G-quadruplex functionalized nano mesoporous silica for assay of the DNA methyltransferase activity

Analytica Chimica Acta

Volumn 879, Issue , 2015, Pages 34-40

  Liu, Pei ^a   Pang, Junling ^a   Yin, Huanshun ^a   Ai, Shiyun ^a  

^a SHANDONG AGRICULTURAL UNIVERSITY   (China)

Author keywords

Differential pulse voltammetry; DNA methylation; Methylene blue; Nano mesoporous silica

Indexed keywords

ALKYLATION; AROMATIC COMPOUNDS; ELECTRODES; GOLD NANOPARTICLES; MESOPOROUS MATERIALS; METHYLATION; PROBES; SILICA; VOLTAMMETRY;

DIFFERENTIAL PULSE VOLTAMMETRY; DNA METHYLATION; DNA METHYLTRANSFERASES; GLASS CARBON ELECTRODES; METHYLENE BLUE; NANO-MESOPOROUS; PHOSPHATE BUFFER SOLUTIONS; RESTRICTION ENDONUCLEASES;

DNA;

DNA; DNA METHYLTRANSFERASE; ENDONUCLEASE; GOLD NANOPARTICLE; GUANINE QUADRUPLEX; MESOPOROUS SILICA NANOSPHERE; METHYLENE BLUE; NANOSPHERE; PHOSPHATE BUFFERED SALINE; SILICON DIOXIDE; UNCLASSIFIED DRUG; ZEBULARINE; CYTIDINE; DNA (CYTOSINE 5) METHYLTRANSFERASE; DNA MODIFICATION METHYLASE SSSI; PYRIMIDIN-2-ONE BETA-RIBOFURANOSIDE;

ARTICLE; CONTROLLED STUDY; DIFFERENTIAL PULSE VOLTAMMETRY; DNA HYBRIDIZATION; DNA METHYLATION; DNA PROBE; ELECTRODE; ENZYME ACTIVITY; ENZYME ANALYSIS; GLASS CARBON ELECTRODE; LIMIT OF DETECTION; PRIORITY JOURNAL; ANALOGS AND DERIVATIVES; ANTAGONISTS AND INHIBITORS; CHEMISTRY; ELECTROCHEMICAL ANALYSIS; ENZYME ASSAY; EVALUATION STUDY; GENETIC PROCEDURES; HUMAN; METABOLISM; POROSITY; PROCEDURES;

BIOSENSING TECHNIQUES; CYTIDINE; DNA METHYLATION; DNA-CYTOSINE METHYLASES; ELECTROCHEMICAL TECHNIQUES; ENZYME ASSAYS; G-QUADRUPLEXES; HUMANS; LIMIT OF DETECTION; METHYLENE BLUE; POROSITY; SILICON DIOXIDE;

EID: 84929951266     PISSN: 00032670     EISSN: 18734324     Source Type: Journal    
DOI: 10.1016/j.aca.2015.04.023     Document Type: Article

References (50)

1. Jeltsch A., Jurkowska R.Z., Jurkowski T.P., Liebert K., Rathert P., Schlickenrieder M. Application of DNA methyltransferases in targeted DNA methylation. Appl. Microbiol. Biotechnol. 2007, 75:1233-1240.
2. Choy J.S., Wei S., Lee J.Y., Tan S., Chu S., Lee T.-H. DNA methylation increases nucleosome compaction and rigidity. J. Am. Chem. Soc. 2010, 132:1782-1783.
3. Scholten S. Genomic imprinting in plant embryos. Epigenetics 2010, 5:455-459.
4. Harris G. Molecular Biology of DNA Methylation 1987, Wiley Online Library.
5. Cao X., Jacobsen S.E. Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc. Natl. Acad. Sci. 2002, 99:16491-16498.
6. Frigola J., Song J., Stirzaker C., Hinshelwood R.A., Peinado M.A., Clark S.J. Epigenetic remodeling in colorectal cancer results in coordinate gene suppression across an entire chromosome band. Nat. Genet. 2006, 38:540-549.
7. Brandes J.C., van Engeland M., Wouters K.A., Weijenberg M.P., Herman J.G. CHFR promoter hypermethylation in colon cancer correlates with the microsatellite instability phenotype. Carcinogenesis 2005, 26:1152-1156.
8. Yang A.S., Estécio M.R., Doshi K., Kondo Y., Tajara E.H., Issa J.P.J. A simple method for estimating global DNA methylation using bisulfite PCR of repetitive DNA elements. Nucleic Acids Res. 2004, 32. e38-e38.
9. Brena R.M., Auer H., Kornacker K., Hackanson B., Raval A., Byrd J.C., Plass C. Accurate quantification of DNA methylation using combined bisulfite restriction analysis coupled with the Agilent 2100 Bioanalyzer platform. Nucleic Acids Res. 2006, 34. e17-e17.
10. Le D.-V., Zhou D.-M., Tang L.-J., Jiang J.-H., Yu R.-Q., Wang Y.-Z. Target-mediated consecutive endonuclease reactions for specific and sensitive homogeneous fluorescence assay of O6-methylguanine-DNA methyltransferase. Anal. Chim. Acta 2013, 804:252-257.
11. Liu W., Lai H., Huang R., Zhao C., Wang Y., Weng X., Zhou X. DNA methyltransferase activity detection based on fluorescent silver nanocluster hairpin-shaped DNA probe with 5'-C-rich/G-rich-3'tails. Biosens. Bioelectron. 2015, 68:736-740.
12. Dahl C., Guldberg P. DNA methylation analysis techniques. Biogerontology 2003, 4:233-250.
13. Kurita R., Yanagisawa H., Yoshioka K., Niwa O. Site-specific immunochemical methylation assessment from genome DNA utilizing a conformational difference between looped-out target and stacked-in nontarget methylcytosines. Biosens. Bioelectron. 2015, 70:366-371.
14. Yu Y., Blair S., Gillespie D., Jensen R., Myszka D., Badran A.H., Ghosh I., Chagovetz A. Direct DNA methylation profiling using methyl binding domain proteins. Anal. Chem. 2010, 82:5012-5019.
15. Su J., He X., Wang Y., Wang K., Chen Z., Yan G. A sensitive signal-on assay for MTase activity based on methylation-responsive hairpin-capture DNA probe. Biosens. Bioelectron. 2012, 36:123-128.
16. Su F., Wang L., Sun Y., Liu C., Duan X., Li Z. Highly sensitive detection of CpG methylation in genomic DNA by AuNP-based colorimetric assay with ligase chain reaction. Chem. Commun. 2015, 51:3371-3374.
17. Lopez Torres A., Yanez Barrientos E., Wrobel K., Wrobel K. Selective derivatization of cytosine and methylcytosine moieties with 2-bromoacetophenone for submicrogram DNA methylation analysis by reversed phase HPLC with spectrofluorimetric detection. Anal. Chem. 2011, 83:7999-8005.
18. Johnston J.W., Harding K., Bremner D.H., Souch G., Green J., Lynch P.T., Grout B., Benson E.E. HPLC analysis of plant DNA methylation: a study of critical methodological factors. Plant Physiol. Biochem. 2005, 43:844-853.
19. Xu Z., Yin H., Han Y., Zhou Y., Ai S. DNA-based hybridization chain reaction amplification for assaying the effect of environmental phenolic hormone on DNA methyltransferase activity. Anal. Chim. Acta 2014, 829:9-14.
20. Meng X., Xu Z., Wang M., Yin H., Ai S. Direct determination of 5-methylcytosine based on electrochemical activation of surfactant functionalized graphene modified pyrolytic graphite electrode. Electrochim. Acta 2013, 95:200-204.
21. Li W., Wu P., Zhang H., Cai C. Signal amplification of graphene oxide combining with restriction endonuclease for site-specific determination of DNA methylation and assay of methyltransferase activity. Anal. Chem. 2012, 84:7583-7590.
22. R.J. Walsh, Process For Producing Hollow Spheres, Google Patents, 1964.
23. Huh S., Chen H.T., Wiench J.W., Pruski M., Lin V.S.Y. Cooperative catalysis by general acid and base bifunctionalized mesoporous silica nanospheres. Angew. Chem. Int. Ed. 2005, 44:1826-1830.
24. Huh S., Chen H.-T., Wiench J.W., Pruski M., Lin V.S.-Y. Controlling the selectivity of competitive nitroaldol condensation by using a bifunctionalized mesoporous silica nanosphere-based catalytic system. J. Am. Chem. Soc. 2004, 126:1010-1011.
25. Radu D.R., Lai C.-Y., Jeftinija K., Rowe E.W., Jeftinija S., Lin V.S.-Y. A polyamidoamine dendrimer-capped mesoporous silica nanosphere-based gene transfection reagent. J. Am. Chem. Soc. 2004, 126:13216-13217.
26. Trewyn B.G., Nieweg J.A., Zhao Y., Lin V.S.-Y. Biocompatible mesoporous silica nanoparticles with different morphologies for animal cell membrane penetration. Chem. Eng. J. 2008, 137:23-29.
27. Pu F., Liu Z., Ren J., Qu X. Nucleic acid-mesoporous silica nanoparticle conjugates for keypad lock security operation. Chem. Commun. (Camb.) 2013, 49:2305-2307.
28. Chen C., Pu F., Huang Z., Liu Z., Ren J., Qu X. Stimuli-responsive controlled-release system using quadruplex DNA-capped silica nanocontainers. Nucleic Acids Res. 2011, 39:1638-1644.
29. Davis J.T. G-quartets 40 years later: from 5'-GMP to molecular biology and supramolecular chemistry. Angew. Chem. Int. Ed. 2004, 43:668-698.
30. +-induced folding of models of human telomeric DNA into G-quadruplex structures. Nucleic Acids Res. 2008, 36:4191-4203.
31. Yan Y.Y., Tan J.H., Lu Y.J., Yan S.C., Wong K.Y., Li D., Gu L.Q., Huang Z.S. G-quadruplex conformational change driven by pH variation with potential application as a nanoswitch. Biochim. Biophys. Acta 2013, 1830:4935-4942.
32. Tada M., Imazeki F., Fukai K., Sakamoto A., Arai M., Mikata R., Tokuhisa T., Yokosuka O. Procaine inhibits the proliferation and DNA methylation in human hepatoma cells. Hepatol. Int. 2007, 1:355-364.
33. Fini L., Selgrad M., Fogliano V., Graziani G., Romano M., Hotchkiss E., Daoud Y.A., Edward B., Boland C.R., Ricciardiello L. Annurca apple polyphenols have potent demethylating activity and can reactivate silenced tumor suppressor genes in colorectal cancer cells. Br. J. Nutr. NLM 2007, 137:2622-2628.
34. Christman J.K. 5-Azacytidine and 5-aza-2'-deoxycytidine as inhibitors of DNA methylation: mechanistic studies and their implications for cancer therapy. Oncogene 2002, 21:5483-5495.
35. Cheng J.C., Matsen C.B., Gonzales F.A., Ye W., Greer S., Marquez V.E., Jones P.A., Selker E.U. Inhibition of DNA methylation and reactivation of silenced genes by zebularine. J. Natl. Cancer Inst. 2003, 95:399-409.
36. Wang M., Xu Z., Chen L., Yin H., Ai S. Electrochemical immunosensing platform for DNA methyltransferase activity analysis and inhibitor screening. Anal. Chem. 2012, 84:9072-9078.
37. Zheng Q., Lin T., Wu H., Guo L., Ye P., Hao Y., Guo Q., Jiang J., Fu F., Chen G. Mussel-inspired polydopamine coated mesoporous silica nanoparticles as pH-sensitive nanocarriers for controlled release. Int. J. Pharm. 2014, 463:22-26.
38. Liu T., Zhao J., Zhang D., Li G. Novel method to detect DNA methylation using gold nanoparticles coupled with enzyme-linkage reactions. Anal. Chem. 2010, 82:229-233.
39. Esteller M., Fraga M.F., Guo M., Garcia-Foncillas J., Hedenfalk I., Godwin A.K., Trojan J., Vaurs-Barrière C., Bignon Y.-J., Ramus S. DNA methylation patterns in hereditary human cancers mimic sporadic tumorigenesis. Hum. Mol. Genet. 2001, 10:3001-3007.
40. Ehrlich M. Expression of various genes is controlled by DNA methylation during mammalian development. J. Cell. Biochem. 2003, 88:899-910.
41. Chen M., Shabashvili D., Nawab A., Yang S.X., Dyer L.M., Brown K.D., Hollingshead M., Hunter K.W., Kaye F.J., Hochwald S.N. DNA methyltransferase inhibitor, zebularine, delays tumor growth and induces apoptosis in a genetically engineered mouse model of breast cancer. Mol. Cancer Ther. 2012, 11:370-382.
42. Tan W., Zhou W., Yu H.-G., Luo H.-S., Shen L. The DNA methyltransferase inhibitor zebularine induces mitochondria-mediated apoptosis in gastric cancer cells in vitro and in vivo. Biochem. Biophys. Res. Commun. 2013, 430:250-255.
43. Li J., Yan H., Wang K., Tan W., Zhou X. Hairpin fluorescence DNA probe for real-time monitoring of DNA methylation. Anal. Chem. 2007, 79:1050-1056.
44. Liu T., Zhao J., Zhang D., Li G. Novel method to detect DNA methylation using gold nanoparticles coupled with enzyme-linkage reactions. Anal. Chem. 2009, 82:229-233.
45. Song G., Chen C., Ren J., Qu X. A simple, universal colorimetric assay for endonuclease/methyltransferase activity and inhibition based on an enzyme-responsive nanoparticle system. ACS Nano 2009, 3:1183-1189.
46. Li W., Liu Z., Lin H., Nie Z., Chen J., Xu X., Yao S. Label-free colorimetric assay for methyltransferase activity based on a novel methylation-responsive DNAzyme strategy. Anal. Chem. 2010, 82:1935-1941.
47. Wang G.L., Zhou L.Y., Luo H.Q., Li N.B. Electrochemical strategy for sensing DNA methylation and DNA methyltransferase activity. Anal. Chim. Acta 2013, 768:76-81.
48. Baek S., Won B.Y., Park K.S., Park H.G. An electrochemical one-step system for assaying methyltransferase activity based on transport of a quantum dot signaling tracer. Biosens. Bioelectron. 2013, 49:542-546.
49. Zhou Y., Xu Z., Wang M., Sun B., Yin H., Ai S. DNA methyltransferase activity assay based on visible light-activated photoelectrochemical biosensor. Biosens. Bioelectron. 2014, 53:263-267.
50. Yang Z., Wang F., Wang M., Yin H., Ai S. A novel signal-on strategy for M. SssI methyltransfease activity analysis and inhibitor screening based on photoelectrochemical immunosensor. Biosens. Bioelectron. 2015, 66:109-114.