Difference between revisions of "Part:BBa K1813022"

Latest revision as of 22:10, 17 October 2018

nicE Expression Cassette with LacI Reversed

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
INCOMPATIBLE WITH RFC[21]
Illegal BglII site found at 105
23
COMPATIBLE WITH RFC[23]
25
INCOMPATIBLE WITH RFC[25]
Illegal AgeI site found at 2054
1000
INCOMPATIBLE WITH RFC[1000]
Illegal BsaI.rc site found at 1469

Background of Ptac NicE Term

Part Description

6-chloronicotinic acid (6-CNA) is an intermediate in imidacloprid degradation that is both toxic to bees [1], and a persistent environmental contaminant [2].The conversion from 6-CNA to 6-HNA, a well studied intermediate in nicotine degradation [3], is catalyzed by 6-chloronicotinic acid chlorohydrolase (Cch2), a chlorohydrolase from SG-6C Bradyrhizobiaceae [4]. 6-HNA can be further degraded into Fumaric Acid using the following pathway, which includes nicE. The enzyme coded for by nicE is a maleate isomerase that converts Maleic Acid to Fumaric Acid[5].

Design and Acquisition

After synthesizing a codon-optimized nicE, we used standard assembly to created a composite part composed of nicE driven by the Ptac promoter BBa_K1813037 and flanked by a double terminator BBa_B0014. The tac promoter contains a lac operator sequence that can be bound by LacI, the lac repressor protein, allowing inducible expression by Isopropyl β-D-1-thiogalactopyranoside (IPTG). Our nicE expression cassette was assembled behind a lacI cassette BBa_K1813019 to give us the ability to control the expression of NicE. All nicE constructs are contained within standard pSB1C3 vectors.

Experience

SDS PAGE Protein Expression for nicE:

NicE was expressed in E.Coli DH5-α. Transformed E.Coli was grown at 37°C until an OD600 of 0.6 to 0.8. They were then induced with IPTG and grown overnight at 16°C, 20°C, 25°C, 30°C, 37°C to discern which temperature resulted in optimal protein expression. The samples were prepared for SDS page gel via the SDS page sample preparation protocol and SDS page gel protocol here and here respectively. NicE has over-expression at 37°C at the expected size of 28kDa.

Figure 1: 12% SDS-PAGE gel showing expression of a protein sized about 28kDa at 37°C. It is less strongly expressed at other temperatures, uninduced and starter cultures.

References

[1] Nauen, R., Ebbinghaus-Kintscher, U. and Schmuck, R. (2001) Toxicity and nicotinic acetylcholine receptor interaction of imidacloprid and its metabolites in Apis mellifera (Hymenoptera: Apidae) Pest. Manag. Sci. 57 (7) DOI: 10.1002/ps.331
[2] Rouchaud J, Gustin F, Wauters A (1996) Imidacloprid insecticide soil metabolism in sugar beet field crops. Bull Environ Contam Toxicol 56: 29–36. doi: 10.1007/s001289900005
[3] Tang, H., Yao, Y., Wang, L., Yu, H., Ren, Y. et al. (2012) Genomic analysis of Pseudomonas putida: genes in a genome island are crucial for nicotine degradation. Scientific Reports 2, Article number: 377 doi:10.1038/srep00377
[4] Shettigar M, Pearce S, Pandey R, Khan F, Dorrian SJ, et al. (2012) Cloning of a Novel 6-Chloronicotinic Acid Chlorohydrolase from the Newly Isolated 6-Chloronicotinic Acid Mineralizing Bradyrhizobiaceae Strain SG-6C. PLoS ONE 7(11): e51162. doi: 10.1371/journal.pone.0051162
[5] Jiménez, J., Canales, A., Jiménez-Barbero, J., Ginalski, K., Rychlewski, L., García, J., Díaz, E.(2008) Deciphering the genetic determinants for aerobic nicotinic acid degradation: The nic cluster from Pseudomonas putida KT2440 1Proc Natl Acad Sci 05(32): 11329–11334. doi: 10.1073/pnas.0802273105 PMCID: PMC2516282

@@ Line 1: / Line 1: @@
 __NOTOC__
 <partinfo>BBa_K1813022 short</partinfo>
-LacI Reversed nicE
 <!-- Add more about the biology of this part here
@@ Line 21: / Line 18: @@
 <h4>Part Description</h4><p>
 -chloronicotinic acid (6-CNA) is an intermediate in imidacloprid degradation that is both toxic to bees [1], and a persistent environmental contaminant [2].The conversion from 6-CNA to 6-HNA, a well studied intermediate in nicotine degradation [3], is catalyzed by 6-chloronicotinic acid chlorohydrolase (Cch2), a chlorohydrolase from SG-6C ''Bradyrhizobiaceae'' [4].  6-HNA can be further degraded into Fumaric Acid using the following pathway, which includes <i>nicE</i>. The enzyme coded for by nicE is a maleate isomerase that converts Maleic Acid to Fumaric Acid[5].</p>
+https://static.igem.org/mediawiki/2015/e/ec/Pathway.png
 <html>
 <h4>Design and Acquisition</h4><p>
 After synthesizing a codon-optimized <i>nicE</i>, we used standard assembly to created a composite part composed of <i>nicE</i> driven by the Ptac promoter
-<html><a href="https://parts.igem.org/Part:BBa_K1813037">BBa_K1813037</a> </html> and flanked by a double terminator <html><a href="https://parts.igem.org/Part:BBa_B0014">BBa_B0014</a></html>.
+<html><a href="https://parts.igem.org/Part:BBa_K1813037">BBa_K1813037</a> </html> and flanked by a double terminator <html><a href="https://parts.igem.org/Part:BBa_B0014">BBa_B0014</a></html>. The tac promoter contains a lac operator sequence that can be bound by LacI,  the lac repressor protein, allowing inducible expression by Isopropyl β-D-1-thiogalactopyranoside (IPTG). Our <i>nicE</i> expression cassette  was assembled behind a lacI cassette <html><a href="BBa_K1813019">BBa_K1813019</a></html> to give us the ability to control the expression of NicE. All <i>nicE</i> constructs are contained within standard pSB1C3 vectors.
-The tac promoter contains a lac operator sequence that can be bound by LacI,  the lac repressor protein, allowing inducible expression by Isopropyl β-D-1-thiogalactopyranoside (IPTG). Our <i>nicE</i> expression cassette  was assembled behind a lacI cassette <html><a href="BBa_K1813019">BBa_K1813019</a></html> to give us the ability to control the expression of NicE.
-All <i>nicE</i> constructs are contained within standard pSB1C3 vectors.
 <h4>Experience</h4><p>
-SDS PAGE Protein Expression for NicE
+<b>SDS PAGE Protein Expression for <i>nicE</i>:</b>
-NicE was expressed in E.Coli DH5-α. Transformed E.Coli was grown at 37°C until an OD600 of 0.6 to 0.8. They were then induced with IPTG and grown overnight at 16°C, 20°C, 25°C, 30°C, 37°C to discern which temperature resulted in optimal protein expression. The samples were prepared for SDS page gel via the SDS page sample preparation protocol and SDS page gel protocol <html><a href="https://static.igem.org/mediawiki/2015/b/b8/Preparation_of_Samples_to_run_SDS_UBC.pdf">here</a></html> and <html><a href="https://static.igem.org/mediawiki/2015/2/2c/SDS_Gel_Prep_UBC.pdf">here</a></html> respectively.
+NicE was expressed in E.Coli DH5-α. Transformed E.Coli was grown at 37°C until an OD600 of 0.6 to 0.8. They were then induced with IPTG and grown overnight at 16°C, 20°C, 25°C, 30°C, 37°C to discern which temperature resulted in optimal protein expression. The samples were prepared for SDS page gel via the SDS page sample preparation protocol and SDS page gel protocol <html><a href="https://static.igem.org/mediawiki/2015/b/b8/Preparation_of_Samples_to_run_SDS_UBC.pdf">here</a></html> and <html><a href="https://static.igem.org/mediawiki/2015/2/2c/SDS_Gel_Prep_UBC.pdf">here</a></html> respectively. NicE has over-expression at 37°C at the expected size of 28kDa.
-NicE has over-expression at 37°C at the expected size of 28kDa.
 https://static.igem.org/mediawiki/2015/e/e4/Nic_E_UBC.png
@@ Line 42: / Line 36: @@
 Figure 1:
 % SDS-PAGE gel showing expression of a protein sized about 28kDa at 37°C. It is less strongly expressed at other temperatures, uninduced and starter cultures.
 </p>