Skip to main content
NCBI home page
Nucleic Acids Research logoLink to Nucleic Acids Research
. 1992 May 11;20(Suppl):2095–2109. doi: 10.1093/nar/20.suppl.2095

A compilation of large subunit (23S- and 23S-like) ribosomal RNA structures

Robin R Gutell 1,a, Murray N Schnare 2, Michael W Gray 2,a
PMCID: PMC333986  PMID: 1375996

Full text

PDF
2095

Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Abdel-Malik M. S., Court D. A., Cheng C. K., Bertrand H. Nucleotide sequence of the exons of the large subunit rRNA of Neurospora crassa mitochondria. Nucleic Acids Res. 1990 Dec 25;18(24):7440–7440. doi: 10.1093/nar/18.24.7440. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Ajuh P. M., Heeney P. A., Maden B. E. Xenopus borealis and Xenopus laevis 28S ribosomal DNA and the complete 40S ribosomal precursor RNA coding units of both species. Proc Biol Sci. 1991 Jul 22;245(1312):65–71. doi: 10.1098/rspb.1991.0089. [DOI] [PubMed] [Google Scholar]
  3. Anderson S., Bankier A. T., Barrell B. G., de Bruijn M. H., Coulson A. R., Drouin J., Eperon I. C., Nierlich D. P., Roe B. A., Sanger F. Sequence and organization of the human mitochondrial genome. Nature. 1981 Apr 9;290(5806):457–465. doi: 10.1038/290457a0. [DOI] [PubMed] [Google Scholar]
  4. Anderson S., de Bruijn M. H., Coulson A. R., Eperon I. C., Sanger F., Young I. G. Complete sequence of bovine mitochondrial DNA. Conserved features of the mammalian mitochondrial genome. J Mol Biol. 1982 Apr 25;156(4):683–717. doi: 10.1016/0022-2836(82)90137-1. [DOI] [PubMed] [Google Scholar]
  5. Arnason U., Gullberg A., Widegren B. The complete nucleotide sequence of the mitochondrial DNA of the fin whale, Balaenoptera physalus. J Mol Evol. 1991 Dec;33(6):556–568. doi: 10.1007/BF02102808. [DOI] [PubMed] [Google Scholar]
  6. Bibb M. J., Van Etten R. A., Wright C. T., Walberg M. W., Clayton D. A. Sequence and gene organization of mouse mitochondrial DNA. Cell. 1981 Oct;26(2 Pt 2):167–180. doi: 10.1016/0092-8674(81)90300-7. [DOI] [PubMed] [Google Scholar]
  7. Boer P. H., Gray M. W. Genes encoding a subunit of respiratory NADH dehydrogenase (ND1) and a reverse transcriptase-like protein (RTL) are linked to ribosomal RNA gene pieces in Chlamydomonas reinhardtii mitochondrial DNA. EMBO J. 1988 Nov;7(11):3501–3508. doi: 10.1002/j.1460-2075.1988.tb03226.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Boer P. H., Gray M. W. Scrambled ribosomal RNA gene pieces in Chlamydomonas reinhardtii mitochondrial DNA. Cell. 1988 Nov 4;55(3):399–411. doi: 10.1016/0092-8674(88)90026-8. [DOI] [PubMed] [Google Scholar]
  9. Boer P. H., Gray M. W. Short dispersed repeats localized in spacer regions of Chlamydomonas reinhardtii mitochondrial DNA. Curr Genet. 1991 Apr;19(4):309–312. doi: 10.1007/BF00355060. [DOI] [PubMed] [Google Scholar]
  10. Branlant C., Krol A., Machatt M. A., Pouyet J., Ebel J. P., Edwards K., Kössel H. Primary and secondary structures of Escherichia coli MRE 600 23S ribosomal RNA. Comparison with models of secondary structure for maize chloroplast 23S rRNA and for large portions of mouse and human 16S mitochondrial rRNAs. Nucleic Acids Res. 1981 Sep 11;9(17):4303–4324. doi: 10.1093/nar/9.17.4303. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Branlant C., Krol A., Machatt M. A., Pouyet J., Ebel J. P., Edwards K., Kössel H. Primary and secondary structures of Escherichia coli MRE 600 23S ribosomal RNA. Comparison with models of secondary structure for maize chloroplast 23S rRNA and for large portions of mouse and human 16S mitochondrial rRNAs. Nucleic Acids Res. 1981 Sep 11;9(17):4303–4324. doi: 10.1093/nar/9.17.4303. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Brombach M., Specht T., Erdmann V. A., Ulbrich N. Complete nucleotide sequence of a 23S ribosomal RNA gene from Halobacterium marismortui. Nucleic Acids Res. 1989 Apr 25;17(8):3293–3293. doi: 10.1093/nar/17.8.3293. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Brosius J., Dull T. J., Noller H. F. Complete nucleotide sequence of a 23S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci U S A. 1980 Jan;77(1):201–204. doi: 10.1073/pnas.77.1.201. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Brosius J., Dull T. J., Noller H. F. Complete nucleotide sequence of a 23S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci U S A. 1980 Jan;77(1):201–204. doi: 10.1073/pnas.77.1.201. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Burggraf S., Ching A., Stetter K. O., Woese C. R. The sequence of Methanospirillum hungatei 23S rRNA confirms the specific relationship between the extreme halophiles and the Methanomicrobiales. Syst Appl Microbiol. 1991;14:358–363. doi: 10.1016/s0723-2020(11)80310-3. [DOI] [PubMed] [Google Scholar]
  16. Campbell D. A., Kubo K., Clark C. G., Boothroyd J. C. Precise identification of cleavage sites involved in the unusual processing of trypanosome ribosomal RNA. J Mol Biol. 1987 Jul 5;196(1):113–124. doi: 10.1016/0022-2836(87)90514-6. [DOI] [PubMed] [Google Scholar]
  17. Cantatore P., Roberti M., Rainaldi G., Gadaleta M. N., Saccone C. The complete nucleotide sequence, gene organization, and genetic code of the mitochondrial genome of Paracentrotus lividus. J Biol Chem. 1989 Jul 5;264(19):10965–10975. [PubMed] [Google Scholar]
  18. Capesius I. Nucleotide sequence of a 25S rRNA gene from mustard (Sinapis alba). Plant Mol Biol. 1991 Jun;16(6):1093–1094. doi: 10.1007/BF00016084. [DOI] [PubMed] [Google Scholar]
  19. Cavalier-Smith T. Eukaryotes with no mitochondria. 1987 Mar 26-Apr 1Nature. 326(6111):332–333. doi: 10.1038/326332a0. [DOI] [PubMed] [Google Scholar]
  20. Chan Y. L., Olvera J., Wool I. G. The structure of rat 28S ribosomal ribonucleic acid inferred from the sequence of nucleotides in a gene. Nucleic Acids Res. 1983 Nov 25;11(22):7819–7831. doi: 10.1093/nar/11.22.7819. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Clary D. O., Wolstenholme D. R. The ribosomal RNA genes of Drosophila mitochondrial DNA. Nucleic Acids Res. 1985 Jun 11;13(11):4029–4045. doi: 10.1093/nar/13.11.4029. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Cummings D. J., Domenico J. M., Nelson J. DNA sequence and secondary structures of the large subunit rRNA coding regions and its two class I introns of mitochondrial DNA from Podospora anserina. J Mol Evol. 1989 Mar;28(3):242–255. doi: 10.1007/BF02102482. [DOI] [PubMed] [Google Scholar]
  23. Cummings D. J., McNally K. L., Domenico J. M., Matsuura E. T. The complete DNA sequence of the mitochondrial genome of Podospora anserina. Curr Genet. 1990 May;17(5):375–402. doi: 10.1007/BF00334517. [DOI] [PubMed] [Google Scholar]
  24. Dale R. M., Mendu N., Ginsburg H., Kridl J. C. Sequence analysis of the maize mitochondrial 26 S rRNA gene and flanking regions. Plasmid. 1984 Mar;11(2):141–150. doi: 10.1016/0147-619x(84)90019-2. [DOI] [PubMed] [Google Scholar]
  25. Degnan B. M., Yan J., Hawkins C. J., Lavin M. F. rRNA genes from the lower chordate Herdmania momus: structural similarity with higher eukaryotes. Nucleic Acids Res. 1990 Dec 11;18(23):7063–7070. doi: 10.1093/nar/18.23.7063. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Desjardins P., Morais R. Sequence and gene organization of the chicken mitochondrial genome. A novel gene order in higher vertebrates. J Mol Biol. 1990 Apr 20;212(4):599–634. doi: 10.1016/0022-2836(90)90225-B. [DOI] [PubMed] [Google Scholar]
  27. Douglas S. E., Doolittle W. F. Complete nucleotide sequence of the 23S rRNA gene of the Cyanobacterium, Anacystis nidulans. Nucleic Acids Res. 1984 Apr 11;12(7):3373–3386. doi: 10.1093/nar/12.7.3373. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Dryden S. C., Kaplan S. Localization and structural analysis of the ribosomal RNA operons of Rhodobacter sphaeroides. Nucleic Acids Res. 1990 Dec 25;18(24):7267–7277. doi: 10.1093/nar/18.24.7267. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Dyson N. J., Brown T. A., Waring R. B., Davies R. W. The mitochondrial ribosomal RNA molecules of Aspergillus nidulans. Gene. 1989 Jan 30;75(1):109–118. doi: 10.1016/0378-1119(89)90387-9. [DOI] [PubMed] [Google Scholar]
  30. Edwards K., Kössel H. The rRNA operon from Zea mays chloroplasts: nucleotide sequence of 23S rDNA and its homology with E.coli 23S rDNA. Nucleic Acids Res. 1981 Jun 25;9(12):2853–2869. doi: 10.1093/nar/9.12.2853. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Ellis R. E., Sulston J. E., Coulson A. R. The rDNA of C. elegans: sequence and structure. Nucleic Acids Res. 1986 Mar 11;14(5):2345–2364. doi: 10.1093/nar/14.5.2345. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Engberg J., Nielsen H. Complete sequence of the extrachromosomal rDNA molecule from the ciliate Tetrahymena thermophila strain B1868VII. Nucleic Acids Res. 1990 Dec 11;18(23):6915–6919. doi: 10.1093/nar/18.23.6915. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Engberg J., Nielsen H., Lenaers G., Murayama O., Fujitani H., Higashinakagawa T. Comparison of primary and secondary 26S rRNA structures in two Tetrahymena species: evidence for a strong evolutionary and structural constraint in expansion segments. J Mol Evol. 1990 Jun;30(6):514–521. doi: 10.1007/BF02101107. [DOI] [PubMed] [Google Scholar]
  34. Eperon I. C., Anderson S., Nierlich D. P. Distinctive sequence of human mitochondrial ribosomal RNA genes. Nature. 1980 Jul 31;286(5772):460–467. doi: 10.1038/286460a0. [DOI] [PubMed] [Google Scholar]
  35. Eperon I. C., Janssen J. W., Hoeijmakers J. H., Borst P. The major transcripts of the kinetoplast DNA of Trypanosoma brucei are very small ribosomal RNAs. Nucleic Acids Res. 1983 Jan 11;11(1):105–125. doi: 10.1093/nar/11.1.105. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Falconet D., Sevignac M., Quétier F. Nucleotide sequence and determination of the extremities of the 26S ribosomal RNA gene in wheat mitochondria: evidence for sequence rearrangements in the ribosomal genes of higher plants. Curr Genet. 1988;13(1):75–82. doi: 10.1007/BF00365760. [DOI] [PubMed] [Google Scholar]
  37. Fink P. S., Zhao Y., Prochaska L. J., Leffak M. Nucleotide sequence of a 23S and a 5S-like rRNA gene from the thermophilic Bacillus sp. strain PS3. Nucleic Acids Res. 1991 Oct 11;19(19):5437–5437. doi: 10.1093/nar/19.19.5437. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. 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]
  39. Gadaleta G., Pepe G., De Candia G., Quagliariello C., Sbisà E., Saccone C. The complete nucleotide sequence of the Rattus norvegicus mitochondrial genome: cryptic signals revealed by comparative analysis between vertebrates. J Mol Evol. 1989 Jun;28(6):497–516. doi: 10.1007/BF02602930. [DOI] [PubMed] [Google Scholar]
  40. Gardner M. J., Feagin J. E., Moore D. J., Spencer D. F., Gray M. W., Williamson D. H., Wilson R. J. Organisation and expression of small subunit ribosomal RNA genes encoded by a 35-kilobase circular DNA in Plasmodium falciparum. Mol Biochem Parasitol. 1991 Sep;48(1):77–88. doi: 10.1016/0166-6851(91)90166-4. [DOI] [PubMed] [Google Scholar]
  41. Georgiev O. I., Nikolaev N., Hadjiolov A. A., Skryabin K. G., Zakharyev V. M., Bayev A. A. The structure of the yeast ribosomal RNA genes. 4. Complete sequence of the 25 S rRNA gene from Saccharomyces cerevisae. Nucleic Acids Res. 1981 Dec 21;9(24):6953–6958. doi: 10.1093/nar/9.24.6953. [DOI] [PMC free article] [PubMed] [Google Scholar]
  42. Glotz C., Zwieb C., Brimacombe R., Edwards K., Kössel H. Secondary structure of the large subunit ribosomal RNA from Escherichia coli, Zea mays chloroplast, and human and mouse mitochondrial ribosomes. Nucleic Acids Res. 1981 Jul 24;9(14):3287–3306. doi: 10.1093/nar/9.14.3287. [DOI] [PMC free article] [PubMed] [Google Scholar]
  43. Gonzalez I. L., Gorski J. L., Campen T. J., Dorney D. J., Erickson J. M., Sylvester J. E., Schmickel R. D. Variation among human 28S ribosomal RNA genes. Proc Natl Acad Sci U S A. 1985 Nov;82(22):7666–7670. doi: 10.1073/pnas.82.22.7666. [DOI] [PMC free article] [PubMed] [Google Scholar]
  44. Gonzalez I. L., Gorski J. L., Campen T. J., Dorney D. J., Erickson J. M., Sylvester J. E., Schmickel R. D. Variation among human 28S ribosomal RNA genes. Proc Natl Acad Sci U S A. 1985 Nov;82(22):7666–7670. doi: 10.1073/pnas.82.22.7666. [DOI] [PMC free article] [PubMed] [Google Scholar]
  45. Green C. J., Stewart G. C., Hollis M. A., Vold B. S., Bott K. F. Nucleotide sequence of the Bacillus subtilis ribosomal RNA operon, rrnB. Gene. 1985;37(1-3):261–266. doi: 10.1016/0378-1119(85)90281-1. [DOI] [PubMed] [Google Scholar]
  46. 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]
  47. Gutell R. R., Schnare M. N., Gray M. W. A compilation of large subunit (23S-like) ribosomal RNA sequences presented in a secondary structure format. Nucleic Acids Res. 1990 Apr 25;18 (Suppl):2319–2330. doi: 10.1093/nar/18.suppl.2319. [DOI] [PMC free article] [PubMed] [Google Scholar]
  48. Gutell R. R., Schnare M. N., Gray M. W. A compilation of large subunit (23S-like) ribosomal RNA sequences presented in a secondary structure format. Nucleic Acids Res. 1990 Apr 25;18 (Suppl):2319–2330. doi: 10.1093/nar/18.suppl.2319. [DOI] [PMC free article] [PubMed] [Google Scholar]
  49. Hadjiolov A. A., Georgiev O. I., Nosikov V. V., Yavachev L. P. Primary and secondary structure of rat 28 S ribosomal RNA. Nucleic Acids Res. 1984 Apr 25;12(8):3677–3693. doi: 10.1093/nar/12.8.3677. [DOI] [PMC free article] [PubMed] [Google Scholar]
  50. Hall L. M., Maden B. E. Nucleotide sequence through the 18S-28S intergene region of a vertebrate ribosomal transcription unit. Nucleic Acids Res. 1980 Dec 20;8(24):5993–6005. doi: 10.1093/nar/8.24.5993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  51. Hassouna N., Michot B., Bachellerie J. P. The complete nucleotide sequence of mouse 28S rRNA gene. Implications for the process of size increase of the large subunit rRNA in higher eukaryotes. Nucleic Acids Res. 1984 Apr 25;12(8):3563–3583. doi: 10.1093/nar/12.8.3563. [DOI] [PMC free article] [PubMed] [Google Scholar]
  52. Healey A., Mitchell R., Upcroft J. A., Boreham P. F., Upcroft P. Complete nucleotide sequence of the ribosomal RNA tandem repeat unit from Giardia intestinalis. Nucleic Acids Res. 1990 Jul 11;18(13):4006–4006. doi: 10.1093/nar/18.13.4006. [DOI] [PMC free article] [PubMed] [Google Scholar]
  53. Heinonen T. Y., Schnare M. N., Gray M. W. Sequence heterogeneity in the duplicate large subunit ribosomal RNA genes of Tetrahymena pyriformis mitochondrial DNA. J Biol Chem. 1990 Dec 25;265(36):22336–22341. [PubMed] [Google Scholar]
  54. Hiratsuka J., Shimada H., Whittier R., Ishibashi T., Sakamoto M., Mori M., Kondo C., Honji Y., Sun C. R., Meng B. Y. The complete sequence of the rice (Oryza sativa) chloroplast genome: intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals. Mol Gen Genet. 1989 Jun;217(2-3):185–194. doi: 10.1007/BF02464880. [DOI] [PubMed] [Google Scholar]
  55. HsuChen C. C., Kotin R. M., Dubin D. T. Sequences of the coding and flanking regions of the large ribosomal subunit RNA gene of mosquito mitochondria. Nucleic Acids Res. 1984 Oct 25;12(20):7771–7785. doi: 10.1093/nar/12.20.7771. [DOI] [PMC free article] [PubMed] [Google Scholar]
  56. Höpfl P., Ludwig W., Schleifer K. H. Complete nucleotide sequence of a 23S ribosomal RNA gene from Rhodobacter capsulatus. Nucleic Acids Res. 1988 Mar 25;16(5):2343–2343. doi: 10.1093/nar/16.5.2343. [DOI] [PMC free article] [PubMed] [Google Scholar]
  57. Höpfl P., Ludwig W., Schleifer K. H., Larsen N. The 23S ribosomal RNA higher-order structure of Pseudomonas cepacia and other prokaryotes. Eur J Biochem. 1989 Nov 6;185(2):355–364. doi: 10.1111/j.1432-1033.1989.tb15123.x. [DOI] [PubMed] [Google Scholar]
  58. Höpfl P., Ulrich N., Hartmann R. K., Ludwig W., Schleifer K. H. Complete nucleotide sequence of a 23S ribosomal RNA gene from Thermus thermophilus HB8. Nucleic Acids Res. 1988 Sep 26;16(18):9043–9043. doi: 10.1093/nar/16.18.9043. [DOI] [PMC free article] [PubMed] [Google Scholar]
  59. Jacobs H. T., Elliott D. J., Math V. B., Farquharson A. Nucleotide sequence and gene organization of sea urchin mitochondrial DNA. J Mol Biol. 1988 Jul 20;202(2):185–217. doi: 10.1016/0022-2836(88)90452-4. [DOI] [PubMed] [Google Scholar]
  60. Ji G. E., Orlowski M. Primary and secondary structure of the 25S rRNA from the dimorphic fungus Mucor racemosus. Curr Genet. 1990 Jun;17(6):499–506. doi: 10.1007/BF00313078. [DOI] [PubMed] [Google Scholar]
  61. Khan M. S., Maden B. E. Nucleotide sequence relationships between vertebrate 5.8 S ribosomal RNAs. Nucleic Acids Res. 1977 Jul;4(7):2495–2505. doi: 10.1093/nar/4.7.2495. [DOI] [PMC free article] [PubMed] [Google Scholar]
  62. Kiss T., Kis M., Abel S., Solymosy F. Nucleotide sequence of the 17S-25S spacer region from tomato rDNA. Nucleic Acids Res. 1988 Jul 25;16(14B):7179–7179. doi: 10.1093/nar/16.14.7179. [DOI] [PMC free article] [PubMed] [Google Scholar]
  63. Kiss T., Kis M., Solymosy F. Nucleotide sequence of a 25S rRNA gene from tomato. Nucleic Acids Res. 1989 Jan 25;17(2):796–796. doi: 10.1093/nar/17.2.796. [DOI] [PMC free article] [PubMed] [Google Scholar]
  64. Kjems J., Leffers H., Garrett R. A., Wich G., Leinfelder W., Böck A. Gene organization, transcription signals and processing of the single ribosomal RNA operon of the archaebacterium Thermoproteus tenax. Nucleic Acids Res. 1987 Jun 25;15(12):4821–4835. doi: 10.1093/nar/15.12.4821. [DOI] [PMC free article] [PubMed] [Google Scholar]
  65. Kobayashi S., Okada M. Complete cDNA sequence encoding mitochondrial large ribosomal RNA of Drosophila melanogaster. Nucleic Acids Res. 1990 Aug 11;18(15):4592–4592. doi: 10.1093/nar/18.15.4592. [DOI] [PMC free article] [PubMed] [Google Scholar]
  66. Kohchi T., Shirai H., Fukuzawa H., Sano T., Komano T., Umesono K., Inokuchi H., Ozeki H., Ohyama K. Structure and organization of Marchantia polymorpha chloroplast genome. IV. Inverted repeat and small single copy regions. J Mol Biol. 1988 Sep 20;203(2):353–372. doi: 10.1016/0022-2836(88)90004-6. [DOI] [PubMed] [Google Scholar]
  67. Kolosha V. O., Fodor I. I. Vysokaia gomologiia nukleotidnykh posledovatel'nostei tsistrona 26S rRNK Citrus limon i Saccharomycese cerevisiae. Dokl Akad Nauk SSSR. 1986;290(4):1006–1011. [PubMed] [Google Scholar]
  68. Kolosha V. O., Fodor I. Nucleotide sequence of Citrus limon 26S rRNA gene and secondary structure model of its RNA. Plant Mol Biol. 1990 Feb;14(2):147–161. doi: 10.1007/BF00018556. [DOI] [PubMed] [Google Scholar]
  69. Kop J., Wheaton V., Gupta R., Woese C. R., Noller H. F. Complete nucleotide sequence of a 23S ribosomal RNA gene from Bacillus stearothermophilus. DNA. 1984 Oct;3(5):347–357. doi: 10.1089/dna.1984.3.347. [DOI] [PubMed] [Google Scholar]
  70. Kumano M., Tomioka N., Sugiura M. The complete nucleotide sequence of a 23S rRNA gene from a blue-green alga, Anacystis nidulans. Gene. 1983 Oct;24(2-3):219–225. doi: 10.1016/0378-1119(83)90082-3. [DOI] [PubMed] [Google Scholar]
  71. Lake J. A., de la Cruz V. F., Ferreira P. C., Morel C., Simpson L. Evolution of parasitism: kinetoplastid protozoan history reconstructed from mitochondrial rRNA gene sequences. Proc Natl Acad Sci U S A. 1988 Jul;85(13):4779–4783. doi: 10.1073/pnas.85.13.4779. [DOI] [PMC free article] [PubMed] [Google Scholar]
  72. Lang B. F., Cedergren R., Gray M. W. The mitochondrial genome of the fission yeast, Schizosaccharomyces pombe. Sequence of the large-subunit ribosomal RNA gene, comparison of potential secondary structure in fungal mitochondrial large-subunit rRNAs and evolutionary considerations. Eur J Biochem. 1987 Dec 15;169(3):527–537. doi: 10.1111/j.1432-1033.1987.tb13641.x. [DOI] [PubMed] [Google Scholar]
  73. Leffers H., Kjems J., Ostergaard L., Larsen N., Garrett R. A. Evolutionary relationships amongst archaebacteria. A comparative study of 23 S ribosomal RNAs of a sulphur-dependent extreme thermophile, an extreme halophile and a thermophilic methanogen. J Mol Biol. 1987 May 5;195(1):43–61. doi: 10.1016/0022-2836(87)90326-3. [DOI] [PubMed] [Google Scholar]
  74. Lemieux C., Boulanger J., Otis C., Turmel M. Nucleotide sequence of the chloroplast large subunit rRNA gene from Chlamydomonas reinhardtii. Nucleic Acids Res. 1989 Oct 11;17(19):7997–7997. doi: 10.1093/nar/17.19.7997. [DOI] [PMC free article] [PubMed] [Google Scholar]
  75. Lenaers G., Maroteaux L., Michot B., Herzog M. Dinoflagellates in evolution. A molecular phylogenetic analysis of large subunit ribosomal RNA. J Mol Evol. 1989 Jul;29(1):40–51. doi: 10.1007/BF02106180. [DOI] [PubMed] [Google Scholar]
  76. Liesack W., Höpfl P., Stackebrandt E. Complete nucleotide sequence of a 23S ribosomal RNA gene from Pirellula marina. Nucleic Acids Res. 1988 Jun 10;16(11):5194–5194. doi: 10.1093/nar/16.11.5194. [DOI] [PMC free article] [PubMed] [Google Scholar]
  77. Liesack W., Sela S., Bercovier H., Pitulle C., Stackebrandt E. Complete nucleotide sequence of the Mycobacterium leprae 23 S and 5 S rRNA genes plus flanking regions and their potential in designing diagnostic oligonucleotide probes. FEBS Lett. 1991 Apr 9;281(1-2):114–118. doi: 10.1016/0014-5793(91)80372-a. [DOI] [PubMed] [Google Scholar]
  78. Maden B. E., Dent C. L., Farrell T. E., Garde J., McCallum F. S., Wakeman J. A. Clones of human ribosomal DNA containing the complete 18 S-rRNA and 28 S-rRNA genes. Characterization, a detailed map of the human ribosomal transcription unit and diversity among clones. Biochem J. 1987 Sep 1;246(2):519–527. doi: 10.1042/bj2460519. [DOI] [PMC free article] [PubMed] [Google Scholar]
  79. Manna E., Brennicke A. Primary and secondary structure of 26S ribosomal RNA of Oenothera mitochondria. Curr Genet. 1985;9(6):505–515. doi: 10.1007/BF00434055. [DOI] [PubMed] [Google Scholar]
  80. Maroteaux L., Herzog M., Soyer-Gobillard M. O. Molecular organization of dinoflagellate ribosomal DNA: evolutionary implications of the deduced 5.8 S rRNA secondary structure. Biosystems. 1985;18(3-4):307–319. doi: 10.1016/0303-2647(85)90031-0. [DOI] [PubMed] [Google Scholar]
  81. Michot B., Bachellerie J. P., Raynal F. Sequence and secondary structure of mouse 28S rRNA 5'terminal domain. Organisation of the 5.8S-28S rRNA complex. Nucleic Acids Res. 1982 Sep 11;10(17):5273–5283. doi: 10.1093/nar/10.17.5273. [DOI] [PMC free article] [PubMed] [Google Scholar]
  82. Miyamoto M. M., Kraus F., Ryder O. A. Phylogeny and evolution of antlered deer determined from mitochondrial DNA sequences. Proc Natl Acad Sci U S A. 1990 Aug;87(16):6127–6131. doi: 10.1073/pnas.87.16.6127. [DOI] [PMC free article] [PubMed] [Google Scholar]
  83. Nagae Y., Fujii H., Yoneyama Y., Goto Y., Okazaki T. Nucleotide sequences of the Rana catesbeiana mitochondrial small (12S) and large (16S) ribosomal RNA genes. Nucleic Acids Res. 1988 Nov 11;16(21):10363–10363. doi: 10.1093/nar/16.21.10363. [DOI] [PMC free article] [PubMed] [Google Scholar]
  84. Netzker R., Köchel H. G., Basak N., Küntzel H. Nucleotide sequence of Aspergillus nidulans mitochondrial genes coding for ATPase subunit 6, cytochrome oxidase subunit 3, seven unidentified proteins, four tRNAs and L-rRNA. Nucleic Acids Res. 1982 Aug 11;10(15):4783–4794. doi: 10.1093/nar/10.15.4783. [DOI] [PMC free article] [PubMed] [Google Scholar]
  85. Noller H. F., Kop J., Wheaton V., Brosius J., Gutell R. R., Kopylov A. M., Dohme F., Herr W., Stahl D. A., Gupta R. Secondary structure model for 23S ribosomal RNA. Nucleic Acids Res. 1981 Nov 25;9(22):6167–6189. doi: 10.1093/nar/9.22.6167. [DOI] [PMC free article] [PubMed] [Google Scholar]
  86. Olsen G. J., Larsen N., Woese C. R. The ribosomal RNA database project. Nucleic Acids Res. 1991 Apr 25;19 (Suppl):2017–2021. doi: 10.1093/nar/19.suppl.2017. [DOI] [PMC free article] [PubMed] [Google Scholar]
  87. Otsuka T., Nomiyama H., Yoshida H., Kukita T., Kuhara S., Sakaki Y. Complete nucleotide sequence of the 26S rRNA gene of Physarum polycephalum: its significance in gene evolution. Proc Natl Acad Sci U S A. 1983 Jun;80(11):3163–3167. doi: 10.1073/pnas.80.11.3163. [DOI] [PMC free article] [PubMed] [Google Scholar]
  88. Ozaki T., Hoshikawa Y., Iida Y., Iwabuchi M. Sequence analysis of the transcribed and 5' non-transcribed regions of the ribosomal RNA gene in Dictyostelium discoideum. Nucleic Acids Res. 1984 May 25;12(10):4171–4184. doi: 10.1093/nar/12.10.4171. [DOI] [PMC free article] [PubMed] [Google Scholar]
  89. Palmero I., Renart J., Sastre L. Isolation of cDNA clones coding for mitochondrial 16S ribosomal RNA from the crustacean Artemia. Gene. 1988 Sep 7;68(2):239–248. doi: 10.1016/0378-1119(88)90026-1. [DOI] [PubMed] [Google Scholar]
  90. Pernodet J. L., Boccard F., Alegre M. T., Gagnat J., Guérineau M. Organization and nucleotide sequence analysis of a ribosomal RNA gene cluster from Streptomyces ambofaciens. Gene. 1989 Jun 30;79(1):33–46. doi: 10.1016/0378-1119(89)90090-5. [DOI] [PubMed] [Google Scholar]
  91. Pritchard A. E., Seilhamer J. J., Mahalingam R., Sable C. L., Venuti S. E., Cummings D. J. Nucleotide sequence of the mitochondrial genome of Paramecium. Nucleic Acids Res. 1990 Jan 11;18(1):173–180. doi: 10.1093/nar/18.1.173. [DOI] [PMC free article] [PubMed] [Google Scholar]
  92. Rathgeber J., Capesius I. Nucleotide sequence of the 18S-25S spacer region from mustard DNA. Nucleic Acids Res. 1989 Sep 25;17(18):7522–7522. doi: 10.1093/nar/17.18.7522. [DOI] [PMC free article] [PubMed] [Google Scholar]
  93. Ree H. K., Zimmermann R. A. Organization and expression of the 16S, 23S and 5S ribosomal RNA genes from the archaebacterium Thermoplasma acidophilum. Nucleic Acids Res. 1990 Aug 11;18(15):4471–4478. doi: 10.1093/nar/18.15.4471. [DOI] [PMC free article] [PubMed] [Google Scholar]
  94. Regensburger A., Ludwig W., Frank R., Blöcker H., Schleifer K. H. Complete nucleotide sequence of a 23S ribosomal RNA gene from Micrococcus luteus. Nucleic Acids Res. 1988 Mar 25;16(5):2344–2344. doi: 10.1093/nar/16.5.2344. [DOI] [PMC free article] [PubMed] [Google Scholar]
  95. Roe B. A., Ma D. P., Wilson R. K., Wong J. F. The complete nucleotide sequence of the Xenopus laevis mitochondrial genome. J Biol Chem. 1985 Aug 15;260(17):9759–9774. [PubMed] [Google Scholar]
  96. Rubin G. M. The nucleotide sequence of Saccharomyces cerevisiae 5.8 S ribosomal ribonucleic acid. J Biol Chem. 1973 Jun 10;248(11):3860–3875. [PubMed] [Google Scholar]
  97. Ruiz Linares A., Hancock J. M., Dover G. A. Secondary structure constraints on the evolution of Drosophila 28 S ribosomal RNA expansion segments. J Mol Biol. 1991 Jun 5;219(3):381–390. doi: 10.1016/0022-2836(91)90178-9. [DOI] [PubMed] [Google Scholar]
  98. Saccone C., Cantatore P., Gadaleta G., Gallerani R., Lanave C., Pepe G., Kroon A. M. The nucleotide sequence of the large ribosomal RNA gene and the adjacent tRNA genes from rat mitochondria. Nucleic Acids Res. 1981 Aug 25;9(16):4139–4148. doi: 10.1093/nar/9.16.4139. [DOI] [PMC free article] [PubMed] [Google Scholar]
  99. Schnare M. N., Cook J. R., Gray M. W. Fourteen internal transcribed spacers in the circular ribosomal DNA of Euglena gracilis. J Mol Biol. 1990 Sep 5;215(1):85–91. doi: 10.1016/S0022-2836(05)80097-X. [DOI] [PubMed] [Google Scholar]
  100. Schnare M. N., Gray M. W. Sixteen discrete RNA components in the cytoplasmic ribosome of Euglena gracilis. J Mol Biol. 1990 Sep 5;215(1):73–83. doi: 10.1016/S0022-2836(05)80096-8. [DOI] [PubMed] [Google Scholar]
  101. Schnare M. N., Gray M. W. Sixteen discrete RNA components in the cytoplasmic ribosome of Euglena gracilis. J Mol Biol. 1990 Sep 5;215(1):73–83. doi: 10.1016/S0022-2836(05)80096-8. [DOI] [PubMed] [Google Scholar]
  102. Seilhamer J. J., Cummings D. J. Structure and sequence of the mitochondrial 20S rRNA and tRNA tyr gene of Paramecium primaurelia. Nucleic Acids Res. 1981 Dec 11;9(23):6391–6406. doi: 10.1093/nar/9.23.6391. [DOI] [PMC free article] [PubMed] [Google Scholar]
  103. Seilhamer J. J., Gutell R. R., Cummings D. J. Paramecium mitochondrial genes. II. Large subunit rRNA gene sequence and microevolution. J Biol Chem. 1984 Apr 25;259(8):5173–5181. [PubMed] [Google Scholar]
  104. Shinozaki K., Ohme M., Tanaka M., Wakasugi T., Hayashida N., Matsubayashi T., Zaita N., Chunwongse J., Obokata J., Yamaguchi-Shinozaki K. The complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression. EMBO J. 1986 Sep;5(9):2043–2049. doi: 10.1002/j.1460-2075.1986.tb04464.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  105. Siemeister G., Hachtel W. Organization and nucleotide sequence of ribosomal RNA genes on a circular 73 kbp DNA from the colourless flagellate Astasia longa. Curr Genet. 1990 May;17(5):433–438. doi: 10.1007/BF00334524. [DOI] [PubMed] [Google Scholar]
  106. Sloof P., Van den Burg J., Voogd A., Benne R., Agostinelli M., Borst P., Gutell R., Noller H. Further characterization of the extremely small mitochondrial ribosomal RNAs from trypanosomes: a detailed comparison of the 9S and 12S RNAs from Crithidia fasciculata and Trypanosoma brucei with rRNAs from other organisms. Nucleic Acids Res. 1985 Jun 11;13(11):4171–4190. doi: 10.1093/nar/13.11.4171. [DOI] [PMC free article] [PubMed] [Google Scholar]
  107. Sor F., Fukuhara H. Complete DNA sequence coding for the large ribosomal RNA of yeast mitochondria. Nucleic Acids Res. 1983 Jan 25;11(2):339–348. doi: 10.1093/nar/11.2.339. [DOI] [PMC free article] [PubMed] [Google Scholar]
  108. 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]
  109. Spiegl H., Ludwig W., Schleifer K. H., Stackebrandt E. Complete nucleotide sequence of a 23S ribosomal RNA gene from Ruminobacter amylophilus. Nucleic Acids Res. 1988 Mar 25;16(5):2345–2345. doi: 10.1093/nar/16.5.2345. [DOI] [PMC free article] [PubMed] [Google Scholar]
  110. Stebbins-Boaz B., Gerbi S. A. Structural analysis of the peptidyl transferase region in ribosomal RNA of the eukaryote Xenopus laevis. J Mol Biol. 1991 Jan 5;217(1):93–112. doi: 10.1016/0022-2836(91)90614-c. [DOI] [PubMed] [Google Scholar]
  111. Subrahmanyam C. S., Cassidy B., Busch H., Rothblum L. I. Nucleotide sequence of the region between the 18S rRNA sequence and the 28S rRNA sequence of rat ribosomal DNA. Nucleic Acids Res. 1982 Jun 25;10(12):3667–3680. doi: 10.1093/nar/10.12.3667. [DOI] [PMC free article] [PubMed] [Google Scholar]
  112. Takaiwa F., Oono K., Iida Y., Sugiura M. The complete nucleotide sequence of a rice 25S.rRNA gene. Gene. 1985;37(1-3):255–259. doi: 10.1016/0378-1119(85)90280-x. [DOI] [PubMed] [Google Scholar]
  113. Takaiwa F., Sugiura M. The complete nucleotide sequence of a 23-S rRNA gene from tobacco chloroplasts. Eur J Biochem. 1982 May;124(1):13–19. doi: 10.1111/j.1432-1033.1982.tb05901.x. [DOI] [PubMed] [Google Scholar]
  114. Tautz D., Hancock J. M., Webb D. A., Tautz C., Dover G. A. Complete sequences of the rRNA genes of Drosophila melanogaster. Mol Biol Evol. 1988 Jul;5(4):366–376. doi: 10.1093/oxfordjournals.molbev.a040500. [DOI] [PubMed] [Google Scholar]
  115. Toschka H. Y., Höpfl P., Ludwig W., Schleifer K. H., Ulbrich N., Erdmann V. A. Complete nucleotide sequence of a 23S ribosomal RNA gene from Pseudomonas aeruginosa. Nucleic Acids Res. 1987 Sep 11;15(17):7182–7182. doi: 10.1093/nar/15.17.7182. [DOI] [PMC free article] [PubMed] [Google Scholar]
  116. Turmel M., Boulanger J., Schnare M. N., Gray M. W., Lemieux C. Six group I introns and three internal transcribed spacers in the chloroplast large subunit ribosomal RNA gene of the green alga Chlamydomonas eugametos. J Mol Biol. 1991 Mar 20;218(2):293–311. doi: 10.1016/0022-2836(91)90713-g. [DOI] [PubMed] [Google Scholar]
  117. Uhlenbusch I., McCracken A., Gellissen G. The gene for the large (16S) ribosomal RNA from the Locusta migratoria mitochondrial genome. Curr Genet. 1987;11(8):631–638. doi: 10.1007/BF00393927. [DOI] [PubMed] [Google Scholar]
  118. Unfried I., Gruendler P. Nucleotide sequence of the 5.8S and 25S rRNA genes and of the internal transcribed spacers from Arabidopsis thaliana. Nucleic Acids Res. 1990 Jul 11;18(13):4011–4011. doi: 10.1093/nar/18.13.4011. [DOI] [PMC free article] [PubMed] [Google Scholar]
  119. Van Etten R. A., Walberg M. W., Clayton D. A. Precise localization and nucleotide sequence of the two mouse mitochondrial rRNA genes and three immediately adjacent novel tRNA genes. Cell. 1980 Nov;22(1 Pt 1):157–170. doi: 10.1016/0092-8674(80)90164-6. [DOI] [PubMed] [Google Scholar]
  120. Veldman G. M., Klootwijk J., de Regt V. C., Planta R. J., Branlant C., Krol A., Ebel J. P. The primary and secondary structure of yeast 26S rRNA. Nucleic Acids Res. 1981 Dec 21;9(24):6935–6952. doi: 10.1093/nar/9.24.6935. [DOI] [PMC free article] [PubMed] [Google Scholar]
  121. Vlasak I., Burgschwaiger S., Kreil G. Nucleotide sequence of the large ribosomal RNA of honeybee mitochondria. Nucleic Acids Res. 1987 Mar 11;15(5):2388–2388. doi: 10.1093/nar/15.5.2388. [DOI] [PMC free article] [PubMed] [Google Scholar]
  122. Ware V. C., Tague B. W., Clark C. G., Gourse R. L., Brand R. C., Gerbi S. A. Sequence analysis of 28S ribosomal DNA from the amphibian Xenopus laevis. Nucleic Acids Res. 1983 Nov 25;11(22):7795–7817. doi: 10.1093/nar/11.22.7795. [DOI] [PMC free article] [PubMed] [Google Scholar]
  123. White T. C., Rudenko G., Borst P. Three small RNAs within the 10 kb trypanosome rRNA transcription unit are analogous to domain VII of other eukaryotic 28S rRNAs. Nucleic Acids Res. 1986 Dec 9;14(23):9471–9489. doi: 10.1093/nar/14.23.9471. [DOI] [PMC free article] [PubMed] [Google Scholar]
  124. Wimpee C. F., Morgan R., Wrobel R. An aberrant plastid ribosomal RNA gene cluster in the root parasite Conopholis americana. Plant Mol Biol. 1992 Jan;18(2):275–285. doi: 10.1007/BF00034955. [DOI] [PubMed] [Google Scholar]
  125. Woese C. R., Achenbach L., Rouviere P., Mandelco L. Archaeal phylogeny: reexamination of the phylogenetic position of Archaeoglobus fulgidus in light of certain composition-induced artifacts. Syst Appl Microbiol. 1991;14(4):364–371. doi: 10.1016/s0723-2020(11)80311-5. [DOI] [PubMed] [Google Scholar]
  126. Woese C. R., Kandler O., Wheelis M. L. Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci U S A. 1990 Jun;87(12):4576–4579. doi: 10.1073/pnas.87.12.4576. [DOI] [PMC free article] [PubMed] [Google Scholar]
  127. Woese C. R., Mandelco L., Yang D., Gherna R., Madigan M. T. The case for relationship of the flavobacteria and their relatives to the green sulfur bacteria. Syst Appl Microbiol. 1990;13:258–262. doi: 10.1016/s0723-2020(11)80196-7. [DOI] [PubMed] [Google Scholar]
  128. Woese C. R., Stackebrandt E., Macke T. J., Fox G. E. A phylogenetic definition of the major eubacterial taxa. Syst Appl Microbiol. 1985;6:143–151. doi: 10.1016/s0723-2020(85)80047-3. [DOI] [PubMed] [Google Scholar]
  129. 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]
  130. Yepiz-Plascencia G. M., Jenkins M. E., Hallick R. B. Nucleotide sequence of the Euglena gracilis chloroplast 23S rRNA gene of the rrnC operon. Nucleic Acids Res. 1988 Oct 11;16(19):9340–9340. doi: 10.1093/nar/16.19.9340. [DOI] [PMC free article] [PubMed] [Google Scholar]
  131. de la Cruz V. F., Simpson A. M., Lake J. A., Simpson L. Primary sequence and partial secondary structure of the 12S kinetoplast (mitochondrial) ribosomal RNA from Leishmania tarentolae: conservation of peptidyl-transferase structural elements. Nucleic Acids Res. 1985 Apr 11;13(7):2337–2356. doi: 10.1093/nar/13.7.2337. [DOI] [PMC free article] [PubMed] [Google Scholar]
  132. van Keulen H., Horvat S., Erlandsen S. L., Jarroll E. L. Nucleotide sequence of the 5.8S and large subunit rRNA genes and the internal transcribed spacer and part of the external spacer from Giardia ardeae. Nucleic Acids Res. 1991 Nov 11;19(21):6050–6050. doi: 10.1093/nar/19.21.6050. [DOI] [PMC free article] [PubMed] [Google Scholar]

Articles from Nucleic Acids Research are provided here courtesy of Oxford University Press

RESOURCES