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PMID: 1557027 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Chloroplast DNA of black pine retains a residual inverted repeat lacking rRNA genes: nucleotide sequences of trnQ, trnK, psbA, trnI and trnH and the absence of rps16.

Molecular & general genetics : MGG ·Vol. 232 ·No. 2 ·1992-03-00 ·Pages 206-14

Tsudzuki J, Nakashima K, Tsudzuki T, Hiratsuka J, Shibata M, Wakasugi T, Sugiura M

Abstract

A physical map of black pine (Pinus thunbergii) chloroplast DNA (120 kb) was constructed and two separate portions of its nucleotide sequence were determined. One portion contains trnQ-UUG, ORF510, ORF83, trnK-UUU (ORF515 in the trnK intron), ORF22, psbA, trnI-CAU (on the opposing strand) and trnH-GUG, in that order. Sequence analysis of another portion revealed the presence of a 495 bp inverted repeat containing trnI-CAU and the 3' end of psbA but lacking rRNA genes. The position of trnI-CAU is unique because most chloroplast DNAs have no gene between psbA and trnH (trnI-CAU is usually located further downstream). Black pine chloroplast DNA lacks rps16, which has been found between trnQ and trnK in angiosperm chloroplast DNAs, but possesses ORF510 instead. This ORF is highly homologous to ORF513 found in the corresponding region of liverwort chloroplast DNA and ORF563 located downstream from trnT in Chlamydomonas moewusii chloroplast DNA. A possible pathway for the evolution of black pine chloroplast DNA is discussed.

Related Genes
psbA rps16 trnH trnI trnK trnQ
MeSH Terms
Amino Acid Sequence Base Sequence Chloroplasts DNA/genetics Introns Molecular Sequence Data Open Reading Frames Plants, Toxic RNA, Ribosomal/genetics Repetitive Sequences, Nucleic Acid Restriction Mapping Sequence Homology, Nucleic Acid Tobacco/genetics Trees/genetics
Chemicals
RNA, Ribosomal DNA
Authors & Affiliations
7 authors, click to expand affiliations / ORCID
Tsudzuki J
Sugiyama Jogakuen University, Nagoya, Japan.
Nakashima K
Tsudzuki T
Hiratsuka J
Shibata M
Wakasugi T
Sugiura M
References (30)
30 references, click to expand
  1. The ndhH genes of gramminean plastomes are linked with the junctions between small single copy and inverted repeat regions.
    Curr Genet. 1990 Oct;18(3):245-50 PMID: 2249254
  2. The identification and localization of 33 pea chloroplast transcription initiation sites.
    Curr Genet. 1989 Dec;16(5-6):433-45 PMID: 2482136
  3. Nucleotide sequence of the mustard chloroplast genes trnH and rps19'.
    Nucleic Acids Res. 1990 Feb 25;18(4):1051 PMID: 2315019
  4. A three-step model for the rearrangement of the chloroplast trnK-psbA region of the gymnosperm Pinus contorta.
    Nucleic Acids Res. 1991 Jun 11;19(11):2881-7 PMID: 2057349
  5. Structure and expression of a split chloroplast gene from mustard (Sinapis alba): ribosomal protein gene rps16 reveals unusual transcriptional features and complex RNA maturation.
    Curr Genet. 1989 Jan;15(1):63-70 PMID: 2545357
  6. Chloroplast genomes of two conifers lack a large inverted repeat and are extensively rearranged.
    Proc Natl Acad Sci U S A. 1988 Jun;85(11):3898-902 PMID: 2836862
  7. Rearrangements in the chloroplast genomes of mung bean and pea.
    Proc Natl Acad Sci U S A. 1981 Sep;78(9):5533-7 PMID: 16593087
  8. 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):185-94 PMID: 2770692
  9. In vitro transcription and DNA binding characteristics of chloroplast and etioplast extracts from mustard (Sinapis alba) indicate differential usage of the psbA promoter.
    EMBO J. 1990 Dec;9(12):3981-7 PMID: 2249659
  10. The chloroplast tRNALys(UUU) gene from mustard (Sinapis alba) contains a class II intron potentially coding for a maturase-related polypeptide.
    Curr Genet. 1987;11(4):251-7 PMID: 2834093
  11. Sequence and transcriptional analysis of the barley ctDNA region upstream of psbD-psbC encoding trnK(UUU), rps16, trnQ(UUG), psbK, psbI, and trnS(GCU).
    Curr Genet. 1990 May;17(5):445-54 PMID: 1694111
  12. Fine structural features of the chloroplast genome: comparison of the sequenced chloroplast genomes.
    Nucleic Acids Res. 1991 Mar 11;19(5):983-95 PMID: 1708498
  13. Sequence of the trnH gene and the inverted repeat structure deletion site of the broad bean chloroplast genome.
    Nucleic Acids Res. 1990 Mar 11;18(5):1297 PMID: 2320425
  14. Structure and organization of Marchantia polymorpha chloroplast genome. II. Gene organization of the large single copy region from rps'12 to atpB.
    J Mol Biol. 1988 Sep 20;203(2):299-331 PMID: 2974085
  15. Assembly of the mitochondrial membrane system. Structure and nucleotide sequence of the gene coding for subunit 1 of yeast cytochrme oxidase.
    J Biol Chem. 1980 Dec 25;255(24):11927-41 PMID: 6254986
  16. Sequence analysis of the junction of the large single copy region and the large inverted repeat in the petunia chloroplast genome.
    Curr Genet. 1988 Nov;14(5):487-92 PMID: 3224388
  17. Dispersed repetitive sequences in the chloroplast genome of Douglas-fir.
    Curr Genet. 1989 Sep;16(3):211-8 PMID: 2598277
  18. Nucleotide sequence of Chlamydomonas moewusii chloroplastic tRNA(thr).
    Nucleic Acids Res. 1990 May 25;18(10):3061 PMID: 2349110
  19. Pea chloroplast tRNA(Lys) (UUU) gene: transcription and analysis of an intron-containing gene.
    Photosynth Res. 1988 Jul;17(1-2):7-22 PMID: 24429659
  20. Comparative organization of chloroplast genomes.
    Annu Rev Genet. 1985;19:325-54 PMID: 3936406
  21. Chloroplast DNA in Pinus monticola : 1. Physical map.
    Theor Appl Genet. 1990 Jan;79(1):119-24 PMID: 24226130
  22. 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. 1984 Aug 24;12(16):6547-58 PMID: 6089120
  23. Sequence of the gene for the large subunit of ribulose 1,5-bisphosphate carboxylase from a gymnosperm, Douglas fir.
    Plant Mol Biol. 1990 Sep;15(3):505-7 PMID: 2103468
  24. Tobacco chloroplast tRNA(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 U S A. 1985 Jun;82(11):3557-61 PMID: 16593561
  25. The chloroplast genomes of conifers lack one of the rRNA-encoding inverted repeats.
    Mol Gen Genet. 1988 Apr;212(1):6-10 PMID: 24649523
  26. The site of deletion of the inverted repeat in pea chloroplast DNA contains duplicated gene fragments.
    Curr Genet. 1988;13(1):97-9 PMID: 3359497
  27. The chloroplast chromosomes in land plants.
    Annu Rev Cell Biol. 1989;5:51-70 PMID: 2688709
  28. Duplication of the psbA gene in the chloroplast genome of two Pinus species.
    Mol Gen Genet. 1991 May;226(3):345-52 PMID: 1840637
  29. Sequence and transcript map of barley chloroplast psbA gene.
    Nucleic Acids Res. 1988 Aug 25;16(16):8184 PMID: 3419912
  30. DNA sequence requirements for the accurate transcription of a protein-coding plastid gene in a plastid in vitro system from mustard (Sinapis alba L.).
    EMBO J. 1984 Aug;3(8):1697-704 PMID: 16453540
Article Info
Journal
Molecular & general genetics : MGG
Abbr.
Mol Gen Genet
ISSN
0026-8925
DOI
10.1007/BF00279998
Published
1992-03-00
Pages
206-14
Language
English
Region
Germany
NLM ID
0125036
Subset
IM
External Links
PubMed source DOI: 10.1007/BF00279998
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