Skip to main content
SpringerLink
Log in

Intron in the gene for the ribosomal protein S16 of tobacco chloroplast and its conserved boundary sequences

  • Published:
Molecular and General Genetics MGG Aims and scope Submit manuscript

Summary

The nucleotide sequence of a tobacco chloroplast gene coding for a protein homologous to Escherichia coli ribosomal protein S16 (rps16) has been determined. It is located 690 bp upstream from the gene for tRNALys (UUU) on the same DNA strand. This gene has an 860 bp intron. The intron boundary sequences are similar to those of the tobacco chloroplast split genes for tRNAGly (UCC), tRNALys (UUU), tRNAVal (UAC) and ribosomal proteins L2 and S12. We classified these introns as a new group, designated group III, which is different from groups I and II proposed by Michel and Dujon (1983). The conserved boundary sequences of the group III introns are GTGCGNY at the 5′ ends and ATCNRY(N)YYAY at the 3′ ends. The rps16 coding region contains 255 bp (85 codons) and its deduced amino acid sequence shows 34% homology (46% conservative replacements) with that of E. coli ribosomal protein S16. The primary transcript of rps16 is 1.3 kb long.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  • Bartsch M, Kimura M, Subramanian AR (1982) Purification, primary structure, and homology relationships of a chloroplast ribosomal protein. Proc Natl Acad Sci USA 79:6871–6875

    Google Scholar 

  • Bird CR, Koller B, Auffret AD, Huttly AK, Howe CJ, Dyer TA, Gray JC (1985) The wheat chloroplast gene for CF0 subunit of ATP synthase contains a long intron. EMBO J 4:1381–1388

    Google Scholar 

  • Bonnard G, Michel F, Weil JH, Steinmetz A (1984) Nucleotide sequence of the split tRNALeu-UAA gene from Vicia faba chloroplast. Mol Gen Genet 94:330–336

    Google Scholar 

  • Cech T (1983) RNA splicing: three themes with variations. Cell 34:713–716

    Google Scholar 

  • Chou PY, Fasman G (1978) Prediction of protein secondary structure. Adv Enzymology 47:45–148

    Google Scholar 

  • Deno H, Kato A, Shinozaki K, Sugiura M (1982) Nucleotide sequence of tobacco chloroplast genes for elongator tRNAMet and tRNAVal (UAC): the tRNAVal (UAC) gene contains a long intron. Nucleic Acids Res 10:7511–7520

    Google Scholar 

  • Deno H, Sugiura M (1983) The nucleotide sequences of tRNASer (GCU) and tRNAGln (UUG) genes from tobacco chloroplasts. Nucleic Acids Res 11:8407–8414

    Google Scholar 

  • Deno H, Sugiura M (1984) Chloroplast tRNAGly gene contains a long intron in the D stem: Nucleotide sequences of tobacco chloroplast genes for tRNAGly (UCC) and tRNAArg (UCU). Proc Natl Acad Sci USA 81:405–408

    Google Scholar 

  • Deno H, Shinozaki K, Sugiura M (1983) Nucleotide sequence of tobacco chloroplast gene for the α subunit of proton-translocating ATPase. Nucleic Acids Res 11:2185–2191

    Google Scholar 

  • Deno H, Shinozaki K, Sugiura M (1984) Structure and transcription of a tobacco chloroplast gene for the III subunit of proton-translocating ATPase. Gene 32:195–201

    Google Scholar 

  • Eneas-Filho JN, Hartley MR, Mache R (1981) Pea chloroplast ribosomal proteins: characterization and site of synthesis. Mol Gen Genet 184:484–488

    Google Scholar 

  • Erickson JM, Rahire M, Rochaix J-D (1984) Chlamydomonas reinhardii gene for the 32,000 mol. wt. protein of photosystem II contains four large introns and is located entirely within the chloroplast inverted repeat. EMBO J 3:2753–2762

    Google Scholar 

  • Hallick RB, Gingrich JC, Johanningmeier U, Passavant C (1985) Introns in Euglena and Nicotiana chloroplast protein genes. In: Vloten-Doting L, Groot GSP, Hall TC (eds) Molecular form and function of the plant genome. Plenum Publishing Corp, New York, pp 211–220

    Google Scholar 

  • Keller M, Michel F (1985) The introns of the Euglena gracilis chloroplast gene which codes for the 32-KDa protein of photosystem II. FEBS Lett 179:69–73

    Google Scholar 

  • Koch W, Edwards K, Kossel H (1981) Sequence of the 16S–23S spacer in a ribosomal RNA operon of Zea mays chloroplast DNA reveals two split tRNA genes. Cell 25:203–213

    Google Scholar 

  • Krebbers ET, Steinmetz A, Bogorad L (1984) DNA sequences for the Zea mays tRNA genes tV-UAC and ts-UGA: tv-UAC contains a large intron. Plant Mol Biol 3:13–20

    Google Scholar 

  • Maxam AM, Gilbert W (1977) A new method for sequencing DNA. Proc Natl Acad Sci USA 74:560–564

    Google Scholar 

  • Messing J, Crea R, Seeburg PH (1981) A system for shotgun DNA sequencing. Nucleic Acids Res 9:309–321

    Google Scholar 

  • Michel F, Dujon B (1983) Conservation of RNA secondary structures in two intron families including mitochondrial-, chloroplast-and nuclear-encoded members. EMBO J 2:33–38

    Google Scholar 

  • Montandon PE, Stutz E (1984) The genes for the ribosomal proteins S12 and S7 are clustered with the gene for the EF-Tu protein on the chloroplast genome of Euglena gracilis. Nucleic Acids Res 12:2851–2859

    Google Scholar 

  • Ohme M, Kamogashira T, Shinozaki K, Sugiura M (1985) Structure and cotranscription of tobacco chloroplast genes for tRNAGlu (UUC), tRNATyr (GUA) and tRNAAsp (GUC). Nucleic Acids Res 13:1045–1056

    Google Scholar 

  • Quigley F, Weil JH (1985) Organization and sequence of five tRNA genes and of an unidentified reading frame in wheat chloroplast genome: evidence for gene rearrangements during the evolution of chloroplast genomes. Curr Genet 9:495–503

    Google Scholar 

  • Rochaix J-D, Rahire M, Michel M (1985) The chloroplast ribosomal intron of Chlamydomonas reinhardii for a polypeptide related to mitochondrial maturases. Nucleic Acids Res 13:975–984

    Google Scholar 

  • Sanger F, Nicklen S, Coulson AR (1977) DNA sequencing with chain terminating inhibitors. Proc Natl Acad Sci USA 74:5463–5467

    Google Scholar 

  • Shinozaki K, Deno H, Kato A, Sugiura M (1983) Overlap and cotranscription of the genes for the beta and epsilon subunits of tobacco chloroplast ATPase. Gene 24:147–155

    Google Scholar 

  • Steinmetz A, Gubbins EJ, Bogorad L (1982) The anticodon of the maize chloroplast gene for tRNALeu (UAA) is split by a large intron. Nucleic Acids Res 10:3027–3037

    Google Scholar 

  • Subramanian AR, Steinmetz A, Bogorad L (1983) Maize chloroplast DNA encodes a protein sequence homologous to the bacterial ribosome assembly protein S4. Nucleic Acids Res 11:5277–5286

    Google Scholar 

  • Sugita M, Sugiura M (1983) A putative gene of tobacco chloroplast coding for ribosomal protein similar to E. coli ribosomal protein S19. Nucleic Acids Res 11:1913–1918

    Google Scholar 

  • Sugita M, Shinozaki K, Sugiura M (1985) Tobacco chloroplast tRNALys (UUU) gene contains a 2.5 kilobase pair intron: An open reading frame and a conserved boundary sequence in the intron. Proc Natl Acad Sci USA 82:3557–3561

    Google Scholar 

  • Sugiura M, Kusuda J (1979) Molecular cloning of tobacco chloroplast ribosomal RNA genes. Mol Gen Genet 172:137–141

    Google Scholar 

  • Takaiwa F, Sugiura M (1982) Nucleotide sequence of the 16S–23S spacer region in an rRNA gene cluster from tobacco chloroplast DNA. Nucleic Acids Res 10:2665–2676

    Google Scholar 

  • Umesono K, Inokuchi H, Ohyama K, Ozeki H (1984) Nucleotide sequence of Marchantia polymorpha chloroplast DNA: a region possibly encoding three tRNAs and three proteins including a homologue of E. coli ribosomal protein S14. Nucleic Acids Res 12:9551–9565

    Google Scholar 

  • Vandekerckhove J, Rombauts J, Wittmann-Liebold B (1977) The complete amino acid sequence of protein S16 from Escherichia coli. Hoppe Seylers Z Physiol Chem 358:989–1002

    Google Scholar 

  • Whitfeld P, Bottomley W (1983) Organization and structure of chloroplast genes. Annu Rev Plant Physiol 34:279–310

    Google Scholar 

  • Zurawski G, Clegg MT (1984) The barley chloroplast DNA atpBE, trnM2 and trnV1 loci. Nucleic Acids Res 12:2549–2559

    Google Scholar 

  • Zurawski G, Bottomley W, Whitfeld PR (1984) Junctions of the large single copy region and the inverted repeats in Spinacia oleracea and Nicotiana debneyi chloroplast DNA: sequence of the genes for tRNAHis and the ribosomal proteins S19 and L2. Nucleic Acids Res 12:6547–6558

    Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Center for Gene Research, Nagoya University, Chikusa, 464, Nagoya, Japan

    Kazuo Shinozaki & Masahiro Sugiura

  2. Bioscience Research Center, Mitsui Petrochemical Industries, Waki-cho, 740, Kuga-gun, Yamaguchi-ken, Japan

    Hiroshi Deno

  3. Department of Botany, Hokkaido University, 060, Sapporo, Japan

    Mamoru Sugita

  4. Department of Medical Chemistry, Osaka Medical College, 569, Takatsuki, Osaka, Japan

    Seiki Kuramitsu

Authors
  1. Kazuo Shinozaki
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Hiroshi Deno
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Mamoru Sugita
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Seiki Kuramitsu
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Masahiro Sugiura
    View author publications

    You can also search for this author in PubMed Google Scholar

Additional information

Communicated by K. Isono

Rights and permissions

Reprints and permissions

About this article

Cite this article

Shinozaki, K., Deno, H., Sugita, M. et al. Intron in the gene for the ribosomal protein S16 of tobacco chloroplast and its conserved boundary sequences. Mol Gen Genet 202, 1–5 (1986). https://doi.org/10.1007/BF00330508

Download citation

  • Received:

  • Issue Date:

  • DOI: https://doi.org/10.1007/BF00330508

Key words

Search

Navigation