An accurate fluorescent assay for quantifying the extent of RNA editing

RNA

Volumn 12, Issue 10, 2006, Pages 1907-1912

  Roberson, Loretta M ^a,b   Rosenthal, Joshua J C ^a  

^a UNIVERSITY OF PUERTO RICO   (Puerto Rico)

^b UNIVERSITY OF PUERTO RICO RIO PIEDRAS   (Puerto Rico)

Author keywords

Adenosine deamination; Chain terminators; Cytosine deamination; Poisoned primer extension; RNA editing; Thermostable DNA polymerases

Indexed keywords

ADENOSINE DEAMINASE; CYTIDINE; MESSENGER RNA; POTASSIUM CHANNEL; RNA;

ARTICLE; DEAMINATION; FLUORESCENCE; MOLECULAR CLONING; PLASMID; PRIORITY JOURNAL; RNA EDITING; SINGLE NUCLEOTIDE POLYMORPHISM;

ALISMATIDAE; ANIMALS; BASE SEQUENCE; DECAPODIFORMES; DNA PRIMERS; DNA, PLANT; FLUORESCENT DYES; KV1.1 POTASSIUM CHANNEL; NUCLEIC ACID AMPLIFICATION TECHNIQUES; PLANT PROTEINS; RNA EDITING; SENSITIVITY AND SPECIFICITY;

EID: 33749254843     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.166906     Document Type: Article

References (33)

1. Akbarian, S., Smith, M.A., and Jones, E.G. 1995. Editing for an AMPA receptor subunit RNA in prefrontal cortex and striatum in Alzheimer's disease, Huntington's disease and schizophrenia. Brain Res. 699: 297-304.
2. Burns, C.M., Chu, H., Rueter, S.M., Hutchinson, L.K., Canton, H., Sanders-Bush, E., and Emeson, R.B. 1997. Regulation of serotonin-2C receptor G-protein coupling by RNA editing. Nature 387: 303-308.
3. Chen, S.H., Habib, G., Yang, C.Y., Gu, Z.W., Lee, B.R., Weng, S.A., Silberman, S.R., Cai, S.J., Deslypere, J.P., Rosseneu, M., et al. 1987. Apolipoprotein B-48 is the product of a messenger RNA with an organ-specific in-frame stop codon. Science 238: 363-366.
4. Dabiri, G.A., Lai, F., Drakas, R.A., and Nishikura, K. 1996. Editing of the GLuR-B ion channel RNA in vitro by recombinant double-stranded RNA adenosine deaminase. EMBO J. 15: 34-45.
5. Freyer, R., Kiefer-Meyer, M.C., and Kossel, H. 1997. Occurrence of plastid RNA editing in all major lineages of land plants. Proc. Natl. Acad. Sci. 94: 6285-6290.
6. Gurevich, I., Tamir, H., Arango, V., Dwork, A.J., Mann, J.J., and Schmauss, C. 2002. Altered editing of serotonin 2C receptor pre-mRNA in the prefrontal cortex of depressed suicide victims. Neuron 34: 349-356.
7. Heinze, B. 2005. A database for PCR primers for the study of the chloroplast genome in plants. http//bfw.ac.at/200/1859.html.
8. Hoopengardner, B., Bhalla, T., Staber, C., and Reenan, R. 2003. Nervous system targets of RNA editing identified by comparative genomics. Science 301: 832-836.
9. Horvath, E.M., Peter, S.O., Joet, T., Rumeau, D., Cournac, L., Horvath, G.V., Kavanagh, T.A., Schafer, C., Peltier, G., and Medgyesy, P. 2000. Targeted inactivation of the plastid ndhB gene in tobacco results in an enhanced sensitivity of photosynthesis to moderate stomatal closure. Plant Physiol. 123: 1337-1349.
10. Iwamoto, K. and Kato, T. 2003. RNA editing of serotonin 2C receptor in human postmortem brains of major mental disorders. Neurosci. Lett. 346: 169-172.
11. Kofer, W., Koop, H.-U., Wanner, G., and Steinmüller, K. 1998. Mutagenesis of the genes encoding subunits A, C, H, I, J and K of the plastid NAD(P)H-plastoquinone-oxidoreductase in tobacco by polyethylene glycol-mediated plastome transformation. Mol. Gen. Genet. 258: 166-173.
12. Maas, S., Melcher, T., Herb, A., Seeburg, P.H., Keller, W., Krause, S., Higuchi, M., and O'Connell, M.A. 1996. Structural requirements for RNA editing in glutamate receptor pre-mRNAs by recombinant double-stranded RNA adenosine deaminase. J. Biol. Chem. 271: 12221-12226.
13. Maier, R.M., Neckermann, K., Igloi, G.L., and Kossel, H. 1995. Complete sequence of the maize chloroplast genome: Gene content, hotspots of divergence and fine tuning of genetic information by transcript editing. J. Mol. Biol. 251: 614-628.
14. Morse, D.P. and Bass, B.L. 1999. Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA. Proc. Natl. Acad. Sci. 96: 6048-6053.
15. Morse, D.P., Aruscavage, P.J., and Bass, B.L. 2002. RNA hairpins in noncoding regions of human brain and Caenorhabditis elegans mRNA are edited by adenosine deaminases that act on RNA. Proc. Natl. Acad. Sci. 99: 7906-7911.
16. O'Connell, M.A., Gerber, A., and Keller, W. 1997. Purification of human double-stranded RNA-specific editase 1 (hRED1) involved in editing of brain glutamate receptor B pre-mRNA. J. Biol. Chem. 272: 473-478.
17. Patton, D.E., Silva, T., and Bezanilla, F. 1997. RNA editing generates a diverse array of transcripts encoding squid Kv2 K+ channels with altered functional properties. Neuron 19: 711-722.
18. Peeters, N.M. and Hanson, M.R. 2002. Transcript abundance supercedes editing efficiency as a factor in developmental variation of chloroplast gene expression. RNA 8: 497-511.
19. Powell, L.M., Wallis, S.C., Pease, R.J., Edwards, Y.H., Knott, T.J., and Scott, J. 1987. A novel form of tissue-specific RNA processing produces apolipoprotein-B48 in intestine. Cell 50: 831-840.
20. Rosenthal, J.J. and Bezanilla, F. 2002. Extensive editing of mRNAs for the squid delayed rectifier K+ channel regulates subunit tetramerization. Neuron 34: 743-757.
21. Schiffer, H.H. and Heinemann, S.F. 1999. A quantitative method to detect RNA editing events. Anal. Biochem. 276: 257-260.
22. Schmauss, C. 2003. Serotonin 2C receptors: Suicide, serotonin, and runaway RNA editing. Neuroscientist 9: 237-242.
23. Schmitz-Linneweber, C., Kushnir, S., Babiychuk, E., Poltnigg, P., Herrmann, R.G., and Maier, R.M. 2005. Pigment deficiency in nightshade/tobacco cybrids is caused by the failure to edit the plastid ATPase α-subunit mRNA. Plant Cell 17: 1815-1828.
24. Seeburg, P.H. 1996. The role of RNA editing in controlling glutamate receptor channel properties. J. Neurochem. 66: 1-5.
25. Sodhi, M.S., Burnet, P.W., Makoff, A.J., Kerwin, R.W., and Harrison, P.J. 2001. RNA editing of the 5-HT(2C) receptor is reduced in schizophrenia. Mol. Psychiatry 6: 373-379.
26. Sprengel, R., Higuchi, M., Monyer, H., and Seeburg, P.H. 1999. Glutamate receptor channels: A possible link between RNA editing in the brain and epilepsy. Adv. Neurol. 79: 525-534.
27. Tabor, S. and Richardson, C.C. 1987. DNA sequence analysis with a modified bacteriophage T7 DNA polymerase. Proc. Natl. Acad. Sci. 84: 4767-4771.
28. Tabor, S. and Richardson, C.C. 1990. DNA sequence analysis with a modified bacteriophage T7 DNA polymerase. Effect of pyrophosphorolysis and metal ions. J. Biol. Chem. 265: 8322-8328.
29. Tillich, M., Funk, H.T., Schmitz-Linneweber, C., Poltnigg, P., Sabater, B., Martin, M., and Maier, R.M. 2005. Editing of plastid RNA in Arabidopsis thaliana ecotypes. Plant J. 43: 708-715.
30. Tsudzuki, T., Wakasugi, T., and Sugiura, M. 2001. Comparative analysis of RNA editing sites in higher plant chloroplasts. J. Mol. Evol. 53: 327-332.
31. Vander Horn, P.B., Davis, M.C., Cunniff, J.J., Ruan, C., McArdle, B.F., Samols, S.B., Szasz, J., Hu, G., Hujer, K.M., Domke, S.T., et al. 1997. Thermo Sequenase DNA polymerase and T. acidophilum pyrophosphatase: New thermostable enzymes for DNA sequencing. Biotechniques 22: 758-762, 764-755.
32. Vissel, B., Royle, G.A., Christie, B.R., Schiffer, H.H., Ghetti, A., Tritto, T., Perez-Otano, I., Radcliffe, R.A., Seamans, J., Sejnowski, T., et al. 2001. The role of RNA editing of kainate receptors in synaptic plasticity and seizures. Neuron 29: 217-227.
33. Zito, F., Zuras, R., Choquet, Y., Kossel, H., and Wollman, F.A. 1997. Mutations of cytochrome b6 in Chlamydomonas reinhardtii disclose the functional significance for a proline to leucine conversion by petB editing in maize and tobacco. Plant Mol. Biol. 33: 79-86.