Difference between revisions of "Team:USP-EEL-Brazil/InterLab"

Latest revision as of 01:02, 18 October 2018

Introduction

IGEM is an international Synthetic Biology competition, which aims to set up standard protocols that work in any laboratory on the planet. To manage this task, Interlab Study was created, inviting all teams to participate by performing the same experiment: making measures of the Green Fluorescent Protein (GFP) to determine the feasible cell population.

In order to determine cell population, scientists usually use spectrophotometry to measure cells culture absorbance in 600 nm, and through it, the optical density (OD) can be obtained. So, theoretically, the higher cells number the higher OD. However, the values of OD obtained are under high variability, because of different calibration and precision between labs equipment, different glassware size, and other lab-to-lab factors. In addition, through this methodology, it isn’t possible to separate dead from feasible cells.

In this sense, to respond to all the problems above, the methodology of measuring GFP is another way to determine feasible cells, once the dead ones will not express GFP. Through the GFP measurement methodology, the Measurement Committee wants our help to answer the following question:

‘’Can we reduce lab-to-lab variability in fluorescence measurements by normalizing to absolute cell count or colony-forming units (CFUs) instead of OD?‘’

In order to help on the achievement of this goal, Team USP-EEL-Brazil participeted on the Interlab Study, following the standart protocol (Plate Reader and CFU Protocol) and sendding the results to iGEM's Measurement committee.

Our contribution

We couldn’t follow the complete protocol due to the lack of proper equipment. The TECAN in our lab doesn't have the settings for fluorescence measurements and we only discovered that in the middle of our experiments. Fortunately, the Measurement Committee accepted our results.

As for other difficulties we faced, the experiments took longer than we expected and a too much material was used to perform them. In overall, the Interlab worked as a training for our lab team, members that didn’t have much experience in our lab got familiar with the procedures of the place.

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 <h4>Introduction</h4>
-<p style=" margin-bottom: 50px; text-align: justify;     text-indent: 3%;">IGEM is an international Synthetic Biology competition, which aims to set up standard protocols that work in any laboratory on the planet. To manage this task, Interlab Study was created, inviting all teams to participate by performing the same experiment: making measures of the Green Fluorescent Protein (GFP) to determine the feasible cell population. </p>
+<p style=" margin-bottom: 30px; text-align: justify;     text-indent: 5%;">IGEM is an international Synthetic Biology competition, which aims to set up standard protocols that work in any laboratory on the planet. To manage this task, Interlab Study was created, inviting all teams to participate by performing the same experiment: making measures of the Green Fluorescent Protein (GFP) to determine the feasible cell population. </p>
-<p style=" margin-bottom: 50px; text-align: justify;     text-indent: 3%; ">In order to determine cell population, scientists usually use spectrophotometry to measure cells culture absorbance in 600 nm, and through it, the optical density (OD) can be obtained. So, theoretically, the higher cells number the higher OD. However, the values of OD obtained are under high variability, because of different calibration and precision between labs equipment, different glassware size, and other lab-to-lab factors. In addition, through this methodology, it isn’t possible to separate dead from feasible cells.
+<p style=" margin-bottom: 30px; text-align: justify;     text-indent: 5%; ">In order to determine cell population, scientists usually use spectrophotometry to measure cells culture absorbance in 600 nm, and through it, the optical density (OD) can be obtained. So, theoretically, the higher cells number the higher OD. However, the values of OD obtained are under high variability, because of different calibration and precision between labs equipment, different glassware size, and other lab-to-lab factors. In addition, through this methodology, it isn’t possible to separate dead from feasible cells.
 </p>
-<p style=" margin-bottom: 50px; text-align: justify;     text-indent: 3%; ">In this sense, to respond to all the problems above, the methodology of measuring GFP is another way to determine feasible cells, once the dead ones will not express GFP. Through the GFP measurement methodology, the Measurement Committee wants our help to answer the following question:
+<p style=" margin-bottom: 30px; text-align: justify;     text-indent: 5%; ">In this sense, to respond to all the problems above, the methodology of measuring GFP is another way to determine feasible cells, once the dead ones will not express GFP. Through the GFP measurement methodology, the Measurement Committee wants our help to answer the following question:
 </p>
-<p style=" margin-bottom: 50px; text-align:center;"><i>‘’Can we reduce lab-to-lab variability in fluorescence measurements by normalizing to absolute cell count or colony-forming units (CFUs) instead of OD?‘’</i>
+<p style=" margin-bottom: 30px; text-align:center;"><i>‘’Can we reduce lab-to-lab variability in fluorescence measurements by normalizing to absolute cell count or colony-forming units (CFUs) instead of OD?‘’</i>
 </p>
-<p style=" margin-bottom: 50px; text-align: justify;     text-indent: 3%; ">In order to help on the achievement of this goal, Team USP-EEL-Brazil participeted on the Interlab Study, following the standart protocol and sendding the results to iGEM's Measurement committee.</p></div>
+<p style=" margin-bottom: 30px; text-align: justify;     text-indent: 3%; ">In order to help on the achievement of this goal, Team USP-EEL-Brazil participeted on the Interlab Study, following the standart protocol (<a href="https://2018.igem.org/Measurement/InterLab/Plate_Reader">Plate Reader and CFU Protocol</a>) and sendding the results to iGEM's Measurement committee.</p></div>
 <div class="margin" style="  text-align: left; ">
 <h4>Our contribution</h4>
-<p style=" margin-bottom: 50px; text-align: justify;     text-indent: 5%;">Interlab was the longer protocol we did. We started on our vacation (in the end of July) and it helped us, because on this period we have more time to do the experiments. The protocol waste a lot of materials, like Petri plates (this protocol turned us on masters of plating). We were doing the protocol when we saw that our equipment doesn’t measure fluorescence. Despite this, we continued to execute the experiments to get the others measure that was possible to us. We took this measures and sent our interlab. Fortunately, the committee accepted our results and validated our interlab. </p>
+<p style=" margin-bottom: 30px; text-align: justify;     text-indent: 5%;">We couldn’t follow the complete protocol due to the lack of proper equipment. The TECAN in our lab doesn't have the settings for fluorescence measurements and we only discovered that in the middle of our experiments. Fortunately, the Measurement Committee accepted our results.
+<p style=" margin-bottom: 30px; text-align: justify;     text-indent: 5%;">As for other difficulties we faced, the experiments took longer than we expected and a too much material was used to perform them. In overall, the Interlab worked as a training for our lab team, members that didn’t have much experience in our lab got familiar with the procedures of the place.  </p>
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