Abstract
An intervening sequence (IVS) occurred in the 23S rRNA genes (rrl) of some, but not all, strains of four species of the spirochete genus Leptospira and was absent from strains in three other species. The IVS varied in size from 485 to 759 base pairs and replaced bases 1224-1245 in both copies of rrl. The two ends of each IVS shared 22-35 bases of complementarity that could form a stable double helix. The presence of an IVS correlated with a cleaved mature 23S rRNA that probably results from removal of the IVS without religation. The 3' site of cleavage was mapped within the inverted repeat of the IVS. An open reading frame of 121-133 amino acids was conserved in the IVS in all four species, oriented so that the sense strand was in the rRNA transcript. When the open reading frames were compared between species, they predicted polypeptides that showed between 51% and 78% amino acid conservation and similar DNA sequence conservation, indicating selection for protein function.
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- Belfort M. Phage T4 introns: self-splicing and mobility. Annu Rev Genet. 1990;24:363–385. doi: 10.1146/annurev.ge.24.120190.002051. [DOI] [PubMed] [Google Scholar]
- Burgin A. B., Parodos K., Lane D. J., Pace N. R. The excision of intervening sequences from Salmonella 23S ribosomal RNA. Cell. 1990 Feb 9;60(3):405–414. doi: 10.1016/0092-8674(90)90592-3. [DOI] [PubMed] [Google Scholar]
- Cech T. R. Self-splicing of group I introns. Annu Rev Biochem. 1990;59:543–568. doi: 10.1146/annurev.bi.59.070190.002551. [DOI] [PubMed] [Google Scholar]
- Dujon B., Belfort M., Butow R. A., Jacq C., Lemieux C., Perlman P. S., Vogt V. M. Mobile introns: definition of terms and recommended nomenclature. Gene. 1989 Oct 15;82(1):115–118. doi: 10.1016/0378-1119(89)90035-8. [DOI] [PubMed] [Google Scholar]
- Freier S. M., Kierzek R., Jaeger J. A., Sugimoto N., Caruthers M. H., Neilson T., Turner D. H. Improved free-energy parameters for predictions of RNA duplex stability. Proc Natl Acad Sci U S A. 1986 Dec;83(24):9373–9377. doi: 10.1073/pnas.83.24.9373. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fukunaga M., Horie I., Mifuchi I. Nucleotide sequence of a 23S ribosomal RNA gene from Leptospira interrogans serovar canicola strain Moulton. Nucleic Acids Res. 1989 Mar 11;17(5):2123–2123. doi: 10.1093/nar/17.5.2123. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fukunaga M., Mifuchi I. Unique organization of Leptospira interrogans rRNA genes. J Bacteriol. 1989 Nov;171(11):5763–5767. doi: 10.1128/jb.171.11.5763-5767.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gutell R. R., Fox G. E. A compilation of large subunit RNA sequences presented in a structural format. Nucleic Acids Res. 1988;16 (Suppl):r175–r269. doi: 10.1093/nar/16.suppl.r175. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Haraszthy V. I., Sunday G. J., Bobek L. A., Motley T. S., Preus H., Zambon J. J. Identification and analysis of the gap region in the 23S ribosomal RNA from Actinobacillus actinomycetemcomitans. J Dent Res. 1992 Sep;71(9):1561–1568. doi: 10.1177/00220345920710090401. [DOI] [PubMed] [Google Scholar]
- Hsu D., Pan M. J., Zee Y. C., LeFebvre R. B. Unique ribosome structure of Leptospira interrogans is composed of four rRNA components. J Bacteriol. 1990 Jun;172(6):3478–3480. doi: 10.1128/jb.172.6.3478-3480.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hsu D., Zee Y. C., Ingraham J., Shih L. M. Diversity of cleavage patterns of Salmonella 23S rRNA. J Gen Microbiol. 1992 Jan;138(1):199–203. doi: 10.1099/00221287-138-1-199. [DOI] [PubMed] [Google Scholar]
- Jacquier A. Self-splicing group II and nuclear pre-mRNA introns: how similar are they? Trends Biochem Sci. 1990 Sep;15(9):351–354. doi: 10.1016/0968-0004(90)90075-m. [DOI] [PubMed] [Google Scholar]
- Marshall P., Lemieux C. Cleavage pattern of the homing endonuclease encoded by the fifth intron in the chloroplast large subunit rRNA-encoding gene of Chlamydomonas eugametos. Gene. 1991 Aug 15;104(2):241–245. doi: 10.1016/0378-1119(91)90256-b. [DOI] [PubMed] [Google Scholar]
- Perler F. B., Comb D. G., Jack W. E., Moran L. S., Qiang B., Kucera R. B., Benner J., Slatko B. E., Nwankwo D. O., Hempstead S. K. Intervening sequences in an Archaea DNA polymerase gene. Proc Natl Acad Sci U S A. 1992 Jun 15;89(12):5577–5581. doi: 10.1073/pnas.89.12.5577. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pérolat P., Grimont F., Regnault B., Grimont P. A., Fournié E., Thevenet H., Baranton G. rRNA gene restriction patterns of Leptospira: a molecular typing system. Res Microbiol. 1990 Feb;141(2):159–171. doi: 10.1016/0923-2508(90)90025-l. [DOI] [PubMed] [Google Scholar]
- Ralph D., McClelland M., Welsh J., Baranton G., Perolat P. Leptospira species categorized by arbitrarily primed polymerase chain reaction (PCR) and by mapped restriction polymorphisms in PCR-amplified rRNA genes. J Bacteriol. 1993 Feb;175(4):973–981. doi: 10.1128/jb.175.4.973-981.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ramadass P., Jarvis B. D., Corner R. J., Penny D., Marshall R. B. Genetic characterization of pathogenic Leptospira species by DNA hybridization. Int J Syst Bacteriol. 1992 Apr;42(2):215–219. doi: 10.1099/00207713-42-2-215. [DOI] [PubMed] [Google Scholar]
- Raué H. A., Klootwijk J., Musters W. Evolutionary conservation of structure and function of high molecular weight ribosomal RNA. Prog Biophys Mol Biol. 1988;51(2):77–129. doi: 10.1016/0079-6107(88)90011-9. [DOI] [PubMed] [Google Scholar]
- Reinhold-Hurek B., Shub D. A. Self-splicing introns in tRNA genes of widely divergent bacteria. Nature. 1992 May 14;357(6374):173–176. doi: 10.1038/357173a0. [DOI] [PubMed] [Google Scholar]
- 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. Mol Microbiol. 1991 Mar;5(3):585–593. doi: 10.1111/j.1365-2958.1991.tb00729.x. [DOI] [PubMed] [Google Scholar]
- Spencer D. F., Collings J. C., Schnare M. N., Gray M. W. Multiple spacer sequences in the nuclear large subunit ribosomal RNA gene of Crithidia fasciculata. EMBO J. 1987 Apr;6(4):1063–1071. doi: 10.1002/j.1460-2075.1987.tb04859.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yamada T., Shimaji M. An intron in the 23S rRNA gene of the Chlorella chloroplasts: complete nucleotide sequence of the 23S rRNA gene. Curr Genet. 1987;11(5):347–352. doi: 10.1007/BF00378176. [DOI] [PubMed] [Google Scholar]
- Zuker M., Stiegler P. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res. 1981 Jan 10;9(1):133–148. doi: 10.1093/nar/9.1.133. [DOI] [PMC free article] [PubMed] [Google Scholar]
- van der Veen R., Arnberg A. C., van der Horst G., Bonen L., Tabak H. F., Grivell L. A. Excised group II introns in yeast mitochondria are lariats and can be formed by self-splicing in vitro. Cell. 1986 Jan 31;44(2):225–234. doi: 10.1016/0092-8674(86)90756-7. [DOI] [PubMed] [Google Scholar]