Recent trends in SELEX technique and its application to food safety monitoring

Microchimica Acta

Volumn 181, Issue 5-6, 2014, Pages 479-491

  Wu, Jingjing ^a   Zhu, Yingyue ^b   Xue, Feng ^a   Mei, Zhanlong ^a   Yao, Li ^a   Wang, Xin ^a   Zheng, Lei ^a   Liu, Jian ^a   Liu, Guodong ^c   Peng, Chifang ^d   Chen, Wei ^a  

^a HEFEI UNIVERSITY OF TECHNOLOGY   (China)

^b CHANGSHU INSTITUTE OF TECHNOLOGY   (China)

^c NORTH DAKOTA STATE UNIVERSITY   (United States)

^d JIANGNAN UNIVERSITY   (China)

Author keywords

Aptamer; Biosensor; Food safety; Rapid detection; SELEX

Indexed keywords

EID: 84897459283     PISSN: 00263672     EISSN: 14365073     Source Type: Journal    
DOI: 10.1007/s00604-013-1156-7     Document Type: Review

References (86)

1. Ellington AD, Szostak JW (1990) In vitro selection of RNA molecules that bind specific ligands. Nature 346: 818-822.
2. Tuerk C, Gold L (1990) Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249: 505-510.
3. 2+. RNA 1: 538-550.
4. Wilson C, Szostak JW (1998) Isolation of a fluorophore-specific DNA aptamer with weak redox activity. J Biol Chem 5: 609-617.
5. Yang Q, Goldstein IJ, Mei HY, Engelke DRX, Affiliations A (1998) DNA ligands that bind tightly and selectively to cellobiose. Proc Natl Acad Sci U S A 95: 5462-5467.
6. Famulok M, Huttenhofer A (1996) In vitro selection analysis of neomycin binding RNAs with a mutagenized pool of variants of the 16S rRNA decoding region. Biochemistry 35: 4265-4270.
7. 4+ T lymphocyte function. J Immunol 160: 5209-5212.
8. Fang XH, Tan WH (2010) Aptamers generated from cell-SELEX for molecular medicine: A chemical biology approach. Acc Chem Res 43: 48-57.
9. Mascini M, Palchetti I, Tombelli S (2010) Nucleic acid and peptide aptamers: Fundamentals and bioanalytical aspects. Angew Chem Int Ed 51: 1316-1332.
10. 2+ using aptamer-modified AuPd nanoalloy as probe. Plasmonics 5: 375-381.
11. 2+ sensors using hemin/G-quadruplexes and Au nanoparticles. Chem Eur J 17: 8904-8912.
12. Bonel L, Vidal JC, Duato P, Castillo JR (2011) An electrochemical competitive biosensor for ochratoxin A based on a DNA biotinylated aptamer. Biosens Bioelectron 26: 3254-3259.
13. Zhang JK, Zhang BB, Wu Y, Jia SR, Fan T, Zhang ZY, Zhang CZ (2010) Fast determination of the tetracyclines in milk samples by the aptamer biosensor. Analyst 135: 2706-2710.
14. Liang M, Liu R, Su RX, Qi W, Wang LB, He ZM (2012) Aptamer-based sensing technology towards food safety analysis. Progr Chem 24: 1378-1387.
15. Michaud M, Jourdan M, Ravelet C, Villet A, Ravel A, Grosset C, Peyrin E (2004) Immobilized DNA aptamers as target-specific chiral stationary phase for resolution of nucleoside and amino acid derivative enantiomers. Anal Chem 76: 1015-1020.
16. German I, Buchanan DD, Kennedy RT (1998) Aptamers as ligands in affinity probe capillary electrophoresis. Anal Chem 70: 4540-4545.
17. Dick LW Jr, McGown LB (2004) Aptamer-enhanced laser desorption/ionization for affinity mass spectrometry. Anal Chem 76: 3037-3041.
18. Tombelli S, Minunni M, Mascini M (2005) Analytical application of aptamers. Biosens Bioelectron 20: 2424-2434.
19. Mehta J, Rouah-Martin E, Dorst BV, Maes B, Herrebout W, Scippo ML, Dardenne F, Blust R, Robbens J (2012) Selection and characterization of PCB-binding DNA aptamers. Anal Chem 84: 1669-1676.
20. Stoltenburg R, Reinemann C, Strehlitz B (2007) SELEX-A (r) evolutionary method to generate high-affinity nucleic acid ligands. Biomol Eng 24: 381-403.
21. Cox JC, Ellington AD (2001) Automated selection of anti-protein aptamers. Bioorg Med Chem Lett 9: 2525-2531.
22. Charlton J, Kirschenheuter GP, Smith D (1997) Highly potent irreversible inhibitors of neutrophil elastase generated by selection from a randomized DNA-valine phosphonate library. Biochemistry 36: 3018-3026.
23. Zimmermann GR, Wick CL, Shields TP, Jenison RD, Pardi A (2000) Molecular interactions and metal binding in the theophylline-binding core of an RNA aptamer. RNA 6: 659-667.
24. Ellington AD, Szostak JW (1992) Selection in vitro of single-stranded DNA molecules that fold into specific ligand-binding structures. Nature 355: 850-852.
25. Daniels DA, Chen H, Hicke BJ, Swiderek KM, Gold L, Affiliations A (2003) A Tenascin-C aptamer identified by tumor cell SELEX: Systematic evolution of ligands by exponential enrichment. Proc Natl Acad Sci U S A 100: 15416-15421.
26. Mendonsa SD, Bowser MT (2004) In vitro evolution of functional DNA using capillary electrophoresis. J Am Chem Soc 126: 20-21.
27. Golden MC, Collins BD, Willis MC (2000) Diagnostic potential of Photo SELEX-evolved ssDNA aptamers. J Biotechnol 81: 167-178.
28. Niazi JH, Lee SJ, Kim YS, Gu MB (2007) ssDNA aptamers that selectively bind oxytetracycline. Bioorg Med Chem 16: 1261-1265.
29. Bruno JG, Kiel L (2002) Use of magnetic beads in selection and detection of biotoxin aptamers by electrochemiluminescence and enzymatic methods. Biotechniques 32: 178-183.
30. Tok JBH, Cho J, Rando J (2000) RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct. Nucleic Acids Res 28: 2902-2910.
31. Tuerk C, MacDougal S, Gold L (1992) RNA pseudoknots that inhibit human immunodeficiency virus type 1 reverse transcriptase. Proc Natl Acad Sci U S A 89: 6988-6992.
32. Boiziau C, Dausse E, Yurchenko L, Toulme JJ (1999) DNA aptamers selected against the HIV-1 trans-Activation-responsive RNA element form RNA-DNA kissing complexes. J Biol Chem 274: 12730-12737.
33. Bock LC, Griffin LC, Latham JA, Vermaas EH, Toole JJ (1992) Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature 355: 564-566.
34. Jo M, Ahn JY, Lee J, Lee S, Hong SW, Yoo JW, Kang J, Dua P, Lee DK, Hong S, King S (2011) Development of single-stranded DNA aptamers for specific bisphenol A detection. Oligonucleotides 21: 85-91.
35. Kim YS, Jung HS, Matsuura T, Lee HY, Kawai T, Gu MB (2007) Electrochemical detection of 17β-estradiol using DNA aptamer immobilized gold electrode chip. Biosens Bioelectron 22: 2525-2531.
36. Cruz-Aguado JA, Penner G (2008) Determination of ochratoxin A with a DNA aptamer. J Agric Food Chem 56: 10456-10561.
37. Chang TW, Blank M, Janardhanan P, Singh BR, Mello C, Blind M, Cai S (2010) In Vitro selection of RNA aptamers that inhibit the activity of type abotulinum neurotoxin. Biochem Biophys Res Commun 396: 854-860.
38. McKeague M, Bradley CR, Girolamo AD, Visconti A, Miller JD, DeRoser MC (2010) Screening and initial binding assessment of fumosin B-1 aptamers. Int J Mol Sci 11: 4864-4881.
39. NeoVentures Biotechnology Inc. (2013) Aptamer catalogue. http://neoventures. ca/aptamer -database/.
40. Tang JJ, Xie JW, Shao NS, Yan Y (2006) The DNA aptamers that specifically recognize ricin toxin are selected by two in vitro selection methods. Electrophoresis 27: 1303-1311.
41. Joshi R, Janagama H, Dwivedi HP, Senthil Kumar TMA, Jaykus LA, Schefers J, Sreevatsan S (2009) Characterization and application of DNA aptamers for the capture and detection of Salmonella enterica serovars. Mol Cell Probes 23: 20-28.
42. Stratis-Cullum DN, McMasters S, Pellegrino PM (2009) Evaluation of relative aptamer binding to campylobacter jejuni bacteria using affinity probe capillary electrophoresis. Anal Lett 42: 2389-2402.
43. Ohk SH, Koo OK, Sen T, Yamamoto CM, Bhunia AK (2010) Antibody-aptamer functionalized fibre-optic biosensor for specific detection of Listeria monocytogenes from food. J Appl Microbiol 109: 808-817.
44. Cao X, Li S, Chen L, Ding HM, Xu H, Huang YP, Li J, Liu NL, Cao WH, Zhu YJ, Shen BF, Shao NF (2009) Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureus. Nucleic Acids Res 37: 4621-4628.
45. Camille LAH, Zhang HQ, Guan LL, Li XF, Chris LX (2008) Selection of aptamers against live bacterial cells. Anal Chem 80: 7812-7819.
46. Kim J, Kim MY, Kim HS, Hah SS (2011) Binding of uranyl ion by a DNA aptamer attached to a solid support. Bioorg Med Chem Lett 21: 4020-4022.
47. 2+-DNA complexes inducing the aggregation of gold nanoparticles. Chem Commun 19: 2242-2244.
48. Liu CW, Huang CC, Chang HT (2009) Highly selective DNA-based sensor for lead (II) and mercury (II) Ions. Anal Chem 81: 2383-2387.
49. Berens C, Thain A, Schroeder R (2001) A tetracycline binding RNA aptamer. Bioorg Med Chem 9: 2549-2556.
50. Kwon M, Chun SM, Jeong S, Yu J (2001) In vitro selection of RNA against kanamycin B. Mol Cell 11: 303-311.
51. Stead SL, Ashwin H, Johnston BH, Dallas A, Kazakov SA, Tarbin JA, Sharman M, Kay J, Keely BJ (2010) A RNA-aptamer-based assay for the detection and analysis of malachite green and leucomalachite green residues in fish tissue. Anal Chem 82: 2652-2660.
52. Joeng CB, Niazi JH, Lee SJ, Gu MB (2009) ssDNA aptamers that recognize diclofenac and 2-anilinophenylacetic acid. Bioorg Med Chem 17: 5380-5387.
53. He J, Liu Y, Fan M, Liu X (2011) Isolation and identification of the DNA aptamer target to acetamiprid. J Agric Food Chem 59: 1582-1586.
54. Lato SM, Ellington AD (1996) Screening chemical libraries for nucleic acid binding drugs by in vitro selection a test case with lividomycin. Mol Divers 21: 103-110.
55. Situ C, Buijs J, Mooney MH, Buijs J (2010) Advances in surface plasmon resonance biosensor technology towards high-throughput, food-safety analysis. Trends Anal Chem 29: 1305-1315.
56. Vallejo-Cordoba B, Gonzalez-Cordova AF (2010) Capillary electrophoresis for the analysis of contaminants in emerging food safety issues and food traceability. Electrophoresis 31: 2154-2164.
57. Hernandez F, Portoles T, Pitarch E, López FJ (2011) Gas chromatography coupled to high-resolution time-of-flight mass spectrometry to analyze trace-level organic compounds in the environment, food safety and toxicology. Trends Anal Chem 30: 388-400.
58. Karoonuthaisiri N, Charlermroj R, Uawisetwathana U (2009) Development of antibody array for simultaneous detection of foodborne pathogens. Biosens Bioelectron 24: 1641-1648.
59. 2+ using glutathione functionalized gold nanoparticles. Appl Mater Interfaces 2: 1466-1470.
60. Wu LP, Zhao HW, Qin ZH, Zhao XY, Pu WD (2009) Highly selective Hg (II) ion detection based on linear blue-shift of the maximum absorption wavelength of silver nanoparticles. Biosens Bioelectron 24: 3153-3158.
61. 2+ detection based on acridine orange and aptamer-wrapped gold nanoparticles. J Mater Chem 22: 11479-11482.
62. Li T, Li B, Wang E, Dong S (2009) G-quadruplex-based DNAzyme for sensitive mercury detection with the naked eye. Chem Commun 24: 3551-3553.
63. Yang C, Lates V, Prieto-Simon B, Marty JL, Yang XR (2012) Aptamer-DNAzyme hairpins for biosensing of Ochratoxin A. Biosens Bioelectron 32: 208-212.
64. Yang C, Wang Y, Marty JL, Yang X (2011) Aptamer-based colorimetric biosensing of ochratoxin A using unmodified gold nanoparticles indicator. Biosens Bioelectron 26: 2724-2727.
65. Wang L, Ma WW, Chen W, Liu L, Ma W, Zhu YY, Xu LG, Kuang Y, Xu CY (2011) An aptamer-based chromatographic strip assay for sensitive toxin semi-quantitative detection. Biosens Bioelectron 26: 3059-3062.
66. Spahn CM, Prescott CD (1996) Throwing a spanner in the works: Antibiotics and the translation apparatus. Int J Mol Med 74: 423-439.
67. Jingbin W, Ndong M, Kai H, Matsuno K, Kayama F (2010) Placental transfer of melamine and its effects on rat dams and fetuses. Food Chem Toxicol 48: 1791-1795.
68. Song KM, Cho M, Jo H, Min K, Jeon SH, Kim T, Han MS, Ku JK, Ban C (2011) Gold nanoparticle based colorimetric detection of kanamycin using a DNA aptamer. Anal Biochem 415: 175-181.
69. Liang A, Zhou L, Qin H, Zhang Y, Quyang HX, Jiang ZY (2011) A highly sensitive aptamer-nanogold catalytic resonance scattering spectral assay for melamine. J Fluoresc 21: 1907-1912.
70. Babkina SS, Ulakhovich NA (2005) Complexing of heavy metals with DNA and new bioaffinity method of their determination based on amperometric DNA-based biosensor. Anal Chem 77: 1815-1824.
71. Xiao Y, Rowe AA, Plaxco KW (2007) Electrochemical detection of parts-per-billion lead via an electrode-bound DNAzyme assembly. J Am Chem Soc 129: 262-263.
72. Kim YJ, Kim YS, Niazi JH, Gu MB (2010) Electrochemical aptasensor for tetracycline detection. Bioprocess Biosyst Eng 33: 31-37.
73. 2+. Anal Methods 4: 1036-1040.
74. Kuang H, Chen W, Xu DH, Xu LG, Zhu YY, Liu LQ, Chu HQ, Peng CF, Xu CL, Zhu SF (2010) Fabricated aptamer-based electrochemical "signal-off" sensor of ochratoxin A. Biosens Bioelectron 26: 710-716.
75. Huang L, Wu JJ, Zheng L, Qian HS, Xue F, Wu YC, Pan DD, Adeloju SB, Chen W (2013) Rolling chain amplification (RCA) based signal enhanced electrochemical aptasensor for rapid and ultrasensitive detection of ochratoxin A. Analytical Chemistry online.
76. 2+ ions. Chem Commun 48: 1150-1152.
77. Li CL, Liu KT, Lin YW, Chang HT (2011) Fluorescence detection of lead (II) ions through their induced catalytic activity of DNAzymes. Anal Chem 83: 225-230.
78. Won-Bo S, Hyoyoung M, Hyo-Arm J, Jack AO, Duck-Hwa C, Kim M-G (2014) Chemiluminescence competitive aptamer assay for the detection of aflatoxin B1 in corn samples. Food Control 36: 30-35.
79. Sheng L, Ren J, Miao Y, Wang J, Wang E (2011) PVP-coated graphene oxide for selective determination of ochratoxin A via quenching fluorescence of free aptamer. Biosens Bioelectron 26: 3494-3499.
80. Wang LW, Chen W, Liu L, Ma W, Zhao Y, Zhu Y, Xu L, Kuang H, Xu CL (2011) Fluorescent strip sensor for rapid determination of toxins. Chem Commun 47: 1574-1576.
81. Xu WC, Lu Y (2010) Label-free fluorescent aptamer sensor based on regulation of malachite green fluorescence. Anal Chem 82: 574-578.
82. 2+-dependent DNAzyme and hemin/G-quadruplex as a label. Anal Chem 84: 3703-3709.
83. De-los-Santos-Álvarez N, Lobo-Castanón MJ, Miranda-Ordieres AJ, Tunón-Blanco P (2009) SPR sensing of small molecules with modified RNA aptamers: Detection of neomycin B. Biosens Bioelectron 24: 2547-2553.
84. Xu S (2012) Electromechanical biosensors for pathogen detection. Microchim Acta 178: 245-260.
85. Lee HJ, Kim BC, Kim KW, Kim YK, Kim J, Oh MK (2009) A sensitive method to detect Escherichia coli based on immunomagnetic separation and real-time PCR amplification of aptamers. Biosens Bioelectron 24: 3550-3555.
86. Liu GQ, Yu XF, Xue F, Chen W, Ye YK, Yang XJ, Lian YQ, Yan Y, Zong K (2012) Screening and preliminary application of a DNA aptamer for rapid detection of Salmonella O8. Microchim Acta 178: 237-244.