Difference between revisions of "Part:BBa K2598038"

Revision as of 18:20, 21 October 2019

cph8+CI

This part contains red-light sensor cph8(BBa_I15010) and repressor CI(BBa_C0051) under its regulation. Together they can serve as awell-characterized red-light-activated sensor. It is part of the GRB system, see more information from RGB System

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
INCOMPATIBLE WITH RFC[12]
Illegal NheI site found at 7
Illegal NheI site found at 30
21
INCOMPATIBLE WITH RFC[21]
Illegal BglII site found at 2298
Illegal XhoI site found at 405
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

Characterization

Figure 1 shows the relationship between the wavelength of light exposed on liquid medium and the intensity of BFP, GFP and RFP E. coli expressed from left figure to right figure respectively. We got the data through flow cytometer and analyzed it to get the figure. The y-axis is the number of cells, and the x-axis is fluorescence intensity. And every color is E. coli that grows for 8 hours under the light of the corresponding wavelength. We can see E. coli has the highest blue fluorescence expression under blue light from the left graph. And We can also see E. coli has the highest green and red fluorescence expression under green light and right light from the middle and right graph respectively. So this figure proves that our system and our parts can work well.

Figure 1:Relationship between the wavelength of light exposed on liquid medium and the intensity of BFP, GFP and RFP E. coli expressed from left figure to right figure respectively

Figure 2 shows the relationship between fluorescence intensity and excitation wavelength. The x-axis is wavelength of 10h illumination. The solid medium gradually emerged and the y-axis is RGB figure of fluorescence in illuminated solid medium. This curve illustrates how our system responses to different excitation wavelength, which perfectly meets our expectation. So this figure proves that our system and our parts can work well.

Figure 2:Relationship between fluorescence intensity and excitation wavelength

Figure 3 shows colors we got from the solid medium exposed under light, in which E. coli producing fluorescent protein grows. When E .coli producing fluorescent protein are exposed under uniform light of single wavelength, the solid medium gradually emerged corresponding colors. And using color picker, we get many pure colors with predominant continuity.

Figure 3: Colors we got from the solid medium, in which E. coli producing fluorescent protein grows, exposed under light

We explored the relationship between fluorescent intensity and illumination intensity, which affects the shade of the color.

Figure 4 shows the red fluorescent intensity of E. coli under light of 620-630nm wavelength with different illumination intensity. We found when illuminated under around 961lux light, we can get the most red fluorescence. We also explore the relationship between green and blue fluorescent intensity of E. coli under light of 515-530nm wavelength and 460-470nm wavelength respectively and illumination intensity. The results are similar, that is, moderate intensity of light is most favorable for E. coli to express fluorescence.

Figure 4:The relationship between the red fluorescent intensity of E. coli under light of 620-630nm wavelength and illumination intensity

2019 Team XJTU-CHINA improvement

Overview

This year team XJTU-CHINA aim to improve a red-light-activated sensor which is part of the GRB system of 2018 team UCAS-China(Part:BBa_K2598038). This part contains red-light sensor cph8(BBa_I15010) and repressor CI (BBa_C0051) under its regulation. Base on this red-light-activated sensor, we add a CI regulated promoter - Pλ to this part and enable it to realize the function of two-phases switch (BBa_K3052030). Besides, we also added two fluorescent proteins - superfolder GFP (BBa_K3052041) and mRFP (BBa_K3052042) under the control of pomp (BBa_R0082) and Pλ(BBa_K1145005) respectively to report the expression level of each phase. Theoretically, RFP will expresses under red light and GFP expresses in the absence of red light.

Figure 1:bidirectional light-responsive switch designed by 2019 XJTU-CHINA

Characterization

The light-fluorescent circuits (see circuits) were constructed by two-step Golden Gate Assembly and were confirmed by colony PCR. The length of this fragment is 1467 bp and the following results showed the successful constructions.

Figure 1: PCR confirmation of light-fluorescent circuit

In order to validate the effectiveness of this switch, we qualitatively measure the fluorescent of this circuit at different time. Sample of DH5α E. coli transformed with BBa_K3052030 is incubated for 24 hours without red light and then continue incubating 24 hours with red light. We photographed both the sample of control group (DH5α E.coli wildtype) and experimental group(E.coli with light-fluorescent circuit ) by a fluorescence microscope at 24 hours (24 hours without light treatment) and 48 hours (24 h without light treatment and 24 h with red light treatment). The figure indicated that the bidirectional switch was functional to switch from GFP to RFP.

Figure 2:(A) The images of control group. (B)The images of experimental group which has been incubated for 24 hours without light treatment. (C)The images of experimental group which has been continually incubated with red light for 24 hours after incubating for 24 hours without light treatment. (The pictures from top to bottom represent: GFP, RFP and bright)

</div>

Furthermore, we used COFOCAL to sensitively detect GFP and RFP while switch is shifting. After the sample above had been incubated for 24 hours without light treatment, it was treated with intense red light (wavelength=640nm). After incubating for another 3 hours with red light treatment, we took out some of the sample and perform CONFOCAL imaging. The result shows that the RFP was appearing with red light treatment, which indicates this switch can be effectively triggered by red light.

Figure 3: Results from COFOCAL: (A)Images of the sample. (B)Zoomed view of a specific area. (The pictures in A and B respectively represent: (a)GFP, (b)RFP, (c)Bright, (d)Merge)

To quantitatively test the efficiency of this light switch, we decided to cultivate the cells in dark environment first and then trigger the switch with intense red light. When they had been incubated for 30 hours without red light, we start to put intense red light around the medium. During the experiment, we measured the GFP and RFP intensity of the sample every 2 hours.

Figure 4: Quantitative result of GFP and RFP fluorescent intensity of the light-controlling switch.(The blue dotted line represents the time point of starting red light treatment)

From the figure 4 we can see that the GFP intensity dropped sharply to a low and stable value in 4 hours when the sample was treated with red light, additionally the increase of RFP intensity also indicates the effectiveness of this bidirection switch.

2019 Team XJTU-CHINA improvement

Overview

This year team XJTU-CHINA aim to improve a well-characterized red-light-activated sensor which is part of the GRB system of 2018 team UCAS-China(Part:BBa_K2598038). This part contains red-light sensor cph8(BBa_I15010) and repressor CI (BBa_C0051) under its regulation. Base on this red-light-activated sensor, we add a CI regulated promoter - Pλ to this part and enable it to realize the function of two-phases switch (BBa_K3052030). Besides, we also added two fluorescent proteins - superfolder GFP (BBa_K3052041) and mRFP (BBa_K3052042) under the control of pomp (BBa_R0082) and Pλ(BBa_K1145005) respectively to report the expression level of each phase. Theoretically, RFP will expresses under red light and GFP expresses in the absence of red light.

Characterization

The light-fluorescent circuits (see circuits) were constructed by two-step Golden Gate Assembly and were confirmed by colony PCR. The length of this fragment is 1467 bp and the following results showed the successful constructions.

Figure 1: PCR confirmation of light-fluorescent circuit

In order to validate the effectiveness of this switch, we qualitatively measure the fluorescent of this circuit at different time. Sample of DH5α E. coli transformed with BBa_K3052030 is incubated for 24 hours without red light and then continue incubating 24 hours with red light. We photographed both the sample of control group (DH5α E.coli wildtype) and experimental group(E.coli with light-fluorescent circuit ) by a fluorescence microscope at 24 hours (24 hours without light treatment) and 48 hours (24 h without light treatment and 24 h with red light treatment). The figure indicated that the bidirectional switch was functional to switch from GFP to RFP.

Figure 2:(A) The images of control group. (B)The images of experimental group which has been incubated for 24 hours without light treatment. (C)The images of experimental group which has been continually incubated with red light for 24 hours after incubating for 24 hours without light treatment. (The pictures from top to bottom represent: GFP, RFP and bright)

Furthermore, we used COFOCAL to sensitively detect GFP and RFP while switch is shifting. After the sample above had been incubated for 24 hours without light treatment, it was treated with intense red light (wavelength=640nm). After incubating for another 3 hours with red light treatment, we took out some of the sample and perform CONFOCAL imaging. The result shows that the RFP was appearing with red light treatment, which indicates this switch can be effectively triggered by red light.

Figure 3: Results from COFOCAL: (A)Images of the sample. (B)Zoomed view of a specific area. (The pictures in A and B respectively represent: (a)GFP, (b)RFP, (c)Bright, (d)Merge)

To quantitatively test the efficiency of this light switch, we decided to cultivate the cells in dark environment first and then trigger the switch with intense red light. When they had been incubated for 30 hours without red light, we start to put intense red light around the medium. During the experiment, we measured the GFP and RFP intensity of the sample every 2 hours.

Figure 4: Quantitative result of GFP and RFP fluorescent intensity of the light-controlling switch.(The blue dotted line represents the time point of starting red light treatment)

From the figure 4 we can see that the GFP intensity dropped sharply to a low and stable value in 4 hours when the sample was treated with red light, additionally the increase of RFP intensity also indicates the effectiveness of this bidirection switch.

Characterization

The light-fluorescent circuits (see circuits) were constructed by two-step Golden Gate Assembly and were confirmed by colony PCR. The length of this fragment is 1467 bp and the following results showed the successful constructions.

Figure 1: PCR confirmation of light-fluorescent circuit

In order to validate the effectiveness of this switch, we qualitatively measure the fluorescent of this circuit at different time. Sample of DH5α E. coli transformed with BBa_K3052030 is incubated for 24 hours without red light and then continue incubating 24 hours with red light. We photographed both the sample of control group (DH5α E.coli wildtype) and experimental group(E.coli with light-fluorescent circuit ) by a fluorescence microscope at 24 hours (24 hours without light treatment) and 48 hours (24 h without light treatment and 24 h with red light treatment). The figure indicated that the bidirectional switch was functional to switch from GFP to RFP.

Figure 2:(A) The images of control group. (B)The images of experimental group which has been incubated for 24 hours without light treatment. (C)The images of experimental group which has been continually incubated with red light for 24 hours after incubating for 24 hours without light treatment. (The pictures from top to bottom represent: GFP, RFP and bright)

Furthermore, we used COFOCAL to sensitively detect GFP and RFP while switch is shifting. After the sample above had been incubated for 24 hours without light treatment, it was treated with intense red light (wavelength=640nm). After incubating for another 3 hours with red light treatment, we took out some of the sample and perform CONFOCAL imaging. The result shows that the RFP was appearing with red light treatment, which indicates this switch can be effectively triggered by red light.

Figure 3: Results from COFOCAL: (A)Images of the sample. (B)Zoomed view of a specific area. (The pictures in A and B respectively represent: (a)GFP, (b)RFP, (c)Bright, (d)Merge)

To quantitatively test the efficiency of this light switch, we decided to cultivate the cells in dark environment first and then trigger the switch with intense red light. When they had been incubated for 30 hours without red light, we start to put intense red light around the medium. During the experiment, we measured the GFP and RFP intensity of the sample every 2 hours.

Figure 4: Quantitative result of GFP and RFP fluorescent intensity of the light-controlling switch.(The blue dotted line represents the time point of starting red light treatment)

From the figure 4 we can see that the GFP intensity dropped sharply to a low and stable value in 4 hours when the sample was treated with red light, additionally the increase of RFP intensity also indicates the effectiveness of this bidirection switch.

@@ Line 40: / Line 40: @@
+==2019 Team XJTU-CHINA improvement==
+===Overview===
+This year team XJTU-CHINA aim to improve a red-light-activated sensor which is part of the GRB system of 2018 team UCAS-China(Part:BBa_K2598038). This part contains red-light sensor cph8(BBa_I15010) and repressor CI (BBa_C0051) under its regulation.
+Base on this red-light-activated sensor, we add a CI regulated promoter - Pλ to this part and enable it to realize the function of two-phases switch (BBa_K3052030). Besides, we also added two fluorescent proteins - superfolder GFP (BBa_K3052041) and mRFP (BBa_K3052042) under the control of pomp (BBa_R0082) and Pλ(BBa_K1145005) respectively to report the expression level of each phase. Theoretically, RFP will expresses under red light and GFP expresses in the absence of red light.
+<div>[[File:T--XJTU-CHINA--CIRCUIT.png |700px|thumb|center|<b>Figure 1:</b>bidirectional light-responsive switch designed by 2019 XJTU-CHINA]]</div>
+===Characterization===
+The light-fluorescent circuits (see circuits) were constructed by two-step Golden Gate Assembly and were confirmed by colony PCR. The length of this fragment is 1467 bp and the following results showed the successful constructions.
+<div>[[File:T--XJTU-CHINA--CPCR.png |700px|thumb|center|<b>Figure 1:</b> PCR confirmation of light-fluorescent circuit]]</div>
+In order to validate the effectiveness of this switch, we qualitatively measure the fluorescent of this circuit at different time. Sample of DH5α E. coli transformed with BBa_K3052030 is incubated for 24 hours without red light and then continue incubating 24 hours with red light. We photographed both the sample of control group (DH5α E.coli wildtype) and experimental group(E.coli with light-fluorescent circuit ) by a fluorescence microscope at 24 hours (24 hours without light treatment) and 48 hours (24 h without light treatment and 24 h with red light treatment). The figure indicated that the bidirectional switch was functional to switch from GFP to RFP.
+<div>[[File:T--XJTU-CHINA--FLU.png |700px|thumb|center|<b>Figure 2:(A) The images of control group. (B)The images of experimental group which has been incubated for 24 hours without light treatment. (C)The images of experimental group which has been continually incubated with red light for 24 hours after incubating for 24 hours without light treatment. (The pictures from top to bottom represent: GFP, RFP and bright)]]</div>
+Furthermore, we used COFOCAL to sensitively detect GFP and RFP while switch is shifting. After the sample above had been incubated for 24 hours without light treatment, it was treated with intense red light (wavelength=640nm). After incubating for another 3 hours with red light treatment, we took out some of the sample and perform CONFOCAL imaging. The result shows that the RFP was appearing with red light treatment, which indicates this switch can be effectively triggered by red light.
+<div>[[File:T--XJTU-CHINA--COFOCAL.png |700px|thumb|center|<b>Figure 3:</b> Results from COFOCAL: (A)Images of the sample. (B)Zoomed view of a specific area. (The pictures in A and B respectively represent: (a)GFP, (b)RFP, (c)Bright, (d)Merge) ]]</div>
+To quantitatively test the efficiency of this light switch, we decided to cultivate the cells in dark environment first and then trigger the switch with intense red light. When they had been incubated for 30 hours without red light, we start to put intense red light around the medium. During the experiment, we measured the GFP and RFP intensity of the sample every 2 hours.
+<div>[[File:T--XJTU-CHINA--QUA.png |700px|thumb|center|<b>Figure 4:</b> Quantitative result of GFP and RFP fluorescent intensity of the light-controlling switch.(The blue dotted line represents the time point of starting red light treatment)]]</div>
+From the figure 4 we can see that the GFP intensity dropped sharply to a low and stable value in 4 hours when the sample was treated with red light, additionally the increase of RFP intensity also indicates the effectiveness of this bidirection switch.
@@ Line 48: / Line 78: @@
 This year team XJTU-CHINA aim to improve a well-characterized red-light-activated sensor which is part of the GRB system of 2018 team UCAS-China(Part:BBa_K2598038). This part contains red-light sensor cph8(BBa_I15010) and repressor CI (BBa_C0051) under its regulation.
 Base on this red-light-activated sensor, we add a CI regulated promoter - Pλ to this part and enable it to realize the function of two-phases switch (BBa_K3052030). Besides, we also added two fluorescent proteins - superfolder GFP (BBa_K3052041) and mRFP (BBa_K3052042) under the control of pomp (BBa_R0082) and Pλ(BBa_K1145005) respectively to report the expression level of each phase. Theoretically, RFP will expresses under red light and GFP expresses in the absence of red light.
+===Characterization===
+The light-fluorescent circuits (see circuits) were constructed by two-step Golden Gate Assembly and were confirmed by colony PCR. The length of this fragment is 1467 bp and the following results showed the successful constructions.
+<div>[[File:T--XJTU-CHINA--CPCR.png |700px|thumb|center|<b>Figure 1:</b> PCR confirmation of light-fluorescent circuit]]</div>
+In order to validate the effectiveness of this switch, we qualitatively measure the fluorescent of this circuit at different time. Sample of DH5α E. coli transformed with BBa_K3052030 is incubated for 24 hours without red light and then continue incubating 24 hours with red light. We photographed both the sample of control group (DH5α E.coli wildtype) and experimental group(E.coli with light-fluorescent circuit ) by a fluorescence microscope at 24 hours (24 hours without light treatment) and 48 hours (24 h without light treatment and 24 h with red light treatment). The figure indicated that the bidirectional switch was functional to switch from GFP to RFP.
+<div>[[File:T--XJTU-CHINA--FLU.png |700px|thumb|center|<b>Figure 2:(A) The images of control group. (B)The images of experimental group which has been incubated for 24 hours without light treatment. (C)The images of experimental group which has been continually incubated with red light for 24 hours after incubating for 24 hours without light treatment. (The pictures from top to bottom represent: GFP, RFP and bright)]]</div>
+Furthermore, we used COFOCAL to sensitively detect GFP and RFP while switch is shifting. After the sample above had been incubated for 24 hours without light treatment, it was treated with intense red light (wavelength=640nm). After incubating for another 3 hours with red light treatment, we took out some of the sample and perform CONFOCAL imaging. The result shows that the RFP was appearing with red light treatment, which indicates this switch can be effectively triggered by red light.
+<div>[[File:T--XJTU-CHINA--COFOCAL.png |700px|thumb|center|<b>Figure 3:</b> Results from COFOCAL: (A)Images of the sample. (B)Zoomed view of a specific area. (The pictures in A and B respectively represent: (a)GFP, (b)RFP, (c)Bright, (d)Merge) ]]</div>
+To quantitatively test the efficiency of this light switch, we decided to cultivate the cells in dark environment first and then trigger the switch with intense red light. When they had been incubated for 30 hours without red light, we start to put intense red light around the medium. During the experiment, we measured the GFP and RFP intensity of the sample every 2 hours.
+<div>[[File:T--XJTU-CHINA--QUA.png |700px|thumb|center|<b>Figure 4:</b> Quantitative result of GFP and RFP fluorescent intensity of the light-controlling switch.(The blue dotted line represents the time point of starting red light treatment)]]</div>
+From the figure 4 we can see that the GFP intensity dropped sharply to a low and stable value in 4 hours when the sample was treated with red light, additionally the increase of RFP intensity also indicates the effectiveness of this bidirection switch.
 ===Characterization===