Comparison of two codon optimization strategies to enhance recombinant protein production in Escherichia coli

Table 1 Codon distribution of V0, V1, V2 and wild type (WT) sequences.

AA	Codon	f^a	WT	V0	V1	V2	AA	Codon	f^a	WT	V0	V1	V2
Ala	GCG	0.36	1	17	17	6	Leu	CUG	0.50	23	29	29	16
	GCC	0.27	15	0	0	5		UUA	0.13	0	0	0	0
	GCA	0.21	0	0	0	4		UUG	0.13	0	0	0	5
	GCU	0.16	1	0	0	2		CUC	0.10	5	0	0	4
								CUU	0.10	1	0	0	4
Arg	CGC	0.40	1	8	0	4		CUA	0.04	0	0	0	0
	CGU	0.38	0	0	8	3
	CGG	0.10	0	0	0	1	Lys	AAA	0.76	6	15	15	9
	CGA	0.06	1	0	0	0		AAG	0.24	9	0	0	6
	AGA	0.04	1	0	0	0
	AGG	0.02	5	0	0	0	Met	ATG	1.00	9	9	9	9
Asn	AAC	0.55	11	15	15	8	Phe	UUU	0.57	6	19	0	11
	AAU	0.45	4	0	0	7		UUC	0.43	13	0	19	8
Asp	GAU	0.63	3	23	0	14	Pro	CCG	0.53	3	16	16	9
	GAC	0.37	20	0	23	9		CCA	0.19	1	0	0	2
								CCU	0.16	1	0	0	3
Cys	UGC	0.56	3	6	6	3		CCC	0.12	11	0	0	2
	UGU	0.44	3	0	0	3
							Ser	AGC	0.28	13	35	0	9
Gln	CAG	0.65	24	25	25	17		UCG	0.15	4	0	0	5
	CAA	0.35	1	0	0	8		AGU	0.15	4	0	0	5
								UCC	0.15	9	0	0	5
Glu	GAA	0.69	2	14	14	10		UCU	0.15	4	0	35	6
	GAG	0.31	12	0	0	4		UCA	0.12	1	0	0	5
Gly	GGC	0.41	15	31	0	11	Thr	ACC	0.44	13	24	24	10
	GGU	0.34	2	0	31	10		ACG	0.27	2	0	0	6
	GGG	0.15	13	0	0	5		ACU	0.16	4	0	0	4
	GGA	0.11	1	0	0	5		ACA	0.13	5	0	0	4
His	CAU	0.57	4	6	6	3	Trp	UGG	1.00	4	4	4	4
	CAC	0.43	2	0	0	3
							Tyr	UAU	0.57	5	22	0	13
Ile	AUU	0.51	2	22	0	13		UAC	0.43	17	0	22	9
	AUC	0.42	19	0	22	8
	AUA	0.07	1	0	0	1	Val	GUG	0.37	14	26	0	10
								GUU	0.26	3	0	26	7
								GUC	0.22	7	0	0	4
								GUA	0.15	2	0	0	5

^a Relative frequency of each codon in E. coli W3110
Sequences V0 and V1 were designed using the one amino acid- one codon method; and V2 was designed with the codon randomization algorithm.

ISSN: 1475-2859