Difference between revisions of "Team:Calgary/Description"

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           <a href="#The-Oviita-Philosophy"> The Oviita Philosophy </a>
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           <a href="#bronze">Bronze</a>  
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          <br>
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<br>
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           <a href="#Vitamin-A-Deficiency"> Vitamin A Deficiency </a>
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           <a href="#silver">Silver</a>
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           <a href="#Our-Approach"> Our Approach </a>
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           <a href="#special-awards"> Special Awards</a>
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           <h1 style="font-family: 'Public Sans', sans-serif; font-weight: 600;">DESCRIPTION</h1>
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           <h1 style="font-weight: 600; font-family: 'Public Sans', sans-serif;">JUDGING</h1>
 
                
 
                
 
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        <h2>BRONZE</h2>
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        <h4> Requirements </h4>
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<ul>
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  <li><b>Competition Deliverables</b></li>
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<p>We have completed the competition deliverables including the wiki, poster, presentation video, judging form, and promotional video which can be found <a class= "abody" href="https://2020.igem.org/Team:Calgary/Description">here. </a></p>
  
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  <li><b>Attributions</b></li>
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<p>We have created an <a class= "abody" href="https://2020.igem.org/Team:Calgary/Attributions">attributions </a> page outlining all the people who have helped us along the way to bring Oviita to fruition</p>
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  <li><b>Project Description</b></li>
 +
<p>We have created a <a class= "abody" href="https://2020.igem.org/Team:Calgary/Description">project description </a> page to outline our motivation, goals, and various components of Oviita. </p>
  
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        <div class = "Vitamin-A-Deficiency" id = "Vitamin-A-Deficiency" >
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  <li><b>Contributions</b></li>
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        <h2>VITAMIN A DEFICIENCY</h2>
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<p>We have created a <a class= "abody" href="https://2020.igem.org/Team:Calgary/Contributions">contributions </a> page outlining everything we have contributed to the iGEM community. Additionally, the characterization of the existing registry part, <a href="BBa_K2117000">BBa_K211700,</a> is documented on our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Characterization">characterization </a> page.</p>
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        <h4>Understanding the Importance of Vitamin A</h4>
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        <p>An estimated 250 million children worldwide are currently suffering from Vitamin A deficiency (WHO, 2020). Vitamin A deficiency, also known as VAD, is one of the leading causes of preventable childhood mortality, also playing roles in causing reproductive issues, reduced immune function, vision loss, and in severe cases, xerophthalmia, the leading cause of preventable childhood blindness (UNICEF, 2020). While VAD has essentially been eradicated in many places around the globe, parts of South Asia and Sub-Saharan Africa are still facing a Vitamin A crisis. It disproportionately harms some of the world’s most vulnerable populations, particularly pregnant women and children. These groups typically lack access to varied diets, due to a variety of socioeconomic and cultural factors.</p>
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        <img class="img-fluid"src="https://static.igem.org/mediawiki/2020/4/46/T--Calgary--VAD_map.png">
 
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<p style="color:grey; font-size: 85%;"> Figure 1. Colour-coded map depicting areas of no significant prevalence of VAD to areas of high prevalence of VAD.</p>
 
  
  
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        <p>Vitamin A refers to a group of fat-soluble retinoids, and as a result, it requires fat to be properly absorbed by the body. Vitamin A cannot be synthesized by the body, so it is taken up in two forms: preformed Vitamin A, as found in meat and fish, or provitamin A carotenoids, most commonly in the form of beta-carotene (National Institutes of Health, 2020). Beta-carotene rich foods include green leafy vegetables, such as spinach, and orange vegetables, such as sweet potatoes (National Institutes of Health, 2020). Where preformed Vitamin A can be toxic to the body in high enough concentrations, beta-carotene and other carotenoids do not carry that same risk.</p>
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        <p>The low fat diets of the affected South Asian and Sub Saharan African areas also play a role in reduced Vitamin A uptake. For example, up to 70% of a South Asian diet consists solely of rice, a grain with very low lipid content (Bishwajit et al., 2013). Frankly, rice is cheap, making it much more accessible for poorer and rural regions. Many of these areas also lack fortified foods, making it more difficult for the population to obtain the necessary nutrients to maintain health (Vitamin Angels, 2020). Not coincidentally, these demographics are hit hard by Vitamin A deficiency.<p>
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        <h2>SILVER</h2>
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        <h4>Requirements</h4>
  
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<ul>
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  <li><b>Engineering Success</b></li>
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<p>Oviita has multiple sub-projects that were designed carefully and thoughtfully. Our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Engineering">engineering success</a> page outlines the each of our subprojects that had to be designed and carefully using the engineering design process: <a href="Cellulase_Engineering">cellulase integration </a>, <a href="Biocontainment_Engineering">biocontainment, </a> <a href="Thymol_Engineering"> thymol production, </a> <a href="Bioreactor"> bioreactor creation, </a> and <a href= "Randys_Cell"> Randle's Cell Testing Device. </a>The Engineering Success page provides an overview of all these projects, but you can find more details on each the on their respective subproject specific pages. </p>
  
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  <li><b>Collaborations</b></li>
 +
<p>We have collaborated with a number of teams this year all over the world! Check out our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Collaborations">collaborations</a> page to learn more.</p>
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  <li><b>Human Practices</b></li>
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<p>Oviita was designed thoughtfully with the inclusion of stakeholder opinions every step of the way. We have created a <a class= "abody" href="https://2020.igem.org/Team:Calgary/Human_Practices">human practices</a> page to outline our work. </p>
  
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  <li><b>Proposed Implementation</b></li>
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<p>We have planned extensively for Oviita to be successfully implemented in communities. Check out our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Implementation">proposed implementation</a> page to learn more. </p>
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        <h2> VITAMIN A DEFICIENCY</h2>
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        <p style = "text-align: center; color: #FFA600; font-weight: bold; font-size: 17px;"> Vitamin A is typically taken up in the diet from specific plant and animal sources. Without these sources, deficiency compromises the immune system, stunts growth, and blinds the eyes, leaving patients vulnerable. </p>
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          <p> Vitamin A deficiency (VAD) is one of the leading causes of preventable childhood mortality. Vitamin A is acquired from specific plant and animal sources in our diet. Without these sources, the resulting deficiency can lead to destruction of the immune system, stunted growth, and blindness, leaving patients vulnerable to infection and mortality. </p>
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        <h2>GOLD</h2>
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        <h4>Requirements</h4>
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<ul>
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  <li><b>Integrated Human Practices</b></li>
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<p>We designed Oviita to be consistently human-centered and community-based. Check out our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Human_Practices">integrated human practices</a> page to learn more. </p>
  
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<p>VAD disproportionately harms some of the world’s most vulnerable populations, particularly pregnant women and children who lack access to varied diets due to socioeconomic and cultural factors. It is widespread in regions of Africa and South Asia where diets may contain low amounts of Vitamin A. Furthermore, since vitamin A is fat soluble, deficiency can also be exacerbated by a lack of dietary fat, which is common in many of the same regions.</p>
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  <li><b>Project Modelling</b></li>
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<p>We have used extensive modelling to inform our wet lab projects and our bioreactor design. Check out our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Model">modelling overview</a> page to see how modelling influenced our project.</p>
  
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  <li><b>Science Communication</b></li>
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<p style = "text-align: left; color: #444444; font-size: 14px;"> Change to map graphic</p>
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<p> We have created an <a class= "abody" href="https://2020.igem.org/Team:Calgary/Education">education </a> page to outline the synthetic biology course we made, describe our extensive mentorship endeavours, talk about other initiatives we started to promote synthetic biology education.</p>
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<p>Current solutions exist which have helped significantly, such as Vitamin A supplementation through annual shots and fortification of food. However, these solutions can leave communities reliant on charity or government aid infrastructure to provide them with ongoing, recurring relief. As a result, these solutions are unsustainable, and vulnerable in case of failure of infrastructure or continued funding. They also fail to address lipid deficiency.</p>
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        <h2>SPECIAL AWARDS</h2>
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        <h4> Other awards </h4>
  
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<p style = "text-align: left; color: #444444; font-size: 14px;"> Figure 2.</p>
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  <li><b>Integrated Human Practices</b></li>
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<p> Oviita is a system that prides itself on being inexpensive, sustainable, and easy to maintain. In order to make this system as accessible as possible, we wanted to take into consideration the culture, lifestyle, and needs of those that would be using it. This use of integrated human practices was achieved through discussions with anthropologists, non-profit organizations, and healthcare workers.</p>
  
 +
  <li><b>Hardware</b></li>
 +
<p> The design of specific <a class= "abody" href="https://2020.igem.org/Team:Calgary/Hardware"> hardware </a> tools were essential for the creation of Oviita. Specifically, we designed a <a class= "abody" href="https://2020.igem.org/Team:Calgary/Bioreactor"> bioreactor </a> for community-based implementation, and <a class= "abody" href="https://2020.igem.org/Team:Calgary/Randys_Cell"> Randle's Cell Testing Device </a> to address inadequate vitamin A testing. </p>
  
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  <li><b> Entrepreneurship</b></li>
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<p>We have incorporated Oviita as a non-profit organization and have taken the next steps to introduce Oviita to the communities we aim to serve have through our various our wet <a class= "abody" href="https://2020.igem.org/Team:Calgary/Entrepreneurship"> entrepreneurship </a> initiatives.</p>
  
 +
  <li><b>Education</b></li>
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<p> We have successfully created a senior-level university synthetic biology course and have implemented it in our school as the first synthetic biology-specific course offered at our institution. This is a major step forward in promoting <a class= "abody" href="https://2020.igem.org/Team:Calgary/Education"> synthetic biology education. </a> Furthermore, we are dedicated to helping all iGEM teams develop good strategies for human practices and team organization. </p>
  
 +
  <li><b>Part Collection</b></li>
 +
<p> We created the first <a class= "abody" href="https://2020.igem.org/Team:Calgary/Part_Collection"> part collection </a> of its kind that includes modular Gibson Assembly compatible parts that make <span style="font-style: italic;class="italic">Y. lipolytica </span> an easier chassis for iGEM teams and the synthetic biology community. </p>
  
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  <li><b>Modelling</b></li>
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<p> <a class= "abody" href="https://2020.igem.org/Team:Calgary/Model">Modelling </a> was integrated throughout the project. The most prominent impact was in our engineered cellulase enzymes. Other aspects of our project influenced by modelling were the Randle's Cell Testing Device and the bioreactor. </p>
  
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  <li><b>Measurement</b></li>
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<p> Measurement is difficult, especially for quantizing the nanoscale movements of biological molecules. To address this, iGEM Calgary introduces GausHaus, a parameterization method for protein dynamics. This is enabled by molecular dynamic simulation and by Gaussian process dynamic models. This method can also be used for the estimation of protein dynamics. Learn more on our <a class= "abody" href="https://2020.igem.org/Team:Calgary/Measurement">measurement page. </a> </p>
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      <p style = "text-align: center;"> Vitamin A is typically taken up in the diet from specific plant and animal sources. Without these sources, deficiency compromises the immune system, stunts growth, and blinds the eyes, leaving patients vulnerable. </p>
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  <li><b>Software</b></li>
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<p> Software development was an exciting portion of our summer. We were able to develop GausHaus, Sticks, Hardware programming, and Bellatrix. These <a class= "abody" href="https://2020.igem.org/Team:Calgary/Software">software tools </a>were able to enrich our project and ensure that what we were doing was reproducible at every stage. </p>
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        <h3>One of the biggest causes of preventable childhood mortality, Vitamin A Deficiency, currently afflicts an estimated 250 million women and children worldwide. </h3>
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        <p>VAD disproportionately harms some of the world’s most vulnerable populations. It is widespread in regions of Africa and South Asia, where diets contain low amounts of Vitamin A, and is further exacerbated by a lack of dietary fat.</p>
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  <li><b>Sustainable Development</b></li>
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            <h2> OUR APPROACH </h2>
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<p> We designed Oviita with the UN SDG goals in mind, and tackled a number of them in various aspects of our project. Learn more on our <a href="Sustainable">sustainable development</a> page. </p>
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              <span style = "color: #0197AE; font-weight: bold; ">Engineering Cellulases</span> involves something something, it's cool and we love to do it. A main part of our project.
 
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              <span style = "color: #0197AE; font-weight: bold; ">Biocontainment</span> is an aspect of our project that is also very important to what we're doing.
 
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              <span style = "color: #0197AE; font-weight: bold;  ">Implementation</span> involves many aspects such as  building a bioreactor, doing some other stuff, and one last one. One of the last most important aspects of our project.  </p>
 
  
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<p> When it came to selecting our choice of yeast chassis, we had six major considerations.
 
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After the careful consideration of many organisms, we selected <span style="font-style: italic;class="italic">Y. lipolytica</span> OBJMY3501. As a strain of the well-characterized yeast, <span style="font-style: italic;class="italic">Y, lipolytica</span>, OBJMY3501 has already been engineered for beta carotene production and satisfies all of our criteria. </p>
 
  
  
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Revision as of 17:11, 27 October 2020



BRONZE

Requirements

  • Competition Deliverables

    • We have completed the competition deliverables including the wiki, poster, presentation video, judging form, and promotional video which can be found here.

  • Attributions

    • We have created an attributions page outlining all the people who have helped us along the way to bring Oviita to fruition

  • Project Description

    • We have created a project description page to outline our motivation, goals, and various components of Oviita.

  • Contributions

    • We have created a contributions page outlining everything we have contributed to the iGEM community. Additionally, the characterization of the existing registry part, BBa_K211700, is documented on our characterization page.


SILVER

Requirements

  • Engineering Success

    • Oviita has multiple sub-projects that were designed carefully and thoughtfully. Our engineering success page outlines the each of our subprojects that had to be designed and carefully using the engineering design process: cellulase integration , biocontainment, thymol production, bioreactor creation, and Randle's Cell Testing Device. The Engineering Success page provides an overview of all these projects, but you can find more details on each the on their respective subproject specific pages.

  • Collaborations

    • We have collaborated with a number of teams this year all over the world! Check out our collaborations page to learn more.

  • Human Practices

    • Oviita was designed thoughtfully with the inclusion of stakeholder opinions every step of the way. We have created a human practices page to outline our work.

  • Proposed Implementation

    • We have planned extensively for Oviita to be successfully implemented in communities. Check out our proposed implementation page to learn more.


GOLD

Requirements

  • Integrated Human Practices

    • We designed Oviita to be consistently human-centered and community-based. Check out our integrated human practices page to learn more.

  • Project Modelling

    • We have used extensive modelling to inform our wet lab projects and our bioreactor design. Check out our modelling overview page to see how modelling influenced our project.

  • Science Communication

    • We have created an education page to outline the synthetic biology course we made, describe our extensive mentorship endeavours, talk about other initiatives we started to promote synthetic biology education.


SPECIAL AWARDS

Other awards

  • Integrated Human Practices

    • Oviita is a system that prides itself on being inexpensive, sustainable, and easy to maintain. In order to make this system as accessible as possible, we wanted to take into consideration the culture, lifestyle, and needs of those that would be using it. This use of integrated human practices was achieved through discussions with anthropologists, non-profit organizations, and healthcare workers.

  • Hardware

    • The design of specific hardware tools were essential for the creation of Oviita. Specifically, we designed a bioreactor for community-based implementation, and Randle's Cell Testing Device to address inadequate vitamin A testing.

  • Entrepreneurship

    • We have incorporated Oviita as a non-profit organization and have taken the next steps to introduce Oviita to the communities we aim to serve have through our various our wet entrepreneurship initiatives.

  • Education

    • We have successfully created a senior-level university synthetic biology course and have implemented it in our school as the first synthetic biology-specific course offered at our institution. This is a major step forward in promoting synthetic biology education. Furthermore, we are dedicated to helping all iGEM teams develop good strategies for human practices and team organization.

  • Part Collection

    • We created the first part collection of its kind that includes modular Gibson Assembly compatible parts that make Y. lipolytica an easier chassis for iGEM teams and the synthetic biology community.

  • Modelling

    • Modelling was integrated throughout the project. The most prominent impact was in our engineered cellulase enzymes. Other aspects of our project influenced by modelling were the Randle's Cell Testing Device and the bioreactor.

  • Measurement

    • Measurement is difficult, especially for quantizing the nanoscale movements of biological molecules. To address this, iGEM Calgary introduces GausHaus, a parameterization method for protein dynamics. This is enabled by molecular dynamic simulation and by Gaussian process dynamic models. This method can also be used for the estimation of protein dynamics. Learn more on our measurement page.

  • Software

    • Software development was an exciting portion of our summer. We were able to develop GausHaus, Sticks, Hardware programming, and Bellatrix. These software tools were able to enrich our project and ensure that what we were doing was reproducible at every stage.

  • Sustainable Development

    • We designed Oviita with the UN SDG goals in mind, and tackled a number of them in various aspects of our project. Learn more on our sustainable development page.