Biotechnology Bulletin ›› 2015, Vol. 31 ›› Issue (4): 120-133.doi: 10.13560/j.cnki.biotech.bull.1985.2015.03.011
• Review • Previous Articles Next Articles
Yu Yang1 Li Jiang2 Zhang Zhao3 Fan Chunhai2
Online:2015-04-22
Published:2015-04-22
Yu Yang, Li Jiang, Zhang Zhao, Fan Chunhai. Advances on Self-Assembled DNA Nanostructures[J]. Biotechnology Bulletin, 2015, 31(4): 120-133.
| [1］Seeman NC. Nanotechnology and the double helix［J］. Sci Am, 2004, 290（6）：64-75. [2］Somoza á. Evolution of DNA origami［J］. Angew Chem Int Ed, 2009, 48（50）：9406-9408. [3］Weiss PS. A conversation with Prof. Ned Seeman：founder of DNA nanotechnology［J］. ACS Nano, 2008, 2（6）：1089-1096. [4］Seeman NC. Structural DNA nanotechnology：growing along with Nano Letters［J］. Nano Lett, 2010, 10（6）：1971-1978. [5］LaBean TH. Nanotechnology：Another dimension for DNA art［J］. Nature, 2009, 459（7245）：331-332. [6］Yang X, Wenzler LA, Qi J, et al. Ligation of DNA triangles containing double crossover molecules［J］. J Am Chem Soc, 1998, 120（38）：9779-9786. [7］Winfree E, Liu F, Wenzler LA, et al. Design and self-assembly of two-dimensional DNA crystals［J］. Nature, 1998, 394（6693）：539-544. [8］Rothemund PWK. Folding DNA to create nanoscale shapes and patterns［J］. Nature, 2006, 440（7082）：297-302. [9］Kuzuya A, Wang R, Sha R, et al. Six-helix and eight-helix DNA nanotubes assembled from half-tubes［J］. Nano Lett, 2007, 7（6）：1757-1763. [10］Zheng JP, Birktoft JJ, Chen Y, et al. From molecular to macroscopic via the rational design of a self-assembled 3D DNA crystal［J］. Nature, 2009, 461（7260）：74-77. [11］Qian L, Wang Y, Zhang Z, et al. Analogic China map constructed by DNA［J］. Chin Sci Bull, 2006, 51（24）：2973-2976. [12］Andersen ES, Dong M, Nielsen MM, et al. DNA origami design of dolphin-shaped structures with flexible tails［J］. ACS Nano, 2008, 2（6）：1213-1218. [13］Andersen ES, Dong M, Nielsen MM, et al. Self-assembly of a nanoscale DNA box with a controllable lid［J］. Nature, 2009, 459（7243）：73-76. [14］Ke Y, Sharma J, Liu M, et al. Scaffolded DNA origami of a DNA tetrahedron molecular container［J］. Nano Lett, 2009, 9（6）：2445-2447. [15］Kuzuya A, Komiyama M. Design and construction of a box-shaped 3D-DNA origami［J］. Chem Commun, 2009, 28：4182-4184. [16］Douglas SM, Dietz H, Liedl T, et al. Self-assembly of DNA into nan-oscale three-dimensional shapes［J］. Nature, 2009, 459（7245）：414-418. [17］Dietz H, Douglas SM, Shih WM. Folding DNA into twisted and curved nanoscale shapes［J］. Science, 2009, 325（5941）：725-730. [18］Han D, Pal S, Nangreave J, et al. DNA origami with complex curvatures in three-dimensional space［J］. Science, 2011, 332（6027）：342-346. [19］Ke Y, Ong LL, Shih WM, et al. Three-dimensional structures self-assembled from DNA bricks［J］. Science, 2012, 338（6111）：1177-1183. [20］Douglas SM, Chou JJ, Shih WM. DNA-nanotube-induced alignment of membrane proteins for NMR structure determination［J］. Proc Natl Acad Sci, 2007, 104（16）：6644-6648. [21］Steinhauer C, Jungmann R, Sobey TL, et al. DNA origami as a nanoscopic ruler for super-resolution microscopy［J］. Angew Chem, Int Ed, 2009, 48（47）：8870-8873. [22］Kershner RJ, Bozano LD, Micheel CM, et al. Placement and orientation of individual DNA shapes on lithographically patterned surfaces［J］. Nat Nanotechnol, 2009, 4（9）：557-561. [23］Hung AM, Micheel CM, Bozano LD, et al. Large-area spatially ordered arrays of gold nanoparticles directed by lithographically confined DNA origami［J］. Nat Nanotechnol, 2010, 5（2）：121-126. [24］Ke Y, Lindsay S, Chang Y, et al. Self-assembled water-soluble nucleic acid probe tiles for label-free RNA hybridization assays［J］. Science, 2008, 319（5860）：180-183. [25] Kaganman I. An origami chip of DNA［J］. Nat Methods, 2008, 5（3）：222. [26］Zhang Z, Wang Y, Fan C, et al. Asymmetric DNA origami for spatially addressable and index-free solution-phase DNA chips［J］. Adv Mater, 2010, 22（24）：2672-2675. [27］Chhabra R, Sharma J, Ke Y, et al. Spatially addressable multiprotein nanoarrays templated by aptamer-tagged DNA nanoarchitectures［J］. J Am Chem Soc, 2007, 129（34）：10304-10305. [28］Rinker S, Ke Y, Liu Y, et al. Self-assembled DNA nanostructures for distance-dependent multivalent ligand-protein binding［J］. Nat Nanotechnol, 2008, 3（7）：418-422. [29］Lin C, Katilius E, Liu Y, et al. Self-assembled signaling aptamer DNA arrays for protein detection［J］. Angew Chem Int Ed, 2006, 45（32）：5296-5301. [30］Lin C, Liu Y, Yan H. Self-assembled combinatorial encoding nanoarrays for multiplexed biosensing［J］. Nano Lett, 2007, 7（2）：507-512. [31］Lin C, Nangreave JK, Li Z, et al. Signal amplification on a DNA-tile-based biosensor with enhanced sensitivity［J］. Nanomed, 2008, 3（4）：521-528. [32］Pei H, Liang L, Yao G, et al. Reconfigurable three-dimensional DNA nanostructures for the construction of intracellular logic sensors［J］. Angew Chem Int Ed, 2012, 51（36）：9020-9024. [33］Krishnan Y, Simmel FC. Nucleic acid based molecular devices［J］. Angew Chem Int Ed, 2011, 50（14）：3124-3156. [34］Wang F, Lu CH, Willner I. From cascaded catalytic nucleic acids to enzyme-DNA nanostructures：controlling reactivity, sensing, logic operations, and assembly of complex structures［J］. Chem Rev（Washington, DC, U S）, 2014, 114（5）：2881-2941. [35］Mao CD, LaBean TH, Reif JH, et al. Logical computation using algorithmic self-assembly of DNA triple-crossover molecules［J］. Nature, 2000, 407（6803）：493-496. [36] Liu D, Balasubramanian S. A proton-fuelled DNA nanomachine ［J］. Angew Chem Int Ed, 2003, 42（46）：5734-5736. [37］Wang C, Huang Z, Lin Y, et al. Artificial DNA nano-spring powered by protons［J］. Adv Mater（Weinheim, Ger）, 2010, 22（25）：2792-2798. [38］Tian Y, He Y, Chen Y, et al. A DNAzyme that walks processively and autonomously along a one-dimensional track［J］. Angew Chem Int Ed, 2005, 44（28）：4355-4358. [39］Wickham SFJ, Bath J, Katsuda Y, et al. A DNA-based molecular motor that can navigate a network of tracks［J］. Nat Nanotechnol, 2012, 7（3）：169-173. [40］Wickham SFJ, Endo M, Katsuda Y, et al. Direct observation of stepwise movement of a synthetic molecular transporter［J］. Nat Nanotechnol, 2011, 6（3）：166-169. [41］Gu H, Chao J, Xiao SJ, et al. Dynamic patterning programmed by DNA tiles captured on a DNA origami substrate［J］. Nat Nanotechnol, 2009, 4（4）：245-248. [42］Gu H, Chao J, Xiao SJ, et al. A proximity-based programmable DNA nanoscale assembly line［J］. Nature, 2010, 465（7295）：202-205. [43］Lund K, Manzo AJ, Dabby N, et al. Molecular robots guided by prescriptive landscapes［J］. Nature, 2010, 465（7295）：206-210. [44］Pei R, Taylor SK, Stefanovic D, et al. Behavior of polycatalytic assemblies in a substrate-displaying matrix［J］. J Am Chem Soc, 2006, 128（39）：12693-12699. [45］Smith LM. Nanotechnology：Molecular robots on the move［J］. Nature, 2010, 465（7295）：167-168. [46］Li X, Liu DR. DNA-templated organic synthesis：nature’s strategy for controlling chemical reactivity applied to synthetic molecules［J］. Angew Chem Int Ed, 2004, 43（37）：4848-4870. [47］Gartner ZJ, Tse BN, Grubina R, et al. DNA-templated organic synthesis and selection of a library of macrocycles［J］. Science, 2004, 305（5690）：1601-1605. [48］Kanan MW, Rozenman MM, Sakurai K, et al. Reaction discovery enabled by DNA-templated synthesis and in vitro selection［J］. Nature, 2004, 431（7008）：545-549. [49］Nielsen M, Thomsen AH, Clo E, et al. Synthesis of linear and tripoidal oligo（phenylene ethynylene）-based building blocks for application in modular DNA-programmed assembly［J］. J Org Chem, 2004, 69（7）：2240-2250. [50］Blakskjaer P, Gothelf KV. Synthesis of an elongated linear oligo（phenylene ethynylene）-based building block for application in DNA-programmed assembly［J］. Org Biomol Chem, 2006, 4（18）：3442-3447. [51］Brown RS, Nielsen M, Gothelf KV. Self-assembly of aluminium-salen coupled nanostructures from encoded modules with cleavable disulfide DNA-linkers［J］. Chem Commun, 2004, 13：1464-1465. [52］Gothelf KV, Brown RS. A modular approach to DNA-programmed self-assembly of macromolecular nanostructures［J］. Chemistry, 2005, 11（4）：1062-1069. [53］Gothelf KV, Thomsen A, Nielsen M, et al. Modular DNA-programmed assembly of linear and branched conjugated nanostructures［J］. J Am Chem Soc, 2004, 126（4）：1044-1046. [54］Nielsen M, Dauksaite V, Kjems J, et al. DNA-directed coupling of organic modules by multiple parallel reductive aminations and subsequent cleavage of selected DNA sequences［J］. Bioconjug Chem, 2005, 16（4）：981-985. [55］Andersen CS, Yan H, Gothelf KV. Bridging one helical turn in double-stranded DNA by templated dimerization of molecular rods［J］. Angew Chem Int Ed, 2008, 47（30）：5569-5572. [56］Andersen CS, Knudsen MM, Chhabra R, et al. Distance dependent interhelical couplings of organic rods incorporated in DNA 4-helix bundles［J］. Bioconjug Chem, 2009, 20（8）：1538-1546. [57］Piperberg G, Wilner OI, Yehezkeli O, et al. Control of bioelectroca-talytic transformations on DNA scaffolds［J］. J Am Chem Soc, 2009, 131（25）：8724-8725. [58］Tel-Vered R, Yehezkeli O, Yildiz HB, et al. Photoelectrochemistry with ordered CdS nanoparticle/relay or photosensitizer/relay dyads on DNA scaffolds［J］. Angew Chem, Int Ed, 2008, 47（43）：8272-8276. [59］Elbaz J, Tel-Vered R, Freeman R, et al. Switchable motion of DNA on solid supports［J］. Angew Chem Int Ed, 2009, 48（1）：133-137. [60］Wilner OI, Weizmann Y, Gill R, et al. Enzyme cascades activated on topologically programmed DNA scaffolds［J］. Nat Nanotechnol, 2009, 4（4）：249-254. [61］Wang ZG, Wilner OI, Willner I. Self-assembly of aptamer-circular DNA nanostructures for controlled biocatalysis［J］. Nano Lett, 2009, 9（12）：4098-4102. [62］Fu YM, Zeng DD, Chao J, et al. Single-step rapid assembly of DNA origami nanostructures for addressable nanoscale bioreactors［J］. J Am Chem Soc, 2013, 135（2）：696-702. [63］Le JD, Pinto Y, Seeman NC, et al. DNA-templated self-assembly of metallic nanocomponent arrays on a surface［J］. Nano Lett, 2004, 4（12）：2343-2347. [64］Pinto YY, Le JD, Seeman NC, et al. Sequence-encoded self-assembly of multiple-nanocomponent arrays by 2D DNA scaffolding［J］. Nano Lett, 2005, 5（12）：2399-2402. [65］Gerdon AE, Oh SS, Hsieh K, et al. Controlled delivery of DNA origami on patterned surfaces［J］. Small, 2009, 5（17）：1942-1946. [66］Ding B, Deng Z, Yan H, et al. Gold nanoparticle self-similar chain structure organized by DNA origami［J］. J Am Chem Soc, 2010, 132（10）：3248-3249. [67］Pal S, Deng Z, Ding B, et al. DNA-origami-directed self-assembly of discrete silver-nanoparticle architectures［J］. Angew Chem Int Ed, 2010, 49（15）：2700-2704. [68］Sharma J, Chhabra R, Andersen CS, et al. Toward reliable gold nanoparticle patterning on self-assembled DNA nanoscaffold［J］. J Am Chem Soc, 2008, 130（25）：7820-7821. [69］Stearns LA, Chhabra R, Sharma J, et al. Template-directed nucleation and growth of inorganic nanoparticles on DNA scaffolds［J］. Angew Chem Int Ed, 2009, 48（45）：8494-8496. [70］Sharma J, Chhabra R, Cheng A, et al. Control of self-assembly of DNA tubules through integration of gold nanoparticles［J］. Science, 2009, 323（5910）：112-116. [71］Iijima S. Helical microtubules of graphitic carbon［J］. Nature, 1991, 354（6348）：56-58. [72］Ouyang M, Huang JL, Lieber CM. Scanning tunneling microscopy studies of the one-dimensional electronic properties of single-walled carbon nanotubes［J］. Annu Rev Phys Chem, 2002, 53：201-220. [73] Dai H. Carbon nanotubes：synthesis, integration, and properties ［J］. Acc Chem Res, 2002, 35（12）：1035-1044. [74] Terrones M. Science and technology of the twenty-first century：synthesis, properties, and spplications of carbon nanotubes［J］. Annual Review of Materials Research, 2003, 33：419-501. [75］Kostarelos K, Bianco A, Prato M. Promises, facts and challenges for carbon nanotubes in imaging and therapeutics［J］. Nat Nanotechnol, 2009, 4（10）：627-633. [76］Cao Q, Rogers JA. Ultrathin films of single-walled carbon nanotubes for electronics and sensors：A review of fundamental and applied aspects［J］. Adv Mater, 2009, 21（1）：29-53. [77］Dwyer C, Guthold M, Falvo M, et al. DNA-functionalized single-walled carbon nanotubes［J］. Nanotechnology, 2002, 13（5）：601-604. [78］Dwyer C, Johri V, Cheung M, et al. Design tools for a DNA-guided self-assembling carbon nanotube technology［J］. Nanotechnology, 2004, 15（9）：1240-1245. [79］Han X, Li Y, Deng Z. DNA-wrapped single-walled carbon nanotubes as rigid templates for assembling linear gold nanoparticle arrays［J］. Adv Mater, 2007, 19（11）：1518-1522. [80］Maune HT, Han SP, Barish RD, et al. Self-assembly of carbon nanotubes into two-dimensional geometries using DNA origami templates［J］. Nat Nanotechnol, 2010, 5（1）：61-66. [81］Walsh AS, Yin H, Erben CM, et al. DNA cage delivery to mammalian cells［J］. ACS Nano, 2011, 5（7）：5427-5432. [82］Li J, Pei H, Zhu B, et al. Self-assembled multivalent DNA nanostructures for noninvasive intracellular delivery of immunostimulatory CpG oligonucleotides［J］. ACS Nano, 2011, 5（11）：8783-8789. [83］Hamblin GD, Carneiro KMM, Fakhoury JF, et al. Rolling circle amplification-templated DNA nanotubes show increased stability and cell penetration ability［J］. J Am Chem Soc, 2012, 134（6）：2888-2891. [84］Liang L, Li J, Li Q, et al. Single-particle tracking and modulation of cell entry pathways of a tetrahedral DNA nanostructure in live cells［J］. Angew Chem Int Ed, 2014, 53（30）：7745-7750. [85］Jiang Q, Song C, Nangreave J, et al. DNA origami as a carrier for circumvention of drug resistance［J］. Journal of the American Chemical Society, 2012, 134（32）：13396-13403. [86］Zhang Q, Jiang Q, Li N, et al. DNA origami as an in vivo drug delivery vehicle for cancer therapy［J］. ACS Nano, 2014, 8（7）：6633-6643. [87］Zhao YX, Shaw A, Zeng XH, et al. DNA origami delivery system for cancer therapy with tunable release properties［J］. ACS Nano, 2012, 6（10）：8684-8691. [88］Nishikawa M, Mizuno Y, Mohri K, et al. Biodegradable CpG DNA hydrogels for sustained delivery of doxorubicin and immunostimulatory signals in tumor-bearing mice［J］. Biomaterials, 2011, 32（2）：488-494. [89］Mohri K, Nishikawa M, Takahashi N, et al. Design and development of nanosized DNA assemblies in polypod-like structures as efficient vehicles for immunostimulatory CpG motifs to immune cells［J］. ACS Nano, 2012, 6（7）：5931-5940. [90］Rattanakiat S, Nishikawa M, Funabashi H, et al. The assembly of a short linear natural cytosine-phosphate-guanine DNA into dendritic structures and its effect on immunostimulatory activity［J］. Biomaterials, 2009, 30（29）：5701-5706. [91］Liu X, Xu Y, Yu T, et al. A DNA nanostructure platform for directed assembly of synthetic vaccines［J］. Nano Lett, 2012, 12（8）：4254-4259. [92］Schuller VJ, Heidegger S, Sandholzer N, et al. Cellular immunostimulation by CpG-sequence-coated DNA origami structures［J］. ACS Nano, 2011, 5（12）：9696-9702. [93］Ouyang X, Li J, Liu H, et al. Rolling circle amplification-based DNA origami nanostructrures for intracellular delivery of immunostimulatory drugs［J］. Small, 2013, 9（18）：3082-3087. [94］Lee H, Lytton-Jean AKR, Chen Y, et al. Molecularly self-assembled nucleic acid nanoparticles for targeted in vivo siRNA delivery［J］. Nat Nano, 2012, 7（6）：389-393. [95］Zhu G, Zheng J, Song E, et al. Self-assembled, aptamer-tethered DNA nanotrains for targeted transport of molecular drugs in cancer theranostics［J］. Proceedings of the National Academy of Sciences, 2013, 110（20）：7998-8003. [96］Wu C, Han D, Chen T, et al. Building a multifunctional aptamer-based DNA nanoassembly for targeted cancer therapy［J］. J Am Chem Soc, 2013, 135（49）：18644-18650. [97］Douglas SM, Bachelet I, Church GM. A logic-gated nanorobot for targeted transport of molecular payloads［J］. Science, 2012, 335（6070）：831-834. [98］Pinheiro AV, Han DR, Shih WM, et al. Challenges and opportuni-ties for structural DNA nanotechnology［J］. Nat Nanotechnol, 2011, 6（12）：763-772. [99］Kosuri S, Eroshenko N, LeProust EM, et al. Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips［J］. Nat Biotechnol, 2010, 28（12）：1295-U1108. ［100］Lin CX, Rinker S, Wang X, et al. In vivo cloning of artificial DNA nanostructures［J］. Proc Natl Acad Sci USA, 2008, 105（46）：17626-17631. ［101］ Bellot G, McClintock MA, Lin C, et al. Recovery of intact DNA nanostructures after agarose gel-based separation［J］. Nat Methods, 2011, 8（3）：192-194. ［102］ Lin C, Perrault SD, Kwak M, et al. Purification of DNA-origami nanostructures by rate-zonal centrifugation［J］. Nucleic Acids Res, 2013, 41（2）：e40. ［103］ Xing S, Jiang D, Li F, et al. Constructing higher-order DNA nanoarchitectures with highly purified DNA nanocages［J］. ACS Appl Mater Interfaces, 2014, doi：10. 1021/am505592e. |
| [1] | ZHANG Qian, TIAN Jing-jing, LUO Yun-bo, XU Wen-tao. Research Progress on Functional Nucleic Acid Nanomachine Biosensors [J]. Biotechnology Bulletin, 2018, 34(9): 2-14. |
| Viewed | ||||||
|
Full text |
|
|||||
|
Abstract |
|
|||||
