a decisive leader who is able to communicate with all levels. This project has been one of the most fulfilling experiences of my life and I only hope that in the future more potential researchers are able to live what I have lived. With new experiences, knowledge, and friends in hand I look back at back at my iGEM experience only wishing to live it once more."</i>
 +
                            </p>
 +
               
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="2">
 +
                <table style=" width: 500px; padding: 0px; margin: auto;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Nina Sardesh</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/e/ea/TBLe8mj.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Bioelectronics Engineering<br /> <em>Electrical Engineering minor</em><br />Stevenson College (UCSC)<br />4th Year<br />Grant &amp; Social Media Supervisor<br />From: San Francisco, CA&nbsp;</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
<table style=" width: 500px; padding: 0px; margin: auto;">
 +
                    <tr>
 +
                        <td style=" padding: 0px;">
 +
                            <p class="left">
 +
                                <i>"iGEM has been a leadership experience like no other. The skills I have acquired from working with such a bright and diverse team have allowed me to become confident in my ability to manage, and the potential for me to start a business. I am extremely proud of the work we have done and our teamwork abilities. "</i>
 +
                            </p>
 +
               
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="3">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Sanusha Bijj</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/9/94/Hh3piQb.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Biomolecular Engineering<br /> </span><em><span>Bioinformatics minor</span></em><span><br /> College Nine (UCSC)<br /> 4th Year<br /> Grant, Social Media,&nbsp;&amp; <br />Website Team<br /> From: San Jose, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
                <table style=" width: 500px; padding: 0px; margin: auto;">
 +
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 +
                        <td style=" padding: 0px;">
 +
                            <p class="left">
 +
                                <i>"Being apart of iGEM was more than just an experience. I was able to not only learn new lab techniques, but also learn how to fundraise, communicate, and think broader. My contribution to the team not only include lab work but publicizing our research through newspapers, writing grants, and writing thank-you letters. Two important qualities I learned from this experience were patience and communication. I can definitely say that this experience has prepped me to deal with the future research labs that I will encounter."</i>
 +
                            </p>
 +
               
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="4">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Jackson DeKloe</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/5/50/JOskfl3.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Molecular, Cell, &amp; <br />Developmental&nbsp;Biology<br /> </span><em><span>Bioinformatics minor</span></em><span><br /> Cowell College (UCSC)<br /> 5th Year<br /> From: Fairfield, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="5">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Vijay Jayant</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/7/7b/TSbgd8F.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Molecular, Cell, &amp; <br />Developmental&nbsp;Biology<br /> </span><em><span>Bioinformatics minor</span></em><span><br /> College Ten (UCSC)<br /> 5th Year<br /> Graphic Deisgn, Video, &amp; <br />Website Team<br /> From: Fremont, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
<table style=" width: 500px; padding: 0px; margin: auto;">
 +
                    <tr>
 +
                        <td style=" padding: 0px;">
 +
                            <p class="left">
 +
                                <i>""Aside from the valuable lab research experience and team building, the most rewarding aspect of iGEM for me was the ability to apply my extracurricular skills towards the project. From providing graphic design to helping with our crowdfunding video, this was the first time I have been able to get involved with a meaningful project from multiple angles. I am confident that I will be able to take what I have learned from iGEM and apply it to my future career path. ""</i>
 +
                            </p>
 +
               
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="6">
 +
                <table style=" width: 500px; margin: auto;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Isabel Madau</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/e/ef/SJzt0Ij.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Biochemistry<br /> University of Edinburgh<br /> 2nd Year<br /> Grant Team<br /> From:&nbsp;Baltimore, MD</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="7">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Derek Brekke</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/7/75/Derek.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Biomolecular Engineering<br /> </span><em><span>Bioinformatics minor</span></em><span><br /> College Nine (UCSC)<br /> 5th Year<br /> From: Aptos, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
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 +
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 +
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 +
<br /> 
 +
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 +
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 +
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 +
<br /> 
 +
<h1> Fermentation: Ethanol </h1>
 +
<div class="container">
 +
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 +
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 +
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 +
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 +
            </div>
 +
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            </div>
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            <div class="gear-node" data-node="0" style="top: 260px; left: 105px;">
 +
                <img class="gear" src="https://static.igem.org/mediawiki/2015/9/9c/UCSC_Profile_Gear.png" />
 +
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 +
            </div>
 +
        </div>
 +
        <div class="col-md-6">
 +
            <div class="profile-cont" data-node="8">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Kassandra Colao</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/6/6e/YnHcHHt.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Biomolecular Engineering<br /> </span><em><span>Bioinformatics minor</span></em><span><br /> Merrill College (UCSC)<br /> 5th Year<br /> From: Napa, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="9">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Megana Kunda</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/8/88/Zyhb1HX.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Biomolecular Engineering and<br /> Molecular, Cell, &amp; <br />Developmental&nbsp;Biology<br /> </span><em><span>Bioinformatics minor</span></em><span><br /> Collge 10 (UCSC)<br /> 4th Year<br /> From:&nbsp;<span>Milpitas, CA</span></span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
            <div class="profile-cont" data-node="0">
 +
                <table style=" width: 500px;">
 +
                    <tr>
 +
                        <td>
 +
                            <p><b>Kendal Prokopakis</b></p>
 +
                            <img src="https://static.igem.org/mediawiki/2015/b/b1/GUwlqfp.jpg" style=" width: 236px; height: 355px;" />
 +
                        </td>
 +
                        <td>
 +
                            <ul class="list-unstyled">
 +
                                <li><span>Biomolecular Engineering<br /><em>Bioinformatics minor<br /></em>Stevenson College (UCSC)<br /> 4th Year<br />From: Santa Clara, CA</span></li>
 +
                            </ul>
 +
                        </td>
 +
                    </tr>
 +
                </table>
 +
            </div>
 +
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 +
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 +
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Latest revision as of 03:54, 19 September 2015

Fermentation: Butanol


Background:

With our world’s rapid industrial growth and increasing globalization of the consumer market, we have created an energy crisis that our planet can’t sustain for much longer. Rising demand for high energy liquid fuel has only driven us further to our dependency on a resource that is quickly depleting around the world; this is of course fossil fuels. We must, as a single people, begin looking for a renewable or at a minimum a live carbon solution if we are to have any chance of preventing a global catastrophe that will endanger all that humanity has achieved in our brief existence. However the reality of the situation is that the technology and resources to rectify our predicament already exist and have so for several years. Bio-Butanol is a viable and greater alternative to current fossil fuels, due to bio-butanol’s carbon sequestering of today’s plants. Fossil fuels rely on atmospheric carbon that died millions of years ago while bio-butanol relies on sources that were grown within that year. Expansion of current methods could greatly reduce the impact and even slow the destruction of the planet, however if we hope to halt the issue definitively, we must take responsibility for our energy harvesting and use our technologies to their fullest potential. Existing bio-butanol production relies on an engineered Clostridium acetobutylicum that converts sugars into the desired 1-butanol, via its solventogenic pathway. However, as many researchers and industrialists have noted, working with the Clostridium has proven difficult due to its additional byproducts: butyrate, acetone, and ethanol making the control over the yield of butanol difficult. Along with a short and spore forming life cycle Clostridium is far from an excellent producer of butanol.

Aims:

The aim was to produce butanol through this fermentation pathway. The focus was converting glucose to butanol by creating two fusion genes to complete the pathway from Butyryl Coa to Butanol. One from Shewanella and one consisting of native ACD and Aldy genes from HVO. In addition, we wished to grow multiple cultures both aerobically and anaerobically, and at different pHs, to test solvent production without modification. We were looking for butyric acid and/or butanol in our samples.

García, V., Challenges in biobutanol production: How to improve the efficiency? Renewable and Sustainable Energy Reviews 15, 964–980 (2011).

Achievements:

We were able to create one assembled fusion gene. We also designed multiple linkers (refer to parts) to complete the designed fusion gene.

View our Notebook for our methodology that lead to our results.


Alonzo Lee
  • Biomolecular Engineering
    Cowell College (UCSC)
    4th Year
    Overseer of all projects 
    From: Sacramento, CA

"I started this project nervous and afraid about my ability to not only perform in a laboratory setting but as a captain as well. Yet now that have gone through iGEM I have become both an experienced researcher and a decisive leader who is able to communicate with all levels. This project has been one of the most fulfilling experiences of my life and I only hope that in the future more potential researchers are able to live what I have lived. With new experiences, knowledge, and friends in hand I look back at back at my iGEM experience only wishing to live it once more."

Nina Sardesh
  • Bioelectronics Engineering
    Electrical Engineering minor
    Stevenson College (UCSC)
    4th Year
    Grant & Social Media Supervisor
    From: San Francisco, CA 

"iGEM has been a leadership experience like no other. The skills I have acquired from working with such a bright and diverse team have allowed me to become confident in my ability to manage, and the potential for me to start a business. I am extremely proud of the work we have done and our teamwork abilities. "

Sanusha Bijj
  • Biomolecular Engineering
    Bioinformatics minor
    College Nine (UCSC)
    4th Year
    Grant, Social Media, &
    Website Team
    From: San Jose, CA

"Being apart of iGEM was more than just an experience. I was able to not only learn new lab techniques, but also learn how to fundraise, communicate, and think broader. My contribution to the team not only include lab work but publicizing our research through newspapers, writing grants, and writing thank-you letters. Two important qualities I learned from this experience were patience and communication. I can definitely say that this experience has prepped me to deal with the future research labs that I will encounter."

Jackson DeKloe
  • Molecular, Cell, &
    Developmental Biology
    Bioinformatics minor
    Cowell College (UCSC)
    5th Year
    From: Fairfield, CA

Vijay Jayant
  • Molecular, Cell, &
    Developmental Biology
    Bioinformatics minor
    College Ten (UCSC)
    5th Year
    Graphic Deisgn, Video, &
    Website Team
    From: Fremont, CA

""Aside from the valuable lab research experience and team building, the most rewarding aspect of iGEM for me was the ability to apply my extracurricular skills towards the project. From providing graphic design to helping with our crowdfunding video, this was the first time I have been able to get involved with a meaningful project from multiple angles. I am confident that I will be able to take what I have learned from iGEM and apply it to my future career path. ""

Isabel Madau
  • Biochemistry
    University of Edinburgh
    2nd Year
    Grant Team
    From: Baltimore, MD

Derek Brekke
  • Biomolecular Engineering
    Bioinformatics minor
    College Nine (UCSC)
    5th Year
    From: Aptos, CA








Fermentation: Ethanol

Kassandra Colao
  • Biomolecular Engineering
    Bioinformatics minor
    Merrill College (UCSC)
    5th Year
    From: Napa, CA

Megana Kunda
  • Biomolecular Engineering and
    Molecular, Cell, &
    Developmental Biology
    Bioinformatics minor
    Collge 10 (UCSC)
    4th Year
    From: Milpitas, CA

Kendal Prokopakis
  • Biomolecular Engineering
    Bioinformatics minor
    Stevenson College (UCSC)
    4th Year
    From: Santa Clara, CA