Difference between revisions of "Part:BBa K1104205"

Latest revision as of 22:39, 4 October 2013

AhpCp2

AhpCp2 is a ROS-induced promoter controlled by OxyR (transcription factor)which is activated by ROS (Reactive Oxygen Species).

AhpCp2 is composed of AhpCp2 promoter and a dual-TFBS (Transcription Factor Binding Site) for OxyR binding.

Mutation of ahpC promoter(Part:K362001)

OxyR is activator of AhpCp2 promoter. More details about OxyR can be found on the PartRegistry page: Part:BBa_K1104200.

Improvement

We improved a BioBrick Part: ahpC promoter (Part:K362001) designed by [http://2010.igem.org/Team:KIT-Kyoto/Parts 2010 KIT-Tokyo team]. On PartRegistry, the complex part(according to [http://ecocyc.org/ECOLI/new-image?object=EG11384 Ecocyc]) composition contains hybrid promoters, shared TFBS (Transcription Factor Binding Site), and reverse promoter DsbG. In this part AhpCp2, we succesfully seperated AhpCp2(TFBS included) out of ahpC promoter (Part:K362001).

ahpC promoter, as well as its improvement, can be activated by OxyR (Part:BBa_K1104200).

How ahpC (Part:BBa_K362001) is improved?

In this part, we succesfully seperated AhpCp2(TFBS included) out of ahpC promoter (Part:K362001).

We annotated it thouroughly based on data from ([http://ecocyc.org/ECOLI/new-image?object=EG11384 Ecocyc]), and found that it contains dsbG coding sequence, AhpCp2 (Part:BBa_K1104205), reverse promoter DsbGp (Part:BBa_K1104208),and AhpCp1 (Part:BBa_K1104207), and a PstI cutting site. Thus we improved the promoter by extracting the AhpCp2(TFBS included).

Here is the overview about the other ahpC promoter (Part:BBa_K362001) improvements:

AhpCp1000 (Part:BBa_K1104203): The PstI cutting site is mutated.
AhpCp2D1 (Part:BBa_K1104204): After mutating the PstI cutting site, the truncated coding sequence from the DsbG promoter sequence is removed.
AhpCpD1 (Part:BBa_K1104206): Bidirectional promoter: AhpCp1 and DsbGp(reverse promoter), and their shared TFBS.
AhpCp1 (Part:BBa_K1104207): Only one promoter(AhpCp1) and its TFBS.
DsbGp (Part:BBa_K1104208): Only the reverse promoter(DsbGp) and its TFBS.

Usage and Biology

We designed circuit fighting against Nosema ceranae. After Nosema ceranae infected midgut cells of bees, and Bee. coli should sense the pathogen first before the following circuit(fighting against Nosema ceranae)is triggered, and substance such as Defensin (Part:BBa_K1104300), Abaesin(Part:BBa_K1104301) (more details on [http://2013.igem.org/Team:NYMU-Taipei/Project/Inhibition/Killing Killing Nosema] page) in the following circuit will express.

To enhance the strength , we added a device (more details on [http://2013.igem.org/Team:NYMU-Taipei/Project/Inhibition/Sensor Sensing Nosema] page).

Strenthening device

Related Parts

ahpC(Part:BBa_K362001)
- AhpCp1000(Part:BBa_K1104203)
  - Part:BBa_K1104243: AhpCp1000+E0840
- AhpCp2D1(Part:BBa_K1104204)
  - Part:BBa_K1104244: AhpCp2D1+E0840
- AhpCp2(Part:BBa_K1104205)
  - Part:BBa_K1104245: AhpCp2+E0840
- AhpCpD1(Part:BBa_K1104206)
  - Part:BBa_K1104246: AhpCpD1+E0840
- AhpCp1(Part:BBa_K1104207)
  - Part:BBa_K1104247: AhpCp1+E0840
- DsbGp(Part:BBa_K1104208)

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

@@ Line 1: / Line 1: @@
 __NOTOC__
 <partinfo>BBa_K1104205 short</partinfo>
-AhpCp2 is a ROS-induced promoter, which is controlled by OxyR (transcription factor) activated by ROS (Reactive Oxygen Species).
+AhpCp2 is a ROS-induced promoter controlled by OxyR (transcription factor)which is activated by ROS (Reactive Oxygen Species).
 AhpCp2 is composed of AhpCp2 promoter and a dual-TFBS (Transcription Factor Binding Site) for OxyR binding.
-[[File: NYMU_A2x.png|thumb|600px|center|'''Mutation of ahpC promoter([https://parts.igem.org/Part:BBa_K362001 Part:K362001])''']]
+[[File: NYMU_Ax.png|thumb|600px|center|'''Mutation of ahpC promoter([https://parts.igem.org/Part:BBa_K362001 Part:K362001])''']]
 OxyR is activator of AhpCp2 promoter. More details about OxyR can be found on the PartRegistry page: [https://parts.igem.org/Part:BBa_K1104200 Part:BBa_K1104200].
@@ Line 15: / Line 16: @@
 ahpC promoter, as well as its improvement, can be activated by OxyR ([https://parts.igem.org/Part:BBa_K1104200 Part:BBa_K1104200]).
-===Where is AhpCp1000 improved?===
+===How ahpC ([https://parts.igem.org/Part:BBa_K362001 Part:BBa_K362001]) is improved?===
-In this part,the PstI cutting site in ahpCp (BBa_K362001) is mutated at one point.
+'''In this part, we succesfully seperated AhpCp2(TFBS included) out of ahpC promoter ([https://parts.igem.org/Part:BBa_K362001 Part:K362001]).'''
-===How ahpCp ([https://parts.igem.org/Part:BBa_K362001 Part:BBa_K362001]) is improved?===
+We annotated it thouroughly based on data from ([http://ecocyc.org/ECOLI/new-image?object=EG11384 Ecocyc]), and found that it contains dsbG coding sequence, AhpCp2 ([https://parts.igem.org/Part:BBa_K1104205 Part:BBa_K1104205]), reverse promoter DsbGp ([https://parts.igem.org/Part:BBa_K1104208 Part:BBa_K1104208]),and AhpCp1 ([https://parts.igem.org/Part:BBa_K1104207 Part:BBa_K1104207]), and a PstI cutting site. Thus we improved the promoter by extracting the AhpCp2(TFBS included).
-We annotated it thouroughly based on data from ([http://ecocyc.org/ECOLI/new-image?object=EG11384 Ecocyc Ecocyc]), and found that it contains dsbG coding sequence, AhpCp2 ([https://parts.igem.org/Part:BBa_K1104205 Part:BBa_K1104205]), reverse promoter DsbGp ([https://parts.igem.org/Part:BBa_K1104208 Part:BBa_K1104208]),and AhpCp1 ([https://parts.igem.org/Part:BBa_K1104207 Part:BBa_K1104207]), and a PstI cutting site. Thus we improved the promoter by extracting the AhpCp2(TFBS included).
 Here is the overview about the other ahpC promoter ([https://parts.igem.org/Part:BBa_K362001 Part:BBa_K362001]) improvements:
-*AhpCp1000 ([https://parts.igem.org/Part:BBa_K1104204 Part:BBa_K1104204]): The PstI cutting site is mutated.
+*AhpCp1000 ([https://parts.igem.org/Part:BBa_K1104203 Part:BBa_K1104203]): The PstI cutting site is mutated.
 *AhpCp2D1 ([https://parts.igem.org/Part:BBa_K1104204 Part:BBa_K1104204]): After mutating the PstI cutting site, the truncated coding sequence from the DsbG promoter sequence is removed.
 *AhpCpD1 ([https://parts.igem.org/Part:BBa_K1104206 Part:BBa_K1104206]): Bidirectional promoter: AhpCp1 and DsbGp(reverse promoter), and their shared TFBS.
@@ Line 47: / Line 47: @@
 ***[https://parts.igem.org/Part:BBa_K1104247 Part:BBa_K1104247]: AhpCp1+[https://parts.igem.org/Part:BBa_E0840 E0840]
 **DsbGp([https://parts.igem.org/Part:BBa_K1104208 Part:BBa_K1104208])
-***[https://parts.igem.org/Part:BBa_K1104248 Part:BBa_K1104248]: DsbGp+[https://parts.igem.org/Part:BBa_E0840 E0840]
-===Usage and Biology===
-We designed circuit fighting against ''Nosema ceranae''. After Nosema ceranae infected midgut cells of bees, and Bee. coli should sense the pathogen first before the following circuit(fighting against Nosema ceranae)is triggered, and substance such as [https://parts.igem.org/Part:BBa_K1104300 Defensin(Part:BBa_K1104300)], [https://parts.igem.org/Part:BBa_K1104301  Abaesin(Part:BBa_K1104301)] (more details on [http://2013.igem.org/Team:NYMU-Taipei/Project/Inhibition/Killing Killing Nosema] page) in the following circuit will express.
-To enhance the strength , we added a device (more details on [http://2013.igem.org/Team:NYMU-Taipei/Project/Inhibition/Sensor Sensing Nosema] page).
-[[File: NYMU_O12.png|frame|center|'''Strenthening device''']]