Epigenetic Regulation of Dpp6 Expression by Dnmt3b and Its Novel Role in the Inhibition of RA Induced Neuronal Differentiation of P19 Cells

PLoS ONE

Volumn 8, Issue 2, 2013, Pages

  Sheikh, Muhammad Abid ^a   Malik, Yousra Saeed ^a   Yu, Huali ^a   Lai, Mingming ^a   Wang, Xingzhi ^a   Zhu, Xiaojuan ^a  

^a NORTHEAST NORMAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

BISULFITE; DECAPENTAPLEGIC PROTEIN; DNA METHYLTRANSFERASE 1; DNA METHYLTRANSFERASE 3A; DNA METHYLTRANSFERASE 3B; RETINOIC ACID;

ARTICLE; CHROMATIN; CONTROLLED STUDY; DNA METHYLATION; DNMT3B GENE; DOWN REGULATION; DPP6 GENE; ENZYME ACTIVITY; EPIGENETIC REPRESSION; GENE; GENE EXPRESSION REGULATION; GENE IDENTIFICATION; GENE SEQUENCE; GENE SILENCING; INTRACELLULAR SIGNALING; MOLECULAR LIBRARY; NERVE CELL DIFFERENTIATION; PROMOTER REGION; PROTEIN DEPLETION; PROTEIN EXPRESSION; PROTEIN MICROARRAY; PROTEIN TARGETING; QUANTITATIVE ANALYSIS;

ANIMALS; BASE SEQUENCE; CELL CULTURE TECHNIQUES; CELL DIFFERENTIATION; CELL LINE; CPG ISLANDS; DIPEPTIDYL-PEPTIDASES AND TRIPEPTIDYL-PEPTIDASES; DNA (CYTOSINE-5-)-METHYLTRANSFERASE; DNA METHYLATION; EPISTASIS, GENETIC; GENE EXPRESSION REGULATION; MICE; MOLECULAR SEQUENCE DATA; NEURONS; PROMOTER REGIONS, GENETIC; PROTEIN BINDING; TRETINOIN;

EID: 84873588056     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0055826     Document Type: Article

References (50)

1. Wu H, Sun YE, (2006) Epigenetic regulation of stem cell differentiation. Pediatr Res 59: 21R-25R.
2. Watt F, Molloy PL, (1988) Cytosine methylation prevents binding to DNA of a HeLa cell transcription factor required for optimal expression of the adenovirus major late promoter. Genes Dev 2: 1136-1143.
3. Fan G, Hutnick L, (2005) Methyl-CpG binding proteins in the nervous system. Cell Res 15: 255-261.
4. Jurkowska RZ, Jurkowski TP, Jeltsch A, (2011) Structure and function of mammalian DNA methyltransferases. Chembiochem 12: 206-222.
5. Lan J, Hua S, He X, Zhang Y, (2010) DNA methyltransferases and methyl-binding proteins of mammals. Acta Biochim Biophys Sin (Shanghai) 42: 243-252.
6. Hermann A, Goyal R, Jeltsch A, (2004) The Dnmt1 DNA-(cytosine-C5)-methyltransferase methylates DNA processively with high preference for hemimethylated target sites. J Biol Chem 279: 48350-48359.
7. Chedin F, (2011) The DNMT3 family of mammalian de novo DNA methyltransferases. Prog Mol Biol Transl Sci 101: 255-285.
8. Li E, Bestor TH, Jaenisch R, (1992) Targeted mutation of the DNA methyltransferase gene results in embryonic lethality. Cell 69: 915-926.
9. Lei H, Oh SP, Okano M, Juttermann R, Goss KA, et al. (1996) De novo DNA cytosine methyltransferase activities in mouse embryonic stem cells. Development 122: 3195-3205.
10. Okano M, Bell DW, Haber DA, Li E, (1999) DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell 99: 247-257.
11. Boatright JH, Nickerson JM, Borst DE, (2000) Site-specific DNA hypomethylation permits expression of the IRBP gene. Brain Res 887: 211-221.
12. Jaenisch R, Bird A, (2003) Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals. Nat Genet 33Suppl: 245-254.
13. Resende RR, Majumder P, Gomes KN, Britto LR, Ulrich H, (2007) P19 embryonal carcinoma cells as in vitro model for studying purinergic receptor expression and modulation of N-methyl-D-aspartate-glutamate and acetylcholine receptors during neuronal differentiation. Neuroscience 146: 1169-1181.
14. Ulrich H, Majumder P, (2006) Neurotransmitter receptor expression and activity during neuronal differentiation of embryonal carcinoma and stem cells: from basic research towards clinical applications. Cell Prolif 39: 281-300.
15. Sedo A, Kraml J, (1994) Dipeptidyl peptidase IV in cell proliferation and differentiation. Sb Lek 95: 285-288.
16. Kotackova L, Balaziova E, Sedo A, (2009) Expression pattern of dipeptidyl peptidase IV activity and/or structure homologues in cancer. Folia Biol (Praha) 55: 77-84.
17. Strop P, Bankovich AJ, Hansen KC, Garcia KC, Brunger AT, (2004) Structure of a human A-type potassium channel interacting protein DPPX, a member of the dipeptidyl aminopeptidase family. J Mol Biol 343: 1055-1065.
18. Qi SY, Riviere PJ, Trojnar J, Junien JL, Akinsanya KO, (2003) Cloning and characterization of dipeptidyl peptidase 10, a new member of an emerging subgroup of serine proteases. Biochem J 373: 179-189.
19. Nadin BM, Pfaffinger PJ, (2010) Dipeptidyl peptidase-like protein 6 is required for normal electrophysiological properties of cerebellar granule cells. J Neurosci 30: 8551-8565.
20. Sun W, Maffie JK, Lin L, Petralia RS, Rudy B, et al. (2011) Dpp6 establishes the A-type K(+) current gradient critical for the regulation of dendritic excitability in CA1 hippocampal neurons. Neuron 71: 1102-1115.
21. Irizarry RA, Ladd-Acosta C, Wen B, Wu Z, Montano C, et al. (2009) The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat Genet 41: 178-186.
22. Jaeger J, Koczan D, Thiesen HJ, Ibrahim SM, Gross G, et al. (2007) Gene expression signatures for tumor progression, tumor subtype, and tumor thickness in laser-microdissected melanoma tissues. Clin Cancer Res 13: 806-815.
23. Saied MH, Marzec J, Khalid S, Smith P, Down TA, et al. (2012) Genome wide analysis of acute myeloid leukemia reveal leukemia specific methylome and subtype specific hypomethylation of repeats. PLoS One 7: e33213.
24. Nadal MS, Amarillo Y, Vega-Saenz de Miera E, Rudy B, (2006) Differential characterization of three alternative spliced isoforms of DPPX. Brain Res 1094: 1-12.
25. Wada K, Yokotani N, Hunter C, Doi K, Wenthold RJ, et al. (1992) Differential expression of two distinct forms of mRNA encoding members of a dipeptidyl aminopeptidase family. Proc Natl Acad Sci U S A 89: 197-201.
26. de Lecea L, Soriano E, Criado JR, Steffensen SC, Henriksen SJ, et al. (1994) Transcripts encoding a neural membrane CD26 peptidase-like protein are stimulated by synaptic activity. Brain Res Mol Brain Res 25: 286-296.
27. Hough RB, Lengeling A, Bedian V, Lo C, Bucan M, (1998) Rump white inversion in the mouse disrupts dipeptidyl aminopeptidase-like protein 6 and causes dysregulation of Kit expression. Proc Natl Acad Sci U S A 95: 13800-13805.
28. Clark BD, Kwon E, Maffie J, Jeong HY, Nadal M, et al. (2008) Dpp6 Localization in Brain Supports Function as a Kv4 Channel Associated Protein. Front Mol Neurosci 1: 8.
29. Pachernik J, Bryja V, Esner M, Kubala L, Dvorak P, et al. (2005) Neural differentiation of pluripotent mouse embryonal carcinoma cells by retinoic acid: inhibitory effect of serum. Physiol Res 54: 115-122.
30. Yu H, Wang N, Ju X, Yang Y, Sun D, et al. (2012) PtdIns (3,4,5) P3 recruitment of Myo10 is essential for axon development. PLoS One 7: e36988.
31. Rohde C, Zhang Y, Reinhardt R, Jeltsch A, (2010) BISMA-fast and accurate bisulfite sequencing data analysis of individual clones from unique and repetitive sequences. BMC Bioinformatics 11: 230.
32. Watanabe D, Suetake I, Tada T, Tajima S, (2002) Stage- and cell-specific expression of Dnmt3a and Dnmt3b during embryogenesis. Mech Dev 118: 187-190.
33. Feng J, Chang H, Li E, Fan G, (2005) Dynamic expression of de novo DNA methyltransferases Dnmt3a and Dnmt3b in the central nervous system. J Neurosci Res 79: 734-746.
34. Singh RP, Shiue K, Schomberg D, Zhou FC, (2009) Cellular epigenetic modifications of neural stem cell differentiation. Cell Transplant 18: 1197-1211.
35. Sen GL, Reuter JA, Webster DE, Zhu L, Khavari PA, (2010) DNMT1 maintains progenitor function in self-renewing somatic tissue. Nature 463: 563-567.
36. Liu Y, Sun L, Jost JP, (1996) In differentiating mouse myoblasts DNA methyltransferase is posttranscriptionally and posttranslationally regulated. Nucleic Acids Res 24: 2718-2722.
37. D'Aiuto L, Di Maio R, Mohan KN, Minervini C, Saporiti F, et al. (2011) Mouse ES cells overexpressing DNMT1 produce abnormal neurons with upregulated NMDA/NR1 subunit. Differentiation 82: 9-17.
38. Chen T, Ueda Y, Dodge JE, Wang Z, Li E, (2003) Establishment and maintenance of genomic methylation patterns in mouse embryonic stem cells by Dnmt3a and Dnmt3b. Mol Cell Biol 23: 5594-5605.
39. Rountree MR, Bachman KE, Baylin SB, (2000) DNMT1 binds HDAC2 and a new co-repressor, DMAP1, to form a complex at replication foci. Nat Genet 25: 269-277.
40. Fuks F, Hurd PJ, Wolf D, Nan X, Bird AP, et al. (2003) The methyl-CpG-binding protein MeCP2 links DNA methylation to histone methylation. J Biol Chem 278: 4035-4040.
41. Bachman KE, Rountree MR, Baylin SB, (2001) Dnmt3a and Dnmt3b are transcriptional repressors that exhibit unique localization properties to heterochromatin. J Biol Chem 276: 32282-32287.
42. Deplus R, Brenner C, Burgers WA, Putmans P, Kouzarides T, et al. (2002) Dnmt3L is a transcriptional repressor that recruits histone deacetylase. Nucleic Acids Res 30: 3831-3838.
43. Schroeder DI, Lott P, Korf I, LaSalle JM, (2011) Large-scale methylation domains mark a functional subset of neuronally expressed genes. Genome Res 21: 1583-1591.
44. Chen T, Tsujimoto N, Li E, (2004) The PWWP domain of Dnmt3a and Dnmt3b is required for directing DNA methylation to the major satellite repeats at pericentric heterochromatin. Mol Cell Biol 24: 9048-9058.
45. Ge YZ, Pu MT, Gowher H, Wu HP, Ding JP, et al. (2004) Chromatin targeting of de novo DNA methyltransferases by the PWWP domain. J Biol Chem 279: 25447-25454.
46. Li JY, Pu MT, Hirasawa R, Li BZ, Huang YN, et al. (2007) Synergistic function of DNA methyltransferases Dnmt3a and Dnmt3b in the methylation of Oct4 and Nanog. Mol Cell Biol 27: 8748-8759.
47. Jessell TM, (2000) Neuronal specification in the spinal cord: inductive signals and transcriptional codes. Nat Rev Genet 1: 20-29.
48. Stremenova J, Krepela E, Mares V, Trim J, Dbaly V, et al. (2007) Expression and enzymatic activity of dipeptidyl peptidase-IV in human astrocytic tumours are associated with tumour grade. Int J Oncol 31: 785-792.
49. Sedo A, Krepela E, Kasafirek E, Kraml J, Kadlecova L, (1991) Dipeptidyl peptidase IV in the human lung and spinocellular lung cancer. Physiol Res 40: 359-362.
50. Du J, Fan Z, Ma X, Gao Y, Wu Y, et al. (2011) Expression of Dpp6 in mouse embryonic craniofacial development. Acta Histochem 113: 636-639.