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. 1978 Jan;133(1):240–250. doi: 10.1128/jb.133.1.240-250.1978

Composition and Characterization of tRNA from Methanococcus vannielii.

A N Best
PMCID: PMC222000  PMID: 618840

Abstract

Purified bulk tRNA from Methanococcus vanielii (carbon source, formate) showed variation in the modified nucleoside pattern reported for Escherichia coli as analyzed by both ion-exchange and thin-layer chromatography. Ribothymidine and 7-methylguanosine were absent; 1-methyladenosine, 1-methylguanosine, N2-methylguanosine, N2,N2-dimethylguanosine, thiolated nucleosides, pseudouridine, dihydrouridine, and O2'-methylcytidine were quantitated. In vitro methylation by M. Vannielii extracts with S-adenosylmethionine and undermethylated E. coli tRNA revealed active tRNA methyltransferases for formation of methylated residues found in native M. vannielii tRNA, but none for the formation of 7-methylguanosine or ribothymidine. The native M. vannielii tRNA became methylated in the 7-methylguanosine position by E. Coli extracts, but ribothymidine was not formed. Both M. vannielii and E. coli tRNA methyltransferases produced unidentified methylated residues in tRNA's lacking or deficient in ribothymidine.

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Selected References

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  1. Agris P. F., Koh H., Söll D. The effect of growth temperatures on the in vivo ribose methylation of Bacillus stearothermophilus transfer RNA. Arch Biochem Biophys. 1973 Jan;154(1):277–282. doi: 10.1016/0003-9861(73)90058-1. [DOI] [PubMed] [Google Scholar]
  2. Baumstark B. R., Spremulli L. L., RajBhandary U. L., Brown G. M. Initiation of protein synthesis without formylation in a mutant of Escherichia coli that grows in the absence of tetrahydrofolate. J Bacteriol. 1977 Jan;129(1):457–471. doi: 10.1128/jb.129.1.457-471.1977. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Chia L. L., Morris H. P., Randerath K., Randerath E. Base composition studies on mitochondrial 4 S RNA from rat liver and Morris hepatomas 5123D and 7777. Biochim Biophys Acta. 1976 Feb 18;425(1):49–62. doi: 10.1016/0005-2787(76)90215-x. [DOI] [PubMed] [Google Scholar]
  4. HURWITZ J., GOLD M., ANDERS M. THE ENZYMATIC METHYLATION OF RIBONUCLEIC ACID AND DEOXYRIBONUCLEIC ACID. IV. THE PROPERTIES OF THE SOLUBLE RIBONUCLEIC ACID-METHYLATING ENZYMES. J Biol Chem. 1964 Oct;239:3474–3482. [PubMed] [Google Scholar]
  5. Harada F., Kimura F., Nishimura S. Primary sequence of tRNA val from Escherichia coli B. I. Oligonucleotide sequences of digests of Escherichia coli tRNA val with RNase T and pancreatic RNase. Biochemistry. 1971 Aug 17;10(17):3269–3277. doi: 10.1021/bi00793a017. [DOI] [PubMed] [Google Scholar]
  6. Hashimoto S., Sakai M., Muramatsu M. 2'-O-methylated oligonucleotides in ribosomal 18S and 28S RNA of a mouse hepatoma, MH 134. Biochemistry. 1975 May 6;14(9):1956–1964. doi: 10.1021/bi00680a024. [DOI] [PubMed] [Google Scholar]
  7. Loening U. E. The fractionation of high-molecular-weight ribonucleic acid by polyacrylamide-gel electrophoresis. Biochem J. 1967 Jan;102(1):251–257. doi: 10.1042/bj1020251. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Murao K., Hasegawa T., Ishikura H. 5-methoxyuridine: a new minor constituent located in the first position of the anticodon of tRNAAla, tRNAThr, and tRNAVal from Bacillus subtilis. Nucleic Acids Res. 1976 Oct;3(10):2851–2860. doi: 10.1093/nar/3.10.2851. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Nishimura S., Harada F., Narushima U., Seno T. Purification of methionine-, valine-, phenylalanine- and tyrosine-specific tRNA from Escherichia coli. Biochim Biophys Acta. 1967 Jun 20;142(1):133–148. doi: 10.1016/0005-2787(67)90522-9. [DOI] [PubMed] [Google Scholar]
  10. Nishimura S. Minor components in transfer RNA: their characterization, location, and function. Prog Nucleic Acid Res Mol Biol. 1972;12:49–85. [PubMed] [Google Scholar]
  11. Randerath E., Chia L. L., Morris H. P., Randerath K. Base analysis of RNA by 3H postlabeling--a study of ribothymidine content and degree of base methylation of 4 S RNA. Biochim Biophys Acta. 1974 Oct 11;366(2):159–167. doi: 10.1016/0005-2787(74)90330-x. [DOI] [PubMed] [Google Scholar]
  12. Rogg H., Brambilla R., Keith G., Staehelin M. An improved method for the separation and quantitation of the modified nucleosides of transfer RNA. Nucleic Acids Res. 1976 Jan;3(1):285–295. doi: 10.1093/nar/3.1.285. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Rogg H., Staehelin M. Nucleotide sequences of rat liver serine-tRNA. 1. Products of digestion with pancreatic ribonuclease. Eur J Biochem. 1971 Jul 29;21(2):235–242. doi: 10.1111/j.1432-1033.1971.tb01461.x. [DOI] [PubMed] [Google Scholar]
  14. STADTMAN T. C., BARKER H. A. Studies on the methane fermentation. X. A new formate-decomposing bacterium, Methanococcus vannielii. J Bacteriol. 1951 Sep;62(3):269–280. doi: 10.1128/jb.62.3.269-280.1951. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Samuel C. E., Rabinowitz J. C. Initiation of protein synthesis by folate-sufficient and folate-deficient Streptococcus faecalis R. Biochemical and biophysical properties of methionine transfer ribonucleic acid. J Biol Chem. 1974 Feb 25;249(4):1198–1206. [PubMed] [Google Scholar]
  16. Schmidt W., Arnold H. H., Kersten H. Tetrahydrofolate-dependent biosynthesis of ribothymidine in transfer ribonucleic acids of Gram-positive bacteria. J Bacteriol. 1977 Jan;129(1):15–21. doi: 10.1128/jb.129.1.15-21.1977. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Shugart L., Chastain B. H., Novelli G. D., Stulberg M. P. Restoration of aminoacylation activity of undermethylated transfer RNA by in vitro methylation. Biochem Biophys Res Commun. 1968 May 10;31(3):404–409. doi: 10.1016/0006-291x(68)90490-7. [DOI] [PubMed] [Google Scholar]
  18. Shugart L., Stulberg M. P. Isolation, purification, and methylation of undermethylated tRNA Phe from an RC rel mutant of Escherichia coli. Methods Enzymol. 1974;29:492–502. [PubMed] [Google Scholar]
  19. Singhal R. P. Ion-exlusion chromatography: analysis and isolation of nucleic acid components, and influence of separation parameters. Arch Biochem Biophys. 1972 Oct;152(2):800–810. doi: 10.1016/0003-9861(72)90276-7. [DOI] [PubMed] [Google Scholar]
  20. Stadtman T. C. Methane fermentation. Annu Rev Microbiol. 1967;21:121–142. doi: 10.1146/annurev.mi.21.100167.001005. [DOI] [PubMed] [Google Scholar]
  21. Uziel M., Koh C. K., Cohn W. E. Rapid ion-exchange chromatographic microanalysis of ultraviolet-absorbing materials and its application to nucleosides. Anal Biochem. 1968 Oct 24;25(1):77–98. doi: 10.1016/0003-2697(68)90083-3. [DOI] [PubMed] [Google Scholar]
  22. Uziel M., Koh C. Rapid and sensitive measurement of 7-methylguanosine and N 6 -isopentenyl derivatives of adenosine by cation-exchange chromatography. J Chromatogr. 1971 Jul 8;59(1):188–193. doi: 10.1016/s0021-9673(01)80025-x. [DOI] [PubMed] [Google Scholar]
  23. Uziel M., Smith L. H., Taylor S. A. Modified nucleosides in urine: selective removal and analysis. Clin Chem. 1976 Sep;22(9):1451–1455. [PubMed] [Google Scholar]
  24. Vold B. Modified nucleosides of Bacillus subtilis transfer ribonucleic acids. J Bacteriol. 1976 Jul;127(1):258–267. doi: 10.1128/jb.127.1.258-267.1976. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Walker R. T., RajBhandary U. L. Formylatable methionine transfer RNA from Mycoplasma: purification and comparison of partial nucleotide sequences with those of other prokaryotic initiator tRNAs. Nucleic Acids Res. 1975 Jan;2(1):61–78. doi: 10.1093/nar/2.1.61. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Watanabe K., Oshima T., Saneyoshi M., Nishimura S. Replacement of ribothymidine by 5-methyl-2-thiouridine in sequence GT psi C in tRNA of an extreme thermophile. FEBS Lett. 1974 Jul 1;43(1):59–63. doi: 10.1016/0014-5793(74)81105-1. [DOI] [PubMed] [Google Scholar]
  27. Waters L. C., Shugart L., Yang W. K., Best A. N. Some physical and biological properties of 4-thiouridine- and dihydrouridine-deficient tRNA from chloramphenicol-treated Escherichia coli. Arch Biochem Biophys. 1973 Jun;156(2):780–793. doi: 10.1016/0003-9861(73)90332-9. [DOI] [PubMed] [Google Scholar]
  28. al-Arif A., Sporn M. B. An analytical method for the separation of sugar-methylated ribonucleosides from base-methylated and nonmethylated ribonucleosides. Anal Biochem. 1972 Aug;48(2):386–393. doi: 10.1016/0003-2697(72)90091-7. [DOI] [PubMed] [Google Scholar]

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