Influence of Modification Next to the Anticodon in TRNA on Codon Context Sensitivity of Translational Suppression and Accuracy

Overview

Journal J Bacteriol

Publisher American Society for Microbiology

Specialty Microbiology

Date 1986 Jun 1

PMID 3086285

Citations 45

Authors

F Bouadloun

T Srichaiyo

L A ISAKSSON

G R Bjork

Affiliations

Soon will be listed here.

Abstract

Effects on translation in vivo by modification deficiencies for 2-methylthio-N6-isopentenyladenosine (ms2i6A) (Escherichia coli) or 2-methylthio-N6-(4-hydroxyisopentenyl)adenosine (ms2io6A) (Salmonella typhimurium) in tRNA were studied in mutant strains. These hypermodified nucleosides are present on the 3' side of the anticodon (position 37) in tRNA reading codons starting with uridine. In E. coli, translational error caused by tRNA was strongly reduced in the case of third-position misreading of a tryptophan codon (UGG) in a particular codon context but was not affected in the case of first-position misreading of an arginine codon (CGU) in another codon context. Misreading of UGA nonsense codons at two different positions was codon context dependent. The efficiencies of some tRNA nonsense suppressors were decreased in a tRNA-dependent manner. Suppressor tRNA which lacks ms2i6A-ms2io6A becomes more sensitive to codon context. Our results therefore indicate that, besides improving translational efficiency, ms2i6A37 and ms2io6A37 modifications in tRNA are also involved in decreasing the intrinsic codon reading context sensitivity of tRNA. Possible consequences for regulation of gene expression are discussed.

Citing Articles

D-stem mutation in an essential tRNA increases translation speed at the cost of fidelity.

Schrock M, Parsawar K, Hughes K, Chevance F PLoS Genet. 2025; 21(2):e1011569.

PMID: 39903774 PMC: 11805395. DOI: 10.1371/journal.pgen.1011569.

sRNA IsrR downregulates methylthiotransferase MiaB under iron-deficient conditions.

Barrault M, Leclair E, Kumeko E, Jacquet E, Bouloc P Microbiol Spectr. 2024; 12(10):e0388823.

PMID: 39162503 PMC: 11448259. DOI: 10.1128/spectrum.03888-23.

Anticodon stem-loop tRNA modifications influence codon decoding and frame maintenance during translation.

Smith T, Giles R, Koutmou K Semin Cell Dev Biol. 2023; 154(Pt B):105-113.

PMID: 37385829 PMC: 11849751. DOI: 10.1016/j.semcdb.2023.06.003.

Making Sense of "Nonsense" and More: Challenges and Opportunities in the Genetic Code Expansion, in the World of tRNA Modifications.

Lateef O, Akintubosun M, Olaoba O, Samson S, Adamczyk M Int J Mol Sci. 2022; 23(2).

PMID: 35055121 PMC: 8779196. DOI: 10.3390/ijms23020938.

The modified base isopentenyladenosine and its derivatives in tRNA.

Schweizer U, Bohleber S, Fradejas-Villar N RNA Biol. 2017; 14(9):1197-1208.

PMID: 28277934 PMC: 5699536. DOI: 10.1080/15476286.2017.1294309.

References

Fluck M, Salser W, Epstein R . The influence of the reading context upon the suppression of nonsense codons. Mol Gen Genet. 1977; 151(2):137-49. DOI: 10.1007/BF00338688. View

Vogel H, Bonner D . Acetylornithinase of Escherichia coli: partial purification and some properties. J Biol Chem. 1956; 218(1):97-106. View

Feinstein S, Altman S . Context effects on nonsense codon suppression in Escherichia coli. Genetics. 1978; 88(2):201-19. PMC: 1213794. DOI: 10.1093/genetics/88.2.201. View

Ofarrell P . The suppression of defective translation by ppGpp and its role in the stringent response. Cell. 1978; 14(3):545-57. DOI: 10.1016/0092-8674(78)90241-6. View

Winston F, Botstein D, Miller J . Characterization of amber and ochre suppressors in Salmonella typhimurium. J Bacteriol. 1979; 137(1):433-9. PMC: 218467. DOI: 10.1128/jb.137.1.433-439.1979. View

Vold B, Lazar J, Gray A . Characterization of a deficiency of N6-(delta 2-isopentenyl)-2-methylthioadenosine in the Escherichia coli mutant trpX by use of antibodies to N6-(delta 2-isopentenyl)adenosine. J Biol Chem. 1979; 254(15):7362-7. View

Eisenberg S, Yarus M, Soll L . The effect of an Escherichia coli regulatory mutation on transfer RNA structure. J Mol Biol. 1979; 135(1):111-26. DOI: 10.1016/0022-2836(79)90343-7. View

Fluck M, Epstein R . Isolation and characterization of context mutations affecting the suppressibility of nonsense mutations. Mol Gen Genet. 1980; 177(4):615-27. DOI: 10.1007/BF00272672. View

Bossi L, Roth J . The influence of codon context on genetic code translation. Nature. 1980; 286(5769):123-7. DOI: 10.1038/286123a0. View

10.

Pieczenik G . Predicting coding function from nucleotide sequence or survival of "fitness" of tRNA. Proc Natl Acad Sci U S A. 1980; 77(6):3539-43. PMC: 349652. DOI: 10.1073/pnas.77.6.3539. View

11.

Bouadloun F, Donner D, Kurland C . Codon-specific missense errors in vivo. EMBO J. 1983; 2(8):1351-6. PMC: 555282. DOI: 10.1002/j.1460-2075.1983.tb01591.x. View

12.

Salser W . The influence of the reading context upon the suppression of nonsense codons. Mol Gen Genet. 1969; 105(2):125-30. DOI: 10.1007/BF00445682. View

13.

Salser W, Fluck M, Epstein R . The influence of the reading context upon the suppression of nonsense codons. 3. Cold Spring Harb Symp Quant Biol. 1969; 34:513-20. DOI: 10.1101/sqb.1969.034.01.058. View

14.

Yahata H, Ocada Y, Tsugita A . Adjacent effect on suppression efficiency. II. Study on ochre and amber mutants of T4 phage lysozyme. Mol Gen Genet. 1970; 106(3):208-12. DOI: 10.1007/BF00340380. View

15.

Bartz J, Kline L, Soll D . N6-(Delta 2-isopentenyl)adenosine: biosynthesis in vitro in transfer RNA by an enzyme purified from Escherichia coli. Biochem Biophys Res Commun. 1970; 40(6):1481-7. DOI: 10.1016/0006-291x(70)90035-5. View

16.

Gefter M, Russell R . Role modifications in tyrosine transfer RNA: a modified base affecting ribosome binding. J Mol Biol. 1969; 39(1):145-57. DOI: 10.1016/0022-2836(69)90339-8. View

17.

Hall B, Gallant J . Defective translation in RC - cells. Nat New Biol. 1972; 237(74):131-5. DOI: 10.1038/newbio237131a0. View

18.

Loftfield R, Vanderjagt D . The frequency of errors in protein biosynthesis. Biochem J. 1972; 128(5):1353-6. PMC: 1174024. DOI: 10.1042/bj1281353. View

19.

Putnam S, Koch A . Complications in the simplest cellular enzyme assay: lysis of Escherichia coli for the assay of beta-galactosidase. Anal Biochem. 1975; 63(2):350-60. DOI: 10.1016/0003-2697(75)90357-7. View

20.

Colby D, Schedl P, Guthrie C . A functional requirement for modification of the wobble nucleotide in tha anticodon of a T4 suppressor tRNA. Cell. 1976; 9(3):449-63. DOI: 10.1016/0092-8674(76)90090-8. View