Comparing methods of detection and quantitation of RNA editing of rat glycine receptor alpha3P185L

International Journal of Biological Sciences

Volumn 4, Issue 6, 2008, Pages 397-405

  Nakae, Aya ^a   Tanaka, Tatsuya ^a   Miyake, Keiko ^a   Hase, Makiko ^b   Mashimo, Takashi ^a  

^a OSAKA UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

^b Applied Biosystems Japan Ltd   (Japan)

Author keywords

Allele specific primer; Allele specific TaqMan PCR method; DHPLC; Direct sequencing; Glycine alpha 3 subunit; RNA editing

Indexed keywords

GLYCINE RECEPTOR; GLYCINE RECEPTOR ALPHA 3; PRIMER RNA; UNCLASSIFIED DRUG;

ALLELE SPECIFIC REAL TIME POLYMERASE CHAIN REACTION WITH TAQMAN PROBE; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; DENATURING HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; DIRECT SEQUENCING; GENE IDENTIFICATION; GENE MUTATION; INCIDENCE; INFORMATION PROCESSING; MOLECULAR CLONING; NONHUMAN; NUCLEIC ACID ANALYSIS; POLYMERASE CHAIN REACTION WITH ALLELE SPECIFIC PRIMER; PROTEIN EXPRESSION; RAT; RNA EDITING; RNA SEQUENCE; RNA TRANSCRIPTION; SPINAL CORD;

ANIMALIA; RATTUS;

EID: 54949115868     PISSN: 14492288     EISSN: None     Source Type: Journal    
DOI: 10.7150/ijbs.4.397     Document Type: Article

References (27)

1. Powell LM. A novel form of tissue-specific RNA processing produces apolipoprotein-B48 in intestine. Cell. 1987;50: 831-840.
2. Skuse GR, Cappione AJ, Sowden M, Metheny LJ, Smith HC. The neurofibromatosis type 1 messenger RNA undergoes base-modification RNA editing. Nucleic Acids Res. 1996;24: 478-485.
3. Kohler M, Burnashev N, Sakmann B, Seeburg PH. Determinants of Ca2+ permeability in both TM1 and TM2 of high affinity kainite receptor channels: diversity by RNA editing. Neuron. 1993;10: 491-500.
4. Gurevich I, Tamir H, Arango V, Dwork AJ, Mann JJ, Schmauss C, Gurevich I. Altered editing of serotonin2C receptor pre-mRNA in the prefrontal cortex of depressed suicide victims. Neuron. 2002; 34: 349-356.
5. Bhalla T, Rosenthal JJ, Holmgren M, Reenan R: Control of human potassium channel inactivation by editing of a small mRNA hairpin. Nat Struct Mol Biol. 2004; 11:950-956.
6. Keegan LP, Gallo A, O'Connell MA. The many roles of an RNA editor. Nat Rev Genet. 2001; 2: 869-878.
7. Paul M, Bass BL. Inosine exists in mRNA at tissue-specific levels and is most abundant in brain mRNA. EMBO J. 1998;17: 1120-1127.
8. Basilio C, Wahba AJ, Lengyel P, Speyer JF, Ochoa S. Synthetic polynucleotides and the amino acid code. Proc Natl Acad Sci U S A. 1962; 48: 613-616.
9. Meier JC, Henneberger C, Melnick I, Racca C, Harvey RJ, Heinemann U, Schmieden V, Grantyn R. RNA editing produces glycine receptor ?3P185L, resulting in high agonist potency. Nat Neurosci. 2005; 8: 736-744
10. Burns CM, Chu H, Rueter SM, Hutchinson LK, Canton H. Regulation of serotonin-2C receptor G-protein coupling by RNA editing. Nature. 1997; 387: 303-308.
11. Schiffer HH, Heinemann SF. A quantitative method to detect RNA editing events. Anal Biochem. 1999; 276: 257-260.
12. Peeters NM, Hanson MR. Transcript abundance supersedes editing efficiency as a factor in developmental variation of chloroplast gene expression. RNA. 2002; 8: 497-511.
13. Gallo A, Thomson E, Brindle J, O'Connell MA, Keegan LP. Micro-processing events in mRNAs identified by DHPLC analysis. Nucleic Acids Res. 2002; 30: 3945-3953
14. Barbon A, Vallini I, Via LL, Marchina E, Barlati S. Glutamate receptor RNA editing: a molecular analysis of GluR2, GluR5 and GluR6 in human brain tissues and in NT2 cells following in vitro neural differentiation. Brain Res Mol Brain Res. 2003; 117: 168-178
15. Chen YC, Kao SC, Chou HC, Lin WH, Wong FH, Chow WY. A real-time PCR method for the quantitative analysis of RNA editing at specific sites. Anal Biochem. 2008; 375: 46-52.
16. Chateigner-Boutin AL, Small I. A rapid high-throughput method for the detection and quantitation of RNA editing based on high-resolution melting of amplicons. Nucleic Acids Res. 2007; 35(17): e114.
17. Sprengel R, Higuchi M, Monyer H, Seeburg PH. Glutamate receptor channels: A possible link between RNA editing in the brain and epilepsy. Adv Neurol. 1999; 79: 525-534.
18. Sodhi MS, Burnet PW, Makoff AJ, Kerwin RW, Harrison PJ. RNA editing of the 5-HT (2C) receptor is reduced in schizophrenia. Mol Psychiatry. 2001; 6: 373-379.
19. Vissel B, Royle GA, Christie BR, Schiffer HH, Ghetti A, Tritto T, Perez-Otano I, et al. The role of RNA editing of kainite receptors in synaptic plasticity and seizures. Neuron. 2001; 29: 217-227.
20. Schmauss C. Serotonin 2C receptors: Suicide, serotonin, and runaway RNA editing. Neuroscientist. 2003; 9: 237-242.
21. Kawahara Y, Ito K, Sun H, Aizawa H, Kanazawa I, Kwak S. Glutamate receptors: editing and death of motor neurons. Nature. 2004; 427(6977): 801.
22. Kwak S, Kawahara Y. Deficient RNA editing of GluR2 and neuronal death in amyotropic lateral sclerosis. J Mol Med. 2005; 83:110-120.
23. Bundschuh R. Computational prediction of RNA editing sites. Bioinformatics. 2004; 20: 3214-3220.
24. Levanon EY, Eisenberg E. Algorithmic approaches for identification of RNA editing sites. Brief Funct Genomic Proteomic. 2006; 5: 43-45.
25. Goodman MF, Tippin B. The expanding polymerase universe. Nat Rev Mol Cell Biol. 2000; 1: 101-109.
26. van den Bosch BJ, de Coo RF, Scholte HR, Nijland JG, van Den Bogaard R, de Visser M, de Die-Smulders CE, Smeets HJ. Mutation analysis of the entire mitochondrial genome using denaturing high performance liquid chromatography. Nucleic Acids Res. 2000; 28: E89.
27. Wolford JK, Blunt D, Ballecer C, Prochazka M. High-throughput SNP detection by using DNA pooling and denaturing high performance liquid chromatography (DHPLC). Hum Genet. 2000; 107: 483-487.