Table Of Content

Chunhai Fan Editor DNA Nanotechnology From Structure to Function DNA Nanotechnology Chunhai Fan Editor DNA Nanotechnology From Structure to Function 123 Editor Prof.ChunhaiFan ShanghaiInstituteofAppliedPhysics ChineseAcademyofSciences Shanghai China ISBN978-3-642-36076-3 ISBN978-3-642-36077-0(eBook) DOI10.1007/978-3-642-36077-0 SpringerHeidelbergNewYorkDordrechtLondon LibraryofCongressControlNumber:2013934031 ©Springer-VerlagBerlinHeidelberg2013 Thisworkissubjecttocopyright.AllrightsarereservedbythePublisher,whetherthewholeorpartof thematerialisconcerned,specificallytherightsoftranslation,reprinting,reuseofillustrations,recitation, broadcasting,reproductiononmicrofilmsorinanyotherphysicalway,andtransmissionorinformation storageandretrieval,electronicadaptation,computersoftware,orbysimilarordissimilarmethodology nowknownorhereafterdeveloped.Exemptedfromthislegalreservationarebriefexcerptsinconnection with reviews or scholarly analysis or material supplied specifically for the purpose of being entered and executed on a computer system, for exclusive use by the purchaser of the work. Duplication of this publication or parts thereof is permitted only under the provisions of the Copyright Law of the Publisher’slocation,initscurrentversion,andpermissionforusemustalwaysbeobtainedfromSpringer. PermissionsforusemaybeobtainedthroughRightsLinkattheCopyrightClearanceCenter.Violations areliabletoprosecutionundertherespectiveCopyrightLaw. Theuseofgeneraldescriptivenames,registerednames,trademarks,servicemarks,etc.inthispublication doesnotimply,evenintheabsenceofaspecificstatement,thatsuchnamesareexemptfromtherelevant protectivelawsandregulationsandthereforefreeforgeneraluse. While the advice and information in this book are believed to be true and accurate at the date of publication,neithertheauthorsnortheeditorsnorthepublishercanacceptanylegalresponsibilityfor anyerrorsoromissionsthatmaybemade.Thepublishermakesnowarranty,expressorimplied,with respecttothematerialcontainedherein. Printedonacid-freepaper SpringerispartofSpringerScience+BusinessMedia(www.springer.com) Preface DNA is a fascinating biomoleculethat is well known for its genetic role in living systems. The emergingarea ofDNA nanotechnologyprovidesan alternativeview that exploits unparallel self-assembly ability of DNA molecules for material use of DNA. Since the pioneering work by Professor Nadrian Seeman of New York Universityinthe1980s,wehaveseenrapidgrowthofthisarea,whichhasintrigued researchersfromvariousotherareas.Afternearlythreedecadesofresearchefforts, themeaningofDNAnanotechnologyhasevolvedfromtoylikebeautifulnanoscale structurestoreallyusefulbuildingblocksforavarietyofapplications. ThisbookofDNANanotechnology:FromStructuretoFunctionaimstopresent an overviewof manyfacets of DNA nanotechnology,with the particularattention on their promising applications. We introduce recent advances in the area of DNA nanotechnology to provide readers, including postgraduates, postdoctoral researchers,andresearchscientists,animpressionofnewthingsthatarehappening. In the spirit of this goal, we have invited active scientists in this area to describe, mostlyinatutorialstyle,interestingthingsthatoccurredduringthepastdecadeand topointout,intheirownview,promisingdirectionsinthefuture. Thisbookiscomposedofthreeparts.InPartI,ElementsofDNANanotechnol- ogy, we provide, extensively, basic knowledge of DNA nanotechnology. It starts from a brief introduction to the history of DNA nanotechnology, followed by introduction of key elements that are involved in DNA nanotechnologyincluding functional nucleic acids, toolboxes for DNA manipulation, and new materials for DNAassembly.InPartII,StaticandDynamicDNANanotechnology,wedescribe the design and fabrication of static and dynamic DNA nanostructures. Recent advancesofDNAorigami,DNAwalkers,andDNAnanodevicesarecoveredinthis part. In Part III, Applications of DNA Nanotechnology,we introduce a variety of applicationsofDNAnanotechnology,includingbiosensing,computation,anddrug delivery. Together these provide a comprehensiveoverview of this emerging area anditsbroadimpactonbiologicalandmedicalsciences. v vi Preface I am very grateful to all contributing authors and my colleagues, who kindly acceptedtoundertakesuchatime-consumingtaskofwritingachapter.Manythanks to these contributors for their excellent work! Last but not least, the excellent organizational support from Springer, and particularly warm editorial help from Ms.JuneTang,isgreatlyacknowledged. Shanghai,China ChunhaiFan DiLi Contents PartI ElementsofDNANanotechnology 1 BriefHistoryofDNANanotechnology................................... 3 ChunhaiFanandDiLi 2 FunctionalNucleicAcidsforDNANanotechnology.................... 7 YishunHuang,ZhiZhu,andChaoyongYang 3 Selenium Atom-Specific Mutagenesis (SAM) for Crystallography, DNA Nanostructure Design, andOtherApplications.................................................... 29 SiboJiang,HuiyanSun,andZhenHuang 4 Liposomes for DNA Nanotechnology:Preparation, Properties,andApplications .............................................. 57 NeeshmaDaveandJuewenLiu 5 ManipulationandIsolationofIndividualDNAMolecules withAtomicForceMicroscope............................................ 77 YiZhangandJunHu 6 Single-MoleculeMechanicsofDNA...................................... 87 ShuxunCui 7 MicrofluidicToolsforDNAAnalysis..................................... 113 YiZhangandXingyuJiang PartII StaticandDynamicDNANanotechnology 8 DNA-Directed Assembly of Nanophase Materials: AnUpdatedReview ........................................................ 157 HuiqiaoWangandZhaoxiangDeng vii viii Contents 9 Self-AssembledDNA-InorganicNanoparticleStructures.............. 185 ZhongChen,XiangLan,andQiangbinWang 10 DNAOrigamiNanostructures ............................................ 207 HuajieLiuandChunhaiFan 11 Design,Fabrication,andApplicationsofDNANanomachines........ 225 ChenSong,Zhen-GangWang,andBaoquanDing 12 DNAWalkingDevices...................................................... 263 JieChaoandChunhaiFan PartIII ApplicationsofDNANanotechnology 13 FunctionalDNA-IntegratedNanomaterialsforBiosensing............ 277 LeleLiandYiLu 14 NucleicAcidEnzyme-BasedDNANanomachineforBiosensing...... 307 DiLiandChunhaiFan 15 DNANanotechnologyandDrugDelivery................................ 321 WanqiuShen 16 DNA-Nanotube-EnabledNMRStructureDetermination ofMembraneProteins ..................................................... 335 JohnMin,WilliamM.Shih,andGae¨tanBellot 17 Deoxyribozyme-BasedMolecularComputation ........................ 353 RenjunPei Part I Elements of DNA Nanotechnology