Difference between revisions of "Team:Grenoble-Alpes/biology"

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<p id="titre-image">PROJECT</p>
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<p id="titre-image">BIOLOGY</p>
 
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<a href="https://2018.igem.org/Team:Grenoble-Alpes/team">TEAM</a>
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<a href="https://2018.igem.org/Team:Grenoble-Alpes/project" id="current-menu">PROJECT </a>
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<a href="https://2018.igem.org/Team:Grenoble-Alpes/phage_lysis">PHAGE LYSIS & DNA EXTRACTION</a>
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MODELLING
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<h2>Project Abstract</h2>
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<p>This year, iGEM Grenoble-Alpes worked on the creation of a fully automated system capable of detecting pathogenic bacteria. This diagram below represents all the work that was done prior to the system design. </p><p>First of all, we had to <b><a href="https://2018.igem.org/Team:Grenoble-Alpes/hybridation">choose which pathogenic bacteria</a></b> we wanted to detect. This choice had to be coherent with the problematic approached. Actually, antibiotic resistance is a growing major concern and Pseudomonas aeruginosa is one of the most problematic bacterium nowadays. After choosing the bacteria we wanted to make our proof of concept on, we got familiar with how bacteriophages work as an alternative to antibiotics and how to use then to <b><a href="https://2018.igem.org/Team:Grenoble-Alpes/phage_lysis">extract the DNA</a></b> of our bacteria of interest.
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<p> Bacteriophages are viruses that kill specifically - and with a relative efficiency - strains from a bacterial species. They are thus a viable alternative to antibiotics that our fully automated device aims to promote.
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</p><p>After the bacteria choice, the next question was: What do we want to detect? So a <b><a href="https://2018.igem.org/Team:Grenoble-Alpes/selection">target selection </a></b>work using bioinformatics was made.
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</p><p> Our project is designed to: identify a pathogenic bacterium; detect if this bacterium presents an antibiotic resistance marker; select the most effective phages for a therapy. As a proof of concept, we targeted Pseudomonas aeruginosa, a bacteria causing opportunistic lung infections in immunosuppressed patient.
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</p><p>Finally, the last step was the probe design leading to the <b><a href="https://2018.igem.org/Team:Grenoble-Alpes/construction">probe construction</a></b>. All these steps will be described in more details later.  
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</p><p> We created DNA probes targeting a housekeeping gene and an antibiotic marker of PAO1. In parallel, we automated the different processes required for detection with DNA probes: from the DNA extraction after lysis to a fluorescence measurement via a bacterial transformation. </p><p> Hence, untrained healthcare professionals will eventually be able to take a sample from a patient, run it through our system, wait for a few hours and get information to decide of a therapy.</p>
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</p><p>In parallel to the detection probes, we thought about the <b><a href="https://2018.igem.org/Team:Grenoble-Alpes/conservation">component conservation</a></b> in the system. To do so, conservation and freeze-dry tests were realized on the DNA, enzymes and the bacteria in the system.
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</p><p>All these points are essential for the efficiency of the detection system.
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</p>
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<img src="https://static.igem.org/mediawiki/2018/a/a2/T--Grenoble-Alpes--probe.png" id="cellule6" class="cellule"></a></div>
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Latest revision as of 17:11, 17 October 2018

Template loop detected: Template:Grenoble-Alpes

BIOLOGY


This year, iGEM Grenoble-Alpes worked on the creation of a fully automated system capable of detecting pathogenic bacteria. This diagram below represents all the work that was done prior to the system design.

First of all, we had to choose which pathogenic bacteria we wanted to detect. This choice had to be coherent with the problematic approached. Actually, antibiotic resistance is a growing major concern and Pseudomonas aeruginosa is one of the most problematic bacterium nowadays. After choosing the bacteria we wanted to make our proof of concept on, we got familiar with how bacteriophages work as an alternative to antibiotics and how to use then to extract the DNA of our bacteria of interest.

After the bacteria choice, the next question was: What do we want to detect? So a target selection work using bioinformatics was made.

Finally, the last step was the probe design leading to the probe construction. All these steps will be described in more details later.

In parallel to the detection probes, we thought about the component conservation in the system. To do so, conservation and freeze-dry tests were realized on the DNA, enzymes and the bacteria in the system.

All these points are essential for the efficiency of the detection system.