Editor meets silencer: crosstalk between RNA editing and RNA interference (original) (raw)

• Bentley, D. L. Rules of engagement: co-transcriptional recruitment of pre-mRNA processing factors. Curr. Opin. Cell Biol. 17, 251–256 (2005).
  Article CAS PubMed Google Scholar
• Gott, J. M. & Emeson, R. B. Functions and mechanisms of RNA editing. Annu. Rev. Genet. 34, 499–531 (2000).
  Article CAS PubMed Google Scholar
• Bass, B. L. RNA editing by adenosine deaminases that act on RNA. Annu. Rev. Biochem. 71, 817–846 (2002).
  Article CAS PubMed Google Scholar
• Keegan, L. P., Leroy, A., Sproul, D. & O'Connell, M. A. Adenosine deaminases acting on RNA (ADARs): RNA-editing enzymes. Genome Biol. 5, 209 (2004).
  Article PubMed PubMed Central Google Scholar
• Valente, L. & Nishikura, K. ADAR gene family and A-to-I RNA editing: diverse roles in posttranscriptional gene regulation. Prog. Nucleic Acid Res. Mol. Biol. 79, 299–338 (2005). An up-to-date review on A→I editing and ADAR genes.
  Article CAS PubMed Google Scholar
• Athanasiadis, A., Rich, A. & Maas, S. Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome. PLoS Biol. 2, e391 (2004).
  Article PubMed PubMed Central Google Scholar
• Blow, M., Futreal, P. A., Wooster, R. & Stratton, M. R. A survey of RNA editing in human brain. Genome Res. 14, 2379–2387 (2004).
  Article CAS PubMed PubMed Central Google Scholar
• Kim, D. D. et al. Widespread RNA editing of embedded alu elements in the human transcriptome. Genome Res. 14, 1719–1725 (2004).
  Article CAS PubMed PubMed Central Google Scholar
• Levanon, E. Y. et al. Systematic identification of abundant A-to-I editing sites in the human transcriptome. Nature Biotechnol. 22, 1001–1005 (2004). References 6–9 report a genome-wide screening strategy, leading to the identification of numerous A→I editing sites in non-coding Alu repeat RNAs.
  Article CAS Google Scholar
• Fire, A. et al. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391, 806–811 (1998).
  Article CAS PubMed Google Scholar
• Filipowicz, W., Jaskiewicz, L., Kolb, F. A. & Pillai, R. S. Post-transcriptional gene silencing by siRNAs and miRNAs. Curr. Opin. Struct. Biol. 15, 331–341 (2005).
  Article CAS PubMed Google Scholar
• Bartel, D. P. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116, 281–297 (2004).
  Article CAS PubMed Google Scholar
• Du, T. & Zamore, P. D. microPrimer: the biogenesis and function of microRNA. Development 132, 4645–4652 (2005).
  Article CAS PubMed Google Scholar
• Hannon, G. J. RNA interference. Nature 418, 244–251 (2002).
  Article CAS PubMed Google Scholar
• Kim, V. N. MicroRNA biogenesis: coordinated cropping and dicing. Nature Rev. Mol. Cell Biol. 6, 376–385 (2005).
  Article CAS Google Scholar
• Meister, G. & Tuschl, T. Mechanisms of gene silencing by double-stranded RNA. Nature 431, 343–349 (2004).
  Article CAS PubMed Google Scholar
• Bass, B. L. Double-stranded RNA as a template for gene silencing. Cell 101, 235–238 (2000).
  Article CAS PubMed Google Scholar
• Luciano, D. J., Mirsky, H., Vendetti, N. J. & Maas, S. RNA editing of a miRNA precursor. RNA 10, 1174–1177 (2004).
  Article CAS PubMed PubMed Central Google Scholar
• Yang, W. et al. Modulation of microRNA processing and expression through RNA editing by ADAR deaminases. Nature Struct. Mol. Biol. 13, 13–21 (2006). Shows that A→I editing of a miRNA-142 precursor suppresses its processing by Drosha–DGCR8 and also that the highly edited precursor RNAs are degraded by Tudor-SN.
  Article CAS Google Scholar
• Pfeffer, S. et al. Identification of microRNAs of the herpesvirus family. Nature Methods 2, 269–276 (2005).
  Article CAS PubMed Google Scholar
• Blow, M. J. et al. RNA editing of human microRNAs. Genome Biol. 7, R27 (2006).
  Article PubMed PubMed Central CAS Google Scholar
• Yang, W. et al. ADAR1 RNA deaminase limits short interfering RNA efficacy in mammalian cells. J. Biol. Chem. 280, 3946–3953 (2005). Shows that ADAR1L functions as an RNAi suppressor by sequestering siRNAs.
  Article CAS PubMed Google Scholar
• Tonkin, L. A. & Bass, B. L. Mutations in RNAi rescue aberrant chemotaxis of ADAR mutants. Science 302, 1725 (2003). Shows the RNAi dependence of ADAR-null worm phenotypes.
  Article CAS PubMed PubMed Central Google Scholar
• Tonkin, L. A. et al. RNA editing by ADARs is important for normal behavior in Caenorhabditis elegans. EMBO J. 21, 6025–6035 (2002).
  Article CAS PubMed PubMed Central Google Scholar
• Knight, S. W. & Bass, B. L. The role of RNA editing by ADARs in RNAi. Mol. Cell 10, 809–817 (2002). Shows, for the first time, that A→I editing prevents RNAi-mediated transgene silencing, which implies an interaction between RNAi and RNA-editing pathways.
  Article CAS PubMed Google Scholar
• Bass, B. L. & Weintraub, H. An unwinding activity that covalently modifies its double-stranded RNA substrate. Cell 55, 1089–1098 (1988).
  Article CAS PubMed Google Scholar
• Wagner, R. W., Smith, J. E., Cooperman, B. S. & Nishikura, K. A double-stranded RNA unwinding activity introduces structural alterations by means of adenosine to inosine conversions in mammalian cells and Xenopus eggs. Proc. Natl Acad. Sci. USA 86, 2647–2651 (1989).
  Article CAS PubMed PubMed Central Google Scholar
• Bass, B. L. & Weintraub, H. A developmentally regulated activity that unwinds RNA duplexes. Cell 48, 607–613 (1987).
  Article CAS PubMed Google Scholar
• Rebagliati, M. R. & Melton, D. A. Antisense RNA injections in fertilized frog eggs reveal an RNA duplex unwinding activity. Cell 48, 599–605 (1987).
  Article CAS PubMed Google Scholar
• Kim, U., Wang, Y., Sanford, T., Zeng, Y. & Nishikura, K. Molecular cloning of cDNA for double-stranded RNA adenosine deaminase, a candidate enzyme for nuclear RNA editing. Proc. Natl Acad. Sci. USA 91, 11457–11461 (1994).
  Article CAS PubMed PubMed Central Google Scholar
• Melcher, T. et al. A mammalian RNA editing enzyme. Nature 379, 460–464 (1996).
  Article CAS PubMed Google Scholar
• Lai, F., Chen, C. X., Carter, K. C. & Nishikura, K. Editing of glutamate receptor B subunit ion channel RNAs by four alternatively spliced DRADA2 double-stranded RNA adenosine deaminases. Mol. Cell. Biol. 17, 2413–2424 (1997).
  Article CAS PubMed PubMed Central Google Scholar
• Gerber, A., O'Connell, M. A. & Keller, W. Two forms of human double-stranded RNA-specific editase 1 (hRED1) generated by the insertion of an Alu cassette. RNA 3, 453–463 (1997).
  CAS PubMed PubMed Central Google Scholar
• Melcher, T. et al. RED2, a brain-specific member of the RNA-specific adenosine deaminase family. J. Biol. Chem. 271, 31795–31798 (1996).
  Article CAS PubMed Google Scholar
• Chen, C. X. et al. A third member of the RNA-specific adenosine deaminase gene family, ADAR3, contains both single- and double-stranded RNA binding domains. RNA 6, 755–767 (2000).
  Article CAS PubMed PubMed Central Google Scholar
• Palladino, M. J., Keegan, L. P., O'Connell, M. A. & Reenan, R. A. A-to-I pre-mRNA editing in Drosophila is primarily involved in adult nervous system function and integrity. Cell 102, 437–449 (2000).
  Article CAS PubMed Google Scholar
• Ryter, J. M. & Schultz, S. C. Molecular basis of double-stranded RNA-protein interactions: structure of a dsRNA-binding domain complexed with dsRNA. EMBO J. 17, 7505–7513 (1998).
  Article CAS PubMed PubMed Central Google Scholar
• Lai, F., Drakas, R. & Nishikura, K. Mutagenic analysis of double-stranded RNA adenosine deaminase, a candidate enzyme for RNA editing of glutamate-gated ion channel transcripts. J. Biol. Chem. 270, 17098–17105 (1995).
  Article CAS PubMed Google Scholar
• Macbeth, M. R. et al. Inositol hexakisphosphate is bound in the ADAR2 core and required for RNA editing. Science 309, 1534–1539 (2005).
  Article CAS PubMed PubMed Central Google Scholar
• Patterson, J. B. & Samuel, C. E. Expression and regulation by interferon of a double-stranded-RNA-specific adenosine deaminase from human cells: evidence for two forms of the deaminase. Mol. Cell. Biol. 15, 5376–5388 (1995).
  Article CAS PubMed PubMed Central Google Scholar
• Kawakubo, K. & Samuel, C. E. Human RNA-specific adenosine deaminase (ADAR1) gene specifies transcripts that initiate from a constitutively active alternative promoter. Gene 258, 165–172 (2000).
  Article CAS PubMed Google Scholar
• Yang, J. H. et al. Widespread inosine-containing mRNA in lymphocytes regulated by ADAR1 in response to inflammation. Immunology 109, 15–23 (2003).
  Article CAS PubMed PubMed Central Google Scholar
• Peng, P. L. et al. ADAR2-dependent RNA editing of AMPA receptor subunit GluR2 determines vulnerability of neurons in forebrain ischemia. Neuron 49, 719–733 (2006).
  Article CAS PubMed Google Scholar
• Desterro, J. M. et al. Dynamic association of RNA-editing enzymes with the nucleolus. J. Cell Sci. 116, 1805–1818 (2003).
  Article CAS PubMed Google Scholar
• Poulsen, H., Nilsson, J., Damgaard, C. K., Egebjerg, J. & Kjems, J. CRM1 mediates the export of ADAR1 through a nuclear export signal within the Z-DNA binding domain. Mol. Cell. Biol. 21, 7862–7871 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Sansam, C. L., Wells, K. S. & Emeson, R. B. Modulation of RNA editing by functional nucleolar sequestration of ADAR2. Proc. Natl Acad. Sci. USA 100, 14018–14023 (2003).
  Article CAS PubMed PubMed Central Google Scholar
• Nishikura, K. et al. Substrate specificity of the dsRNA unwinding/modifying activity. EMBO J. 10, 3523–3532 (1991).
  Article CAS PubMed PubMed Central Google Scholar
• Lehmann, K. A. & Bass, B. L. The importance of internal loops within RNA substrates of ADAR1. J. Mol. Biol. 291, 1–13 (1999).
  Article CAS PubMed Google Scholar
• Higuchi, M. et al. RNA editing of AMPA receptor subunit GluR-B: a base-paired intron–exon structure determines position and efficiency. Cell 75, 1361–1370 (1993).
  Article CAS PubMed Google Scholar
• Wang, Q. et al. Altered G protein-coupling functions of RNA editing isoform and splicing variant serotonin2C receptors. J. Neurochem. 74, 1290–1300 (2000).
  Article CAS PubMed Google Scholar
• Seeburg, P. H. & Hartner, J. Regulation of ion channel/neurotransmitter receptor function by RNA editing. Curr. Opin. Neurobiol. 13, 279–283 (2003).
  Article CAS PubMed Google Scholar
• Reenan, R. A. The RNA world meets behavior: A→I pre-mRNA editing in animals. Trends Genet. 17, 53–56 (2001).
  Article CAS PubMed Google Scholar
• Stefl, R., Xu, M., Skrisovska, L., Emeson, R. B. & Allain, F. H. Structure and specific RNA binding of ADAR2 double-stranded RNA binding motifs. Structure 14, 345–355 (2006).
  Article CAS PubMed Google Scholar
• Cho, D. S. et al. Requirement of dimerization for RNA editing activity of adenosine deaminases acting on RNA. J. Biol. Chem. 278, 17093–17102 (2003).
  Article CAS PubMed Google Scholar
• Burns, C. M. et al. Regulation of serotonin-2C receptor G-protein coupling by RNA editing. Nature 387, 303–308 (1997).
  Article CAS PubMed Google Scholar
• Hoopengardner, B., Bhalla, T., Staber, C. & Reenan, R. Nervous system targets of RNA editing identified by comparative genomics. Science 301, 832–836 (2003).
  Article CAS PubMed Google Scholar
• Reenan, R. A., Hanrahan, C. J. & Ganetzky, B. The mle(napts) RNA helicase mutation in Drosophila results in a splicing catastrophe of the para Na+ channel transcript in a region of RNA editing. Neuron 25, 139–149 (2000).
  Article CAS PubMed Google Scholar
• Polson, A. G., Bass, B. L. & Casey, J. L. RNA editing of hepatitis delta virus antigenome by dsRNA-adenosine deaminase. Nature 380, 454–456 (1996).
  Article CAS PubMed Google Scholar
• Higuchi, M. et al. Point mutation in an AMPA receptor gene rescues lethality in mice deficient in the RNA-editing enzyme ADAR2. Nature 406, 78–81 (2000).
  Article CAS PubMed Google Scholar
• Wang, Q., Khillan, J., Gadue, P. & Nishikura, K. Requirement of the RNA editing deaminase ADAR1 gene for embryonic erythropoiesis. Science 290, 1765–1768 (2000).
  Article CAS PubMed Google Scholar
• Wang, Q. et al. Stress-induced apoptosis associated with null mutation of ADAR1 RNA editing deaminase gene. J. Biol. Chem. 279, 4952–4961 (2004).
  Article CAS PubMed Google Scholar
• Hartner, J. C. et al. Liver disintegration in the mouse embryo caused by deficiency in the RNA-editing enzyme ADAR1. J. Biol. Chem. 279, 4894–4902 (2004).
  Article CAS PubMed Google Scholar
• Maas, S., Kawahara, Y., Tamburro, K. M. & Nishikura, K. A-to-I RNA editing and human disease. RNA Biol. 3, 1–9 (2006). An up-to-date review on human diseases caused by defective A→I editing.
  Article CAS PubMed Google Scholar
• Schmauss, C. Regulation of serotonin 2C receptor pre-mRNA editing by serotonin. Int. Rev. Neurobiol. 63, 83–100 (2005).
  Article CAS PubMed Google Scholar
• Miyamura, Y. et al. Mutations of the RNA-specific adenosine deaminase gene (DSRAD) are involved in dyschromatosis symmetrica hereditaria. Am. J. Hum. Genet. 73, 693–699 (2003).
  Article CAS PubMed PubMed Central Google Scholar
• Kawahara, Y. et al. Glutamate receptors: RNA editing and death of motor neurons. Nature 427, 801 (2004).
  Article CAS PubMed Google Scholar
• Gurevich, I. et al. Altered editing of serotonin 2C receptor pre-mRNA in the prefrontal cortex of depressed suicide victims. Neuron 34, 349–356 (2002).
  Article CAS PubMed Google Scholar
• Niswender, C. M. et al. RNA editing of the human serotonin 5-HT2C receptor. Alterations in suicide and implications for serotonergic pharmacotherapy. Neuropsychopharmacology 24, 478–491 (2001).
  Article CAS PubMed Google Scholar
• Paul, M. S. & Bass, B. L. Inosine exists in mRNA at tissue-specific levels and is most abundant in brain mRNA. EMBO J. 17, 1120–1127 (1998).
  Article CAS PubMed PubMed Central Google Scholar
• Levanon, E. Y. et al. Evolutionarily conserved human targets of adenosine to inosine RNA editing. Nucleic Acids Res. 33, 1162–1168 (2005).
  Article CAS PubMed PubMed Central Google Scholar
• Clutterbuck, D. R., Leroy, A., O'Connell, M. A. & Semple, C. A. A bioinformatic screen for novel A–I RNA editing sites reveals recoding editing in BC10. Bioinformatics 21, 2590–2595 (2005). References 70 and 71 report that A→I editing of protein-coding regions is exceptionally rare, as demonstrated by a genome-wide screening strategy.
  Article CAS PubMed Google Scholar
• Eisenberg, E. et al. Is abundant A-to-I RNA editing primate-specific? Trends Genet. 21, 77–81 (2005).
  Article CAS PubMed Google Scholar
• Katayama, S. et al. Antisense transcription in the mammalian transcriptome. Science 309, 1564–1566 (2005).
  Article PubMed Google Scholar
• Chen, J., Sun, M., Hurst, L. D., Carmichael, G. G. & Rowley, J. D. Genome-wide analysis of coordinate expression and evolution of human _cis_-encoded sense–antisense transcripts. Trends Genet. 21, 326–329 (2005).
  Article CAS PubMed Google Scholar
• Neeman, Y., Dahary, D., Levanon, E. Y., Sorek, R. & Eisenberg, E. Is there any sense in antisense editing? Trends Genet. 21, 544–547 (2005).
  Article CAS PubMed Google Scholar
• Kawahara, Y. & Nishikura, K. Extensive adenosine-to-inosine editing detected in Alu repeats of antisense RNAs reveals scarcity of sense–antisense duplex formation. FEBS Lett. 580, 2301–2305 (2006). References 75 and 76 show that antisense RNA is extensively edited, but only in regions containing an inverted Alu repeat dsRNA, showing that the formation of sense–antisense intermolecular dsRNAs is very rare.
  Article CAS PubMed PubMed Central Google Scholar
• Rueter, S. M., Dawson, T. R. & Emeson, R. B. Regulation of alternative splicing by RNA editing. Nature 399, 75–80 (1999).
  Article CAS PubMed Google Scholar
• Sorek, R. et al. Minimal conditions for exonization of intronic sequences: 5′ splice site formation in Alu exons. Mol. Cell 14, 221–231 (2004).
  Article CAS PubMed Google Scholar
• Dagan, T., Sorek, R., Sharon, E., Ast, G. & Graur, D. AluGene: a database of Alu elements incorporated within protein-coding genes. Nucleic Acids Res. 32, D489–D492 (2004).
  Article CAS PubMed PubMed Central Google Scholar
• Zhang, Z. & Carmichael, G. G. The fate of dsRNA in the nucleus: a p54nrb-containing complex mediates the nuclear retention of promiscuously A-to-I edited RNAs. Cell 106, 465–475 (2001).
  Article CAS PubMed Google Scholar
• Prasanth, K. V. et al. Regulating gene expression through RNA nuclear retention. Cell 123, 249–263 (2005). Reports that A→I editing of SINE repeats located in the 3′ UTR might regulate nuclear retention and the release of cationic amino-acid transporter-2 mRNAs.
  Article CAS PubMed Google Scholar
• Scadden, A. D. & Smith, C. W. Specific cleavage of hyper-edited dsRNAs. EMBO J. 20, 4243–4252 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Scadden, A. D. The RISC subunit Tudor-SN binds to hyper-edited double-stranded RNA and promotes its cleavage. Nature Struct. Mol. Biol. 12, 489–496 (2005). Reports that Tudor-SN, previously identified as a RISC-associated protein, is a ribonuclease specific for inosine-containing dsRNAs, revealing a mechanistic connection between RNAi and RNA-editing pathways.
  Article CAS Google Scholar
• Tong, X., Drapkin, R., Yalamanchili, R., Mosialos, G. & Kieff, E. The Epstein–Barr virus nuclear protein 2 acidic domain forms a complex with a novel cellular coactivator that can interact with TFIIE. Mol. Cell. Biol. 15, 4735–4744 (1995).
  Article CAS PubMed PubMed Central Google Scholar
• Wang, Q., Zhang, Z., Blackwell, K. & Carmichael, G. G. Vigilins bind to promiscuously A-to-I-edited RNAs and are involved in the formation of heterochromatin. Curr. Biol. 15, 384–391 (2005). Vigilin in complex with ADAR1 binds to inosine-containing RNAs, revealing a possible role for A→I editing in the heterochomatic gene-silencing mechanism.
  Article CAS PubMed Google Scholar
• Martienssen, R. A., Zaratiegui, M. & Goto, D. B. RNA interference and heterochromatin in the fission yeast Schizosaccharomyces pombe. Trends Genet. 21, 450–456 (2005).
  Article CAS PubMed Google Scholar
• Shilatifard, A. Chromatin modifications by methylation and ubiquitination: implications in the regulation of gene expression. Annu. Rev. Biochem. (2006).
• Aravin, A. A. et al. The small RNA profile during Drosophila melanogaster development. Dev. Cell 5, 337–350 (2003).
  Article CAS PubMed Google Scholar
• Sijen, T. & Plasterk, R. H. Transposon silencing in the Caenorhabditis elegans germ line by natural RNAi. Nature 426, 310–314 (2003).
  Article CAS PubMed Google Scholar
• Aravin, A. & Tuschl, T. Identification and characterization of small RNAs involved in RNA silencing. FEBS Lett. 579, 5830–5840 (2005).
  Article CAS PubMed Google Scholar
• Matzke, M. A. & Birchler, J. A. RNAi-mediated pathways in the nucleus. Nature Rev. Genet. 6, 24–35 (2005).
  Article CAS PubMed Google Scholar
• Watanabe, T. et al. Identification and characterization of two novel classes of small RNAs in the mouse germline: retrotransposon-derived siRNAs in oocytes and germline small RNAs in testes. Genes Dev. 20, 1732–1743 (2006).
  CAS PubMed PubMed Central Google Scholar
• Saccomanno, L. & Bass, B. L. The cytoplasm of Xenopus oocytes contains a factor that protects double-stranded RNA from adenosine-to-inosine modification. Mol. Cell. Biol. 14, 5425–5432 (1994).
  CAS PubMed PubMed Central Google Scholar
• Saunders, L. R. & Barber, G. N. The dsRNA binding protein family: critical roles, diverse cellular functions. FASEB J. 17, 961–983 (2003).
  Article CAS PubMed Google Scholar
• Scadden, A. D. & Smith, C. W. RNAi is antagonized by A→I hyper-editing. EMBO Rep. 2, 1107–1111 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Vance, V. & Vaucheret, H. RNA silencing in plants-defense and counterdefense. Science 292, 2277–2280 (2001).
  Article CAS PubMed Google Scholar
• Kennedy, S., Wang, D. & Ruvkun, G. A conserved siRNA-degrading RNase negatively regulates RNA interference in C. elegans. Nature 427, 645–649 (2004).
  Article CAS PubMed Google Scholar
• Vargason, J. M., Szittya, G., Burgyan, J. & Tanaka Hall, T. M. Size selective recognition of siRNA by an RNA silencing suppressor. Cell 115, 799–811 (2003).
  Article CAS PubMed Google Scholar
• Ye, K., Malinina, L. & Patel, D. J. Recognition of small interfering RNA by a viral suppressor of RNA silencing. Nature 426, 874–878 (2003).
  Article CAS PubMed PubMed Central Google Scholar
• Hong, J. et al. High doses of siRNAs induce eri-1 and adar-1 gene expression and reduce the efficiency of RNA interference in the mouse. Biochem. J. 390, 675–679 (2005). Reports the induction of ADAR-1 and ERI-1, an siRNA-specific ribonuclease and an RNAi suppressor, respectively, by high concentrations of siRNA. This indicates the presence of a feedback mechanism.
  Article CAS PubMed PubMed Central Google Scholar
• Aravin, A. et al. A novel class of small RNAs bind to MILI protein in mouse testes. Nature 442, 203–207 (2006).
  Article CAS PubMed Google Scholar
• Girard, A., Sachidanandam, R., Hannon, G. J. & Carmell, M. A. A germline-specific class of small RNAs binds mammalian Piwi proteins. Nature 442, 199–202 (2006).
  Article PubMed Google Scholar
• Lau, N. C. et al. Characterization of the piRNA complex from rat testes. Science 313, 363–367 (2006).
  Article CAS PubMed Google Scholar
• Byrne, E. M., Stout, A. & Gott, J. M. Editing site recognition and nucleotide insertion are separable processes in Physarum mitochondria. EMBO J. 21, 6154–6161 (2002).
  Article CAS PubMed PubMed Central Google Scholar
• Gott, J. M., Parimi, N. & Bundschuh, R. Discovery of new genes and deletion editing in Physarum mitochondria enabled by a novel algorithm for finding edited mRNAs. Nucleic Acids Res. 33, 5063–5072 (2005).
  Article CAS PubMed PubMed Central Google Scholar
• Barth, C., Greferath, U., Kotsifas, M. & Fisher, P. R. Polycistronic transcription and editing of the mitochondrial small subunit (SSU) ribosomal RNA in Dictyostelium discoideum. Curr. Genet. 36, 55–61 (1999).
  Article CAS PubMed Google Scholar
• Navaratnam, N. & Sarwar, R. An overview of cytidine deaminases. Int. J. Hematol. 83, 195–200 (2006).
  Article CAS PubMed Google Scholar
• Lohan, A. J. & Gray, M. W. Methods for analysis of mitochondrial tRNA editing in Acanthamoeba castellanii. Methods Mol. Biol. 265, 315–331 (2004).
  CAS PubMed Google Scholar
• Wolf, J., Gerber, A. P. & Keller, W. tadA, an essential tRNA-specific adenosine deaminase from Escherichia coli. EMBO J. 21, 3841–3851 (2002).
  Article CAS PubMed PubMed Central Google Scholar
• Gerber, A. P. & Keller, W. RNA editing by base deamination: more enzymes, more targets, new mysteries. Trends Biochem. Sci. 26, 376–384 (2001).
  Article CAS PubMed Google Scholar
• Greger, I. H., Khatri, L., Kong, X. & Ziff, E. B. AMPA receptor tetramerization is mediated by Q/R editing. Neuron 40, 763–774 (2003).
  Article CAS PubMed Google Scholar
• Nishikura, K. Editing the message from A to I. Nature Biotechnol. 22, 962–963 (2004).
  Article CAS Google Scholar