Expression levels of Protocadherin-α transcripts are decreased by nonsense-mediated mRNA decay with frameshift mutations and by high DNA methylation in their promoter regions

Gene

Volumn 430, Issue 1-2, 2009, Pages 86-94

  Kaneko, Ryosuke ^a,b   Kawaguchi, Masahumi ^a,c   Toyama, Tomoko ^a,d   Taguchi, Yusuke ^a   Yagi, Takeshi ^a  

^a Graduate School of Frontier Biosciences   (Japan)

^b GUNMA UNIVERSITY   (Japan)

^c EHIME UNIVERSITY   (Japan)

^d OSAKA UNIVERSITY   (Japan)

Author keywords

Clustered protocadherin; Diversity; Epigenetic; Gene regulation; Neuron

Indexed keywords

CADHERIN; EMETINE; PROTOCADHERIN ALPHA; UNCLASSIFIED DRUG;

ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; DNA METHYLATION; FRAMESHIFT MUTATION; GENE DELETION; GENE INSERTION; GENETIC TRANSCRIPTION; MALE; MOUSE; NONHUMAN; NONSENSE MUTATION; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN EXPRESSION; REGULATOR GENE;

AMINO ACID SEQUENCE; ANIMALS; BASE SEQUENCE; BLOTTING, SOUTHERN; CADHERINS; CODON, NONSENSE; DNA METHYLATION; EMETINE; EXONS; FRAMESHIFT MUTATION; GENE EXPRESSION PROFILING; GENOME; MICE; MICE, INBRED STRAINS; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS, GENETIC; PROTEIN ISOFORMS; RNA SPLICING; RNA STABILITY; RNA, MESSENGER; SPECIES SPECIFICITY;

EID: 58049105070     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2008.10.018     Document Type: Article

References (26)

1. Esumi S., et al. Monoallelic yet combinatorial expression of variable exons of the protocadherin-alpha gene cluster in single neurons. Nat. Genet. 37 (2005) 171-176
2. Filippova G.N., et al. Boundaries between chromosomal domains of X inactivation and escape bind CTCF and lack CpG methylation during early development. Dev. Cell 8 (2005) 31-42
3. Fukuda E., et al. Down-regulation of protocadherin-alpha A isoforms in mice changes contextual fear conditioning and spatial working memory. Eur. J. Neurosci. 28 (2008) 1362-1376
4. Hambsch B., Grinevich V., Seeburg P.H., and Schwarz M.K. {gamma}-Protocadherins, presenilin-mediated release of C-terminal fragment promotes locus expression. J. Biol. Chem. 280 (2005) 15888-15897
5. Hasegawa S., et al. The protocadherin-alpha family is involved in axonal coalescence of olfactory sensory neurons into glomeruli of the olfactory bulb in mouse. Mol. Cell. Neurosci. 38 (2008) 66-79
6. Ionov Y., Nowak N., Perucho M., Markowitz S., and Cowell J.K. Manipulation of nonsense mediated decay identifies gene mutations in colon cancer Cells with microsatellite instability. Oncogene 23 (2004) 639-645
7. Isken O., and Maquat L.E. The multiple lives of NMD factors: balancing roles in gene and genome regulation. Nat. Rev. Genet. 9 (2008) 699-712
8. Kaneko R., et al. Allelic gene regulation of Pcdh-alpha and Pcdh-gamma clusters involving both monoallelic and biallelic expression in single Purkinje cells. J. Biol. Chem. 281 (2006) 30551-30560
9. Kawaguchi M., Toyama T., Kaneko R., Hirayama T., Kawamura Y., and Yagi T. Relationship between DNA methylation states and transcription of individual isoforms encoded by the protocadherin-alpha gene cluster. J. Biol. Chem. 283 (2008) 12064-12075
10. Kim T.H., et al. Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome. Cell 128 (2007) 1231-1245
11. Koide T., Moriwaki K., Ikeda K., Niki H., and Shiroishi T. Multi-phenotype behavioral characterization of inbred strains derived from wild stocks of Mus musculus. Mamm. Genome 11 (2000) 664-670
12. Kumaki Y., Oda M., and Okano M. QUMA: quantification tool for methylation analysis. Nucleic Acids Res. 36 (2008) W170-W175
13. Michaud E.J., van Vugt M.J., Bultman S.J., Sweet H.O., Davisson M.T., and Woychik R.P. Differential expression of a new dominant agouti allele (Aiapy) is correlated with methylation state and is influenced by parental lineage. Genes Dev. 8 (1994) 1463-1472
14. Miki R., et al. Identification and characterization of coding single-nucleotide polymorphisms within human protocadherin-alpha and -beta gene clusters. Gene 349 (2005) 1-14
15. Morgan H.D., Sutherland H.G., Martin D.I., and Whitelaw E. Epigenetic inheritance at the agouti locus in the mouse. Nat. Genet. 23 (1999) 314-318
16. Noonan J.P., et al. Extensive linkage disequilibrium, a common 16.7-kilobase deletion, and evidence of balancing selection in the human protocadherin alpha cluster. Am. J. Hum. Genet. 72 (2003) 621-635
17. Noonan J.P., Grimwood J., Schmutz J., Dickson M., and Myers R.M. Gene conversion and the evolution of protocadherin gene cluster diversity. Genome Res. 14 (2004) 354-366
18. Oda M., et al. DNA methylation regulates long-range gene silencing of an X-linked homeobox gene cluster in a lineage-specific manner. Genes Dev. 20 (2006) 3382-3394
19. Pedrosa E., et al. Analysis of protocadherin alpha gene enhancer polymorphism in bipolar disorder and schizophrenia. Schizophr. Res. 102 (2008) 210-219
20. Sugino H., Toyama T., Taguchi Y., Esumi S., Miyazaki M., and Yagi T. Negative and positive effects of an IAP-LTR on nearby Pcdaalpha gene expression in the central nervous system and neuroblastoma cell lines. Gene 337 (2004) 91-103
21. Taguchi Y., Koide T., Shiroishi T., and Yagi T. Molecular evolution of cadherin-related neuronal receptor/protocadherin(alpha) (CNR/Pcdh(alpha)) gene cluster in Mus musculus subspecies. Mol. Biol. Evol. 22 (2005) 1433-1443
22. Tasic B., et al. Promoter choice determines splice site selection in protocadherin alpha and gamma pre-mRNA splicing. Mol. Cell 10 (2002) 21-33
23. Wang X., Weiner J.A., Levi S., Craig A.M., Bradley A., and Sanes J.R. Gamma protocadherins are required for survival of spinal interneurons. Neuron 36 (2002) 843-854
24. Weiner J.A., Wang X., Tapia J.C., and Sanes J.R. Gamma protocadherins are required for synaptic development in the spinal cord. Proc. Natl. Acad. Sci. U. S. A. 102 (2005) 8-14
25. Wu Q., and Maniatis T. A striking organization of a large family of human neural cadherin-like cell adhesion genes. Cell 97 (1999) 779-790
26. Yagi T. Clustered protocadherin family. Dev. Growth Differ. 50 Suppl 1 (2008) S131-S140