SEARCH

SEARCH BY CITATION

References

  • Alonso, J.M., Stepanova, A.N., Leisse, T.J. et al. (2003) Genome-wide insertional mutagenesis of A. thaliana. Science 301, 653657.
  • Barkan, A., Rojas, M., Fujii, S., Yap, A., Chong, Y.S., Bond, C.S. and Small, I. (2012) A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins. PLoS Genet. 8, e1002910.
  • Bentolila, S., Alfonso, A.A. and Hanson, M.R. (2002) A pentatricopeptide repeat-containing gene restores fertility to cytoplasmic male-sterile plants. Proc. Natl Acad. Sci. USA 99, 1088710892.
  • Binder, S. and Brennicke, A. (1993) Transcription initiation sites in mitochondria of Oenothera berteriana. J. Biol. Chem. 268, 78497855.
  • Brown, G.G., Formanova, N., Jin, H., Wargachuk, R., Dendy, C., Patil, P., Laforest, M., Zhang, J., Cheung, W.Y. and Landry, B.S. (2003) The radish Rfo restorer gene of Ogura cytoplasmic male sterility encodes a protein with multiple pentatricopeptide repeats. Plant J. 35, 262272.
  • Budar, F. and Pelletier, G. (2001) Male sterility in plants: occurrence, determinism, significance and use. C. R. Acad. Sci. III 324, 543550.
  • Chang, S., Yang, T., Du, T., Huang, Y., Chen, J., Yan, J., He, J. and Guan, R. (2011) Mitochondrial genome sequencing helps show the evolutionary mechanism of mitochondrial genome formation in Brassica. BMC genomics 12, 497.
  • Chase, C.D. (2007) Cytoplasmic male sterility: a window to the world of plant mitochondrial-nuclear interactions. Trends Genet. 23, 8190.
  • Clough, S.J. and Bent, A.F. (1998) Floral dip: a simplified method for Agrobacterium-mediated transformation of A. thaliana. Plant J. 16, 735742.
  • Curtis, M.D. and Grossniklaus, U. (2003) A gateway cloning vector set for high-throughput functional analysis of genes in planta. Plant Physiol. 133, 462469.
  • Czechowski, T., Stitt, M., Altmann, T., Udvardi, M.K. and Scheible, W.R. (2005) Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol. 139, 517.
  • Delannoy, E., Stanley, W.A., Bond, C.S. and Small, I.D. (2007) Pentatricopeptide repeat (PPR) proteins as sequence-specificity factors in post-transcriptional processes in organelles. Biochem. Soc. Trans. 35, 16431647.
  • Deng, Z., Zhang, X., Tang, W. et al. (2007) A proteomics study of brassinosteroid response in Arabidopsis. Mol. Cell. Proteomics 6, 20582071.
  • Desloire, S., Gherbi, H., Laloui, W. et al. (2003) Identification of the fertility restoration locus, Rfo, in radish, as a member of the pentatricopeptide-repeat protein family. EMBO Rep. 4, 588594.
  • Dez, C., Houseley, J. and Tollervey, D. (2006) Surveillance of nuclear-restricted pre-ribosomes within a subnucleolar region of Saccharomyces cerevisiae. EMBO J. 25, 15341546.
  • Forner, J., Weber, B., Thuss, S., Wildum, S. and Binder, S. (2007) Mapping of mitochondrial mRNA termini in A. thaliana: t-elements contribute to 5′ and 3′ end formation. Nucleic Acids Res. 35, 36763692.
  • Francs-Small, C.C., Kroeger, T., Zmudjak, M., Ostersetzer-Biran, O., Rahimi, N., Small, I. and Barkan, A. (2012) A PORR domain protein required for rpl2 and ccmF(C) intron splicing and for the biogenesis of c-type cytochromes in Arabidopsis mitochondria. Plant J. 69, 9961005.
  • Fujii, S. and Toriyama, K. (2008) Genome barriers between nuclei and mitochondria exemplified by cytoplasmic male sterility. Plant Cell Physiol. 49, 14841494.
  • Fujii, S., Bond, C.S. and Small, I.D. (2011) Selection patterns on restorer-like genes reveal a conflict between nuclear and mitochondrial genomes throughout angiosperm evolution. Proc. Natl Acad. Sci. USA 108, 17231728.
  • Gagliardi, D. and Leaver, C.J. (1999) Polyadenylation accelerates the degradation of the mitochondrial mRNA associated with cytoplasmic male sterility in sunflower. EMBO J. 18, 37573766.
  • Gutgsell, N.S. and Jain, C. (2010) Coordinated regulation of 23S rRNA maturation in Escherichia coli. J. Bacteriol. 192, 14051409.
  • Henras, A.K., Soudet, J., Gerus, M., Lebaron, S., Caizergues-Ferrer, M., Mougin, A. and Henry, Y. (2008) The post-transcriptional steps of eukaryotic ribosome biogenesis. Cell. Mol. Life Sci. 65, 23342359.
  • Hölzle, A., Jonietz, C., Törjek, O., Altmann, T., Binder, S. and Forner, J. (2011) A RESTORER OF FERTILITY-like PPR gene is required for 5′-end processing of the nad4 mRNA in mitochondria of A. thaliana. Plant J. 65, 737744.
  • Hu, J., Wang, K., Huang, W. et al. (2012) The rice pentatricopeptide repeat protein RF5 restores fertility in Hong-Lian cytoplasmic male-sterile lines via a complex with the glycine-rich protein GRP162. Plant Cell 24, 109122.
  • Johnson, X., Wostrikoff, K., Finazzi, G., Kuras, R., Schwarz, C., Bujaldon, S., Nickelsen, J., Stern, D.B., Wollman, F.A. and Vallon, O. (2010) MRL1, a conserved pentatricopeptide repeat protein, is required for stabilization of rbcL mRNA in Chlamydomonas and Arabidopsis. Plant Cell 22, 234248.
  • Jonietz, C., Forner, J., Hölzle, A., Thuss, S. and Binder, S. (2010) RNA PROCESSING FACTOR2 Is Required for 5 ′ End Processing of nad9 and cox3 mRNAs in Mitochondria of A. thaliana. Plant Cell 22, 443453.
  • Jonietz, C., Forner, J., Hildebrandt, T. and Binder, S. (2011) RNA PROCESSINGFACTOR 3 is crucial for the accumulation of mature ccmC transcripts in mitochondria of A. thaliana accession Columbia. Plant Physiol. 157, 14301439.
  • Kazama, T. and Toriyama, K. (2003) A pentatricopeptide repeat-containing gene that promotes the processing of aberrant atp6 RNA of cytoplasmic male-sterile rice. FEBS Lett. 544, 99102.
  • Kazama, T., Nakamura, T., Watanabe, M., Sugita, M. and Toriyama, K. (2008) Suppression mechanism of mitochondrial ORF79 accumulation by Rf1 protein in BT-type cytoplasmic male sterile rice. Plant J. 55, 619628.
  • Köhler, D., Schmidt-Gattung, S. and Binder, S. (2010) The DEAD-box protein PMH2 is required for efficient group II intro splicing in mitochondria of A. thaliana. Plant Mol. Biol. 72, 459467.
  • Koizuka, N., Imai, R., Fujimoto, H., Hayakawa, T., Kimura, Y., Kohno-Murase, J., Sakai, T., Kawasaki, S. and Imamura, J. (2003) Genetic characterization of a pentatricopeptide repeat protein gene, orf687, that restores fertility in the cytoplasmic male-sterile Kosena radish. Plant J. 34, 407415.
  • Koprivova, A., Colas des Francs-Small, C., Calder, G., Mugford, S.T., Tanz, S., Lee, B.-R., Zechmann, B., Small, I. and Kopriva, S. (2010) Identification of a pentatricopeptide repeat protein implicated in splicing of intron 1 of mitochondrial nad7 transcripts. J. Biol. Chem. 285, 3219232199.
  • Kuhn, J., Tengler, U. and Binder, S. (2001) Transcript lifetime is balanced between stabilizing stem-loop structures and degradation-promoting polyadenylation in plant mitochondria. Mol. Cell. Biol. 21, 731742.
  • Kühn, K., Weihe, A. and Börner, T. (2005) Multiple promoters are a common feature of mitochondrial genes in Arabidopsis. Nucleic Acids Res. 33, 337346.
  • Kühn, K., Richter, U., Meyer, E.H., Delannoy, E., Falcon de Longevialle, A., O'Toole, N., Börner, T., Millar, A.H., Small, I.D. and Whelan, J. (2009) Phage-type RNA polymerase RPOTmp performs gene-specific transcription in mitochondria of A. thaliana. Plant Cell 21, 27622779.
  • Loiselay, C., Gumpel, N.J., Girard-Bascou, J., Watson, A.T., Purton, S., Wollman, F.A. and Choquet, Y. (2008) Molecular identification and function of cis- and trans-acting determinants for petA transcript stability in Chlamydomonas reinhardtii chloroplasts. Mol. Cell. Biol. 28, 55295542.
  • Lurin, C., Andres, C., Aubourg, S. et al. (2004) Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis. Plant Cell 16, 20892103.
  • Manavski, N., Guyon, V., Meurer, J., Wienand, U. and Brettschneider, R. (2012) An essential pentatricopeptide repeat protein facilitates 5′ maturation and translation initiation of rps3 mRNA in maize mitochondria. Plant Cell 24, 30873105.
  • Marker, C., Zemann, A., Terhorst, T., Kiefmann, M., Kastenmayer, J.P., Green, P., Bachellerie, J.P., Brosius, J. and Huttenhofer, A. (2002) Experimental RNomics: identification of 140 candidates for small non-messenger RNAs in the plant A. thaliana. Curr. Biol. 12, 20022013.
  • Matthes, A., Schmidt-Gattung, S., Köhler, D., Forner, J., Wildum, S., Raabe, M., Urlaub, H. and Binder, S. (2007) Two DEAD-box proteins may be part of RNA-dependent high-molecular-mass protein complexes in Arabidopsis mitochondria. Plant Physiol. 145, 16371646.
  • McGinnis, S. and Madden, T.L. (2004) BLAST: at the core of a powerful and diverse set of sequence analysis tools. Nucleic Acids Res. 32, W20W25.
  • Meyer, E.H., Tomaz, T., Carroll, A.J., Estavillo, G., Delannoy, E., Tanz, S.K., Small, I.D., Pogson, B.J. and Millar, A.H. (2009) Remodeled respiration in ndufs4 with low phosphorylation efficiency suppresses Arabidopsis germination and growth and alters control of metabolism at night. Plant Physiol. 151, 603619.
  • Pfalz, J., Bayraktar, O.A., Prikryl, J. and Barkan, A. (2009) Site-specific binding of a PPR protein defines and stabilizes 5′ and 3′ mRNA termini in chloroplasts. EMBO J. 28, 20422052.
  • Rene, O. and Alix, J.H. (2011) Late steps of ribosome assembly in E. coli are sensitive to a severe heat stress but are assisted by the HSP70 chaperone machine. Nucleic Acids Res. 39, 18551867.
  • Roy-Chaudhuri, B., Kirthi, N. and Culver, G.M. (2010) Appropriate maturation and folding of 16S rRNA during 30S subunit biogenesis are critical for translational fidelity. Proc. Natl Acad. Sci. USA 107, 45674572.
  • Sambrook, J. and Russel, D.W. (2001) Molecular Cloning: A Laboratory Manual, Ed Ed 3. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
  • Schmitz-Linneweber, C. and Small, I. (2008) Pentatricopeptide repeat proteins: a socket set for organelle gene expression. Trends Plant Sci. 13, 663670.
  • Schuster, J., Knill, T., Reichelt, H., Gershenzon, J. and Binder, S. (2006) BRANCHED-CHAIN AMINOTRANSFERASE 4 is part of the chain elongation pathway in the biosynthesis of methionine-derived glucosinolates in Arabidopsis. Plant Cell 18, 116.
  • Sirdeshmukh, R. and Schlessinger, D. (1985) Why is processing of 23 S ribosomal RNA in Escherichia coli not obligate for its function? J. Mol. Biol. 186, 669672.
  • Small, I.D. and Peeters, N. (2000) The PPR motif - a TPR-related motif prevalent in plant organellar proteins. Trends Biochem. Sci. 25, 4647.
  • Wang, Z., Zou, Y., Li, X. et al. (2006) Cytoplasmic male sterility of rice with boro II cytoplasm is caused by a cytotoxic peptide and is restored by two related PPR motif genes via distinct modes of mRNA silencing. Plant Cell 18, 676687.
  • Wittig, I., Braun, H.P. and Schagger, H. (2006) Blue native PAGE. Nat. Protoc. 1, 418428.