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	<partinfo>BBa_K3520007 short</partinfo>		<partinfo>BBa_K3520007 short</partinfo>
−	a	+	<partinfo>BBa_K3520007 SequenceAndFeatures</partinfo>
		+	<br><br>
		+
		+	<br/><br/>
		+
		+	=Description=
		+	<br>
		+	ompA is a constitutive promoter found in bacteria of Bacteroidetes phylum. Bacteroidetes are characterised by a certain promoter motif, upstream of the putative open reading frame. The motif that is apparent to ompA promoter as well, is TTG at the -33 region and TAnnTTTG at the -7 region, which plays an important role in maximizing promoter activity [1]. The -33 region has proven to be necessary for the maximum expression of the controlled gene [2].
		+	The ompA promoter is highly efficient in Flavobacteria, functions poorly in E. coli and has a potent ability to drive expression of heterologous genes [1]. The TSPs observed in Flavobacterium strains indicate a preference in A in the +1 region. [2]
		+
		+	=Athens 2020=
		+	<br>
		+
		+	The current 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=
		+	<br>
		+	The sources of the current promoter are the scientific publications below.
		+	<br><br>
		+
		+	=Useful Links:=
		+	<br>
		+
		+	NCBI taxonomy:<br /><br />
		+	https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=28448&lvl=3&lin=f&keep=1&srchmode=1&unlock<br /><br />
		+	GenBank link:<br /><br />
		+	https://www.ncbi.nlm.nih.gov/nuccore/X54676.1<br /><br />
		+	Codon optimisation bank:<br /><br />
		+	http://genomes.urv.es/OPTIMIZER/?fbclid=IwAR0ALbP_C8UVY4itvYdNX8b5KYYUM5ulQojz8UJAK6Zj5llobNNxE-jYmXQ<br /><br />
		+	Codon optimization table:<br /><br />
		+	https://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=376686&fbclid=IwAR0gwwrIarZsiYhWvHPc2BKy-iB_2OM-DPB5I2HYJZwBNiasmlLXWK87PwM<br /><br />
		+	<br><br>
		+
		+	=REFERENCES=
		+	<br>
		+	[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
		+
	<!-- Add more about the biology of this part here		<!-- Add more about the biology of this part here

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Revision as of 01:12, 28 October 2020

Promoter ompA for Flavobacteriia

Description

ompA is a constitutive promoter found in bacteria of Bacteroidetes phylum. Bacteroidetes are characterised by a certain promoter motif, upstream of the putative open reading frame. The motif that is apparent to ompA promoter as well, is TTG at the -33 region and TAnnTTTG at the -7 region, which plays an important role in maximizing promoter activity [1]. The -33 region has proven to be necessary for the maximum expression of the controlled gene [2]. The ompA promoter is highly efficient in Flavobacteria, functions poorly in E. coli and has a potent ability to drive expression of heterologous genes [1]. The TSPs observed in Flavobacterium strains indicate a preference in A in the +1 region. [2]

Athens 2020

The current 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

Sequence and Features