Codon Usage Can Affect Efficiency of Translation of Genes in Escherichia Coli

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 1984 Sep 11

PMID 6091031

Citations 95

Authors

M Robinson

R Lilley

S Little

J S Emtage

G Yarranton

P Stephens

A Millican

M Eaton

G Humphreys

Affiliations

Soon will be listed here.

Abstract

By inserting synthetic oligonucleotides into a highly expressed gene in E. coli it has been shown that unfavourable codon usage can reduce the maximum translation rate of a protein. However, in the case of the codon used (AGG), a significant effect on translation was only seen at very high transcription rates from a gene containing multiple copies of the unfavourable codon.

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References

Crick F . Codon--anticodon pairing: the wobble hypothesis. J Mol Biol. 1966; 19(2):548-55. DOI: 10.1016/s0022-2836(66)80022-0. View

Boyer H . A complementation analysis of the restriction and modification of DNA in Escherichia coli. J Mol Biol. 1969; 41(3):459-72. DOI: 10.1016/0022-2836(69)90288-5. View

Laemmli U . Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970; 227(5259):680-5. DOI: 10.1038/227680a0. View

Celis T, Maas W . Studies on the mechanism of repression of arginine biosynthesis in Escherichia coli. IV. Further studies on the role of arginine transfer RNA repression of the enzymes of arginine biosynthesis. J Mol Biol. 1971; 62(1):179-88. DOI: 10.1016/0022-2836(71)90138-0. View

SANGER F, Nicklen S, Coulson A . DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977; 74(12):5463-7. PMC: 431765. DOI: 10.1073/pnas.74.12.5463. View

Fiers W, Grosjean H . On codon usage. Nature. 1979; 277(5694):328. DOI: 10.1038/277328a0. View

Alton N, Vapnek D . Nucleotide sequence analysis of the chloramphenicol resistance transposon Tn9. Nature. 1979; 282(5741):864-9. DOI: 10.1038/282864a0. View

Shaw W, Packman L, Burleigh B, Dell A, Morris H, Hartley B . Primary structure of a chloramphenicol acetyltransferase specified by R plasmids. Nature. 1979; 282(5741):870-2. DOI: 10.1038/282870a0. View

Iserentant D, Fiers W . Secondary structure of mRNA and efficiency of translation initiation. Gene. 1980; 9(1-2):1-12. DOI: 10.1016/0378-1119(80)90163-8. View

10.

Thompson R, Dix D, Eccleston J . Single turnover kinetic studies of guanosine triphosphate hydrolysis and peptide formation in the elongation factor Tu-dependent binding of aminoacyl-tRNA to Escherichia coli ribosomes. J Biol Chem. 1980; 255(23):11088-90. View

11.

Schottel J, Bibb M, Cohen S . Cloning and expression in streptomyces lividans of antibiotic resistance genes derived from Escherichia coli. J Bacteriol. 1981; 146(1):360-8. PMC: 217091. DOI: 10.1128/jb.146.1.360-368.1981. View

12.

Ikemura T . Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes. J Mol Biol. 1981; 146(1):1-21. DOI: 10.1016/0022-2836(81)90363-6. View

13.

Ish-Horowicz D, Burke J . Rapid and efficient cosmid cloning. Nucleic Acids Res. 1981; 9(13):2989-98. PMC: 327326. DOI: 10.1093/nar/9.13.2989. View

14.

Bennetzen J, Hall B . Codon selection in yeast. J Biol Chem. 1982; 257(6):3026-31. View

15.

Grosjean H, Fiers W . Preferential codon usage in prokaryotic genes: the optimal codon-anticodon interaction energy and the selective codon usage in efficiently expressed genes. Gene. 1982; 18(3):199-209. DOI: 10.1016/0378-1119(82)90157-3. View

16.

Patel T, Millican T, Bose C, Titmas R, Mock G, Eaton M . Improvements to solid phase phosphotriester synthesis of deoxyoligonucleotides. Nucleic Acids Res. 1982; 10(18):5605-20. PMC: 320910. DOI: 10.1093/nar/10.18.5605. View

17.

Gouy M, Gautier C . Codon usage in bacteria: correlation with gene expressivity. Nucleic Acids Res. 1982; 10(22):7055-74. PMC: 326988. DOI: 10.1093/nar/10.22.7055. View

18.

Konigsberg W, GODSON G . Evidence for use of rare codons in the dnaG gene and other regulatory genes of Escherichia coli. Proc Natl Acad Sci U S A. 1983; 80(3):687-91. PMC: 393444. DOI: 10.1073/pnas.80.3.687. View

19.

Emtage J, Angal S, Doel M, Harris T, Jenkins B, Lilley G . Synthesis of calf prochymosin (prorennin) in Escherichia coli. Proc Natl Acad Sci U S A. 1983; 80(12):3671-5. PMC: 394112. DOI: 10.1073/pnas.80.12.3671. View

20.

Hanahan D . Studies on transformation of Escherichia coli with plasmids. J Mol Biol. 1983; 166(4):557-80. DOI: 10.1016/s0022-2836(83)80284-8. View