Difference between revisions of "Part:BBa K3239007:Experience"

Revision as of 03:47, 16 October 2019

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Applications of BBa_K3239007

We labeled our strains containing this construct AOX1-GFP and used it as the positive control of our data.

Methods

The following data were acquired after 108h 50mL YNM (1.34% yeat nitrogenous base with 0.5% methanol, 50µg/mL histidine and 40µg/mL biotin) incubation, sampled every 12h. The starting concentration was 1 OD600.
0.5%Methanol was added to the media every 24 hours to maintain the methanol concentration.
A short-term methanol induction experiment was performed after the 108h incubation to characterize the instant response to methanol induction after the yeast cells are accustomed to methanol media. The yeast cells were collected, rinsed and stored at 4˚C overnight to allow GFP to fully degrade. The strains were then incubated in higher-concentration 50mL YNM media (1.34% yeat nitrogenous base with 0.5% methanol, 50µg/mL histidine and 0.4µg/mL biotin) for 12 hours and sampled every 2 hours. The starting concentration was 3 OD600.
Three parallels were performed for each strain.

We used a Biotek Synergy 2 plate reader to measure the GFP mean fluorescence intensities and the OD600 absorbance of our samples.
Methanol concentration measurements were performed with a Shenzhen Sieman M100 Biosensors Analyzer.

Figure 1. AOX1-GFP cell concentration curve during the 108h incubation period

Figure 2. AOX1-GFP measured unit cell GFP curve during the 108h incubation period

Figure 3. AOX1-GFP aggregate unit cell GFP curve during the 108h incubation period

Figure 4. AOX1-GFP total GFP production curve during the 108h incubation period

Figure 5. AOX1-GFP total methanol consumption during the 108h incubation period

Figure 6. AOX1-GFP total GFP production per gram methanol during the 108h incubation period

Data

OD600 is used as an indicator of yeast concentration in the experiment.
Measured unit cell GFP is the ratio of the GFP mean fluorescence intensities to the 0D600 absorbance measured by the plate reader. It shall serve as an indicator of the expression level of AOX1 at the sampled time point.
Aggregate unit cell GFP is the calculated total unit cell GFP fluorescence intensity. It accounts for the GFP that has degraded over the incubation period to more accurately reflect the production rate.
Total GFP production is the product of the yeast concentration and the aggregate unit cell GFP. It reflects the total GFP production of the reaction system of the strain.
Total GFP production per gram methanol is the ratio of the total GFP production to the total methanol consumption. It reflects the overall conversion rate of methanol to the product.

For teams wishing to compare their data to ours, we provided our raw data along with our plate reader calibration data in our wiki. Feel free to give it a check!

User Reviews

UNIQ4fdf6b04f5780ac1-partinfo-00000000-QINU UNIQ4fdf6b04f5780ac1-partinfo-00000001-QINU

@@ Line 10: / Line 10: @@
 '''Methods'''
 *The following data were acquired after 108h 50mL YNM (1.34% yeat nitrogenous base with 0.5% methanol, 50µg/mL histidine and 40µg/mL biotin) incubation, sampled every 12h. The starting concentration was 1 OD600.
-*Methanol was added to the media every 24 hours to maintain the methanol concentration.
+*0.5%Methanol was added to the media every 24 hours to maintain the methanol concentration.
 *A short-term methanol induction experiment was performed after the 108h incubation to characterize the instant response to methanol induction after the yeast cells are accustomed to methanol media. The yeast cells were collected, rinsed and stored at 4˚C overnight to allow GFP to fully degrade. The strains were then incubated in higher-concentration 50mL YNM media (1.34% yeat nitrogenous base with 0.5% methanol, 50µg/mL histidine and 0.4µg/mL biotin) for 12 hours and sampled every 2 hours. The starting concentration was 3 OD600.
 *Three parallels were performed for each strain.
-*We used a Biotek Synergy 2 plate reader to measure the GFP geometric-mean intensities and the OD600 absorbance of our samples.
+*We used a Biotek Synergy 2 plate reader to measure the GFP mean fluorescence intensities and the OD600 absorbance of our samples.
 *Methanol concentration measurements were performed with a Shenzhen Sieman M100 Biosensors Analyzer.
-[[File:YeastOD600(24h)AOX1-GFP.png|200px|thumb|Figure 1. AOX1-GFP cell concentration curve during the 108h incubation period]]
+[[File:Yeast Concentration(108h)AOX1-GFP.png|200px|thumb|Figure 1. AOX1-GFP cell concentration curve during the 108h incubation period]]
-[[File:Measured unit cell GFP(24h)AOX1-GFP.png|200px|thumb|Figure 2. AOX1-GFP measured unit cell GFP curve during the 108h incubation period]]
+[[File:Measured unit cell GFP(108h)AOX1-GFP.png|200px|thumb|Figure 2. AOX1-GFP measured unit cell GFP curve during the 108h incubation period]]
 [[File:Aggregate unit cell GFP(108h)AOX1-GFP.png|200px|thumb|Figure 3. AOX1-GFP aggregate unit cell GFP curve during the 108h incubation period]]
+[[File:Total GFP production(108h)AOX1-GFP.png|200px|thumb|Figure 4. AOX1-GFP total GFP production curve during the 108h incubation period]]
+[[File:Total methanol consumption(108h)AOX1-GFP.png|200px|thumb|Figure 5. AOX1-GFP total methanol consumption during the 108h incubation period]]
+[[File:Total GFP production per gram methanol(108h)AOX1-GFP.png|200px|thumb|Figure 6. AOX1-GFP total GFP production per gram methanol during the 108h incubation period]]
@@ Line 28: / Line 29: @@
 '''Data'''
 *OD600 is used as an indicator of yeast concentration in the experiment.
-*Measured unit cell GFP is the ratio of the geometric mean of the GFP fluorescence intensities to the 0D600 absorbance measured by the plate reader. It shall serve as an indicator of the expression level of AOX1 at the sampled time point.
+*Measured unit cell GFP is the ratio of the GFP mean fluorescence intensities to the 0D600 absorbance measured by the plate reader. It shall serve as an indicator of the expression level of AOX1 at the sampled time point.
 *Aggregate unit cell GFP is the calculated total unit cell GFP fluorescence intensity. It accounts for the GFP that has degraded over the incubation period to more accurately reflect the production rate.
 *Total GFP production is the product of the yeast concentration and the aggregate unit cell GFP. It reflects the total GFP production of the reaction system of the strain.
 *Total GFP production per gram methanol is the ratio of the total GFP production to the total methanol consumption. It reflects the overall conversion rate of methanol to the product.
+*For teams wishing to compare their data to ours, we provided our raw data along with our plate reader calibration data in our wiki. Feel free to give it a check!