Summary
The nucleotide sequence of a spacer region between rice 17S and 25S rRNA genes (rDNAs) has been determined. The coding regions for the mature 17S, 5.8S and 25S rRNAs were identified by sequencing terminal regions of these rRNAs. The first internal transcribed spacer (ITS1), between 17S and 5.8S rDNAs, is 194–195 bp long. The second internal transcribed spacer (ITS2), between 5.8S and 25S rDNAs, is 233 bp long. Both spacers are very rich in G+C, 72.7% for ITS1 and 77.3% for ITS2. The 5.8S rDNA is 163–164 bp long and similar in primary and secondary structures to other eukaryotic 5.8S rDNAs. The 5.8S rDNA is capable of interacting with the 5′ terminal region of 25S rDNA.
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References
Bolivar F, Backman K: Plasmids ofEscherichia coli as cloning vectors. In: Wu R (ed) Methods in Enzymology 68 Academic Press, New York, 1979, pp 245–268.
Erdmann VA, Huysmans E, Vandenberghe A, De Wachter R: Collection of published 5S and 5.8S ribosomal RNA sequences. Nucleic Acids Res 11:r105-r133, 1983.
Furlong JC, Maden BEH: Patterns of major divergence between the internal transcribed spacers of ribosomal DNA inXenopus borealis andXenopus laevis, and of minimal divergence within ribosomal coding regions. EMBO J 2:443–448, 1983.
Grunstein M, Hogness DS: A method for the isolation of cloned DNAs that contain a specific gene. Proc Natl Acad Sci USA 72:3961–3965, 1975.
Hall LMC, Maden BEH: Nucleotide sequence through the 18S–28S intergene region of a vertebrate ribosomal transcription unit. Nucleic Acids Res 8:5993–6005, 1980.
Hindenach BR, Stafford DW: Nucleotide sequence of the 18S–26S rRNA intergene region of the sea urchin. Nucleic Acids Res 12:1737–1747, 1984.
Mackay RM, Spencer DF, Doolittle WF, Gray MW: Nucleotide sequences of wheat-embryo cytosol 5-S and 5.8-S ribosomal ribonucleic acids. Eur J Biochem 112:561–576, 1980.
Maxam AM, Gilbert W: Sequencing end-labeled DNA with base-specific chemical cleavages. In: Grossman L, Moldave K (eds) Methods in Enzymology 65. Academic Press, New York, 1980, pp 499–560.
Messing J, Carlson J, Hagen G, Rubenstein I, Oleson A: Cloning and sequencing of the ribosomal RNA gene in maize: The 17S region. DNA 3:31–40, 1984.
Michot B, Bachellerie J-P, Raynal F: Structure of mouse rRNA precursor. Complete sequence and potential folding of the spacer regions between 18S and 28S rRNA. Nucleic Acids Res 10:3375–3391, 1983.
Michot B, Bachellerie J-P, Raynal F: Sequence and secondary structure of mouse 28S rRNA 5′ terminal domain. Organization of the 5.8S–28S rRNA complex. Nucleic Acids Res 10:5273–5283, 1983.
Nazar RN, Sitz TO, Busch H: Structural analyses of mammalian ribosomal ribonucleic acid and its precursor. J Biol Chem 250:8591–8597, 1975.
Nazar RN, Wildeman AG: Altered features in the secondary structure ofVicia faba 5.8S rRNA. Nucleic Acids Res 9:5345–5358, 1981.
Oono K, Sugiura M: Heterogeneity of the ribosomal RNA gene clusters in rice. Chromosoma (Berl.) 76:85–89 1980.
Ozaki T, Hoshikawa Y, Iida Y, Iwabuchi M: Sequence analysis of the transcribed and 5′ non-transcribed regions of the ribosomal RNA gene inDictyostelium discoideum. Nucleic Acids Res 12:4171–4184, 1984.
Peattie DA: Direct chemical method for sequencing RNA. Proc Natl Acad Sci USA 76:1760–1764, 1979.
Perry RP: Processing of RNA. Ann Rev Biochem 45:605–629, 1976.
Southern EM: Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol 98:503–517, 1975.
Subrahmanyam CS, Cussidy B, Busch H, Rothblum LI: Nucleotide sequence of the region between the 18S rRNA sequence and the 28S rRNA sequence of rat ribosomal DNA. Nucleic Acids Res 10:3667–3680, 1982.
Sugiura M: Purification of the T4 DNA ligase by blue Sepharose chromatography. Anal Biochem 108:227–229, 1980.
Sugiura M, Kusuda J: Molecular cloning of tobacco chloroplast ribosomal RNA genes. Mol Gen Genet 172:137–141, 1979.
Takaiwa F, Sugiura M: Heterogeneity of 5S RNA species in tobacco chloroplasts. Mol Gen Genet 182:385–389, 1981.
Takaiwa F, Sugiura M: The nucleotide sequence of chloroplast 5S ribosomal RNA from a fern,Dryopteris acuminata. Nucleic Acids Res 10:5369–5373, 1982.
Takaiwa F, Sugiura M: The complete nucleotide sequence of a 23S rRNA gene from tobacco chloroplasts. Eur J Biochem 124:12–19, 1982.
Takaiwa F, Oono K, Sugiura M: The complete nucleotide sequence of a rice 17S rRNA gene. Nucleic Acids Res 12:5441–5448, 1984.
Tanaka Y, Dyer TA, Brownlee GG: An improved direct RNA sequence method; its application toVicia faba 5.8S ribosomal RNA. Nucleic Acids Res 8:1259–1271, 1980.
Veldman GM, Brand RC, Klootwijk J, Planta RJ: Some characteristics of processing sites in ribosomal precursor RNA of yeast. Nucleic Acids Res 8:2907–2920, 1980.
Veldman GM, Klootwijk J, van Heerikhuizen H, Planta RJ: The nucleotide sequence of the intergenic region between the 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, 1981.
Veldman GM, Klootwijk J, de Regt VCHF, Planta RJ, Branlant C, Krol A, Ebel J-P: The primary and secondary structure of yeast 26S rRNA. Nucleic Acids Res 9:6935–6952, 1981.
Walker TA, Johnson KD, Olsen GJ, Peters MA, Pace NR: Enzymatic and chemical structure mapping of mouse 28S ribosomal ribonucleic acid contacts in 5.8S ribosomal ribonucleic acid. Biochemistry 21:2320–2329, 1982.
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Takaiwa, F., Oono, K. & Sugiura, M. Nucleotide sequence of the 17S–25S spacer region from rice rDNA. Plant Mol Biol 4, 355–364 (1985). https://doi.org/10.1007/BF02418257
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DOI: https://doi.org/10.1007/BF02418257