Home LiteratureArticle Details
PMID: 8980487 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Review

RNA editing in plant mitochondria and chloroplasts.

Plant molecular biology ·Vol. 32 ·No. 1-2 ·1996-10-00 ·Pages 343-65

Maier RM, Zeltz P, Kössel H, Bonnard G, Gualberto JM, Grienenberger JM

Abstract

In the mitochondria and chloroplasts of higher plants there is an RNA editing activity responsible for specific C-to-U conversions and for a few U-to-C conversions leading to RNA sequences different from the corresponding DNA sequences. RNA editing is a post-transcriptional process which essentially affects the transcripts of protein coding genes, but has also been found to modify non-coding transcribed regions, structural RNAs and intron sequences. RNA editing is essential for correct gene expression: proteins translated from edited transcripts are different from the ones deduced from the genes sequences and usually present higher similarity to the corresponding non-plant homologues. Initiation and stop codons can also be created by RNA editing. RNA editing has also been shown to be required for the stabilization of the secondary structure of introns and tRNAs. The biochemistry of RNA editing in plant organelles is still largely unknown. In mitochondria, recent experiments indicate that RNA editing may be a deamination process. A plastid transformation technique showed to be a powerful tool for the study of RNA editing. The biochemistry as well as the evolutionary features of RNA editing in both organelles are compared in order to identify common as well as organelle-specific components.

MeSH Terms
Amino Acid Sequence Base Sequence Chloroplasts/metabolism DNA, Plant Mitochondria/metabolism Molecular Sequence Data Plants/genetics RNA Editing Sequence Alignment
Chemicals
DNA, Plant
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Maier R M
Institut für Biologie III, Universität Freiburg, Germany.
Zeltz P
Kössel H
Bonnard G
Gualberto J M
Grienenberger J M
References (103)
103 references, click to expand
  1. RNA editing in plant mitochondria.
    Nature. 1989 Oct 19;341(6243):662-6 PMID: 2552326
  2. Simultaneous targeting of pea glutathione reductase and of a bacterial fusion protein to chloroplasts and mitochondria in transgenic tobacco.
    Plant J. 1995 Aug;8(2):167-75 PMID: 7670502
  3. Ribosomal protein S14 transcripts are edited in Oenothera mitochondria.
    Nucleic Acids Res. 1990 Jan 25;18(2):229-33 PMID: 2326162
  4. The Zea mays mitochondrial gene coding cytochrome oxidase subunit II has an intervening sequence and does not contain TGA codons.
    Cell. 1981 Nov;26(3 Pt 1):315-23 PMID: 6276012
  5. A gene involved in the biogenesis of c-type cytochromes is co-transcribed with a ribosomal protein gene in wheat mitochondria [corrected].
    Curr Genet. 1993 Sep;24(3):248-55 PMID: 8221934
  6. Inefficient rpl2 splicing in barley mutants with ribosome-deficient plastids.
    Plant Cell. 1994 Oct;6(10):1455-65 PMID: 7994178
  7. Editing of the wheat coxIII transcript: evidence for twelve C to U and one U to C conversions and for sequence similarities around editing sites.
    Nucleic Acids Res. 1990 Jul 11;18(13):3771-6 PMID: 1695731
  8. A plant mitochondrial sequence transcribed in transgenic tobacco chloroplasts is not edited.
    Mol Cell Biol. 1995 Mar;15(3):1377-81 PMID: 7862130
  9. Splicing and editing of rps10 transcripts in potato mitochondria.
    Curr Genet. 1995 May;27(6):565-71 PMID: 7553943
  10. Editing corrects mispairing in the acceptor stem of bean and potato mitochondrial phenylalanine transfer RNAs.
    Nucleic Acids Res. 1993 Oct 25;21(21):4909-14 PMID: 8177739
  11. RNA editing intermediates of cox2 transcripts in maize mitochondria.
    Mol Cell Biol. 1991 Aug;11(8):4278-81 PMID: 1712908
  12. Cytochrome oxidase subunit II mRNAs in Oenothera mitochondria are edited at 24 sites.
    Curr Genet. 1990 Nov;18(4):371-5 PMID: 2174746
  13. Accumulation of D1 polypeptide in tobacco plastids is regulated via the untranslated region of the psbA mRNA.
    EMBO J. 1993 Feb;12(2):601-6 PMID: 8440249
  14. Editing of the chloroplast ndhB encoded transcript shows divergence between closely related members of the grass family (Poaceae).
    Plant Mol Biol. 1995 Nov;29(4):679-84 PMID: 8541494
  15. Distribution of RNA editing sites in Oenothera mitochondrial mRNAs and rRNAs.
    Curr Genet. 1991 Nov;20(5):397-404 PMID: 1725505
  16. The role of RNA editing in conservation of start codons in chloroplast genomes.
    Gene. 1994 Sep 2;146(2):177-82 PMID: 8076816
  17. The wheat mitochondrial gene for apocytochrome b: absence of a prokaryotic ribosome binding site.
    Nucleic Acids Res. 1985 Apr 11;13(7):2281-92 PMID: 2987849
  18. Apolipoprotein B-48 is the product of a messenger RNA with an organ-specific in-frame stop codon.
    Science. 1987 Oct 16;238(4825):363-6 PMID: 3659919
  19. RNA editing in plant mitochondria.
    Science. 1989 Dec 22;246(4937):1632-4 PMID: 2480644
  20. Expression of the wheat mitochondrial nad3-rps12 transcription unit: correlation between editing and mRNA maturation.
    Plant Cell. 1991 Oct;3(10):1109-20 PMID: 1726558
  21. A gene proposed to encode a transmembrane domain of an ABC transporter is expressed in wheat mitochondria.
    Mol Gen Genet. 1995 Jan 6;246(1):91-9 PMID: 7529870
  22. Trans splicing integrates an exon of 22 nucleotides into the nad5 mRNA in higher plant mitochondria.
    EMBO J. 1991 Nov;10(11):3483-93 PMID: 1915303
  23. Editing of the chloroplast rpoB transcript is independent of chloroplast translation and shows different patterns in barley and maize.
    EMBO J. 1993 Nov;12(11):4291-6 PMID: 8223439
  24. 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
  25. Regenerating good sense: RNA editing and trans splicing in plant mitochondria.
    Trends Genet. 1992 Sep;8(9):322-8 PMID: 1365399
  26. The genes coding for subunit 3 of NADH dehydrogenase and for ribosomal protein S12 are present in the wheat and maize mitochondrial genomes and are co-transcribed.
    Mol Gen Genet. 1988 Dec;215(1):118-27 PMID: 2853827
  27. The wheat mitochondrial genome contains an ORF showing sequence homology to the gene encoding the subunit 6 of the NADH-ubiquinone oxidoreductase.
    Plant Mol Biol. 1992 Nov;20(3):395-404 PMID: 1421143
  28. The psbL gene from bell pepper (Capsicum annuum): plastid RNA editing also occurs in non-photosynthetic chromoplasts.
    Plant Mol Biol. 1992 Dec;20(6):1185-8 PMID: 1463853
  29. Apolipoprotein B mRNA editing is associated with UV crosslinking of proteins to the editing site.
    Proc Natl Acad Sci U S A. 1993 Jan 1;90(1):222-6 PMID: 8419928
  30. Direct protein sequencing of wheat mitochondrial ATP synthase subunit 9 confirms RNA editing in plants.
    J Mol Biol. 1990 Jul 5;214(1):1-6 PMID: 2196374
  31. Evidence for a site-specific cytidine deamination reaction involved in C to U RNA editing of plant mitochondria.
    J Biol Chem. 1995 Aug 4;270(31):18227-33 PMID: 7629140
  32. RNA editing of the transcript coding for subunit 4 of NADH dehydrogenase in wheat mitochondria: uneven distribution of the editing sites among the four exons.
    Nucleic Acids Res. 1991 Jun 25;19(12):3275-82 PMID: 1712098
  33. Organization and nucleotide sequence of genes at both junctions between the two inverted repeats and the large single-copy region in the rice chloroplast genome.
    Gene. 1988 Oct 15;70(1):1-12 PMID: 3240862
  34. Intron loss from the NADH dehydrogenase subunit 4 gene of lettuce mitochondrial DNA: evidence for homologous recombination of a cDNA intermediate.
    Mol Gen Genet. 1994 Apr;243(1):97-105 PMID: 8190077
  35. RNA editing by cytidine insertion in mitochondria of Physarum polycephalum.
    Nature. 1991 Jan 31;349(6308):434-8 PMID: 1825131
  36. Site-specific factor involved in the editing of the psbL mRNA in tobacco plastids.
    EMBO J. 1995 Jun 15;14(12):2951-7 PMID: 7796820
  37. A model for RNA editing in kinetoplastid mitochondria: "guide" RNA molecules transcribed from maxicircle DNA provide the edited information.
    Cell. 1990 Jan 26;60(2):189-98 PMID: 1688737
  38. Identification of the entire set of transferred chloroplast DNA sequences in the mitochondrial genome of rice.
    Mol Gen Genet. 1993 Jan;236(2-3):341-6 PMID: 8437578
  39. Two mRNAs that differ by two nontemplated nucleotides encode the amino coterminal proteins P and V of the paramyxovirus SV5.
    Cell. 1988 Sep 9;54(6):891-902 PMID: 3044614
  40. Identification of editing positions in the ndhB transcript from maize chloroplasts reveals sequence similarities between editing sites of chloroplasts and plant mitochondria.
    Nucleic Acids Res. 1992 Dec 11;20(23):6189-94 PMID: 1282235
  41. RNA editing of apocytochrome b (cob) transcripts in mitochondria from two genera of plants.
    Curr Genet. 1993 Oct;24(4):344-8 PMID: 7504589
  42. In vivo testing of a tobacco plastid DNA segment for guide RNA function in psbL editing.
    Mol Gen Genet. 1995 May 20;247(4):439-43 PMID: 7770051
  43. Editing on the genomic RNA of human hepatitis delta virus.
    J Virol. 1992 Aug;66(8):4693-7 PMID: 1629949
  44. Differential RNA editing in closely related introns in Oenothera mitochondria.
    Mol Gen Genet. 1994 Apr;243(1):39-46 PMID: 7514712
  45. Evidence for RNA editing in mitochondria of all major groups of land plants except the Bryophyta.
    Proc Natl Acad Sci U S A. 1994 Jan 18;91(2):629-33 PMID: 8290575
  46. RNA editing in tobacco chloroplasts leads to the formation of a translatable psbL mRNA by a C to U substitution within the initiation codon.
    EMBO J. 1992 Mar;11(3):1099-103 PMID: 1547774
  47. Higher plant mitochondria encode an homologue of the nuclear-encoded 30-kDa subunit of bovine mitochondrial complex I.
    Eur J Biochem. 1993 Nov 1;217(3):831-8 PMID: 8223639
  48. RNA editing in plant mitochondria and chloroplasts.
    FASEB J. 1993 Jan;7(1):64-71 PMID: 8422976
  49. RNA editing of wheat mitochondrial ATP synthase subunit 9: direct protein and cDNA sequencing.
    Plant Cell. 1990 Dec;2(12):1283-90 PMID: 1726783
  50. A promiscuous chloroplast DNA fragment is transcribed in plant mitochondria but the encoded RNA is not edited.
    Plant Mol Biol. 1996 Jun;31(3):647-56 PMID: 8790296
  51. Internal editing of the maize chloroplast ndhA transcript restores codons for conserved amino acids.
    Plant Cell. 1992 May;4(5):609-16 PMID: 1498612
  52. Nucleotide sequence of the cox3 gene from Chondrus crispus: evidence that UGA encodes tryptophan and evolutionary implications.
    Nucleic Acids Res. 1994 Apr 25;22(8):1400-3 PMID: 8190631
  53. The protein-encoding gene T-urf13 is not edited in maize mitochondria.
    Plant Mol Biol. 1991 Nov;17(5):1083-8 PMID: 1718480
  54. Novel recombinations in the maize mitochondrial genome produce a unique transcriptional unit in the Texas male-sterile cytoplasm.
    Cell. 1986 Feb 14;44(3):439-49 PMID: 2417728
  55. Maize mitochondrial DNA contains a sequence homologous to the ribulose-1,5-bisphosphate carboxylase large subunit gene of chloroplast DNA.
    Cell. 1983 Oct;34(3):1007-14 PMID: 6354467
  56. Complete sequence of the maize chloroplast genome: gene content, hotspots of divergence and fine tuning of genetic information by transcript editing.
    J Mol Biol. 1995 Sep 1;251(5):614-28 PMID: 7666415
  57. An in vitro system for the editing of ATP synthase subunit 9 mRNA using wheat mitochondrial extracts.
    Proc Natl Acad Sci U S A. 1992 Feb 1;89(3):1040-4 PMID: 1531271
  58. RNA editing in wheat mitochondria results in the conservation of protein sequences.
    Nature. 1989 Oct 19;341(6243):660-2 PMID: 2552325
  59. A single homogeneous form of ATP6 protein accumulates in petunia mitochondria despite the presence of differentially edited atp6 transcripts.
    Plant Cell. 1994 Dec;6(12):1955-68 PMID: 7866035
  60. Major transcript of the frameshifted coxII gene from trypanosome mitochondria contains four nucleotides that are not encoded in the DNA.
    Cell. 1986 Sep 12;46(6):819-26 PMID: 3019552
  61. The wheat mitochondrial gene for subunit I of the NADH dehydrogenase complex: a trans-splicing model for this gene-in-pieces.
    Cell. 1991 May 3;65(3):465-72 PMID: 1902143
  62. Structures of tobacco chloroplast genes for tRNA(Ile) (CAU), tRNA (Leu) (CAA), tRNA (Cys) (GCA), tRNA (Ser) (UGA) and tRNA (Thr) (GGU): a compilation of tRNA genes from tobacco chloroplasts.
    Plant Mol Biol. 1986 Sep;7(5):385-92 PMID: 24302408
  63. Trans splicing in Oenothera mitochondria: nad1 mRNAs are edited in exon and trans-splicing group II intron sequences.
    Cell. 1991 May 3;65(3):473-82 PMID: 1850322
  64. The tobacco mitochondrial ATPase subunit 9 gene is closely linked to an open reading frame for a ribosomal protein.
    Mol Gen Genet. 1986 Jul;204(1):8-16 PMID: 2875379
  65. RNA editing of the mitochondrial atp9 transcript from tobacco.
    Nucleic Acids Res. 1992 Apr 11;20(7):1809 PMID: 1533714
  66. The complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression.
    EMBO J. 1986 Sep;5(9):2043-2049 PMID: 16453699
  67. A single nuclear gene specifies the abundance and extent of RNA editing of a plant mitochondrial transcript.
    Nucleic Acids Res. 1992 Nov 11;20(21):5699-703 PMID: 1454533
  68. Complete RNA editing of unspliced and dicistronic transcripts of the intron-containing reading frame IRF170 from maize chloroplasts.
    Proc Natl Acad Sci U S A. 1994 Mar 15;91(6):2295-9 PMID: 7545915
  69. Sequence of the genes for tRNACys and tRNAAsp from spinach chloroplasts.
    Nucleic Acids Res. 1983 Dec 20;11(24):8547-54 PMID: 6324088
  70. Transcripts of the NADH-dehydrogenase subunit 3 gene are differentially edited in Oenothera mitochondria.
    EMBO J. 1990 Jan;9(1):263-9 PMID: 1688531
  71. Editing of a chloroplast mRNA by creation of an initiation codon.
    Nature. 1991 Sep 12;353(6340):178-80 PMID: 1653905
  72. A trans-splicing model for the expression of the tripartite nad5 gene in wheat and maize mitochondria.
    Plant Cell. 1991 Dec;3(12):1363-78 PMID: 1726722
  73. RNA editing of a group II intron in Oenothera as a prerequisite for splicing.
    Mol Gen Genet. 1995 Mar 20;246(6):739-44 PMID: 7898443
  74. Characterization of the mitochondrial orfB gene and its derivative, orf224, a chimeric open reading frame specific to one mitochondrial genome of the "Polima" male-sterile cytoplasm in rapeseed (Brassica napus L.).
    Curr Genet. 1995 Nov;28(6):546-52 PMID: 8593685
  75. Light-responsive and transcription-enhancing elements regulate the plastid psbD core promoter.
    EMBO J. 1995 Aug 1;14(15):3721-30 PMID: 7641691
  76. Loss of all ndh genes as determined by sequencing the entire chloroplast genome of the black pine Pinus thunbergii.
    Proc Natl Acad Sci U S A. 1994 Oct 11;91(21):9794-8 PMID: 7937893
  77. Isolation of a transcriptionally active chromosome from chloroplasts of Euglena gracilis.
    Biochemistry. 1976 Jul 13;15(14):3039-45 PMID: 821516
  78. RNA editing in the mitochondria of a conifer.
    Curr Genet. 1992 Aug;22(2):163-5 PMID: 1384996
  79. RNA editing in brain controls a determinant of ion flow in glutamate-gated channels.
    Cell. 1991 Oct 4;67(1):11-9 PMID: 1717158
  80. Comparative and functional anatomy of group II catalytic introns--a review.
    Gene. 1989 Oct 15;82(1):5-30 PMID: 2684776
  81. Structure and transcription of the gene coding for subunit 3 of cytochrome oxidase in wheat mitochondria.
    Curr Genet. 1990 Jan;17(1):41-7 PMID: 2155710
  82. RNA editing of tRNA(Phe) and tRNA(Cys) in mitochondria of Oenothera berteriana is initiated in precursor molecules.
    Mol Gen Genet. 1994 Jul 8;244(1):67-74 PMID: 8041363
  83. Differences in editing at homologous sites in messenger RNAs from angiosperm mitochondria.
    Nucleic Acids Res. 1990 Sep 11;18(17):5189-96 PMID: 1698279
  84. Characterization of transcriptionally active DNA-protein complexes from chloroplasts and etioplasts of mustard (Sinapis alba L.).
    Eur J Biochem. 1985 Apr 15;148(2):207-12 PMID: 2580705
  85. Characterization of the S7 ribosomal protein gene in wheat mitochondria.
    Mol Gen Genet. 1993 Jan;236(2-3):395-401 PMID: 8437584
  86. Tissue- and stage-specific modulation of RNA editing of the psbF and psbL transcript from spinach plastids--a new regulatory mechanism?
    Mol Gen Genet. 1993 Aug;240(2):238-44 PMID: 8355656
  87. RNA Editing in Plant Mitochondria: [alpha]-Phosphate Is Retained during C-to-U Conversion in mRNAs.
    Plant Cell. 1993 Dec;5(12):1843-1852 PMID: 12271058
  88. Editing of pre-mRNAs can occur before cis- and trans-splicing in Petunia mitochondria.
    Mol Cell Biol. 1991 Aug;11(8):4274-7 PMID: 1712907
  89. RNA sequence and the nature of the CuA-binding site in cytochrome c oxidase.
    FEBS Lett. 1990 Jul 30;268(1):5-7 PMID: 1696552
  90. RNA editing of a chimeric maize mitochondrial gene transcript is sequence specific.
    Curr Genet. 1993 Feb;23(2):154-9 PMID: 8431957
  91. RNA editing in trans-splicing intron sequences of nad2 mRNAs in Oenothera mitochondria.
    J Biol Chem. 1992 Apr 15;267(11):7615-23 PMID: 1559998
  92. How big is the universe of exons?
    Science. 1990 Dec 7;250(4986):1377-82 PMID: 2255907
  93. RNA editing and the mitochondrial cryptogenes of kinetoplastid protozoa.
    Cell. 1989 May 5;57(3):355-66 PMID: 2470509
  94. Gene organization deduced from the complete sequence of liverwort Marchantia polymorpha mitochondrial DNA. A primitive form of plant mitochondrial genome.
    J Mol Biol. 1992 Jan 5;223(1):1-7 PMID: 1731062
  95. Nucleotide sequence and map positions of the duplicated gene for maize (Zea mays) chloroplast ribosomal protein L2.
    Nucleic Acids Res. 1990 Jul 25;18(14):4244 PMID: 2377464
  96. Introduction of a heterologous editing site into the tobacco plastid genome: the lack of RNA editing leads to a mutant phenotype.
    EMBO J. 1994 Oct 3;13(19):4623-8 PMID: 7925303
  97. Processing followed by complete editing of an altered mitochondrial atp6 RNA restores fertility of cytoplasmic male sterile rice.
    EMBO J. 1993 Apr;12(4):1437-46 PMID: 7682174
  98. RNA editing of tobacco petB mRNAs occurs both in chloroplasts and non-photosynthetic proplastids.
    Plant Mol Biol. 1994 Oct;26(1):509-13 PMID: 7948899
  99. The NADH dehydrogenase subunit 7 gene is interrupted by four group II introns in the wheat mitochondrial genome.
    Mol Gen Genet. 1994 Jul 8;244(1):81-9 PMID: 8041365
  100. Translation of nad9 mRNAs in mitochondria from Solanum tuberosum is restricted to completely edited transcripts.
    Nucleic Acids Res. 1994 Aug 25;22(16):3304-11 PMID: 8078764
  101. Mitochondrial and chloroplast genomes of maize have a 12-kilobase DNA sequence in common.
    Nature. 1982 Oct 21;299(5885):698-702 PMID: 6889685
  102. RNA editing in the cytochrome b locus of the higher plant Oenothera berteriana includes a U-to-C transition.
    Mol Cell Biol. 1990 May;10(5):2428-31 PMID: 2325659
  103. RNA editing in maize chloroplasts is a processing step independent of splicing and cleavage to monocistronic mRNAs.
    Plant J. 1993 Oct;4(4):621-9 PMID: 8252066
Article Info
Journal
Plant molecular biology
Abbr.
Plant Mol Biol
ISSN
0167-4412
Published
1996-10-00
Pages
343-65
Language
English
Region
Netherlands
NLM ID
9106343
Subset
IM
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]