DNA折纸术的研究进展
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摘要
DNA折纸术是近年来提出的一种新颖的DNA自组装方法,是DNA纳米技术和DNA自组装领域的重大研究进展之一.与传统的DNA自组装技术不同,DNA折纸术通过一条长的环状单链DNA与一系列预设计的短链DNA片段碱基互补配对,构造出高度复杂的二维纳米图案和三维纳米结构.与传统纳米自组装方法相比,DNA折纸术构造的二维、三维纳米结构,具有更佳的精细程度和可控性,而且其实验条件要求低,操作简单,效率高.将二维或三维DNA折纸纳米结构作为模板,与功能纳米粒子进行组装,能够得到具有特殊性能的纳米器件,因此DNA折纸术在纳米领域具有巨大的潜在应用价值.本文介绍了DNA折纸术在功能复合结构组装方面的研究进展与DNA折纸术的展望.
As a novel self-assembly method developed in recent years, DNA origami is one of the greatest progress in the field of DNA nanotechnology and DNA self-assembly. Different from traditional DNA self-assembly, DNA origami, on the basis of the hybridization of a long circular genomic single stranded DNA with a group of staple strands, can be used to construct two-or three-dimensional sophisticated shapes at the nanoscale. Moreover, the nanostructures by DNA origami are more predictable, precise, controllable and efficient. The merits also include relatively low requirements for the experimental conditions and operation skills. A variety of functional nanoparticles can be assembled onto the DNA origami nanoscaffolds, to obtain complicate nanodevices with special functions. Therefore, DNA origami has shown great potential in nanotechnology. This review describes the progress of DNA origami in the assembly of diverse DNA nanostructures and the prospect of DNA origami in future.
As a novel self-assembly method developed in recent years, DNA origami is one of the greatest progress in the field of DNA nanotechnology and DNA self-assembly. Different from traditional DNA self-assembly, DNA origami, on the basis of the hybridization of a long circular genomic single stranded DNA with a group of staple strands, can be used to construct two-or three-dimensional sophisticated shapes at the nanoscale. Moreover, the nanostructures by DNA origami are more predictable, precise, controllable and efficient. The merits also include relatively low requirements for the experimental conditions and operation skills. A variety of functional nanoparticles can be assembled onto the DNA origami nanoscaffolds, to obtain complicate nanodevices with special functions. Therefore, DNA origami has shown great potential in nanotechnology. This review describes the progress of DNA origami in the assembly of diverse DNA nanostructures and the prospect of DNA origami in future.
引文
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33Han D R,Pal S,Liu Y,et al.Folding and cutting DNA into reconfigurable topological nanostructures.Nat Nanotech,2010,5:712–717
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2Lin C X,Liu Y,Yan H.Designer DNA nanoarchitectures.Biochemistry,2009,48:1663–1674
3Seeman N C.Nucleic acid junctions and lattices.J Theor Biol,1982,99:237–247
4Seeman N C,Lukeman P S.Nucleic acid nanostructures:Bottom-up control of geometry on the nanoscale.Rep Prog Phys,2005,68:237–270
5Rothemund P W.Folding DNA to create nanoscale shapes and patterns.Nature,2006,440:297–302
6Seeman N C.Nanomaterials based on DNA.Annu Rev Biochem,2010,79:65–87
7Aldaye F A,Palmer A L,Sleiman H F.Assembling materials with DNA as the guide.Science,2008,321:1795–1799
8Shih W M,Lin C X,Knitting complex weaves with DNA origami.Curr Opin Struct Biol,2010,20:276–282
9Nangreave J,Han D,Liu Y,et al.DNA Origami:A history and current perspective.Curr Opin Chem Biol,2010,14:608–615
10Keller A,Bald I,Rotaru A,et al.Probing electron-induced bond cleavage at the single-molecule level using DNA origami templates.ACS Nano,2012,6:4392–4399
11Acuna G P,Bucher M,Stein I H,et al.Distance dependence of single-fluorophore quenching by gold nanoparticles studied on DNA ori-gami.ACS Nano,2012,6:3189–3195
12Bell N A W,Engst C R,Ablay M,et al.DNA origami nanopores.Nano Lett,2012,12:512–517
13Fu J L,Liu M H,Liu Y,et al.Interenzyme substrate diffusion for an enzyme cascade organized on spatially addressable DNA nanostruc-tures.J Am Chem Soc,2012,134:5516–5519
14Subramani R,Juul S,Rotaru A,et al.A novel secondary DNA binding site in human topoisomerase I unravelled by using a2D DNA ori-gami platform.ACS Nano,2010,4:5969–5977
15Ke Y G,Sharma J,Liu M H,et al.Scaffolded DNA origami of a DNA tetrahedron molecular container.Nano Lett,2009,9:2445–2447
16Seeman N C.DNA in a material world.Nature,2003,421:427–431
17Winfree E,Liu F R,Seeman N C.Design and self-assemble of two-dimensional DNA crystals.Nature,1998,394:539–544
18Rothemund P W,Papadakis N,Winfree E.Algorithmic self-assembly of DNA Sierpinski triangles.PLoS Biol,2004,2:2041–2053
19Sa-Ardyen P,Vologodskii A V,Seeman N C.The flexibility of DNA double crossover molecules.Biophys J,2003,84:3829–3837
20Fu T J,Seeman N C.DNA double-crossover molecules.Biochemistry,1993,32:3211–3220
21Li X J,Yang X P,Qi J,et al.Antiparallel DNA double crossover molecules as components for nanoconstruction.J Am Chem Soc,1996,118:6131–6140
22LaBean T H,Yan H,Kopatsch J,et al.Construction,analysis,ligation,and self-assembly of DNA triple crossover complexes.J Am Chem Soc,2000,122:1848–1860
23Yan H,Park S H,Finkelstein G,et al.DNA-templated self-assembly of protein arrays and highly conductive nanowires.Science,2003,301:1882–1884
24He Y,Chen Y,Liu H P,et al.Self-assembly of hexagonal DNA two-dimensional(2D)arrays.J Am Chem Soc,2005,127:12202–12203
25He Y,Ye T,Su M,et al.Hierarchical self-assembly of DNA into symmetric supramolecular polyhedral.Nature,2008,452:198–201
26Zhang F,Nangreave J,Liu Y,et al.Reconfigurable DNA origami to generate quasifractal patterns.Nano Lett,2012,12:3290–3295
27Wei B R,Dai M J,Yin P.Complex shapes self-assembled from single-stranded DNA tiles.Nature,2012,485:623–626
28Douglas S M,Chou J J,Shih W M.DNA-nanotube-induced alignment of membrane proteins for NMR structure determination.Proc Natl Acad Sci USA,2007,104:6644–6648
29Douglas S M,Dietz H,Liedl T,et al.Self-assembly of DNA into nanoscale three-dimensional shapes.Nature,2009,459:414–418
30Dietz H,Douglas S M,Shih W M.Folding DNA into twisted and curved nanoscale shapes.Science,2009,325:725–730
31Andersen E S,Dong M,Nielsen M M,et al.Self-assembly of a nanoscale DNA box with a controllable lid.Nature,2009,459:73–76
32Han D R,Pal S,Nangreave J,et al.DNA origami with complex curvatures in three-dimensional space.Science,2011,332:342–346
33Han D R,Pal S,Liu Y,et al.Folding and cutting DNA into reconfigurable topological nanostructures.Nat Nanotech,2010,5:712–717
34Ke Y G,Voigt N V,Gothelf K V,et al.Multilayer DNA origami packed on hexagonal and hybrid lattices.J Am Chem Soc,2012,134:1770–1774
35Ke Y G,Douglas S M,Liu M H,et al.Multilayer DNA origami packed on a square lattice.J Am Chem Soc,2009,131:15903–15908
36Marini M,Piantanida L,Musetti R,et al.A revertible,autonomous,self-assembled DNA-origami nanoactuator.Nano Lett,2011,11:5449–5454
37Pilo-Pais M,Goldberg S,Samano E,et al.Connecting the nanodots:Programmable nanofabrication of fused metal shapes on DNA tem-plates.Nano Lett,2011,11:3489–3492
38Maye M M,Cuisinier M,Nykypanchuk D,et al.High throughput assembly of DNA-linked nanoparticle clusters.Nat Mater,2009,8:388–391
39Cheng W L,Campolongo M J,Cha J J,et al.Free-standing nanoparticle superlattice sheets controlled by DNA.Nat Mater,2009,8:519–525
40Tian J,Ma K,Saaem I.Advancing high-throughput gene synthesis technology.Mol BioSyst,2009,5:714–722
41Mirkin C A,Letsinger R L,Mucic R C,et al.A DNA-based method for rationally assembling nanoparticles into macroscopic materials.Nature,1996,382:607–609
42Zhang J P,Liu Y,Ke Y G,et al.Periodic square-like gold nanoparticle arrays templated by self-assembled2D DNA nanogrids on a sur-face.Nano Lett,2006,6:248–251
43Sharma J,Chhabra R,Liu Y,et al.DNA templated self-assembly of two-dimensional and periodical gold nanoparticle arrays.Angew Chem Int Ed,2006,45:730–735
44Zheng J W,Constantinou P E,Micheel C,et al.Two-dimensional nanoparticle arrays show the organizational power of robust DNA mo-tifs.Nano Lett,2006,6:1502–1504
45Sharma J,Chhabra R,Cheng A C,et al.Control of self-assembly of DNA tubules through integration of gold nanoparticles.Science,2009,323:112–116
46Zhao Z,Liu Y,Yan H.Encapsulation of gold nanoparticles in a DNA origami cage.Angew Chem Int Ed,2011,50:2041–2044
47Pal S,Deng Z T,Ding B Q,et al.DNA origami directed self-assembly of discrete silver nanoparticle architectures.Angew Chem Int Ed,2010,49:2760–2764
48Stein I H,Steinhauter C,Tinnefeld P.Single-molecule four-color FRET visualizes energy-transfer paths on DNA origami.J Am Chem Soc,2011,133:4193–4195
49Cohen J D,Sadowski J P,Dervan P B.Addressing single molecules on DNA nanostructures.Angew Chem Int Ed,2007,119:7956–7959
50Erben C M,Goodman R P,Turberfield A J.Single-molecule protein encapsulation in a rigid DNA cage.Angew Chem Int Ed,2006,118:7574–7577
51Chhabra R,Sharma J,Ke Y G,et al.Spatially addressable multiprotein nanoarrays templated by aptamer-tagged DNA nanoarchitectures.J Am Chem Soc,2007,129:10304–10305
52SaccàB,Meyer R,Erkelenz M,et al.Orthogonal protein decoration of DNA origami.Angew Chem Int Ed,2010,49:9378–9383
53Williams B A R,Lund K,Liu Y,et al.Self-assembled peptide nanoarrays:An approach to studying protein-protein interactions.Angew Chem Int Ed,2007,119:3111–3114
54Maune H T,Han S P,Barish R D,et al.Self-assembly of carbon nanotubes into two-dimensional geometries using DNA origami tem-plates.Nat Nanotech,2010,5:61–66
55Ko S H,Gallatin G M,Liddle J A.Nanomanufacturing with DNA origami:Factors affecting the kinetics and yield of quantum dot binding.Adv Funct Mater,2012,22:1015–1023
56Sharma J,Ke Y G,Lin C X,et al.DNA-tile-directed self-assembly of quantum dots into two-dimensional nanopatterns.Angew Chem Int Ed,2008,47:5157–5159
57Bui H,Onodera C,Kidwell C,et al.Programmable periodicity of quantum dot arrays with DNA origami nanotubes.Nano Lett,2010,10:3367–3372
58Kershner R J,Bozano L D,Micheel C M,et al.Placement and orientation of individual DNA shapes on lithographically patterned surfaces.Nat Nanotech,2009,4:557–561
59Hung A M,Cha J N.Templated assembly of DNA origami gold nanoparticle arrays on lithographically patterned surfaces.Methods Mol Biol,2011,749:187–197
60Daniel M C,Astruc D.Gold nanoparticles:Assembly,supramolecular chemistry,quantum-size-related properties,and applications toward biology,catalysis,and nanotechnology.Chem Rev,2004,104:293346
61Giljohann D A,Seferos D S,Daniel W L,et al.Gold nanoparticles for biology and medicine.Angew Chem Int Ed,2010,49:3280–3294
62Li K R,Stockman M I,Bergman D J.Self-similar chain of metal nanospheres as an efficient nanolens.Phys Rev Lett,2003,91:227402
63Ding B Q,Deng Z T,Yan H,et al.Gold nanoparticle self-similar chain structure organized by DNA origami.J Am Chem Soc,2010,132:3248–3249
64Shen X B,Song C,Wang J Y,et al.Rolling up gold nanoparticle-dressed DNA origami into three-dimensional plasmonic chiral nanostructures.J Am Chem Soc,2012,134:146–149
65Kuzyk A,Schreiber R,Fan Z Y,et al.DNA-based self-assembly of chiral plasmonic nanostructures with tailored optical response.Nature,2012,483:311–314
66Ding B Q,Wu H,Yan H,et al.Interconnecting gold islands with DNA origami nanotubes.Nano Lett,2010,10:5065–5069
67Fu Y,Zhang J,Joseph R,et al.Plasmon-enhanced fluorescence from single fluorophores end-linked to gold nanorods.J Am Chem Soc,2010,132:5540–5541
68Funston A M,Novo C,Davis T J,et al.Plasmon coupling of gold nanorods at short distances and in different geometries.Nano Lett,2009,9:1651–1658
69Woo K C,Shao L,Chen H J,et al.Universal scaling and fano resonance in the plasmon coupling between gold nanorods.ACS Nano,2011,5:5976–5986
70Li Y,Qian F,Lieber C M,et al.Nanowire electronic and optoelectronic devices.Mater Today,2006,9:18–27
71Pal S,Deng Z T,Wang H N,et al.DNA directed self-assembly of anisotropic plasmonic nanostructures.J Am Chem Soc,2011,133:17606–17609
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