S1核酸酶介导的功能核酸生物传感器研究进展

doi:10.13560/j.cnki.biotech.bull.1985.2018-0387

摘要/Abstract

摘要： S1核酸酶是一种高度单链特异的核酸内切酶,在最适的酶催化反应条件下,降解单链DNA或RNA,产生带5'-磷酸的单核苷酸或寡核苷酸。对双链DNA、双链RNA和DNA-RNA杂交体相对不敏感。目前,基于S1核酸酶内切酶的活性,搭载不同的信号输出及扩增方式,已经构建了一系列的生物传感器,实现了对金属离子、单链核苷酸、氨基酸等物质的检测,还能应用于核酸反应体系的纯化,多元化基因文库的构建等方面。首先从结构、性质方面介绍了S1核酸酶,并对近年来基于S1核酸酶介导的、具有代表性的生物传感器的组建及应用情况进行了综述;然后主要根据所检测的靶物质不同,对S1核酸酶介导的各种传感器进行了分类介绍;最后分析了目前S1核酸酶的研究现状,并且对未来S1核酸酶介导的生物传感器的发展方向进行了展望。

关键词: S1核酸酶, 单链DNA, 荧光法, 生物传感器

Abstract: The S1 nuclease is a highly single-stranded and specific endonuclease that degrades single-stranded DNA or RNA under optimal enzymatic conditions to produce single nucleotides or oligonucleotides with 5'-phosphate. It is relatively insensitive to double-stranded DNA,double-stranded RNA,and DNA-RNA hybrids. At present,based on the activity of S1 nuclease for carrying different signal outputs and amplification methods,a series of biosensors have been constructed to detect metal ions,single-stranded nucleotides,amino acids and other substances. Moreover,the S1 nuclease can be applied to the purification of nucleic acid reaction system,the construction of a multi-dimensional gene Library. In this paper,S1 nuclease is introduced from the aspects of structure to functions,and the representative biosensors mediated by S1 nuclease are summarized from the view of establishment and application. Then,based on the different target substances detected,various S1 nuclease-mediated sensors are classified and introduced. Finally,the current research status of S1 nucleases is analyzed,and the future development direction of S1 nuclease-mediated biosensors is prospected.

Key words: S1 nuclease, single-stranded DNA, fluorescence, biosensor

张媛, 田晶晶, 罗云波, 田洪涛, 许文涛. S1核酸酶介导的功能核酸生物传感器研究进展[J]. 生物技术通报, 2019, 35(1): 151-160.

ZHANG Yuan, TIAN Jing-jing, LUO Yun-bo, TIAN Hong-tao, XU Wen-tao. Research Progress on S1 Nuclease-mediated Functional Nucleic Acid Biosensors[J]. Biotechnology Bulletin, 2019, 35(1): 151-160.

参考文献

[1] Bănică FG, Fogg AG.Chemical sensors and biosensors:fundamentals and applications[M]. Wiley, 2012.
[2] Vogt VM.Purification and further properties of single-strand-specific nuclease from Aspergillus oryzae[J]. European Journal of Biochemistry, 1973, 33(1):192-200.
[3] Kovaľ T, Østergaard LH, Lehmbeck J, et al.Structural and catalytic properties of S1 nuclease from Aspergillus oryzae responsible for substrate recognition, cleavage, non-specificity, and inhibition[J]. PLoS One, 2016, 11(12):e0168832.
[4] Lieber MR.The FEN-1 family of structure-specific nucleases in eukaryotic DNA replication, recombination and repair[J]. Bioessays News & Reviews in Molecular Cellular & Developmental Biology, 1997, 19(3):233-240.
[5] West SC.Molecular views of recombination proteins and their control[J]. Nat rev mol cell biol, 2003, 4(6):435-445.
[6] Marti TM, Fleck O.DNA repair nucleases[J]. Cellular & Molecular Life Sciences Cmls, 2004, 61(3):336-354.
[7] Norberg P, Bergström T, Liljeqvist JA.Genotyping of clinical herpes simplex virus type 1 isolates by use of restriction enzymes[J]. Journal of Clinical Microbiology, 2006, 44(12):4511-4514.
[8] Grindley ND, Whiteson KL, Rice PA.Mechanisms of site-specific recombination[J]. Annual Review of Biochemistry, 2006, 75(75):567-605.
[9] Zhou Z, Zhu J, Zhang L, et al.G-quadruplex-based fluorescent assay of S1 nuclease activity and K+[J]. Anal Chem, 2013, 85(4):2431-2435.
[10] Li X, Xu B, Lu H, et al.label-free fluorescence turn-on detection of Pb²+ based on AIE-active quaternary ammonium salt of 9, 10-distyrylanthracene[J]. Analytical Methods, 2012, 5(2):438-441.
[11] Hun X, Chen H, Wang W.Design of ultrasensitive chemilumines-cence detection of Lysozyme in cancer cells based on nicking endonuclease signal amplification technology[J]. Biosens Bioelectron, 2010, 26(1):248-254.
[12] Zhao C, Wu L, Ren J, et al.A label-free fluorescent turn-on enzymatic amplification assay for DNA detection using Ligand-responsive G-quadruplex formation[J]. Chem Commun, 2011, 47(19):5461-5463.
[13] Cui L, Ke G, Zhang WY, et al.A universal platform for sensitive and selective colorimetric DNA detection based on Exo III assisted signal amplification[J]. Biosens Bioelectron, 2011, 26(5):2796-2800.
[14] Liu M;Yuan M;Lou X,et al. label-free optical detection of single-base mismatches by the combination of nuclease and gold nanoparticles[J]. American Chemical Society,2011, 26(11)4294-4300.
[15] Niu SY, Li QY, Qi LJ, Wang W.Nicking endonuclease and target recycles signal amplification assisted quantum dots for fluorescence detection of DNA[J]. Analytica Chimica Acta, 2010, 680(1):54-58.
[16] Ye S, Liang X, Yamamoto Y, et al.Detection of single nucleotide polymorphisms by the combination of nuclease S1 and PNA[J]. Nucleic Acids Research Supplement, 2002, 2(2):235-236.
[17] Yoo SM, Kang T, Kim B, et al.Detection of single nucleotide polymorphisms by a gold nanowire-on-film SERS sensor coupled with S1 nuclease treatment[J]. Chemistry, 2011, 17(31):8657-8662.
[18] Draz MS, Lu X.Development of a Loop mediated isothermal amplification(LAMP)- surface enhanced raman spectroscopy(SERS)assay for the detection of Salmonella enterica serotype enteritidis[J]. Theranostics, 2016, 6(4):522-532.
[19] Guo L, Zhang Z, Tang Y.Cationic conjugated polymers as signal reporter for label-free assay based on targets-mediated aggregation of perylene diimide quencher[J]. Chinese Chemical Letters, 2018, 29(2):305-308.
[20] Bao B, Zhu J, Gong L, et al.Sensitive DNA detection using cascade amplification strategy based on conjugated polyelectrolytes and hybridization chain reaction[J]. RSC Advances, 2017, 7(6):3528-3533.
[21] Latorre A, Somoza Á.DNA-mediated silver nanoclusters:synthesis, properties and applications[J]. Cheminform, 2012, 13(7):951-958.
[22] Petty JT, Story SP, Hsiang JC, et al.DNA-templated molecular silver fluorophores[J]. Journal of Physical Chemistry Letters, 2013, 4(7):1148-1155.
[23] Wang X, Li P, He JL, et al.Cytosine-rich oligonucleotide-templated fluorescent silver nanoclusters for sensitive assay of S1 nuclease[J]. Chemical Journal of Chinese Universities, 2017, 38(8):1334-1340.
[24] Qi Y, Xiu FR, Wang S, et al.Direct monitoring of enzymatic cleavage and facile chemiluminescence strategy for sensitive detection of nuclease activity[J]. Journal of Luminescence, 2018, 196(4):306-312.
[25] Mir TA, Akhtar MH, Gurudatt NG, et al.An arnperometric nanobiosensor for the selective detection of K+-induced dopamine released from living cells[J]. Biosens Bioelectron, 2015, 68(2015):421-428.
[26] Sawyers Cl.The cancer biomarker problem[J]. Nature, 2008, 452(7187):548-552.
[27] Rossi JJ.New Hope for a MicroRNA therapy for liver cancer[J]. Cell, 2009, 137(6):990-992.
[28] Jiang Q, Wang Y, Hao Y, et al.miR2Disease:a manually curated database for microRNA deregulation in human disease[J]. Nucleic Acids Research, 2009, 37(1):D98-104.
[29] Tricoli JV, Jacobson JW.MicroRNA:potential for cancer detection, diagnosis, and prognosis[J]. Cancer Research, 2007, 67(10):4553-4555.
[30] Ryan BM, Robles AI, Harris CC.Genetic variation in microRNA networks:the implications for cancer research[J]. Nature Reviews Cancer, 2010, 10(6):389-402.
[31] Cissell KA, Shrestha S, Deo SK.MicroRNA detection:challenges for the analytical chemist[J]. Anal Chem, 2007, 79(13):4754-4761.
[32] Zhou Y, Wang M, Yang Z, et al.Electrochemical biosensor for microRNA detection based on hybridization protection against nuclease S1 digestion[J]. Journal of Solid State Electrochemistry, 2016, 20(2):413-419.
[33] Liu Cl, Kong XJ, Yuan J, et al.A dual-amplification fluorescent sensing platform for ultrasensitive assay of nuclease and ATP based on rolling circle replication and exonuclease III-aided recycling[J]. RSC Advances, 2015, 5(92):75055-75061.
[34] Xu H, Wang Z.L-Argininamide biosensor based on S1 nuclease hydrolysis signal amplification[J]. Microchim Acta, 2012, 176(1-2):209-216.
[35] Yoo SM, Dong MK, Sang YL.Multispot array combined with S1 nuclease-mediated elimination of unpaired nucleotides[J]. Biochip Journal, 2015, 9(2):1-8.
[36] Guan Z, Liu J, Bai W, et al.label-free and sensitive fluorescent detection of sequence-specific single-strand DNA based on S1 nuclease cleavage effects[J]. PLoS One, 2014, 9(10):e108401.
[37] Tullman J.Protein switches identified from diverse insertion libraries created using S1 nuclease digestion of supercoiled-form plasmid DNA[J]. Biotechnology & Bioengineering, 2011, 108(11):2535-2543.
[38] Ding J, Qin W.Potentiometric sensing of nuclease activities and oxidative damage of single-stranded DNA using a polycation-sensitive membrane electrode[J]. Biosens Bioelectron, 2013, 47(13):559-565.
[39] Yang X, Pu F, Ren J, et al.DNA-templated ensemble for label-free and real-time fluorescence turn-on detection of enzymatic/oxidative cleavage of single-stranded DNA[J]. Chem Commun, 2011, 47(28):8133-8135.
[40] Shen Q, Nie Z, Guo M, et al.Simple and rapid colorimetric sensing of enzymatic cleavage and oxidative damage of single-stranded DNA with unmodified gold nanoparticles as indicator[J]. Chem Commun, 2009, 8(8):929-931.
[41] He Y, Jiao B, Tang H.Interaction of single-stranded DNA with graphene oxide:fluorescence study and its application for S1 nuclease detection[J]. RSC Advances, 2014, 4(35):18294-18300.
[42] Li J, Zhao Q, Tang Y. label-free fluorescence assay of S1 nuclease and hydroxyl radicals based on water-soluble conjugated polymers and WS₂ nanosheets[J]. Sensors, 2016, 16(6):865-873.