Novel biosensing methodologies for improving the detection of single nucleotide polymorphism

Biosensors and Bioelectronics

Volumn 66, Issue , 2015, Pages 297-307

  Chang, Kai ^a   Deng, Shaoli ^a   Chen, Ming ^a  

^a THIRD MILITARY MEDICAL UNIVERSITY   (China)

Author keywords

Biosensor; Detection; Oligonucleotide; Single nucleotide polymorphism

Indexed keywords

BIOSENSORS; COST EFFECTIVENESS; DIAGNOSIS; ERROR DETECTION; NUCLEIC ACIDS; OLIGONUCLEOTIDES; SURFACE REACTIONS;

BIOLOGICAL REACTION; BIOSENSING TECHNIQUE; COST-EFFECTIVE METHODS; DISPLACEMENT AMPLIFICATION; LIGATION REACTIONS; ROLLING CIRCLE AMPLIFICATIONS; SINGLE NUCLEOTIDE POLYMORPHISMS; SINGLE-BASE EXTENSIONS;

DISEASES;

BASE MISPAIRING; BIOCHEMISTRY; BIOSENSOR; COST EFFECTIVENESS ANALYSIS; DNA HYBRIDIZATION; DNA PROBE; DNA SEQUENCE; ELECTROCHEMICAL ANALYSIS; GENOTYPING TECHNIQUE; LOOP MEDIATED ISOTHERMAL AMPLIFICATION; MICROARRAY ANALYSIS; MOLECULAR BEACON; NANOPORE; NONHUMAN; REPRODUCIBILITY; REVIEW; SENSITIVITY ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; ANIMAL; GENETIC PROCEDURES; HUMAN; NUCLEIC ACID AMPLIFICATION; PROCEDURES;

ANIMALS; BIOSENSING TECHNIQUES; GENOTYPING TECHNIQUES; HUMANS; NUCLEIC ACID AMPLIFICATION TECHNIQUES; POLYMORPHISM, SINGLE NUCLEOTIDE; SEQUENCE ANALYSIS, DNA;

EID: 84912017599     PISSN: 09565663     EISSN: 18734235     Source Type: Journal    
DOI: 10.1016/j.bios.2014.11.041     Document Type: Review

References (111)

1. Barreiro L.B., Henriques R., Mhlanga M.M. Methods Mol. Biol. 2009, 578:255-276.
2. Beaudet L., Bedard J., Breton B., Mercuri R.J., Budarf M.L. Genome Res. 2001, 11(4):600-608.
3. Bohunicky B., Mousa S.A. Nanotechnol. Sci. Appl. 2010, 4:1-10.
4. Briones C., Moreno M. Anal. Bioanal. Chem. 2012, 402(10):3071-3089.
5. Buermeyer A.B., Deschenes S.M., Baker S.M., Liskay R.M. Annu. Rev. Genet. 1999, 33:533-564.
6. Chang K., Wang F., Ding Y., Pan F., Li F., Jia S., Lu W., Deng S., Shi J., Chen M. Biosens. Bioelectron 2014, 54:151-157.
7. Chen H., Liu X.J., Liu Y.L., Jiang J.H., Shen G.L., Yu R.Q. Biosens. Bioelectron. 2009, 24(7):1955-1961.
8. Chen M., Liu M., Yu L., Cai G., Chen Q., Wu R., Wang F., Zhang B., Jiang T., Fu W. J. Nanosci. Nanotechnol. 2005, 5(8):1266-1272.
9. Chen X.J., Ying A., Gao Z.Q. Biosens. Bioelectron. 2012, 36(1):89-94.
10. Cheng W., Zhang W., Yan Y., Shen B., Zhu D., Lei P., Ding S. Biosens. Bioelectron. 2014, 62:274-279.
11. Cho M., Chung S., Heo S.D., Ku J., Ban C. Biosens. Bioelectron. 2007, 22(7):1376-1381.
12. Collins F.S., Brooks L.D., Chakravarti A. Genome Res. 1998, 8(12):1229-1231.
13. Collins F.S., Guyer M.S., Charkravarti A. Science 1997, 278(5343):1580-1581.
14. Demidov V.V., Protozanova E., Izvolsky K.I., Price C., Nielsen P.E., Frank-Kamenetskii M.D. Proc. Natl. Acad. Sci. U. S. A. 2002, 99(9):5953-5958.
15. Deulvot C., Charrel H., Marty A., Jacquin F., Donnadieu C., Lejeune-Henaut I., Burstin J., Aubert G. BMC Genomics 2010, 11:468.
16. Ding C., Jin S. Methods Mol. Biol. 2009, 578:245-254.
17. Eckert C., Holscher E., Petit A., Lalande V., Barbut F. J. Clin. Microbiol. 2014, 52(7):2386-2389.
18. Elenis D.S., Ioannou P.C., Christopoulos T.K. Nanotechnology 2011, 22(15):155501.
19. Endo T., Kerman K., Nagatani N., Takamura Y., Tamiya E. Anal. Chem. 2005, 77(21):6976-6984.
20. Fanget A., Traversi F., Khlybov S., Granjon P., Magrez A., Forro L., Radenovic A. Nano Lett. 2014, 14(1):244-249.
21. Fracchiolla N.S., Artuso S., Cortelezzi A. Sensors 2013, 13(5):6423-6447.
22. Fujii K., Matsubara Y., Akanuma J., Takahashi K., Kure S., Suzuki Y., Imaizumi M., Iinuma K., Sakatsume O., Rinaldo P., Narisawa K. Hum. Mutat. 2000, 15(2):189-196.
23. Gao F., Lei J., Ju H. Anal. Chem. 2013, 85(24):11788-11793.
24. Gao F., Zhu Z., Lei J., Geng Y., Ju H. Biosens. Bioelectron. 2013, 39(1):199-203.
25. Gao Z.F., Ling Y., Lu L., Chen N.Y., Luo H.Q., Li N.B. Anal. Chem. 2014, 86(5):2543-2548.
26. Gotoh M., Hasebe M., Ohira T., Hasegawa Y., Shinohara Y., Sota H., Nakao J., Tosu M. Genet. Anal. 1997, 14(2):47-50.
27. Han A., Takarada T., Shibata T., Nakayama M., Maeda M. Anal. Sci. 2006, 22(5):663-666.
28. Hashimoto M., Barany F., Soper S.A. Biosens. Bioelectron. 2006, 21(10):1915-1923.
29. Hatch A., Sano T., Misasi J., Smith C.L. Genet. Anal 1999, 15(2):35-40.
30. He X., Ma N. Anal. Chem. 2014, 86(7):3676-3681.
31. He Y., Zeng K., Gurung A.S., Baloda M., Xu H., Zhang X., Liu G. Anal. Chem. 2010, 82(17):7169-7177.
32. Ho S.L., Chan H.M., Wong R.N., Li H.W. Anal. Chim. Acta 2014, 823:61-68.
33. Hood L., Heath J.R., Phelps M.E., Lin B. Science 2004, 306(5696):640-643.
34. Hsieh P. Mutat. Res. 2001, 486(2):71-87.
35. Hu Q., Hu W., Kong J., Zhang X. Biosens. Bioelectron. 2015, 63:269-275.
36. Hu Y., Xu X., Liu Q., Wang L., Lin Z., Chen G. Anal. Chem. 2014, 86(17):8785-8790.
37. Huang K., Marti A.A. Anal. Bioanal. Chem. 2012, 402(10):3091-3102.
38. Ito T., Hosokawa K., Maeda M. Biosens. Bioelectron. 2007, 22(8):1816-1819.
39. Jorde L.B. Genome Res. 2000, 10(10):1435-1444.
40. Kang T., Kim H., Lee J.M., Lee H., Choi Y.S., Kang G., Seo M.K., Chung B.H., Jung Y., Kim B. Small 2014, 10(20):4200-4206. (10.1002/smll.201400164).
41. Kim K.H., Nielsen P.E., Glazer P.M. Nucl. Acids Res. 2007, 35(22):7604-7613.
42. Kim S., Misra A. Annu. Rev. Biomed. Eng. 2007, 9:289-320.
43. Knez K., Spasic D., Delport F., Lammertyn J. Biosens. Bioelectron. 2014, (10.1016/j.bios.2014.08.067i).
44. Koshkin N.P., Meldgaard M., Rajwanshi V.K., Singh S.K., Wengel J. J. Am. Chem. Soc. 1998, 120(50):13252-13253.
45. Koshkin R.V., Wengel J. Tetrahedron Lett. 1998, 39(24):4381-4384.
46. Lahue R.S., Au K.G., Modrich P. Science 1989, 245(4914):160-164.
47. Lamers M.H., Perrakis A., Enzlin J.H., Winterwerp H.H., de Wind N., Sixma T.K. Nature 2000, 407(6805):711-717.
48. Landegren U., Kaiser R., Sanders J., Hood L. Science 1988, 241(4869):1077-1080.
49. Laszlo A.H., Derrington I.M., Ross B.C., Brinkerhoff H., Adey A., Nova I.C., Craig J.M., Langford K.W., Samson J.M., Daza R., Doering K., Shendure J., Gundlach J.H. Nat. Biotechnol. 2014, 32(8):829-833.
50. Lee J.S., Anvret M. Proc. Natl. Acad. Sci. U. S. A. 1991, 88(23):10912-10915.
51. Li Y., Yan Y., Lei Y., Zhao D., Yuan T., Zhang D., Cheng W., Ding S. Colloids Surf. B Biointerfaces 2014, 120:15-20.
52. Li Y., Zhou X., Ye D. Biochem. Biophys. Res. Commun. 2008, 373(4):457-461.
53. Lillis L., Lehman D., Singhal M.C., Cantera J., Singleton J., Labarre P., Toyama A., Piepenburg O., Parker M., Wood R., Overbaugh J., Boyle D.S. PLoS One. 2014, 9(9):e108189.
54. Liu G., Lao R.J., Xu L., Xu Q., Li L.Y., Zhang M., Song S.P., Fan C.H. Biosens. Bioelectron. 2013, 42:516-521.
55. Lizardi P.M., Huang X., Zhu Z., Bray-Ward P., Thomas D.C., Ward D.C. Nat. Genet. 1998, 19(3):225-232.
56. Lohse J., Dahl O., Nielsen P.E. Proc. Natl. Acad. Sci. U. S. A. 1999, 96(21):11804-11808.
57. Long F., Zhu A.N., Shi H.C. Sensors 2013, 13(10):13928-13948.
58. Luo M., Li N., Liu Y., Chen C., Xiang X., Ji X., He Z. Biosens. Bioelectron. 2014, 55:318-323.
59. Mao X., Jiang J., Xu X., Chu X., Luo Y., Shen G., Yu R. Biosens. Bioelectron. 2008, 23(10):1555-1561.
60. Mehrvar M., Abdi M. Anal. Sci. 2004, 20(8):1113-1126.
61. Millis M.P. Methods Mol. Biol. 2011, 700:61-76.
62. Monošík R.S., M., Šturdík E. Acta Chim. Slovaca 2012, 5:109-120.
63. Murugaiyan S.B., Ramasamy R., Gopal N., Kuzhandaivelu V. Adv. Biomed. Res. 2014, 3:67.
64. Nakahara T., Zhang Q.M., Hashiguchi K., Yonei S. Nucl. Acids Res. 2000, 28(13):2551-2556.
65. Newman J.D., Setford S.J. Mol. Biotechnol. 2006, 32(3):249-268.
66. Nguyen A.H., Sim S.J. Biosens. Bioelectron. 2014, (10.1016/ j.bios.2014.09.003).
67. Nielsen C.B., Singh S.K., Wengel J., Jacobsen J.P. J. Biomol. Struct. Dyn. 1999, 17(2):175-191.
68. Nielsen P.E., Egholm M., Berg R.H., Buchardt O. Science 1991, 254(5037):1497-1500.
69. Nilsson M., Malmgren H., Samiotaki M., Kwiatkowski M., Chowdhary B.P., Landegren U. Science 1994, 265(5181):2085-2088.
70. Obika S N.D., Hari Y., Morio K.-i, In Y., Ishida T., Imanishi T. Tetrahedron Lett. 1997, 38(50):8735-8738.
71. Orum H., Jakobsen M.H., Koch T., Vuust J., Borre M.B. Clin. Chem. 1999, 45(11):1898-1905.
72. Patolsky F., Lichtenstein A., Willner I. Nat. Biotechnol. 2001, 19(3):253-257.
73. Protozanova E., Demidov V.V., Nielsen P.E., Frank-Kamenetskii M.D. Nucl. Acids Res. 2003, 31(14):3929-3935.
74. Ratilainen T., Holmen A., Tuite E., Nielsen P.E., Norden B. Biochemistry 2000, 39(26):7781-7791.
75. Riccelli P.V., Merante F., Leung K.T., Bortolin S., Zastawny R.L., Janeczko R., Benight A.S. Nucl. Acids Res. 2001, 29(4):996-1004.
76. Russom A., Haasl S., Brookes A.J., Andersson H., Stemme G. Anal. Chem. 2006, 78(7):2220-2225.
77. Sachidanandam R., Weissman D., Schmidt S.C., Kakol J.M., Stein L.D., Marth G., Sherry S., Mullikin J.C., Mortimore B.J., Willey D.L., Hunt S.E., Cole C.G., Coggill P.C., Rice C.M., Ning Z., Rogers J., Bentley D.R., Kwok P.Y., Mardis E.R., Yeh R.T., Schultz B., Cook L., Davenport R., Dante M., Fulton L., Hillier L., Waterston R.H., McPherson J.D., Gilman B., Schaffner S., Van Etten W.J., Reich D., Higgins J., Daly M.J., Blumenstiel B., Baldwin J., Stange-Thomann N., Zody M.C., Linton L., Lander E.S., Altshuler D. Nature 2001, 409(6822):928-933.
78. Salimullah M., Hamano K., Tachibana M., Inoue K., Nishigaki K. Cell Mol. Biol. Lett. 2005, 10(2):237-245.
79. Shan Q., Zheng Y.L., Chen G.Q., Zheng G.H., Lu J., Lv X.J. Clin. Chim. Acta 2009, 409(1-2):11-17.
80. Shankaran D.R., Gobi K.V.A., Miura N. Sens. Actuators B: Chem 2007, 121(1):158-177.
81. Sokolov B.P. Nucl. Acids Res. 1990, 18(12):3671.
82. Song J.Y., Park H.G., Jung S.O., Park J. Nucl. Acids Res. 2005, 33(2):e19.
83. Song Y.K., Zhang Y., Wang T.H. Small 2013, 9(7):1096-1105.
84. Stanislawska-Sachadyn A., Sachadyn P. Acta Biochim. Pol. 2005, 52(3):575-583.
85. Su Q., Xing D., Zhou X.M. Biosens. Bioelectron. 2010, 25(7):1615-1621.
86. Su X.D., Robelek R., Wu Y.J., Wang G.Y., Knoll W. Anal. Chem. 2004, 76(2):489-494.
87. Syvanen A.C. Nat. Rev. Genet. 2001, 2(12):930-942.
88. Tahira T., Kukita Y., Higasa K., Okazaki Y., Yoshinaga A., Hayashi K. Methods Mol. Biol. 2009, 578:193-207.
89. Thevenot D.R., Toth K., Durst R.A., Wilson G.S. Biosens. Bioelectron. 2001, 16(1-2):121-131.
90. Turner A.P. Chem. Soc. Rev. 2013, 42(8):3184-3196.
91. Tyagi S., Kramer F.R. Nat. Biotechnol. 1996, 14(3):303-308.
92. Wagner R., Debbie P., Radman M. Nucl. Acids Res. 1995, 23(19):3944-3948.
93. Walker G.T. PCR Methods Appl. 1993, 3(1):1-6.
94. Walker G.T., Little M.C., Nadeau J.G., Shank D.D. Proc. Natl. Acad. Sci. U. S. A. 1992, 89(1):392-396.
95. Wang C., Zhou H., Zhu W., Li H., Jiang J., Shen G., Yu R. Biosens. Bioelectron. 2013, 47:324-328.
96. Wang J., Nielsen P.E., Jiang M., Cai X., Fernandes J.R., Grant D.H., Ozsoz M., Beglieter A., Mowat M. Anal. Chem. 1997, 69(24):5200-5202.
97. Wang K., Sun Z., Feng M., Liu A., Yang S., Chen Y., Lin X. Biosens. Bioelectron. 2011, 26(6):2870-2876.
98. Wang Q., Yang C., Xiang Y., Yuan R., Chai Y. Biosens. Bioelectron. 2014, 55:266-271.
99. Wang Y., Chen M., Zhang L., Ding Y., Luo Y., Xu Q., Shi J., Cao L., Fu W. Biosens. Bioelectron. 2009, 24(12):3455-3460.
100. Whitehouse A., Deeble J., Parmar R., Taylor G.R., Markham A.F., Meredith D.M. Biochem. Biophys. Res. Commun. 1997, 233(3):834-837.
101. Wittung P., Nielsen P.E., Buchardt O., Egholm M., Norden B. Nature 1994, 368(6471):561-563.
102. Xiang D.S., Zhai K., Wang L.Z. Analyst 2013, 138(18):5318-5324.
103. Xiang Y., Deng K., Xia H., Yao C.Y., Chen Q.H., Zhang L.Q., Liu Z.Y., Fu W.L. Biosens. Bioelectron. 2013, 49:442-449.
104. Xiao Z., Lie P., Fang Z., Yu L., Chen J., Liu J., Ge C., Zhou X., Zeng L. Chem. Commun. 2012, 48(68):8547-8549.
105. Xu Q., Chang K., Lu W., Chen W., Ding Y., Jia S., Zhang K., Li F., Shi J., Cao L., Deng S., Chen M. Biosens. Bioelectron. 2012, 33(1):274-278.
106. Yin H., Huang X., Ma W., Xu L., Zhu S., Kuang H., Xu C. Biosens. Bioelectron. 2014, 52:8-12.
107. Zhang H.R., Xu J.J., Chen H.Y. Anal. Chem. 2013, 85(11):5321-5325.
108. Zhang L., Wang Y., Wang J., Shi J., Deng K., Fu W. Biosens. Bioelectron. 2013, 50:217-223.
109. Zhang L.R., Zhu G., Zhang C.Y. Anal. Chem. 2014, 86(13):6703-6709.
110. Zhang S.B., Wu Z.S., Shen G.L., Yu R.Q. Biosens. Bioelectron. 2009, 24(11):3201-3207.
111. Zhi X., Deng M., Yang H., Gao G., Wang K., Fu H., Zhang Y., Chen D., Cui D. Biosens. Bioelectron. 2014, 54:372-377.