Sequence similarities between large subunit ribosomal RNA gene intervening sequences from different Helicobacter species

Gene

Volumn 194, Issue 1, 1997, Pages 69-75

  Hurtado, Ana ^a   Clewley, Jonathan P ^a   Linton, Dennis ^a   Owena, Robert J ^a   Stanley, John ^a  

^a CENTRAL PUBLIC HEALTH LABORATORY   (United Kingdom)

Author keywords

23S rRNA gene; Evolution; Inter relationships; IVSs

Indexed keywords

BACTERIAL DNA; RIBOSOME DNA; RNA 23S;

ARTICLE; BACTERIAL GENE; CAMPYLOBACTER; DNA SEQUENCE; DNA STRUCTURE; HELICOBACTER; HELICOBACTER PYLORI; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SEQUENCE HOMOLOGY;

BASE SEQUENCE; DNA, BACTERIAL; DNA, RIBOSOMAL; HELICOBACTER; HELICOBACTER PYLORI; INTRONS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; RNA, RIBOSOMAL, 23S; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, NUCLEIC ACID;

BACTERIA (MICROORGANISMS); CAMPYLOBACTER; CANIS; HELICOBACTER; HELICOBACTER CANIS; HELICOBACTER MURIDARUM; HELICOBACTER MUSTELAE; HELICOBACTER PYLORI;

EID: 0030837782     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(97)00158-3     Document Type: Article

References (27)

1. Afseth, G., Mo, Y.Y., Mallavia, L.P., 1995. Characterization of the 23S and 5S rRNA genes of Coxiella burnetii and identification of an intervening sequence within the 23S rRNA gene. J. Bacteriol. 177, 2946-2949.
2. Burgin, A.B., Parodos, K., Lane, D.J., Pace, N.R., 1990. The excision of intervening sequences from Salmonella 23S ribosomal RNA. Cell 60, 405-414.
3. Cover, T.L., Blaser, M.J., 1995. Helicobacter pylori: a bacterial cause of gastritis, peptic ulcer disease, and gastric cancer. ASM News 61, 21-26.
4. Embley, T.M., 1991. The linear PCR reaction: a simple and robust method for sequencing amplified rRNA genes. Lett. Appl. Microbiol. 13, 171-174.
5. Fickett, J.W., 1982. Recognition of protein coding regions in DNA sequences. Nucleic Acids Res. 10, 5303-5318.
6. Fox, J.G., Murphy, J.C., Otto, G., Pecquet-Goad, M.E., Lawson, G.H., Scott, J.A., 1989. Proliferative colitis in ferrets: epithelial dysplasia and translocation. Vet. Pathol. 26, 515-517.
7. Fox, J.G., Yan, L.L., Dewhirst, F.E., Paster, B.J., Shames, B., Murphy, J.C., Hayward, A., Belcher, J.C., Mendes, E.N., 1995. Helicobacter bills sp. nov., a novel Helicobacter species isolated from bile, livers, and intestines of aged, inbred mice. J. Clin. Microbiol. 33, 445-454.
8. Goodwin, C.S., Armstrong, J.A., Chilvers, T., Peters, M., Collins, M.D., Sly, L., McConnell, W., Harper, W.E.S., 1989. Transfer of Campylobacter pylori and Campylobacter mustelae to Helicobacter gen. nov., as Helicobacter pylori comb. nov. and Helicobacter mustelae comb, nov., respectively. Int. J. Syst. Bacteriol. 39, 397-405.
9. Gribskov, M., Devereux, J., Burgess, R.R., 1984. The codon preference plot: graphic analysis of protein coding sequences and prediction of gene expression. Nucleic Acids Res. 12, 539-549.
10. Higgins, D.G. (1994) Clustal V: multiple alignment of DNA and protein sequences. In: Computer Analysis of Sequence Data, Part I (Griffin, A.M. and Griffin, H.G., Eds.), Humana Press, New York, NY.
11. Hsu, D., Pan, M.J., Zee, Y.C., LeFebvre, R.B., 1990. Unique ribosome structure of Leptospira interrogans is composed of four rRNA component. J. Bacteriol. 172, 3478-3480.
12. Hsu, D., Zee, Y.C., Ingraham, J., Shih, L.M., 1992. Diversity of cleavage patterns of Salmonella 23S rRNA. J. Gen. Microbiol. 138, 199-203.
13. Jaeger, J.A., Turner, D.H., Zuker, M., 1989. Predicting optimal and suboptimal secondary structure for RNA. Methods Enzymol. 183.
14. Konkel, M.E., Marconi, R.T., Mead, D.J., Cieplak Jr., W., 1994. Identification and characterization of an intervening sequence within the 23S ribosomal RNA genes of Campylobacter jejuni. Mol. Microbiol. 14, 235-241.
15. Lane, D.J. (1991) 16S/23S rRNA sequencing. In: Nucleic Acid Techniques In Bacterial Systematics (Stackebrandt, M., Ed.). Wiley, New York, NY.
16. Lee, A., Phillips, M.W., O'Rourke, J.L., Paster, B.J., Dewhirst, F.E., Fraser, G.J., Fox, J.G., Sly, L.I., Romaniuk, P.J., Trust, T.J., Kouprch, S., 1992. Helicobacter muridarum sp. nov., a microaerophilic helical bacterium with a novel ultrastructure isolated from the intestinal mucosa of rodents. Int. J. Syst. Bacteriol. 42, 27-36.
17. Linton, D., Clewley, J.P., Burnens, A., Owen, R.J., Stanley, J., 1994. An intervening sequence (IVS) in the 16S rRNA gene of the eubacterium Helicobacter canis. Nucleic Acids Res. 22, 1954-1958.
18. Linton, D., Dewhirst, F.E., Clewley, J.P., Owen, R.J., Burnens, A.P., Stanley, J., 1994. Two types of 16S rRNA gene are found in Campylobacter helveticus: analysis, applications and characterization of the intervening sequence found in some strains. Microbiology 140, 847-855.
19. Ludwig, W., Rosello-Mora, R., Aznar, R., Klugbauer, S., Spring, S., Reetz, K., Beimfohr, C., Brockmann, E., Kirchhof, G., Dorn, S., Bachleitner, M., Klugbauer, N., Springer, N., Lane, D., Nietupsky, R., Weizenegger, M., Schleifer, K.H., 1995. Comparative sequence analysis of 23S rRNA from Proteobacteria. Syst. Appl. Microbiol. 18, 164-188.
20. Mattatall, N.R., Daines, D.A., Liu, S.-H., Sanderson, K.E., 1996. Salmonella typhi contains identical intervening sequences in all seven rrl genes. J. Bacteriol. 178, 5323-5326.
21. Mendes, E.N., Queiroz, D.M.M., Dewhirst, F.E., Paster, B.J., Moura, S.B., Fox, J.G., 1996. Helicobacter trogontum sp. nov., isolated from the rat intestine. Int. J. Syst. Bacteriol. 46, 916-921.
22. Ralph, D., McClelland, M., 1993. Intervening sequence with conserved open reading frame in eubacterial 23S rRNA genes. Proc. Natl. Acad. Sci. USA 90, 6864-6868.
23. Skurnik, M., Toivanen, P., Intervening sequences (IVSs) in the 23S ribosomal RNA genes of pathogenic Yersinia enterocolitica strains. The IVSs in Y. enterocolitica and Salmonella typhimurium have a common origin. 1991. Mol. Microbiol. 5, 585-593,
24. Stanley, J., Linton, D., Burnens, A.P., Dewhirst, F.E., Owen, R.J., Porter, A., On, S.L., Costas, M., 1993. Helicobacter canis sp. nov., a new species from dogs: an integrated study of phenotype and genotype. J. Gen. Microbiol. 139, 2495-2504.
25. Sunday, G.J., Gillespie, M.J., Motley, S.T., Zambon, J.J., 1991. Atypical structure of the 23S ribosomal RNA molecule in certain oral bacteria. J. Dent Res. 70, 961-965.
26. Trust, T.J., Logan, S.M., Gustafson, C.E., Romaniuk, P.J., Kim, N.W., Chan, V.L., Ragan, M.A., Guerry, P., Gutell, R.R., Phylogenetic and molecular characterization of a 23S rRNA gene positions the genus Campylobacter in the epsilon subdivision of the Proteobacteria and shows that the presence of transcribed spacers is common in Campylobacter spp. 1994. J. Bacteriol. 176, 4597-4609.
27. Van Camp, G., Van de Peer, Y., Nicolai, S., Neefs, J., Vandamme, P., De Wachter, R., 1993. Structure of 16S and 23S ribosomal RNA genes in Campylobacter species: phylogenetic analysis of the genus Campylobacter and presence of internal transcribed spacers. Syst. Appl. Microbiol. 16, 361-368.