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

 
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<h2><b>Project</b></h2>
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<p>Be patient, we are under construction</p>
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<h2 style="color:black">Project</h2>
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<ul class="actions">
 
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<li><a href="#scroll1" class="button">Problem</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Circuit" class="button alt">Circuit</a></li>
<li><a href="#scroll2" class="button">Idea</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Components" class="button alt">Components</a></li>
<li><a href="#scroll2" class="button">Solution</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling" class="button alt">Modelling</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Results" class="button alt">Results</a></li>
 
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<h2>Problem<br />
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<h2>Overview<br />
 
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<p>If you compared an old mobile phone from 20 years ago, to a new one, the main differences would be the huge improvement of its capabilities and their amazing miniaturization. This multitask feature, provides us with small devices which manage bigger and bigger amounts of information.
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<p>The huge progress achieve during the last years in biological sciences, has created an enormous amount of information. Thus, nowadays the storage and processing of information has become a real challenge. Recently some biological storage solutions has been proposed. However, since biological systems only admit as much outputs as inputs they received, the processing issue has not been solved yet. Therefore, the creation of a biological decoder is a must and will improve the information processing.</p>
So, why not to apply this strategy in biology? The goal of our project is to develop a biosystem that could work as a source of plenty different compounds, depending on the user’s election. It doesn’t matter where you are, or what you need, because AladDNA will provide you with it! Just pick your product and let there be light, literally!
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This idea is the result of tones of brainstorming hours. Let us introduce you a bit more the problem and explain why we chose this system.
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<p>In order to solve this issue we have design a circuit capable to produce 2n outputs, where n is the number of inputs. The circuit has been design for plant implementation and it is fed by optogenetic control elements (only two kind of light pulses at different time points). This is AladDNA, a device capable of storage information and process it very efficiently in order to make it accessible to even the most remote places. Have a look inside our circuit and <a href="https://2015.igem.org/Team:Valencia_UPV/Circuit">click here!</a> </p>
Producing materials in all countries involve the creation of huge factories, enormous quantities of raw material and high costs for transporting the entire production; this is a huge problem, specially for non-accessible areas or regions where it is impossible to create a factory, as space stations.</p>
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<div id="scroll2" style="text-align: center;"><img class="resize" src='https://static.igem.org/mediawiki/2015/1/17/Fabrica.png'></div>
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<p>The feasibility of this idea was tested by in silico modeling of the circuit showing a great operative capability. The system has a high resolution power between products with ratios from 100 to 105a.u. between each one.  If you want to see the hide beauty of AladDNA <a href="https://2015.igem.org/Team:Valencia_UPV/Modelling">click here!</a></p>
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<p><div style="text-align: center;"><img width=600em src="https://static.igem.org/mediawiki/2015/4/48/Valencia_UPV_circuit.jpeg" ></div> </p>
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<p> <div style="text-align: center;"><h5><b>Figure 1. Circuit design</b></h5></div> </p>
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<p>Once the modeling was complete and the circuit was validated, each of the control elements were tested with transient expression in Nicotiana. The light switches implementation was measured with luciferase assay using one toggle switch control by red/far red lights and a blue toggle switch control by violet/cyan pulses. The second toggle switch was designed by us so in order to get our backs we also tested a blue light inductor. The recombinases check point was prove with very good results. Many seedling were also transform transiently to have an idea of the desired implementation chassis. The final winner of the competition was spinach! Do you want to know more about what we get? <a href="https://2015.igem.org/Team:Valencia_UPV/Results">Click here!</a></p>
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<p>In the decision of the compounds to produce we did a research of the most needed biological products in areas of difficult accession. Then we decided to produce a vaccine against rotavirus, the first cause of diarrhea in low income countries. Lactoferrin, a component of human immune system able to reduce the pneumonia the first cause of deaths in undeveloped countries. Interferon, a drug usually use for hepatitis treatment which is still a matter of public health concern. And finally, cholera vaccine, a drug needed mostly after natural disasters. </p>
 
 
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<p>In order to make decoding of the information as user-friendly as possible and to assure that our project can reach most isolated places, we design a device that allows to grow seeds anywhere anytime. It consists in a small bioreactor able to irradiate seeds with the required inputs of lights in order to produce the desired compound. See more about our <a href="https://2015.igem.org/Team:Valencia_UPV/Design">magic lamp</a></p>
<h2>Idea
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<p><img class="resize" style="float: right; margin: 0px 15px 15px 0px; width:15em; vertical-align: middle;" src="https://static.igem.org/mediawiki/2015/7/77/Valencia_upv_unify.png" />So is there any object that produces utilities from raw material? Maybe a kind of Magic lamp?That is what we want to create in Valencia_UPV! Miniaturization of a factory to its minimum expression thanks to Genetic Engineering. </p>
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<div style="text-align: center;"><img width=400em src="https://static.igem.org/mediawiki/2015/7/7d/Valencia_upv_lamparabuena.png"></div> </p>
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<h2>Solution
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<p><div style="text-align: center;"><h5><b>Figure 2. Our device, the magic lamp</b></h5></div></p>
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<p>However, the development of this ambitious project in a summer is an impossible objective. So we decided to create a virtual laboratory in Minecraft. Here we can develop our project as well as any other project performed ever. It is not only a tool to recreate a laboratory, you can actually construct your pieces in a termocycler, transform your constructions, pick colonies and much more. This time we have developed the challenge of construct a cholera vaccine before your live is over by the disease. So take your constructions, and prepare yourself for what is going to happen! If you want to know more about our AladDNA mod <a href="https://2015.igem.org/Team:Valencia_UPV/Practices">click here</a></p>
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<img class="resize" style="float: left; margin: 0px 15px 15px 0px; width:15em;" src="https://static.igem.org/mediawiki/2015/a/a8/Alpha.png" />
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<div style="text-align: center;"><img width=600em src="https://static.igem.org/mediawiki/2015/4/40/Valencia_upv_safety3.png"></div></p>
In order to create lots of different products from a single media, we have designed a biological circuit that allows plants to change their metabolic pathway thanks to light stimulus. It is a two-steps optogenetically controlled cascade, activated with red or blue light.
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With this technology we can avoid using chemicals for changing the metabolic pathway and produce nearly anything we want in the cell, what is more, this can be virtually expanded to infinite, allowing the creation of several different compounds just with one machine.
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The chassis for the experiment are plants, but why plants? They need light to grow, so maybe they aren’t the best organism for optogenetics, aren’t they?
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In their primary growth steps, light is not needed, and, what is more, seeds are very resistant to unfavorable environments, so this allows us the creation of a gadget that keeps the seeds inside and which can be used in many different environments, from the dessert to the space. Just pressing a button, the gadget can be programmed to stimulate the plant with the correct sequence of light and with the enough intensity and time thanks to LEDs technology.
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We are trying to produce some small proteins such as interferon alpha, a rotavirus vaccine, a cholera vaccine and lactoferrin, compounds that can be useful in underdeveloped countries, but keep in mind that the range of possibilities is enormous.
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Circuit" class="button alt">Circuit</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Components" class="button alt">Components</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling" class="button alt">Modelling</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Results" class="button alt">Results</a></li>
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Latest revision as of 22:50, 17 September 2015

Valencia UPV iGEM 2015

Overview


The huge progress achieve during the last years in biological sciences, has created an enormous amount of information. Thus, nowadays the storage and processing of information has become a real challenge. Recently some biological storage solutions has been proposed. However, since biological systems only admit as much outputs as inputs they received, the processing issue has not been solved yet. Therefore, the creation of a biological decoder is a must and will improve the information processing.

In order to solve this issue we have design a circuit capable to produce 2n outputs, where n is the number of inputs. The circuit has been design for plant implementation and it is fed by optogenetic control elements (only two kind of light pulses at different time points). This is AladDNA, a device capable of storage information and process it very efficiently in order to make it accessible to even the most remote places. Have a look inside our circuit and click here!

The feasibility of this idea was tested by in silico modeling of the circuit showing a great operative capability. The system has a high resolution power between products with ratios from 100 to 105a.u. between each one. If you want to see the hide beauty of AladDNA click here!

Figure 1. Circuit design

Once the modeling was complete and the circuit was validated, each of the control elements were tested with transient expression in Nicotiana. The light switches implementation was measured with luciferase assay using one toggle switch control by red/far red lights and a blue toggle switch control by violet/cyan pulses. The second toggle switch was designed by us so in order to get our backs we also tested a blue light inductor. The recombinases check point was prove with very good results. Many seedling were also transform transiently to have an idea of the desired implementation chassis. The final winner of the competition was spinach! Do you want to know more about what we get? Click here!

In the decision of the compounds to produce we did a research of the most needed biological products in areas of difficult accession. Then we decided to produce a vaccine against rotavirus, the first cause of diarrhea in low income countries. Lactoferrin, a component of human immune system able to reduce the pneumonia the first cause of deaths in undeveloped countries. Interferon, a drug usually use for hepatitis treatment which is still a matter of public health concern. And finally, cholera vaccine, a drug needed mostly after natural disasters.

In order to make decoding of the information as user-friendly as possible and to assure that our project can reach most isolated places, we design a device that allows to grow seeds anywhere anytime. It consists in a small bioreactor able to irradiate seeds with the required inputs of lights in order to produce the desired compound. See more about our magic lamp

Figure 2. Our device, the magic lamp

However, the development of this ambitious project in a summer is an impossible objective. So we decided to create a virtual laboratory in Minecraft. Here we can develop our project as well as any other project performed ever. It is not only a tool to recreate a laboratory, you can actually construct your pieces in a termocycler, transform your constructions, pick colonies and much more. This time we have developed the challenge of construct a cholera vaccine before your live is over by the disease. So take your constructions, and prepare yourself for what is going to happen! If you want to know more about our AladDNA mod click here