Difference between revisions of "Team:Valencia UPV/Results"

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                           ">Considerations for replicating the project</a>
 
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<a class="anchorOffset" id="Results"></a>
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              <h3>Results</h3>
 +
<p>At the start of the summer, the different members of the Valencia_UPV team set themselves objectives in their respective areas to promote the automation of the cloning process and thus bring synthetic biology closer to the people.
 +
</p>
 +
<h4>Wet Lab </h4>
 +
<ul>
 +
<li><p>We have built a complete <a href="https://2018.igem.org/Team:Valencia_UPV/Part_Colection"> Part Collection </a> of standardized Golden Braid 3.0 basic parts. It is a fully functional DNA collection with extensive characterization of its parts, so providing the user with useful data to work with.
 +
</p></li>
 +
<li><p>We found that the most suitable way to transform bacteria for Printeria is to electroporate electrocompetent cells previously stored at -20ºC and subsequent maintained at 4ºC during the assembly step.
 +
</p></li>
 +
<li><p>We proved that the assembly of composite parts using the destination vector in its linearized form significantly reduces the number of bacteria carrying the non-recombinant plasmid (false-positives colonies). However, in order to obtain a pure culture, it will always be necessary to go through the screening plate step.
 +
</p></li></ul>
  
 +
<h4>Hardware</h4>
 +
<ul>
 +
<li><p>Laboratory equipment has been designed around digital microfluidic technology. Giving the machine a great degree of control over the processes that occur inside. This equipment includes a thermal cycler and an electroporator.
 +
</p></li>
 +
<li><p>The entry system of Printeria allows for quick placement of all the necessary consumables. In addition, it can be further customized for any kind of liquid.
 +
 +
</p></li>
 +
<li><p>Thanks to the use of Digital Microfluidics Printeria can produce all the reactions in a small space.
 +
 +
</p></li>
 +
  <li><p>All parts of the machine have been designed with individual use in mind.
 +
 +
</p></li>
 +
<li><p>Sensors have been included to monitor bacterial growth.
 +
 +
</p></li> 
 +
<li><p>A functional, economical and easy-to-use solution has been achieved.
 +
 +
</p></li>           
 +
</ul>
 +
 +
<h4>Software</h4>
 +
<ul>
 +
<li><p>We developed Printeria Controller, a web application capable to control all the functions of our device.
 +
 +
</p></li>
 +
<li><p>Through the application it is possible to select all the DNA parts needed to design a transcriptional unit.
 +
 +
 +
</p></li>
 +
<li><p>We didn’t implement the multi-genetic circuit constructions because the team considered this construction will be part of the future of printeria.
 +
</p></li>
 +
<li><p>A non-experienced user can print a genetic circuit already created and stored in our recipe repository.
 +
 +
 +
</p></li><li><p>We created a database with 27 recipes assembled with our basic parts using the Golden Gate technology.
 +
</p></li><li><p>The clean and explicative interface of our software allows both experienced and non-experienced users to navigate through all the options.
 +
</p></li><li><p>In the Inventory tab of the software it is possible to know which cartridges have been drained and register when they are filled.
 +
 +
</p></li><li><p>With the modeling team we developed a simulation tool that allow us to predict the results.
 +
</p></li>
 +
</ul>
 +
 +
<h4>Modeling</h4>
 +
<a class="anchorOffset" id="cons"></a>
 +
<h3>Considerations for replicating the project</h3>
 +
<a class="anchorOffset" id="future"></a>
 +
<h3>Future plans
 +
</h3>
  
  

Revision as of 22:13, 14 October 2018

Stack Multipurpose HTML Template

Index

Goals

At the start of the summer, the different members of the Valencia_UPV team set themselves objectives in their respective areas to promote the automation of the cloning process and thus bring synthetic biology closer to the people.

Wet Lab

  • Create a standardized Golden Gate basic Parts Collection to supply Printeria with the DNA toolkit to assemble composite parts.

  • Provide Printeria with the best way to transform competent bacteria with the highest transformation efficiency rate.

  • Avoid the plate colony screening step in order to eliminate the necessity of the researcher visual check, so easing Printeria automation.

Hardware

  • Integrate multiple lab equipment around an automated friendly form.

  • Design an easy way of handling a big variety of input liquids providing a straightforward integration with Printeria.

  • Design an easy to use way of handling a big variety of input liquids with easy integration of the machine.

  • Keep the footprint of the machine as small as possible.

  • Allow for maximum flexibility on the use of the machine.

Software

  • Develop a software that allows the user to control the device.

  • Allow the user to design a transcriptional unit with the software.

  • Allow the user to design multi-genetic constructions with the software.

  • Get non-professional users to print basic genetic circuit.

  • Fill out a “recipe” repository with at least 20 recipes.

  • Make a user friendly interface to interact with the software.

  • Control the device’s inventory through the software.

  • Simulate the bacterial growth and the protein expression.

Modeling

  • Design simple mathematical models based which allows us to simulate the different Printeria genetic circuits.

  • Optimize model parameters to match simulation results to experimental data obtained from Printeria.

  • Characterize the parts of our Part Collection from the optimization results and provide the user with all the information about the Printeria kit.

  • Develop a Simulation Tool that allows the user to visualize a prediction of the results of their experiment before running it in Printeria.

Results

At the start of the summer, the different members of the Valencia_UPV team set themselves objectives in their respective areas to promote the automation of the cloning process and thus bring synthetic biology closer to the people.

Wet Lab

  • We have built a complete Part Collection of standardized Golden Braid 3.0 basic parts. It is a fully functional DNA collection with extensive characterization of its parts, so providing the user with useful data to work with.

  • We found that the most suitable way to transform bacteria for Printeria is to electroporate electrocompetent cells previously stored at -20ºC and subsequent maintained at 4ºC during the assembly step.

  • We proved that the assembly of composite parts using the destination vector in its linearized form significantly reduces the number of bacteria carrying the non-recombinant plasmid (false-positives colonies). However, in order to obtain a pure culture, it will always be necessary to go through the screening plate step.

Hardware

  • Laboratory equipment has been designed around digital microfluidic technology. Giving the machine a great degree of control over the processes that occur inside. This equipment includes a thermal cycler and an electroporator.

  • The entry system of Printeria allows for quick placement of all the necessary consumables. In addition, it can be further customized for any kind of liquid.

  • Thanks to the use of Digital Microfluidics Printeria can produce all the reactions in a small space.

  • All parts of the machine have been designed with individual use in mind.

  • Sensors have been included to monitor bacterial growth.

  • A functional, economical and easy-to-use solution has been achieved.

Software

  • We developed Printeria Controller, a web application capable to control all the functions of our device.

  • Through the application it is possible to select all the DNA parts needed to design a transcriptional unit.

  • We didn’t implement the multi-genetic circuit constructions because the team considered this construction will be part of the future of printeria.

  • A non-experienced user can print a genetic circuit already created and stored in our recipe repository.

  • We created a database with 27 recipes assembled with our basic parts using the Golden Gate technology.

  • The clean and explicative interface of our software allows both experienced and non-experienced users to navigate through all the options.

  • In the Inventory tab of the software it is possible to know which cartridges have been drained and register when they are filled.

  • With the modeling team we developed a simulation tool that allow us to predict the results.

Modeling

Considerations for replicating the project

Future plans

CONTACT US igem.upv.2018@gmail.com