Trematode and monogenean rRNA ITS2 secondary structures support a four- domain model

Journal of Molecular Evolution

Volumn 47, Issue 4, 1998, Pages 406-419

  Morgan, Jess A T ^a   Blair, David ^a  

^a JAMES COOK UNIVERSITY   (Australia)

Author keywords

ITS2; Monogenean; Ribosomal RNA; Secondary structure; Trematode

Indexed keywords

RIBOSOME RNA;

ARTICLE; MOLECULAR EVOLUTION; MOLECULAR MODEL; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; RNA STRUCTURE; TREMATODE;

ANIMALS; BASE SEQUENCE; EVOLUTION, MOLECULAR; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; PHYLOGENY; PLATYHELMINTHS; RATS; RNA, HELMINTH; RNA, RIBOSOMAL; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, NUCLEIC ACID; THERMODYNAMICS; TREMATODA;

INVERTEBRATA; MONOGENEA; TREMATODA;

EID: 0031664649     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/PL00006398     Document Type: Article

References (29)

1. Blair D, Agatsuma T, Watanobe T, Okamoto M, Ito A (1997a) Geographical genetic structure within the human lung fluke. Paragonimus westermani, detected from DNA sequences. Parasitology 115:411-417
2. Blair D, van Herwerden L, Hirai H, Taguchi T, Habe S, Horata M, Lai K, Upatham S, Agatsuma T (1997b) Relationships between Schistosoma malayensis and other Asian schistosomes deduced from DNA sequences. Mol Biochem Parasitol 85:259-263
3. Bowles J, Blair D, McManus DP (1995) A molecular phylogeny of the human schistosomes. Mol Phyl Evol 4:103-109
4. Brooks DR, McLennan DA (1993) Parascript - parasites and the language of evolution. Smithsonian Institute Press, Washington, DC, pp 220-241
5. Cunningham CO (1997) Species variation within the internal transcribed spacer (ITS) region of Gyrodactylus (Monogenea: Gyrodactylidae) ribosomal RNA genes. J Parasitol 83:215-219
6. Després L, Kruger FJ, Imbert-Establet D, Adamson ML (1995) The taxonomical status of S. hippopotami supported by ITS2 sequences analysis. Int J Parasitol 25:1509-1514
7. Devereux J, Haeberli P, Smithies O (1984) A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res 12: 387
8. Gonzalez IL, Chambers C, Gorski JL, Stambolian D, Schmickel RD, Sylvester JE (1990) Sequence and structure correlation of human ribosomal transcribed spacers. J Mol Biol 212:27-35
9. Hashimoto K, Watanobe T, Liu CX, Init I, Blair D, Ohnishi S, Agatsuma T (1997) Mitochondrial DNA and nuclear DNA indicate that the Japanese Fasciola species is F. gigantica. Parasitol Res 83:220-225
10. Hindenach BR, Stafford DW (1984) Nucleotide sequence of the 18S-26S rRNA intergene region of the sea urchin. Nucleic Acids Res 12:1737-1747
11. Kane RA, Rollinson D (1994) Repetitive sequences in the ribosomal DNA internal spacer of Schistosoma haematobium, Schistosoma intercalatum and Schistosoma mattheei. Mol Biochem Parasitol 63:153-156
12. Kurniasih (1995) Classical and molecular taxonomy of trematode parasites (Gastrothylacidae and Fasciolidae) of large Indonesian domestic animals, Ph.D. dissertation, University of Queensland, Townsland
13. Luton K, Walker D, Blair D (1992) Comparisons of ribosomal internal transcribed spacers from two congeneric species of flukes (Trematoda: Digenea). Mol Biochem Parasitol 56:323-328
14. Mai JC, Coleman AW (1997) The internal transcribed spacer 2 exhibits a common secondary structure in green algae and flowering plants. J Mol Evol 44:258-271
15. McCullagh P, Nelder JA (1989) Generalized linear models. Chapman and Hall, London, pp 33-36
16. Michot B, Després L, Bonhomme F, Bachellerie J-P (1993) Conserved secondary structures in the ITS2 of trematode pre-rRNA. FEBS Lett 316:247-252
17. Morgan JAT, Blair D (1995) Nuclear rDNA ITS sequence variation in the trematode genus Echinostoma: an aid to establishing relationships within the 37 collar-spine group. Parasitology 111:609-615
18. Odorico DM, Miller DJ (1997) Variation in the ribosomal internal transcribed spacers and 5.8S rDNA among five species of Acropora (Cnidaria, Scleractinia): patterns of variation consistent with reticulate evolution. Mol Biol Evol 14:465-473
19. Pace NR, Smith DK, Olsen GJ, James BD (1989) Phylogenetic comparative analysis and the secondary structure of ribonuclease P RNA - a review. Gene 82:65-75
20. Paskewitz SM, Wesson DM, Collins FH (1993) The internal transcribed spacers of ribosomal DNA in five members of the Anopheles gambiae species complex. Insect Mol Biol 2:247-257
21. Reddy R, Rothblum LI, Subrahmanyam CS, Liu M-H, Henning D, Cassidy B, Busch H (1983) The nucleotide sequence of 8S RNA bound to preribosomal RNA of Novikoff hepatoma. J Biol Chem 258:584-589
22. Schlötterer C, Hauser M-T, von Haeseler A, Tautz D (1994) Comparative evolutionary analysis of rDNA ITS regions in Drosophila. Mol Biol Evol 11:513-522
23. van der Sande CAFM, Kwa M, van Nues RW, van Heerikhuizen H, Raué HA, Planta RJ (1992) Functional analysis of internal transcribed spacer 2 of Saccharomyces cerevisiae ribosomal DNA. J Mol Biol 223:899-910
24. van Nues RW, Rientjes JMJ, Morré SA, Mollee E, Planta RJ, Venema J, Raué HA (1995) Evolutionarily conserved structural elements are critical for processing of internal transcribed spacer 2 from Saccharomyces cerevisiae precursor ribosomal RNA. J Mol Biol 250: 24-36
25. Veldman GM, Klootwijk J, van Heerikhuizen H, Planta RJ (1981) The nucleotide sequence of the intergenic region between 5.8s and 26s rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8s and 26s rRNA and the processing of the primary transcript. Nucleic Acids Res 9:4847-4862
26. Wesson DM, Porter CH, Collins FH (1992) Sequence and secondary structure comparisons of ITS rDNA in mosquitoes (Diptera: Culicidae). Mol Phyl Evol 1:253-269
27. Yeh L-CC, Lee JC (1990) Structural analysis of the internal transcribed spacer 2 of the precursor ribosomal RNA of Saccharomyces cerevisiae. J Mol Biol 211:699-712
28. Zuker M, Stiegler P (1981) Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res 9:133-148
29. Zuker M, Jaeger JA, Turner DH (1991) A comparison of optimal and suboptimal secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison. Nucleic Acids Res 19:2707-2714