Surrogate mutants for studying mitochondrially encoded functions

Biochimie

Volumn 100, Issue 1, 2014, Pages 234-242

  Colas Des Francs Small, Catherine ^a   Small, Ian ^a  

^a UNIVERSITY OF WESTERN AUSTRALIA   (Australia)

Author keywords

Mitochondria; Mutants; Plants; RNA processing; RNA binding proteins

Indexed keywords

ADENOSINE TRIPHOSPHATASE; CYTOCHROME C OXIDASE; MITOCHONDRIAL DNA; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE; REACTIVE OXYGEN METABOLITE; REDUCED NICOTINAMIDE ADENINE DINUCLEOTIDE DEHYDROGENASE (UBIQUINONE); RNA BINDING PROTEIN; UBIQUINOL CYTOCHROME C REDUCTASE;

BINDING SITE; CELL ENERGY; CELL FUNCTION; CELL MUTANT; CELL ORGANELLE; CHROMOSOME CONDENSATION; EMBRYO DEVELOPMENT; ENERGY METABOLISM; FEEDBACK SYSTEM; GENE EXPRESSION; GENE MUTATION; GLUTATHIONE METABOLISM; MITOCHONDRIAL GENE; MITOCHONDRIAL GENOME; MITOCHONDRIAL MEMBRANE; MITOCHONDRION; NONHUMAN; OXIDATIVE PHOSPHORYLATION; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTON MOTIVE FORCE; RNA BINDING; RNA EDITING; RNA PROCESSING; SHORT SURVEY;

MITOCHONDRIA; MUTANTS; PLANTS; RNA PROCESSING; RNA-BINDING PROTEINS;

CELL NUCLEUS; CHLOROPLASTS; ELECTRON TRANSPORT CHAIN COMPLEX PROTEINS; GENE EXPRESSION REGULATION, PLANT; MITOCHONDRIA; MUTATION; NUCLEAR PROTEINS; PLANT PROTEINS; PLANTS; PROTEIN TRANSPORT; RNA; RNA EDITING; RNA, MESSENGER; RNA, PLANT; RNA-BINDING PROTEINS;

EID: 84897035815     PISSN: 03009084     EISSN: 61831638     Source Type: Journal    
DOI: 10.1016/j.biochi.2013.08.019     Document Type: Short Survey

References (120)

1. D. Gagliardi, S. Binder, Expression of the plant mitochondrial genome, in: D. Logan (Ed.), Plant Mitochondria, Blackwell Publishing, 2007, pp. 50-95.
2. A. Barkan, Expression of plastid genes: organelle-specific elaborations on a prokaryotic scaffold, Plant Physiol. 155 (2011) 1520-1532.
3. I. Tzafrir, A. Dickerman, O. Brazhnik, Q. Nguyen, J. McElver, C. Frye, D. Patton, D. Meinke, The Arabidopsis SeedGenes project, Nucleic Acids Res. 31 (2003) 90-93. (Pubitemid 36150341)
4. I. Tzafrir, R. Pena-Muralla, A. Dickerman, M. Berg, R. Rogers, S. Hutchens, T.C. Sweeney, J. McElver, G. Aux, D. Patton, D. Meinke, Identification of genes required for embryo development in Arabidopsis, Plant Physiol. 135 (2004) 1206-1220. (Pubitemid 39009371)
5. E.H. Meyer, P. Giegé, E. Gelhaye, N. Rayapuram, U. Ahuja, L. Thony-Meyer, J.M. Grienenberger, G. Bonnard, AtCCMH, an essential component of the c-type cytochrome maturation pathway in Arabidopsis mitochondria, interacts with apocytochrome c, Proc. Natl. Acad. Sci. U.S.A. 102 (2005) 16113-16118. (Pubitemid 41552876)
6. N. Bryant, J. Lloyd, C. Sweeney, F. Myouga, D. Meinke, Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis, Plant Physiol. 155 (2011) 1678-1689.
7. C.D. Chase, Cytoplasmic male sterility: a window to the world of plant mitochondrialenuclear interactions, Trends Genet. 23 (2007) 81-90. (Pubitemid 46161215)
8. V. Zaegel, B. Guermann, M. Le Ret, C. Andres, D. Meyer, M. Erhardt, J. Canaday, J.M. Gualberto, P. Imbault, The plant-specific ssDNA binding protein OSB1 is involved in the stoichiometric transmission of mitochondrial DNA in Arabidopsis, Plant Cell 18 (2006) 3548-3563. (Pubitemid 46464911)
9. A.P.S. Sandhu, R.V. Abdelnoor, S.A. Mackenzie, Transgenic induction of mitochondrial rearrangements for cytoplasmic male sterility in crop plants, Proc. Natl. Acad. Sci. U.S.A. 104 (2007) 1766-1770. (Pubitemid 46239853)
10. V. Shedge, M. Arrieta-Montiel, A.C. Christensen, S.A. Mackenzie, Plant mitochondrial recombination surveillance requires unusual RecA and MutS homologs, Plant Cell 19 (2007) 1251-1264. (Pubitemid 46941652)
11. P. Bergman, J. Edqvist, I. Farbos, K. Glimelius, Male-sterile tobacco displays abnormal mitochondrial atp1 transcript accumulation and reduced floral ATP/ADP ratio, Plant Mol. Biol. 42 (2000) 531-544. (Pubitemid 30213438)
12. S. Bonhomme, F. Budar, D. Lancelin, I. Small, M.C. Defrance, G. Pelletier, Sequence and transcript analysis of the Nco2.5 Ogura-specific fragment correlated with cytoplasmic male sterility in Brassica cybrids, Mol. Gen. Genet. 235 (1992) 340-348. (Pubitemid 23003976)
13. R. Zoschke, K. Liere, T. Börner, From seedling to mature plant: Arabidopsis plastidial genome copy number, RNA accumulation and transcription are differentially regulated during leaf development, Plant J. 50 (2007) 710-722. (Pubitemid 46733758)
14. M.B. Sheahan, D.W. McCurdy, R.J. Rose, Mitochondria as a connected population: ensuring continuity of the mitochondrial genome during plant cell dedifferentiation through massive mitochondrial fusion, Plant J. 44 (2005) 744-755.
15. A.J. Bendich, Why do chloroplasts and mitochondria contain so many copies of their genome, Bioessays 6 (1987) 279-282.
16. Z. Svab, P. Hajdukiewicz, P. Maliga, Stable transformation of plastids in higher-plants, Proc. Natl. Acad. Sci. U.S.A. 87 (1990) 8526-8530.
17. P. Maliga, R. Bock, Plastid biotechnology: food, fuel, and medicine for the 21st century, Plant Physiol. 155 (2011) 1501-1510.
18. C. Schmitz-Linneweber, I. Small, Pentatricopeptide repeat proteins: a socket set for organelle gene expression, Trends Plant Sci. 13 (2008) 663-670.
19. Y. Asakura, A. Barkan, Arabidopsis orthologs of maize chloroplast splicing factors promote splicing of orthologous and species-specific group II introns, Plant Physiol. 142 (2006) 1656-1663. (Pubitemid 44956940)
20. T.S. Kroeger, K.P. Watkins, G. Friso, K.J. van Wijk, A. Barkan, A plant-specific RNA-binding domain revealed through analysis of chloroplast group II intron splicing, Proc. Natl. Acad. Sci. U.S.A. 106 (2009) 4537-4542.
21. K. Kühn, C. Carrie, E. Giraud, Y. Wang, E.H. Meyer, R. Narsai, C. Colas des Francs-Small, B.T. Zhang, M.W. Murcha, J. Whelan, The RCC1 family protein RUG3 is required for splicing of nad2 and complex I biogenesis in mitochondria of Arabidopsis thaliana, Plant J. 67 (2011) 1067-1080.
22. M. Takenaka, A. Zehrmann, D. Verbitskiy, M. Kugelmann, B. Hartel, A. Brennicke, Multiple organellar RNA editing factor (MORF) family proteins are required for RNA editing in mitochondria and plastids of plants, Proc. Natl. Acad. Sci. U.S.A. 109 (2012) 5104-5109.
23. S. Bentolila, W.P. Heller, T. Sun, A.M. Babina, G. Friso, K.J. van Wijk, M.R. Hanson, RIP1, a member of an Arabidopsis protein family, interacts with the protein RARE1 and broadly affects RNA editing, Proc. Natl. Acad. Sci. U.S.A. 109 (2012) E1453-E1461.
24. S. Bentolila, J. Oh, M.R. Hanson, R. Bukowski, Comprehensive high-resolution analysis of the role of an Arabidopsis gene family in RNA editing, PLoS Genet. 9 (2013) e1003584.
25. J.F. Allen, J.A. Raven, Free-radical-induced mutation vs redox regulation: costs and benefits of genes in organelles, J. Mol. Evol. 42 (1996) 482-492. (Pubitemid 26197138)
26. B.J. Pogson, N.S. Woo, B. Forster, I.D. Small, Plastid signalling to the nucleus and beyond, Trends Plant Sci. 13 (2008) 602-609.
27. E. Delannoy, S. Fujii, C. Colas des Francs-Small, M. Brundrett, I. Small, Rampant gene loss in the underground orchid Rhizanthella gardneri highlights evolutionary constraints on plastid genomes, Mol. Biol. Evol. 28 (2011) 2077-2086.
28. A.O. Richardson, D.W. Rice, G.J. Young, A.J. Alverson, J.D. Palmer, The "fossilized" mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate, BMC Biol. 11 (2013) 29.
29. J. Klodmann, H.P. Braun, Proteomic approach to characterize mitochondrial complex I from plants, Phytochemistry 72 (2011) 1071-1080.
30. E.H. Meyer, C. Solheim, S.K. Tanz, G. Bonnard, A.H. Millar, Insights into the composition and assembly of the membrane arm of plant complex I through analysis of subcomplexes in Arabidopsis mutant lines, J. Biol. Chem. 286 (2011) 26081-26092.
31. K. Peters, K. Belt, H.P. Braun, 3D gel map of Arabidopsis complex I, Front. Plant Sci. 4 (2013) 153.
32. L. Bonen, Cis- and trans-splicing of group II introns in plant mitochondria, Mitochondrion 8 (2008) 26-34. (Pubitemid 350263738)
33. E.H. Meyer, Proteomic investigations of complex I composition: how to define a subunit? Front. Plant Sci. 3 (2012) 106.
34. J. Klodmann, S. Sunderhaus, M. Nimtz, L. Jansch, H.P. Braun, Internal architecture of mitochondrial complex I from Arabidopsis thaliana, Plant Cell 22 (2010) 797-810.
35. B.H. Lee, H.J. Lee, L.M. Xiong, J.K. Zhu, A mitochondrial complex I defect impairs cold-regulated nuclear gene expression, Plant Cell 14 (2002) 1235-1251.
36. M. Perales, H. Eubel, J. Heinemeyer, A. Colaneri, E. Zabaleta, H.P. Braun, Disruption of a nuclear gene encoding a mitochondrial gamma carbonic anhydrase reduces complex I and supercomplex I + III2 levels and alters mitochondrial physiology in Arabidopsis, J. Mol. Biol. 350 (2005) 263-277. (Pubitemid 40805461)
37. E.H. Meyer, T. Tomaz, A.J. Carroll, G. Estavillo, E. Delannoy, S.K. Tanz, I.D. Small, B.J. Pogson, A.H. Millar, Remodeled respiration in ndufs4 with low phosphorylation efficiency suppresses Arabidopsis germination and growth and alters control of metabolism at night, Plant Physiol. 151 (2009) 603-619.
38. M. Pla, C. Mathieu, R. DePaepe, P. Chetrit, F. Vedel, Deletion of the last 2 exons of the mitochondrial Nad7 gene results in lack of the Nad7 polypeptide in a Nicotiana sylvestris Cms mutant, Mol. Gen. Genet. 248 (1995) 79-88.
39. S. Gutierres, M. Sabar, C. Lelandais, P. Chetrit, P. Diolez, H. Degand, M. Boutry, F. Vedel, Y. de Kouchkovsky, R. DePaepe, Lack of mitochondrial and nuclear-encoded subunits of complex I and alteration of the respiratory chain in Nicotiana sylvestris mitochondrial deletion mutants, Proc. Natl. Acad. Sci. U.S.A. 94 (1997) 3436-3441. (Pubitemid 27157330)
40. J.R. Marienfeld, K.J. Newton, The maize Ncs2 abnormal growth mutant has a chimeric nad4-nad7 mitochondrial gene and is associated with reduced complex-I function, Genetics 138 (1994) 855-863. (Pubitemid 24337810)
41. O.V. Karpova, K.J. Newton, A partially assembled complex I in NAD4-deficient mitochondria of maize, Plant J. 17 (1999) 511-521.
42. D.C. Wallace, Mitochondrial diseases in man and mouse, Science 283 (1999) 1482-1488.
43. J. Brangeon, M. Sabar, S. Gutierres, B. Combettes, J. Bove, C. Gendy, P. Chetrit, C. Colas Francs-Small, M. Pla, F. Vedel, R. De Paepe, Defective splicing of the first nad4 intron is associated with lack of several complex I subunits in the Nicotiana sylvestris NMS1 nuclear mutant, Plant J. 21 (2000) 269-280. (Pubitemid 30152766)
44. A. Falcon de Longevialle, E.H. Meyer, C. Andres, N.L. Taylor, C. Lurin, A.H. Millar, I.D. Small, The pentatricopeptide repeat gene OTP43 is required for trans-splicing of the mitochondrial nad1 Intron 1 in Arabidopsis thaliana, Plant Cell 19 (2007) 3256-3265.
45. A. Zehrmann, D. Verbitskiy, J.A. van der Merwe, A. Brennicke, M. Takenaka, A DYW domain-containing pentatricopeptide repeat protein is required for RNA editing at multiple sites in mitochondria of Arabidopsis thaliana, Plant Cell 21 (2009) 558-567.
46. S. Bentolila, W. Knight, M. Hanson, Natural variation in Arabidopsis leads to the identification of REME1, a pentatricopeptide repeat-DYW protein controlling the editing of mitochondrial transcripts, Plant Physiol. 154 (2010) 1966-1982.
47. Y. Liu, J.N. He, Z.Z. Chen, X.Z. Ren, X.H. Hong, Z.Z. Gong, ABA overly-sensitive 5 (ABO5), encoding a pentatricopeptide repeat protein required for cissplicing of mitochondrial nad2 intron 3, is involved in the abscisic acid response in Arabidopsis, Plant J. 63 (2010) 749-765.
48. S. Ohtani, M. Ichinose, E. Tasaki, Y. Aoki, Y. Komura, M. Sugita, Targeted gene disruption identifies three PPR-DYW proteins involved in RNA editing for five editing sites of the moss mitochondrial transcripts, Plant Cell Physiol. 51 (2010) 1942-1949.
49. M. Takenaka, D. Verbitskiy, A. Zehrmann, A. Brennicke, Reverse genetic screening identifies five e-class PPR proteins involved in RNA editing in mitochondria of Arabidopsis thaliana, J. Biol. Chem. 285 (2010) 27122-27129.
50. H. Yuan, D. Liu, Functional disruption of the pentatricopeptide protein SLG1 affects mitochondrial RNA editing, plant development, and responses to abiotic stresses in Arabidopsis, Plant J. 70 (2012) 432-444.
51. T.Y. Sung, C.C. Tseng, M.H. Hsieh, The SLO1 PPR protein is required for RNA editing at multiple sites with similar upstream sequences in Arabidopsis mitochondria, Plant J. 63 (2010) 499-511.
52. A. Holzle, C. Jonietz, O. Torjek, T. Altmann, S. Binder, J. Forner, A RESTORER OF FERTILITY-like PPR gene is required for 50-end processing of the nad4 mRNA in mitochondria of Arabidopsis thaliana, Plant J. 65 (2011) 737-744.
53. M. Murayama, S. Hayashi, N. Nishimura, M. Ishide, K. Kobayashi, Y. Yagi, T. Asami, T. Nakamura, K. Shinozaki, T. Hirayama, Isolation of Arabidopsis ahg11, a weak ABA hypersensitive mutant defective in nad4 RNA editing, J. Exp. Bot. 63 (2012) 5301-5310.
54. N. Haïli, N. Arnal, M. Quadrado, S. Amiar, G. Tcherkez, J. Dahan, P. Briozzo, C. Colas des Francs-Small, N. Vrielynck, H. Mireau, The pentatricopeptide repeat MTSF1 protein stabilizes the nad4 mRNA in Arabidopsis mitochondria, Nucleic Acids Res. 41 (2013) 6650-6663.
55. M. Uchida, S. Ohtani, M. Ichinose, C. Sugita, M. Sugita, The PPR-DYW proteins are required for RNA editing of rps14, cox1 and nad5 transcripts in Physcomitrella patens mitochondria, FEBS Lett. 585 (2011) 2367-2371.
56. D. Sosso, S. Mbelo, V. Vernoud, G. Gendrot, A. Dedieu, P. Chambrier, M. Dauzat, L. Heurtevin, V. Guyon, M. Takenaka, P.M. Rogowsky, PPR2263, a DYW-subgroup pentatricopeptide repeat protein, is required for mitochondrial nad5 and cob transcript editing, mitochondrion biogenesis, and maize growth, Plant Cell 24 (2012) 676-691.
57. T. Toda, S. Fujii, K. Noguchi, T. Kazama, K. Toriyama, Rice MPR25 encodes a pentatricopeptide repeat protein and is essential for RNA editing of nad5 transcripts in mitochondria, Plant J. 72 (2012) 450-460.
58. D. Verbitskiy, A. Zehrmann, B. Haertel, A. Brennicke, M. Takenaka, Two related RNA editing proteins target the same sites in mitochondria of Arabidopsis thaliana, J. Biol. Chem. 287 (2012) 38064-38072.
59. A. Koprivova, C. Colas des Francs-Small, G. Calder, S.T. Mugford, S. Tanz, B.R. Lee, B. Zechmann, I. Small, S. Kopriva, Identification of a pentatricopeptide repeat protein implicated in splicing of intron 1 of mitochondrial nad7 transcripts, J. Biol. Chem. 285 (2010) 32192-32199.
60. M. Takenaka, MEF9, an e-subclass pentatricopeptide repeat protein, is required for an RNA editing event in the nad7 transcript in mitochondria of Arabidopsis, Plant Physiol. 152 (2010) 939-947.
61. B. Pineau, O. Layoune, A. Danon, R. De Paepe, L-galactono-1,4-lactone dehydrogenase is required for the accumulation of plant respiratory complex I, J. Biol. Chem. 283 (2008) 32500-32505.
62. P. Cardol, R.F. Matagne, C. Remacle, Impact of mutations affecting ND mitochondria-encoded subunits on the activity and assembly of complex I in Chlamydomonas. Implication for the structural organization of the enzyme, J. Mol. Biol. 319 (2002) 1211-1221. (Pubitemid 34729429)
63. P. Schertl, S. Sunderhaus, J. Klodmann, G.E. Grozeff, C.G. Bartoli, H.P. Braun, L-galactono-1,4-lactone dehydrogenase (GLDH) forms part of three sub-complexes of mitochondrial complex I in Arabidopsis thaliana, J. Biol. Chem. 287 (2012) 14412-14419.
64. H.P. Braun, U.K. Schmitz, The bifunctional cytochrome c reductase/processing peptidase complex from plant mitochondria, J. Bioenerg. Biomembr. 27 (1995) 423-436.
65. A.H. Millar, H. Eubel, L. Jansch, V. Kruft, J.L. Heazlewood, H.P. Braun, Mitochondrial cytochrome c oxidase and succinate dehydrogenase complexes contain plant specific subunits, Plant Mol. Biol. 56 (2004) 77-90. (Pubitemid 40134262)
66. A. Barrientos, D. Pierre, J. Lee, A. Tzagoloff, Cytochrome oxidase assembly does not require catalytically active cytochrome C, J. Biol. Chem. 278 (2003) 8881-8887. (Pubitemid 36800363)
67. P. Giegé, J.M. Grienenberger, G. Bonnard, Cytochrome c biogenesis in mitochondria, Mitochondrion 8 (2008) 61-73. (Pubitemid 350263736)
68. J. Gu, S. Dempsey, K.J. Newton, Rescue of a maize mitochondrial cytochrome oxidase mutant by tissue culture, Plant J. 6 (1994) 787-794. (Pubitemid 124000305)
69. I. Steinebrunner, M. Landschreiber, U. Krause-Buchholz, J. Teichmann, G. Rodel, HCC1, the Arabidopsis homologue of the yeast mitochondrial copper chaperone SCO1, is essential for embryonic development, J. Exp. Bot. 62 (2011) 319-330.
70. M.P. Dorthu, S. Rémy, M.R. Michel-Wolwertz, L. Colleaux, D. Breyer, M.C. Beckers, S. Englebert, C. Duyckaerts, F.E. Sluse, R.F. Matagne, Biochemical, genetic and molecular characterization of new respiratory-deficient mutants in Chlamydomonas reinhardtii, Plant Mol. Biol. 18 (1992) 759-772.
71. E. Welchen, T.M. Hildebrandt, D. Lewejohann, D.H. Gonzalez, H.P. Braun, Lack of cytochrome c in Arabidopsis decreases stability of complex IV and modifies redox metabolism without affecting complexes I and III, Biochim. Biophys. Acta 1817 (2012) 990-1001.
72. L. Zsigmond, G. Rigo, A. Szarka, G. Szekely, K. Otvos, Z. Darula, K.F. Medzihradszky, C. Koncz, Z. Koncz, L. Szabados, Arabidopsis PPR40 connects abiotic stress responses to mitochondrial electron transport, Plant Physiol. 146 (2008) 1721-1737. (Pubitemid 352844072)
73. M. Ichinose, E. Tasaki, C. Sugita, M. Sugita, A PPR-DYW protein is required for splicing of a group II intron of cox1 pre-mRNA in Physcomitrella patens, Plant J. 70 (2012) 271-278.
74. C. Colas des Francs-Small, T. Kroeger, M. Zmudjak, O. Ostersetzer-Biran, N. Rahimi, I. Small, A. Barkan, A PORR domain protein required for rpl2 and ccmFC intron splicing and for the biogenesis of c-type cytochromes in Arabidopsis mitochondria, Plant J. 69 (2012) 996-1005.
75. E. Tasaki, M. Sugita, The moss Physcomitrella patens, a model plant for the study of RNA editing in plant organelles, Plant Signal Behav. 5 (2010) 727-729.
76. C. Jonietz, J. Forner, T. Hildebrandt, S. Binder, RNA PROCESSING FACTOR3 is crucial for the accumulation of mature ccmC transcripts in mitochondria of Arabidopsis accession Columbia, Plant Physiol. 157 (2011) 1430-1439.
77. C. Jonietz, J. Forner, A. Holzle, S. Thuss, S. Binder, RNA PROCESSING FACTOR2 is required for 50 end processing of nad9 and cox3 mRNAs in mitochondria of Arabidopsis thaliana, Plant Cell 22 (2010) 443-453.
78. N.V. Dudkina, J. Heinemeyer, W. Keegstra, E.J. Boekema, H.P. Braun, Structure of dimeric ATP synthase from mitochondria: an angular association of monomers induces the strong curvature of the inner membrane, FEBS Lett. 579 (2005) 5769-5772. (Pubitemid 41455662)
79. M. Rak, E. Tetaud, F. Godard, I. Sagot, B. Salin, S. Duvezin-Caubet, P.P. Slonimski, J. Rytka, J.P. di Rago, Yeast cells lacking the mitochondrial gene encoding the ATP synthase subunit 6 exhibit a selective loss of complex IV and unusual mitochondrial morphology, J. Biol. Chem. 282 (2007) 10853-10864. (Pubitemid 47100782)
80. M. Lapaille, M. Thiry, E. Perez, D. Gonzalez-Halphen, C. Remacle, P. Cardol, Loss of mitochondrial ATP synthase subunit beta (Atp2) alters mitochondrial and chloroplastic function and morphology in Chlamydomonas, Biochim. Biophys. Acta 1797 (2010) 1533-1539.
81. K. Hammani, C. Colas des Francs-Small, M. Takenaka, S.K. Tanz, K. Okuda, T. Shikanai, A. Brennicke, I. Small, The pentatricopeptide repeat protein OTP87 is essential for RNA editing of nad7 and atp1 transcripts in Arabidopsis mitochondria, J. Biol. Chem. (2011).
82. D. Verbitskiy, J.A. Merwe, A. Zehrmann, B. Hartel, M. Takenaka, The E-class PPR protein MEF3 of Arabidopsis thaliana can also function in mitochondrial RNA editing with an additional DYW domain, Plant Cell Physiol. 53 (2012) 358-367.
83. T. Kubo, K.J. Newton, Angiosperm mitochondrial genomes and mutations, Mitochondrion 8 (2008) 5-14. (Pubitemid 50009263)
84. S.Y. Gerdes, M.D. Scholle, J.W. Campbell, G. Balazsi, E. Ravasz, M.D. Daugherty, A.L. Somera, N.C. Kyrpides, I. Anderson, M.S. Gelfand, A. Bhattacharya, V. Kapatral, M. D'Souza, M.V. Baev, Y. Grechkin, F. Mseeh, M.Y. Fonstein, R. Overbeek, A.L. Barabasi, Z.N. Oltvai, A.L. Osterman, Experimental determination and system level analysis of essential genes in Escherichia coli MG1655, J. Bacteriol. 185 (2003) 5673-5684. (Pubitemid 37176479)
85. M.D. Hunt, K.J. Newton, The NCS3 mutation: genetic evidence for the expression of ribosomal protein genes in Zea mays mitochondria, EMBO J. 10 (1991) 1045-1052. (Pubitemid 21905564)
86. K.J. Newton, J.M. Mariano, C.M. Gibson, E. Kuzmin, S. Gabay-Laughnan, Involvement of S2 episomal sequences in the generation of NCS4 deletion mutation in maize mitochondria, Dev. Genet. 19 (1996) 277-286. (Pubitemid 26404264)
87. N. Manavski, V. Guyon, J. Meurer, U. Wienand, R. Brettschneider, An essential pentatricopeptide repeat protein facilitates 50 maturation and translation initiation of rps3 mRNA in maize mitochondria, Plant Cell 24 (2012) 3087-3105.
88. Y. Doniwa, M. Ueda, M. Ueta, A. Wada, K. Kadowaki, N. Tsutsumi, The involvement of a PPR protein of the P subfamily in partial RNA editing of an Arabidopsis mitochondrial transcript, Gene 454 (2010) 39-46.
89. Y. Choquet, F.A. Wollman, Translational regulations as specific traits of chloroplast gene expression, FEBS Lett. 529 (2002) 39-42. (Pubitemid 35283909)
90. K. Wostrikoff, J. Girard-Bascou, F.A. Wollman, Y. Choquet, Biogenesis of PSI involves a cascade of translational autoregulation in the chloroplast of Chlamydomonas, EMBO J. 23 (2004) 2696-2705. (Pubitemid 38988240)
91. K.M. Calder, J.E. McEwen, Deletion of the COX7 gene in Saccharomyces cerevisiae reveals a role for cytochrome c oxidase subunit VII in assembly of remaining subunits, Mol. Microbiol. 5 (1991) 1769-1777. (Pubitemid 21896208)
92. K. Wostrikoff, D. Stern, Rubisco large-subunit translation is autoregulated in response to its assembly state in tobacco chloroplasts, Proc. Natl. Acad. Sci. U.S.A. 104 (2007) 6466-6471. (Pubitemid 47186117)
93. W. Cai, D. Ji, L. Peng, J. Guo, J. Ma, M. Zou, C. Lu, L. Zhang, LPA66 is required for editing psbF chloroplast transcripts in Arabidopsis, Plant Physiol. 150 (2009) 1260-1271.
94. D.J. McCormac, A. Barkan, A nuclear gene in maize required for the translation of the chloroplast atpB/E mRNA, Plant Cell 11 (1999) 1709-1716.
95. R. Zoschke, K.P. Watkins, A. Barkan, A rapid ribosome profiling method elucidates chloroplast ribosome behavior in vivo, Plant Cell (2013).
96. A. Barkan, M. Rojas, S. Fujii, A. Yap, Y.S. Chong, C.S. Bond, I. Small, A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins, PLoS Genet. 8 (2012) e1002910.
97. Y. Yagi, S. Hayashi, K. Kobayashi, T. Hirayama, T. Nakamura, Elucidation of the RNA recognition code for pentatricopeptide repeat proteins involved in organelle RNA editing in plants, PLoS One 8 (2013) e57286.
98. M. Takenaka, A. Zehrmann, A. Brennicke, K. Graichen, Improved computational target site prediction for pentatricopeptide repeat RNA editing factors, PLoS One 8 (2013) e65343.
99. B. Despres, M. Delseny, M. Devic, Partial complementation of embryo defective mutations: a general strategy to elucidate gene function, Plant J. 27 (2001) 149-159. (Pubitemid 32760417)
100. B. Hartel, A. Zehrmann, D. Verbitskiy, J.A. van der Merwe, A. Brennicke, M. Takenaka, MEF10 is required for RNA editing at nad2-842 in mitochondria of Arabidopsis thaliana and interacts with MORF8, Plant Mol. Biol. 81 (2013) 337-346.
101. A. Hauler, C. Jonietz, B. Stoll, K. Stoll, H.P. Braun, S. Binder, RNA PROCESSING FACTOR 5 is required for efficient 5′ cleavage at a processing site conserved in RNAs of three different mitochondrial genes in Arabidopsis thaliana, Plant J. (2013).
102. L. Zsigmond, A. Szepesi, I. Tari, G. Rigo, A. Kiraly, L. Szabados, Overexpression of the mitochondrial PPR40 gene improves salt tolerance in Arabidopsis, Plant Sci. 182 (2012) 87-93.
103. A.L. Chateigner-Boutin, C. Colas des Francs-Small, S. Fujii, K. Okuda, S.K. Tanz, I. Small, The E domains of pentatricopeptide repeat proteins from different organelles are not functionally equivalent for RNA editing, Plant J. 74 (2013) 935-945.
104. D. Verbitskiy, B. Hartel, A. Zehrmann, A. Brennicke, M. Takenaka, The DYWE-PPR protein MEF14 is required for RNA editing at site matR-1895 in mitochondria of Arabidopsis thaliana, FEBS Lett. 585 (2011) 700-704.
105. K. Laluk, S. Abuqamar, T. Mengiste, The Arabidopsis mitochondria- localized pentatricopeptide repeat protein PGN functions in defense against necrotrophic fungi and abiotic stress tolerance, Plant Physiol. 156 (2011) 2053-2068.
106. I. Keren, L. Tal, C.C. des Francs-Small, W.L. Araujo, S. Shevtsov, F. Shaya, A.R. Fernie, I. Small, O. Ostersetzer-Biran, nMAT1, a nuclear-encoded maturase involved in the trans-splicing of nad1 intron 1, is essential for mitochondrial complex I assembly and function, Plant J. 71 (2012) 413-426.
107. I. Keren, A. Bezawork-Geleta, M. Kolton, I. Maayan, E. Belausov, M. Levy, A. Mett, D. Gidoni, F. Shaya, O. Ostersetzer-Biran, AtnMat2, a nuclearencoded maturase required for splicing of group-II introns in Arabidopsis mitochondria, RNA 15 (2009) 2299-2311.
108. D. Kohler, S. Schmidt-Gattung, S. Binder, The DEAD-box protein PMH2 is required for efficient group II intron splicing in mitochondria of Arabidopsis thaliana, Plant Mol. Biol. 72 (2010) 459-467.
109. S.R. Kim, J.I. Yang, S. Moon, C.H. Ryu, K. An, K.M. Kim, J. Yim, G. An, Rice OGR1 encodes a pentatricopeptide repeat-DYW protein and is essential for RNA editing in mitochondria, Plant J. 59 (2009) 738-749.
110. K. Kobayashi, M. Suzuki, J.W. Tang, N. Nagata, K. Ohyama, H. Seki, R. Kiuchi, Y. Kaneko, M. Nakazawa, M. Matsui, S. Matsumoto, S. Yoshida, T. Muranaka, LOVASTATIN INSENSITIVE 1, a novel pentatricopeptide repeat protein, is a potential regulatory factor of isoprenoid biosynthesis in Arabidopsis, Plant Cell Physiol. 48 (2007) 322-331.
111. D. Verbitskiy, A. Zehrmann, J.A. van der Merwe, A. Brennicke, M. Takenaka, The PPR protein encoded by the LOVASTATIN INSENSITIVE 1 gene is involved in RNA editing at three sites in mitochondria of Arabidopsis thaliana, Plant J. 61 (2010) 446-455.
112. Q. Zhu, J. Dugardeyn, C. Zhang, M. Takenaka, K. Kuhn, C. Craddock, J. Smalle, M. Karampelias, J. Denecke, J. Peters, T. Gerats, A. Brennicke, P. Eastmond, E.H. Meyer, D. Van Der Straeten, SLO2, a mitochondrial pentatricopeptide repeat protein affecting several RNA editing sites, is required for energy metabolism, Plant J. 71 (2012) 836-849.
113. Q. Zhu, E.H. Meyer, D. Van Der Straeten, Functional analysis of SLO2 provides new insight into the role of plant PPR proteins, Plant Signal Behav. 7 (2012).
114. A. Zehrmann, J. van der Merwe, D. Verbitskiy, B. Hartel, A. Brennicke, M. Takenaka, The DYW-class PPR protein MEF7 is required for RNA editing at four sites in mitochondria of Arabidopsis thaliana, RNA Biol. 9 (2012) 155-161.
115. M. Rudinger, P. Kindgren, A. Zehrmann, I. Small, V. Knoop, A DYW-protein knockout in Physcomitrella affects two closely spaced mitochondrial editing sites and causes a severe developmental phenotype, Plant J. (2013).
116. B. Hartel, A. Zehrmann, D. Verbitskiy, M. Takenaka, The longest mitochondrial RNA editing PPR protein MEF12 in Arabidopsis thaliana requires the fulllength E domain, RNA Biol. 10 (2013).
117. M.A. Arenas, M. Takenaka, S. Moreno, I. Gomez, X. Jordana, Contiguous RNA editing sites in the mitochondrial nad1 transcript of Arabidopsis thaliana are recognized by different proteins, FEBS Lett. 587 (2013) 887-891.
118. Y.J. Liu, Z.H. Xiu, R. Meeley, B.C. Tan, Empty pericarp5 encodes a pentatricopeptide repeat protein that is required for mitochondrial RNA editing and seed development in maize, Plant Cell 25 (2013) 868-883.
119. S. Bentolila, A.M. Babina, A. Germain, M.R. Hanson, Quantitative trait locus mapping identifies REME2, a PPR-DYW protein required for editing of specific C targets in Arabidopsis mitochondria, RNA Biol. 10 (2013).
120. M. Zmudjak, C. Colas des Francs-Small, I. Keren, F. Shaya, E. Belausov, I. Small, O. Ostersetzer-Biran, mCSF1, a nucleus-encoded CRM protein required for the processing of many mitochondrial introns, is involved in the biogenesis of respiratory complexes I and IV in Arabidopsis, New Phytol. 199 (2013) 379-394.