Summary
The nucleotide sequence of the Physarum polycephalum small subunit ribosomal RNA (SSU rRNA) gene has been determined. Sequence data indicate that the mature 19S SSU rRNA is 1,964 nucleotides long. A complete secondary structure model for P. polycephalum SSU rRNA has been constructed on the basis of the Escherichia coli 16S rRNA model and data from comparative analyses of 28 different eukaryotic sequences. A “four-helix” model is presented for the central domain variable region. This model can be applied both to vertebrate and most lower eukaryotic SSU rRNAs. The increased size of P. polycephalum SSU rRNA relative to the smaller SSU rRNAs from such other lower eukaryotes, as Dictyostelium, Tetrahymena or Saccharomyces is due mainly to three G+C-rich insertions found in two regions known to be of variable length in eukaryotes. In a phylogenetic tree constructed from pairwise comparisons of eukaryotic SSU rRNA sequences, the acellular myxomycete P. polycephalum is seen to diverge before the appearance of the cellular mycomycete Dictyostelium discoideum.
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References
Atmadja J, Brimacombe R (1984) Nucleic Acids Res 12:2649–2667
Boyer HW, Roulland-Dussoix D (1969) J Mol Biol 41:459–472
Brosius J, Palmer ML, Kennedy PJ, Noller HF (1978) Proc Natl Acad Sci USA 75:4801–4805
Campbell GR, Littau VC, Melera PW, Allfrey VG, Johnson EM (1979) Nucleic Acids Res 6:1433–1447
Choi YC (1985) J Biol Chem 260:12769–12772
Cooke DJ, Dee J (1974) Genet Res 24:175–187
Crouse GF, Frischauf A, Lehrach H (1983) Methods Enzymol 101:78–89
Dee J (1987) Trends Genet 3:208–213
Dee J, Poulter RTM (1970) Genet Res 15:33–41
Ellis RE, Sulston JE, Coulson AR (1986) Nucleic Acids Res 14:2345–2364
Elwood HJ, Olsen GJ, Sogin ML (1985) Mol Biol Evol 2:399–410
Felstenstein J (1985) Evolution 39:783–791
Ferris PJ (1985) Gene 39:203–211
Ferris PJ, Vogt VM (1982) J Mol Biol 159:359–381
Fitch WM, Margoliash E (1967) Science 155:279–284
Gonzalez IL, Schmickel RD (1986) Am J Hum Genet 38:419–427
Gunderson JH, Sogin ML (1986) Gene 44:63–70
Gunderson JH, McCutchan TF, Sogin ML (1986) J Protozool 33:525–529
Gutell RR, Weiser B, Woese CR, Noller HF (1985) Prog Nucleic Acids Res Mol Biol 32:155–216
Hardman N (1987) In: Kinghorn JR (ed) Gene structure in eukaryotic microbes. IRL Press, Oxford, pp 163–178
Harr R, Fällman P, Häggström M, Wahlström L, Gustafsson P (1986) Nucleic Acids Res 14:273–284
Hasegawa M, Iida Y, Yano T, Takaiwa F, Iwabuchi M (1985) J Mol Evol 22:32–38
Herzog M, Maroteaux L (1986) Proc Natl Acad Sci USA 83:8644–8648
Laffler TG, Tyson JJ (1986) In: Dove WF, DEE J, Hatano S, Haugh FB, Wohlfarth-Bottermann K-E (eds) The molecular biology of Physarum polycephalum. Plenum Press, New York, pp 79–109
Maniatis T, Fritsch EF, Sambrook J (1982) Molecular cloning. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
Mankin AS, Kopylov AM, Bogdanov AA (1981) FEBS Lett 134:11–14
Mankin AS, Skryabin KG, Rubtsov PM (1986) Gene 44:143–145
Margulis L, Schwartz KV (1982) Five kingdoms: an illustrated guide to the phyla of life on earth. Freeman, San Francisco
McCarroll R, Olsen GJ, Stahl YD, Woese CR, Sogin ML (1983) Biochemistry 22:5858–5868
Messing J (1983) Methods Enzymol 101:20–78
Messing J, Carlson J, Hagen G, Rubenstein I, Oleson A (1984) DNA 3:31–40
Moazed D, Stern S, Noller HF (1986) J Mol Biol 187:399–416
Noller HF (1984) Annu Rev Biochem 53:119–162
Olive LS (1975) The mycetozoans. Academic Press, New York
Olsen GJ, McCarroll R, Sogin ML (1983) Nucleic Acids Res 11:8037–8049
Otsuka T, Nomiyama H, Yoshida H, Kukita T, Kuhara S, Sakaki Y (1983) Proc Natl Acad Sci USA 80:3163–3167
Ozaki T, Hoshikawa Y, Iida Y, Iwabuchi M (1984) Nucleic Acids Res 12:4171–4184
Rairkar A, Rubino HM, Lockard RE (1988) Biochemistry 27:582–592
Sanger F, Nicklen S, Coulson AR (1977) Proc Natl Acad Sci USA 74:5463–5467
Sogin ML, Elwood HJ, Gunderson JH (1986a) Proc Natl Acad Sci USA 83:1383–1387
Sogin ML, Ingold A, Karlok M, Nielsen H, Engberg J (1986b) EMBO J 5:3625–2630
Sogin ML, Swanton MT, Gunderson JH, Elwood HJ (1986c) J Protozool 33:26–29
Spangler EA, Blackburn EH (1985) J Biol Chem 260:6334–6340
Torczynski RM, Fuke M, Bollon AP (1985) DNA 4:283–291
Vossbrinck CR, Maddox JV, Friedman S, Debrunner-Vossbrinck BA, Woese CR (1987) Nature 326:411–414
Whittaker RH, Margulis L (1978) Biosystems 10:3–18
Yanisch-Perron C, Vieira J, Messing J (1985) Gene 33:103–119
Zellweger A, Braun R (1971) Exp Cell Res 65:413–423
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Johansen, T., Johansen, S. & Haugh, F.B. Nucleotide sequence of the Physarum polycephalum small subunit ribosomal RNA as inferred from the gene sequence: secondary structure and evolutionary implications. Curr Genet 14, 265–273 (1988). https://doi.org/10.1007/BF00376747
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DOI: https://doi.org/10.1007/BF00376747