Difference between revisions of "Part:BBa K3520007"
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=Description= | =Description= | ||
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| − | ompA is a constitutive promoter found in bacteria of Bacteroidetes phylum. Bacteroidetes are characterised by a certain | + | ompA is a constitutive promoter found in bacteria of the Bacteroidetes phylum. Bacteroidetes' promoters are generally characterised by a certain motif, upstream of the ORF. The motif, that constitutes part of the ompA promoter as well, is TTG at the -33 region and TAnnTTTG at the -7 region. The -33 region has proven to be necessary for maximum expression[2], while the -7 region plays an important role in maximizing promoter activity [1]. |
| − | The ompA promoter is highly efficient in Flavobacteria, functions poorly in E. coli | + | The ompA promoter is highly efficient in Flavobacteria, but functions poorly in E. coli. Thus, it has a potent ability to drive the expression of heterologous genes [1]. The promoter observed in Flavobacterium strains indicates a preference in A in the +1 region. [2] |
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=Athens 2020= | =Athens 2020= | ||
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| − | + | This part is designed by iGEM Athens 2020 team during the project MORPHÆ. In this project, Flavobacteria were used to produce a non-cellular structurally coloured biomaterial which would require the secretion of a biomolecule that Flavobacteria do not normally secrete. Our hypothesis is that the formed matrix will have a structure similar to that of the biofilm and thus, it will provide the material with macroscopically the same colouration properties as the biofilm. | |
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[1] Chen, S., Kaufman, M., Bagdasarian, M., Bates, A., & Walker, E. (2010). Development of an efficient expression system for Flavobacterium strains. Gene, 458(1-2), 1-10. doi: 10.1016/j.gene.2010.02.006 | [1] Chen, S., Kaufman, M., Bagdasarian, M., Bates, A., & Walker, E. (2010). Development of an efficient expression system for Flavobacterium strains. Gene, 458(1-2), 1-10. doi: 10.1016/j.gene.2010.02.006 | ||
[2] Chen, S., Bagdasarian, M., Kaufman, M., & Walker, E. (2006). Characterization of Strong Promoters from an Environmental Flavobacterium hibernum Strain by Using a Green Fluorescent Protein-Based Reporter System. Applied And Environmental Microbiology, 73(4), 1089-1100. doi: 10.1128/aem.01577-06 | [2] Chen, S., Bagdasarian, M., Kaufman, M., & Walker, E. (2006). Characterization of Strong Promoters from an Environmental Flavobacterium hibernum Strain by Using a Green Fluorescent Protein-Based Reporter System. Applied And Environmental Microbiology, 73(4), 1089-1100. doi: 10.1128/aem.01577-06 | ||
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Latest revision as of 03:16, 28 October 2020
Promoter ompA for Flavobacteriia
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Description
ompA is a constitutive promoter found in bacteria of the Bacteroidetes phylum. Bacteroidetes' promoters are generally characterised by a certain motif, upstream of the ORF. The motif, that constitutes part of the ompA promoter as well, is TTG at the -33 region and TAnnTTTG at the -7 region. The -33 region has proven to be necessary for maximum expression[2], while the -7 region plays an important role in maximizing promoter activity [1].
The ompA promoter is highly efficient in Flavobacteria, but functions poorly in E. coli. Thus, it has a potent ability to drive the expression of heterologous genes [1]. The promoter observed in Flavobacterium strains indicates a preference in A in the +1 region. [2]
Athens 2020
This part is designed by iGEM Athens 2020 team during the project MORPHÆ. In this project, Flavobacteria were used to produce a non-cellular structurally coloured biomaterial which would require the secretion of a biomolecule that Flavobacteria do not normally secrete. Our hypothesis is that the formed matrix will have a structure similar to that of the biofilm and thus, it will provide the material with macroscopically the same colouration properties as the biofilm.
SOURCE OF THIS PART
The sources of the current promoter are the scientific publications below.
Useful Links:
NCBI taxonomy:
https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=28448&lvl=3&lin=f&keep=1&srchmode=1&unlock
GenBank link:
https://www.ncbi.nlm.nih.gov/nuccore/X54676.1
Codon optimisation bank:
http://genomes.urv.es/OPTIMIZER/?fbclid=IwAR0ALbP_C8UVY4itvYdNX8b5KYYUM5ulQojz8UJAK6Zj5llobNNxE-jYmXQ
Codon optimization table:
https://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=376686&fbclid=IwAR0gwwrIarZsiYhWvHPc2BKy-iB_2OM-DPB5I2HYJZwBNiasmlLXWK87PwM
REFERENCES
[1] Chen, S., Kaufman, M., Bagdasarian, M., Bates, A., & Walker, E. (2010). Development of an efficient expression system for Flavobacterium strains. Gene, 458(1-2), 1-10. doi: 10.1016/j.gene.2010.02.006
[2] Chen, S., Bagdasarian, M., Kaufman, M., & Walker, E. (2006). Characterization of Strong Promoters from an Environmental Flavobacterium hibernum Strain by Using a Green Fluorescent Protein-Based Reporter System. Applied And Environmental Microbiology, 73(4), 1089-1100. doi: 10.1128/aem.01577-06