High apparent rate of simultaneous compensatory base-pair substitutions in ribosomal RNA

Genetics

Volumn 148, Issue 4, 1998, Pages 1993-2002

  Tillier, Elisabeth R M ^a   Collins, Richard A ^a  

^a UNIVERSITY OF TORONTO   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; CYTOSINE; GUANINE; RIBOSOME RNA; URACIL;

ARTICLE; EVOLUTION; GENETIC DISTANCE; MATHEMATICAL MODEL; MAXIMUM LIKELIHOOD METHOD; NUCLEIC ACID BASE SUBSTITUTION; PRIORITY JOURNAL; PROBABILITY; RNA SEQUENCE;

ANIMALS; BASE COMPOSITION; COMPUTER SIMULATION; LIKELIHOOD FUNCTIONS; MODELS, GENETIC; MUTAGENESIS; RNA, RIBOSOMAL;

EID: 0031894830     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (19)

1. DIXON, M. T., and D. M. HILLIS, 1993 Ribosomal RNA secondary structure: compensatory mutations and implications for phylogenetic analysis. Mol. Biol. Evol. 10: 256-267.
2. GOLDING, G. B., 1987 Nonrandom patterns of mutation arc reflected in evolutionary divergence and may cause some of the unusual patterns observed in sequences, pp. 151-172 in Genetic Constraints on Adaptive Evolution, edited by V. LOESCHCKE. Springer-Verlag, Berlin.
3. GUTELL, R. R., 1994 Collection of small subunit (16S-and 16S-like) ribosomal RNA structures. Nucleic Acids Res. 22: 3502-3507.
4. HASEGAWA, M., H. KISHINO and T. YANO, 1985 Dating the humanape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22: 160-174.
5. HILLIS, D. M., and M. T. DIXON, 1991 Ribosomal DNA: molecular evolution and phylogenetic inference. Q. Rev. Biol. 66: 411-453.
6. JUKES, T. H., and C. R. CANTOR, 1969 Evolution of protein molecules, pp. 21-132, in Mammalian Protein Metabolism, edited by H. N. MUNRO. Academic Press, New York.
7. KIMURA, M., 1985 The role of compensatory neutral mutations in molecular evolution. J. Genet. 64: 7-9.
8. MAIDAK, B. L., G. J. OLSEN, N. LARSEN, R. OVERBEEK, M. J. MCCAUGHEY et al., 1996 The Ribosomal Database Project. Nucleic Acids Res. 24: 82-85.
9. MUSE, S. V., 1995 Evolutionary analyses of DNA sequences subject to constraints on secondary structure. Genetics 139: 1429-1439.
10. NOLLER, H. F., 1984 Structure of ribosomal RNA. Annu. Rev. Biochem. 53: 119-162.
11. OLSEN, G. J., and C. R. WOESE, 1993 Ribosomal RNA: a key to phylogeny. FASEB J. 7: 113-123.
12. ROUSSET, F., M. PÉLANDAKIS, and M. SOLIGNAC, 1991 Evolution of compensatory substitutions through a G-U intermediate state in Drosophila rRNA. Proc. Natl. Acad. Sci. USA 88: 10032-10036.
13. RZHETSKY, A., 1995 Estimating substitution rates in ribosomal RNA genes. Genetics 141: 771-783.
14. SCHONIGER, M., and A. VON HAESKLER, 1994 A stochastic model for the evolution of autocorrelated DNA sequences. Mol. Phyl. Evol. 3: 240-247.
15. STEPHAN, W., 1996 The rate of compensatory evolution. Genetics 144: 419-426.
16. TILLIER, E. R. M., 1994 Maximum Likelihood with multi-parameter models of substitution. J. Mol. Evol. 39: 409-417.
17. TILLIER, E. R. M., and R. A. COLLINS, 1995 Neighbor Joining and Maximum Likelihood with RNA sequences: addressing the inter-dependence of sites. Mol. Biol. Evol. 12: 7-15.
18. VAWTER, L., and W. M. BROWN, 1993 Rates and patterns of base change in the small subunit ribosomal RNA gene. Genetics 134: 597-608.
19. WHEELER, W. C., and R. E. HONEYCUTT,1988 Paired sequence difference in ribosomal RNAs: evolutionary and phylogenetic implications. Mol. Biol. Evol. 5: 90-96.