The University of Warwick iGEM team is proud to participate in this year’s Interlab study. The aim of the Interlab study is to analyse the measurement of fluorescence in labs across the world. This will allow determination of whether comparable results can be gathered to characterise devices using an identical protocol, but different lab equipment and techniques.
Having absolute units of measurement in engineering simplifies the comparison of sets of results, making collaboration between different research groups a far easier process. However, in biology, variance in growth conditions and subtle differences in lab technique renders absolute measurement of aspects of cell biology, such as fluorescence, very difficult to achieve. This is often overcome by using relative expression as a comparison, but this makes interpretations of results across labs subjective, limiting the reliability of device comparisons made by synthetic biologists. In the interest of making synthetic biology more of an engineering discipline, it is important that absolute measurements of expression be invented and standardised across labs.
Our team participated in this study using the plate reader protocol distributedhere:
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<a href="https://2016.igem.org/Team:Warwick/Human_Practices">Human Practices</a> | <a href="https://2016.igem.org/Team:Warwick/Human_Practices">Human Practices</a> | ||
| − | <a href="https://2016.igem.org/Team:Warwick/ | + | <div class="dropdown-content"> |
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| + | <a href="https://2016.igem.org/Team:Warwick/HP/Gold">Gold</a> | ||
| + | <a href="https://2016.igem.org/Team:Warwick/Integrated_Practices">Integrated Practices</a> | ||
| + | <a href="https://2016.igem.org/Team:Warwick/Education">Education</a> | ||
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<h1>Interlab</h1> | <h1>Interlab</h1> | ||
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| + | <section id="three" class="wrapper special"> | ||
| + | <div class="inner"> | ||
| + | <header class="align-center"> | ||
| + | <h2>Introduction</h2> | ||
| + | </header> | ||
| + | <div class="flex flex-2"> | ||
| + | <article class="nopicture"> | ||
| + | <p>The University of Warwick iGEM team is proud to participate in this year’s Interlab study. The aim of the Interlab study is to analyse the measurement of fluorescence in labs across the world. This will allow determination of whether comparable results can be gathered to characterise devices using an identical protocol, but different lab equipment and techniques.<br /><br /> | ||
| + | Having absolute units of measurement in engineering simplifies the comparison of sets of results, making collaboration between different research groups a far easier process. However, in biology, variance in growth conditions and subtle differences in lab technique renders absolute measurement of aspects of cell biology, such as fluorescence, very difficult to achieve. This is often overcome by using relative expression as a comparison, but this makes interpretations of results across labs subjective, limiting the reliability of device comparisons made by synthetic biologists. In the interest of making synthetic biology more of an engineering discipline, it is important that absolute measurements of expression be invented and standardised across labs.<br /><br /> | ||
| + | Our team participated in this study using the plate reader protocol distributed<a href="https://2016.igem.org/Tracks/Measurement/Interlab_study/Plate_Reader_Overview">here</a>: | ||
| + | </p> | ||
| + | </article> | ||
| + | </div> | ||
| + | </div> | ||
| + | </section> | ||
| + | |||
| + | <section id="three" class="wrapper style1 special"> | ||
| + | <div class="inner"> | ||
| + | <header class="align-center"> | ||
| + | <h2>Results</h2> | ||
| + | </header> | ||
| + | <div class="flex flex-2"> | ||
| + | <article class="nopicture"> | ||
| + | <img src="https://static.igem.org/mediawiki/2016/9/91/T--Warwick--Interlab1.png"> | ||
| + | <p>Figure 1: Plot of OD600 measurements for Interlab devices, controls, and replicates over a time period of 6 hours<br /><br />As shown by Figure 1, devices 2, 3, and the positive and negative controls have similar growth curves. This suggests that when present in the cells, these devices had no influence on replication ability. However, device 1 had a far lower growth curve, peaking at an OD600 of about 0.26 after 6 hours - a 66% reduction compared to the other constructs that had maximum readings exceeding 0.76.<br /><br /></p> | ||
| + | <img src="https://static.igem.org/mediawiki/2016/a/a3/T--Warwick--Interlab2.png"> | ||
| + | <p>Figure 2: Plot of GFP fluorescence measured with an excitation of 465 nm and emission of 530 nm, over the course of 6 hours for Interlab devices, controls, and replicates<br /><br />Figure 2 indicates that device 1 produced the greatest fluorescence over the 6 hour time period, producing values 74.5% higher than the positive control. In contrast, device 2 only produced 28% more fluorescence than the positive control. Device 3 generated the lowest amount of GFP expression of the three devices tested, with fluorescence comparable to the negative control.<br /><br />From Figure 3: comparing OD600 to fluorescence is only valid when comparing points where each transformed cell is in exponential phase. For this, only the results from 6 hours will be compared as each cell population is in exponential phase at this point. Device 1 provides the highest F/Abs600, a 424% increase over the positive control. Device 2 has an F/Abs600 32% higher than the positive control. Device 3 has an F/Abs600 97% lower than the positive control, comparable to the negative control.</p> | ||
| + | <img src="https://static.igem.org/mediawiki/2016/d/dc/T--Warwick--Interlab3.png"> | ||
| + | <p>Figure 3: Graph representing the ratio of fluorescence to growth for each Interlab device</p> | ||
| + | </article> | ||
| + | </div> | ||
| + | </div> | ||
| + | </section> | ||
| + | |||
| + | <section id="three" class="wrapper special"> | ||
| + | <div class="inner"> | ||
| + | <header class="align-center"> | ||
| + | <h2>Conclusion</h2> | ||
| + | </header> | ||
| + | <div class="flex flex-2"> | ||
| + | <article class="nopicture"> | ||
| + | <p>Device 1 produces the most fluorescence per cell, to the extent that a lower concentration of device 1 cells still generate the greatest GFP expression than higher concentrations of any of the other constructs tested. However, this high expression rate limits the growth ability of the system to a third of the normal growth. | ||
| + | Device 2 produces 32% more fluorescence per cell than the positive control, whilst maintaining a similar growth curve.<br /><br /> | ||
| + | Device 3, while maintaining the normal growth curve, produces very little fluorescence, only marginally more than the negative control.<br /><br /> | ||
| + | In systems where it is important to maximize fluorescence over growth, device 1 is a good candidate for GFP production. On the other hand, in systems where maintaining growth is equally important it would be far better to use device 2. Device 3 is an unsuitable candidate for GFP production in every conceivable system, due to poor rate of expression. | ||
| + | </p> | ||
| + | </article> | ||
| + | </div> | ||
| + | </div> | ||
| + | </section> | ||
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| − | © Warwick | + | © Warwick iGEM 2016. |
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<li><a href="https://www.facebook.com/WarwickIGEM" class="logo" ><img src="https://static.igem.org/mediawiki/2016/6/6f/T--Warwick--Facebook.png" alt="Facebook" class="logo"> | <li><a href="https://www.facebook.com/WarwickIGEM" class="logo" ><img src="https://static.igem.org/mediawiki/2016/6/6f/T--Warwick--Facebook.png" alt="Facebook" class="logo"> | ||
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| − | <a href="https://2016.igem.org/Team:Warwick" class="logo" > | + | <p>We thankfully acknowledge generous funding support from our sponsors below.</p> |
| + | <a href="https://2016.igem.org/Team:Warwick/Attributions" class="logo" > | ||
<img src="https://static.igem.org/mediawiki/2016/f/f6/T--Warwick--banner.png" alt="IGEM WARWICK" class="bannertop"> | <img src="https://static.igem.org/mediawiki/2016/f/f6/T--Warwick--banner.png" alt="IGEM WARWICK" class="bannertop"> | ||
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Latest revision as of 03:01, 20 October 2016
Introduction
Results
Figure 1: Plot of OD600 measurements for Interlab devices, controls, and replicates over a time period of 6 hours
As shown by Figure 1, devices 2, 3, and the positive and negative controls have similar growth curves. This suggests that when present in the cells, these devices had no influence on replication ability. However, device 1 had a far lower growth curve, peaking at an OD600 of about 0.26 after 6 hours - a 66% reduction compared to the other constructs that had maximum readings exceeding 0.76.
Figure 2: Plot of GFP fluorescence measured with an excitation of 465 nm and emission of 530 nm, over the course of 6 hours for Interlab devices, controls, and replicates
Figure 2 indicates that device 1 produced the greatest fluorescence over the 6 hour time period, producing values 74.5% higher than the positive control. In contrast, device 2 only produced 28% more fluorescence than the positive control. Device 3 generated the lowest amount of GFP expression of the three devices tested, with fluorescence comparable to the negative control.
From Figure 3: comparing OD600 to fluorescence is only valid when comparing points where each transformed cell is in exponential phase. For this, only the results from 6 hours will be compared as each cell population is in exponential phase at this point. Device 1 provides the highest F/Abs600, a 424% increase over the positive control. Device 2 has an F/Abs600 32% higher than the positive control. Device 3 has an F/Abs600 97% lower than the positive control, comparable to the negative control.
Figure 3: Graph representing the ratio of fluorescence to growth for each Interlab device
Conclusion
Device 1 produces the most fluorescence per cell, to the extent that a lower concentration of device 1 cells still generate the greatest GFP expression than higher concentrations of any of the other constructs tested. However, this high expression rate limits the growth ability of the system to a third of the normal growth.
Device 2 produces 32% more fluorescence per cell than the positive control, whilst maintaining a similar growth curve.
Device 3, while maintaining the normal growth curve, produces very little fluorescence, only marginally more than the negative control.
In systems where it is important to maximize fluorescence over growth, device 1 is a good candidate for GFP production. On the other hand, in systems where maintaining growth is equally important it would be far better to use device 2. Device 3 is an unsuitable candidate for GFP production in every conceivable system, due to poor rate of expression.
