Difference between revisions of "Part:BBa K2559003"

Latest revision as of 08:55, 19 October 2019

Ecoli promoter of sgRNA(PrplJ)

The BBa_K2559003 , PrplJ promoter is a strong endogenous promoter in Escherichia coli K 12. We used it to express single guide RNA in our CRISPR/cas9 system.

Usage and Biology

We obtained this promoter from a database named PromEC ( http://margalit.huji.ac.il/promec/index.html) .PromEC is an updated compilation of E. coli mRNA promoter sequences. It includes detailed information of genesites which have been experimentally identified mRNA transcriptional starting position in the E. coli chromosome, as well as the actual sequences of the promoters. We have built up a model to measure the expression intensity of these promoters. Eventually, we selected three promoters including: PrplJ, Pdapa and PcaiF based on the results of modeling PrplJ, Pdapa and PcaiF.We further made chimeric fluorescent fusion proteins between the promoter and GFP respectively and tested the fluorescent intensity driven by different promoters. The combination of PromEC and our modeling can be used as a efficient tool to figure out the information about interested promoters. The GFP expression in E.coli (DH5 α) and was driven by PrplJ, Pdapa and PcaiF promoter.

Figure1 The result of the fluorescent intensity measurement

Figure2 Fluorescent intensity of eGFP driven by by PrplJ, PdapA, PcaiF promoter.

Basing on the model predition and experiment testing results,we used PrplJ as the promoter of sgRNA

The part is facilitate the in-depth research for other teams!

GZHS-United 2019

We linked the gene of ATAPX1 to the existing promoter PrplJ, measured its enzyme activity in different states (different temperature, different illumination, different pH), and obtained correlation results between different factors and expressed enzyme protein activity.

Figure 1: This figure shows L-ascorbate peroxidase activity under different temperature, while ATAPX1 is control by PrplJ.

Figure 2: This figure shows L-ascorbate peroxidase activity under different illumination, while ATAPX1 is control by PrplJ.

Figure 3: This figure shows L-ascorbate peroxidase activity under different pH, while ATAPX1 is control by PrplJ.

Data which are obtained by our results, the above results indicate that we verify of the type of the promoter that PrplJ stability and reusability, especially in the experimental projects require different promoter can play a good role, such as the need to build contains multiple promoter and the need to use Gisbon assembly which is required to prevent the homologous recombination failure. When there is a must to use different promoter, PrplJ is a reliable choice.

You can see more details in our model page! https://2019.igem.org/Team:GZHS-United/Model

JiangnanU_China 2019

In 2018, the team iGEM18_SCAU-China chose a strong E. coli endogenous promoter (PrplJ，BBa_K2559003) to express their amended eGFP (BBa_K2559005). This year our team JiangnanU_China also chose this promoter PrplJ (BBa_K2559003) to express their amended eGFP (BBa_K2559005). The team iGEM18_SCAU-China chose one timepoint to test the promoter strength. However, we measured the value of (fluorescence intensity)/OD600 at 0 h, 4 h, 6 h, 8 h and 10 h. Through the change of value what we measured, we can found the promoter PrplJ worked well. In the other hand, we observed the eGFP fluorescent protein by fluorescence microscope and we found that the E. coli with the amended eGFP fluorescent protein emitted the noticeable green fluorescence.

Figure1. The curve of Fluorescent intensity/OD600 - Time(h)

Figure2. Fluorescent intensity of eGFP driven by by PrplJ promoter

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 16: / Line 16: @@
 The part is facilitate the in-depth research for other teams!
-== NRP-UEA 2015 ==
+== GZHS-United 2019 ==
-At NRP-UEA, we aimed to produce a prebiotic to prevent colon cancer. To do this, we attempted to acylate/butrylate starch in plants. Methods to chemically acylate starch purified from plants already exist, but as they use strong chemicals and require heating they are not environmentally friendly. Using various acyltransferases, we hope to acylate starch in plants. We’ll be using a model plant, Nicotinia benthamiana, for initial tests because we can get results within  a few days. We used Golden Gate Cloning  and the Plant Standard Syntax described in RFC106 and Patron et al (2015)  to make our constructs.
+We linked the gene of ATAPX1 to the existing promoter PrplJ, measured its enzyme activity in different states (different temperature, different illumination, different pH), and obtained correlation results between different factors and expressed enzyme protein activity.
-All of our constructs contained the 35s Constitutive Promoter. This was done to drive the constitutive expression of our parts in the plants. We also added a chloroplast transit peptide, acyl transferase, and a 35s terminator to our constructs (BBa_K1618033‐036). In a second set of parts, we added a fluorescent tag, to confirm the function of our chloroplast transit peptide (BBa_K1618029‐032).
+[[File:T--GZHS-United--Bronze-temperatures.png|800px|]]
-We transformed our constructs into Agrobacterium tumefaciens and then infiltrated it into our plants. We used the YFP tagged constructs to confirm the localisation of parts to the chloroplast (Figure 1) and the untagged constructs to analyse the starch content of our leaves.
+<i> Figure 1: This figure shows L-ascorbate peroxidase activity under different temperature, while ATAPX1 is control by PrplJ. </i>
+[[File:T--GZHS-United--Bronze-illumination.png|800px|]]
-[[File:Confocal_Image_029-032.png]]
+<i> Figure 2: This figure shows L-ascorbate peroxidase activity under different illumination, while ATAPX1 is control by PrplJ. </i>
-<i> Figure 1: Constructs BBa_K1618029‐032 contain a yellow fluorescent protein, as well as a chloroplast transit peptide. These  are confocal microscopy images of the constructs infiltrated into Nicotiana benthamiana, in which the red structures are the chlorophyll  within  the  chloroplast,  and  the  yellow  is  the  fluorescent  fusion  protein  expressed  from  constructs  (a) BBa_K1618029,  (b)  BBa_K1618031,  (c)  BBa_K1618032,  and  (d) BBa_K1618030. </i>
+[[File:T--GZHS-United--Bronze-ph.png|800px|]]
+<i> Figure 3: This figure shows L-ascorbate peroxidase activity under different pH, while ATAPX1 is control by PrplJ. </i>
+Data which are obtained by our results, the above results indicate that we verify of the type of the promoter that PrplJ stability and reusability, especially in the experimental projects require different promoter can play a good role, such as the need to build contains multiple promoter and the need to use Gisbon assembly which is required to prevent the homologous recombination failure. When there is a must to use different promoter, PrplJ is a reliable choice.
+You can see more details in our model page!  https://2019.igem.org/Team:GZHS-United/Model
+== JiangnanU_China 2019 ==
+In 2018, the team iGEM18_SCAU-China chose a strong E. coli endogenous promoter (PrplJ，BBa_K2559003) to express their amended eGFP (BBa_K2559005). This year our team JiangnanU_China also chose this promoter PrplJ (BBa_K2559003) to express their amended eGFP (BBa_K2559005). The team iGEM18_SCAU-China chose one timepoint to test the promoter strength. However, we measured the value of (fluorescence intensity)/OD600 at 0 h, 4 h, 6 h, 8 h and 10 h. Through the change of value what we measured, we can found the promoter PrplJ worked well. In the other hand, we observed the eGFP fluorescent protein by fluorescence microscope and we found that the E. coli with the amended eGFP fluorescent protein emitted the noticeable green fluorescence.
+[[Image:PrplJ-eGFP-1.png|700px|thumb|center|Figure1. The curve of Fluorescent intensity/OD600 - Time(h)]]
+[[Image:PrplJ-eGFP-2.png|650px|thumb|center|Figure2. Fluorescent intensity of eGFP driven by by PrplJ promoter]]
-The above results not only indicate that our chloroplast transit peptide works, but also suggest that the 35s promoter that we used is GoldenGate compatible and functioning.
 <!-- -->
-<span class='h3bb'>Sequence and Features</span>
+== Sequence and Features ==
 <partinfo>BBa_K2559003 SequenceAndFeatures</partinfo>