Difference between revisions of "Part:BBa C0060:Experience"
(→Applications of BBa_C0060) |
|||
| Line 2: | Line 2: | ||
This experience page is provided so that any user may enter their experience using this part.<BR>Please enter | This experience page is provided so that any user may enter their experience using this part.<BR>Please enter | ||
how you used this part and how it worked out. | how you used this part and how it worked out. | ||
| + | |||
| + | ===Characterization of BBa_C0060 by Tec-Chihuahua 2017=== | ||
| + | |||
| + | One of the fundamental Biobrick® of Erwinions is the aiiA gene, it codifies for an enzyme that catalyzes the degradation of N-Acyl homoserine lactones, which are quorum sensing autoinducers. The part was published on iGEM's Parts Registry in 2013, but up until now, it's not known whether this gene can be expressed in <i>Erwinia amylovora</i> or not. Two types of aiiA were used in this project: the one published in iGEM's catalog, and the one that we synthesized thanks to sponsorship granted by IDT®. The sequence of the first mentioned is reported as being putative, while the latter's confirmed to codify for our protein of interest; nonetheless, no information is known about the expression of either in <i>Erwinia amylovora</i>. The contribution of this characterization to the existing part (BBa_C0060) as a bronze requisite is supported by the work done with it within the project. In the end, it was concluded that our composite BioBrick® (BBa_K2471000) that was created in order to express the Registry's aiiA, successfully works in <i>Erwinia amylovora</i>. | ||
| + | |||
| + | The characterization of BBa_C0060 was carried out, first, by creating a composite part (BBa_K2471000) capable of expressing the biopart of interest; this was done by the addition of a T7 promoter and RBS (BBa_K525998) and a T1 terminator (BBa_B0010) to the basic part. The design was first done in silico utilizing SnapGene®, where the program indicated that the plasmid would have a length of 3,010 base pairs. After verifying the feasibility of creating this BioBrick®, the part was synthesized using the 3A assembly method. Agarose gel (1%) electrophoresis was performed to corroborate that the obtained molecular weight coincided with the expected one. | ||
| + | |||
| + | <center><img src="https://static.igem.org/mediawiki/2017/4/45/T--Tec-Chihuahua--Snap_1.png" width="700" ></center> | ||
| + | <center><div class="row"> | ||
| + | <div class="col-md-8"> | ||
| + | <sub><b>Figure 1. </b>(A) SnapGene® map of BBa_K2471000. (B) Agarose gel (1%) electrophoresis of BBa_K2471000 compared with NEB Quick-Load® Purple 2-Log DNA Ladder (0.1 - 10.0 kb), where the highlighted bands correspond to approximately 3,000 base pairs.</sub> | ||
| + | </div></center><br><br> | ||
===Applications of BBa_C0060=== | ===Applications of BBa_C0060=== | ||
Revision as of 20:57, 1 November 2017
This experience page is provided so that any user may enter their experience using this part.
Please enter
how you used this part and how it worked out.
Characterization of BBa_C0060 by Tec-Chihuahua 2017
One of the fundamental Biobrick® of Erwinions is the aiiA gene, it codifies for an enzyme that catalyzes the degradation of N-Acyl homoserine lactones, which are quorum sensing autoinducers. The part was published on iGEM's Parts Registry in 2013, but up until now, it's not known whether this gene can be expressed in Erwinia amylovora or not. Two types of aiiA were used in this project: the one published in iGEM's catalog, and the one that we synthesized thanks to sponsorship granted by IDT®. The sequence of the first mentioned is reported as being putative, while the latter's confirmed to codify for our protein of interest; nonetheless, no information is known about the expression of either in Erwinia amylovora. The contribution of this characterization to the existing part (BBa_C0060) as a bronze requisite is supported by the work done with it within the project. In the end, it was concluded that our composite BioBrick® (BBa_K2471000) that was created in order to express the Registry's aiiA, successfully works in Erwinia amylovora.
The characterization of BBa_C0060 was carried out, first, by creating a composite part (BBa_K2471000) capable of expressing the biopart of interest; this was done by the addition of a T7 promoter and RBS (BBa_K525998) and a T1 terminator (BBa_B0010) to the basic part. The design was first done in silico utilizing SnapGene®, where the program indicated that the plasmid would have a length of 3,010 base pairs. After verifying the feasibility of creating this BioBrick®, the part was synthesized using the 3A assembly method. Agarose gel (1%) electrophoresis was performed to corroborate that the obtained molecular weight coincided with the expected one.
" width="700" >Figure 1. (A) SnapGene® map of BBa_K2471000. (B) Agarose gel (1%) electrophoresis of BBa_K2471000 compared with NEB Quick-Load® Purple 2-Log DNA Ladder (0.1 - 10.0 kb), where the highlighted bands correspond to approximately 3,000 base pairs.
Applications of BBa_C0060
User Reviews
UNIQ45ed7445c7ecfd9e-partinfo-00000000-QINU
|
•••••
UNIPV-Pavia iGEM 2011 |
NB: unless differently specified, all tests were performed in E. coli MGZ1 in M9 supplemented medium at 37°C in low copy plasmid pSB4C5.
A system of differential equations has been derived and parameters would have been identified, studying the exponential growth phase: 
The four measurment parts ptet-RBSx-LuxI were quantitatively characetrized using the BBa_T9002 biosensor. Unfortunately the model parameters (kcat, kM,AiiA) were not estimated because placing the device in low copy plasmid (pSB4C5)resulted in no HSL degradation, as shown in the figures below:
In order to evaluate the RBSs efficiency, the ratio between the percentage of the degraded HSL realtive to the measurement device with the standard RBS (BBa_B0034) was computed:
|
