DNA Codes for Nanoscience

Samorı̀, Bruno; Zuccheri, Giampaolo

doi:10.1002/anie.200400652

Cited by 76 publications

(29 citation statements)

References 181 publications

(151 reference statements)

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“…The ultimate example of orthogonal multivalency is DNA, for which every pair of matching single strands is orthogonal to other pairs. This approach has been used to obtain DNA nanostructures (32)(33)(34)(35).The interactions between biological membranes are mediated by proteins and carbohydrates, and (at least conceptually) cell-cell interactions can be mimicked by the interaction of liposomes and/or bilayer vesicles. Intervesicular interaction such as adhesion, aggregation, and fusion can be induced by changes of pH, temperature, ionic strength, etc.…”

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Intravesicular and intervesicular interaction by orthogonal multivalent host–guest and metal–ligand complexation

Lim

Crespo-Biel

Stuart

et al. 2007

Proc. Natl. Acad. Sci. U.S.A.

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Host vesicles composed of amphiphilic ␤-cyclodextrin CD1 recognize metal-coordination complexes of the adamantyl-functionalized ethylenediamine ligand L via hydrophobic inclusion in the ␤-cyclodextrin cavities at the vesicle surface. In the case of Cu(II) and L, the resulting coordination complex was exclusively CuL2, and the interaction with the host vesicles was intravesicular, unless the concentration of metal complex and vesicles was high (>0.1 mM). In the case of Ni(II) and L, a mixture was formed consisting of mainly NiL and NiL2, the interaction with the host vesicles was effectively intervesicular, and addition of the guest-metal complex resulted in aggregation of the vesicles into dense, multilamellar clusters even in dilute solution [1 M Ni(II)]. The metal-L complex could be eliminated by a strong chelator such as EDTA, and the intervesicular interaction could be suppressed by a competitor such as unmodified ␤-cyclodextrin. The result from this investigation is that the strongest metal-coordination complex [Cu(II) with L] binds exclusively intravesicularly, whereas the weakest metal-coordination complex [Ni(II) with L] binds predominantly intervesicularly and is the strongest interfacial binder. These experimental observations are confirmed by a thermodynamic model that describes multivalent orthogonal interactions at interfaces.self-assembly ͉ vesicles ͉ cyclodextrins M ultivalent, noncovalent interactions at the interface of cell membranes are involved in a variety of biological processes such as cell-cell signaling, pathogen identification, and inflammatory response (1). Multivalent binding events have collective properties that are qualitatively and quantitatively different from the contributing monovalent interactions. For example, multivalent interactions lead to higher binding affinities and can afford larger contact areas between surfaces (1-3). Multivalency can be conveniently described by an effective concentration (C eff ) term that represents a probability of interaction between two interlinked reactive or complementary entities and symbolizes the concentration of one of the reacting or interacting functionalities as experienced by its counterpart (4, 5). Versatile model systems to investigate multivalent noncovalent interactions at the dynamic interface between cell membranes and the surrounding aqueous solution include self-assembled monolayers (SAMs) (6-11), nanoparticles (12-14), solid-supported lipid bilayers (15, 16), and bilayer vesicles (17-19).Metal-ligand coordination has been exploited to generate complex molecular architectures with specific topology, high stability, and original properties in aqueous solution (16,20,21). The N-nitrilotriacetic acid-histidine interaction is particularly interesting in a biological context. N-nitrilotriacetic acidfunctionalized lipids (22, 23) and SAMs (24, 25) have been used to immobilize proteins through multivalent interactions. In a comparable approach, the multivalent binding of Cu(II) ions to a membrane-bound dansyl-ethylenediamine conjugat...

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confidence: 99%

Intravesicular and intervesicular interaction by orthogonal multivalent host–guest and metal–ligand complexation

Lim

Crespo-Biel

Stuart

et al. 2007

Proc. Natl. Acad. Sci. U.S.A.

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“…For a discussion of topics in bionanotechnology, the reader is referred to the following references. 55 56…”

Section: Concept Of Nanobiopatterningmentioning

confidence: 99%

Nanopatterns with Biological Functions

Blättler¹,

Huwiler²,

Ochsner³

et al. 2006

J. Nanosci. Nanotech.

109

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Both curiosity and a desire for efficiency have advanced our ability to manipulate materials with great precision on the micrometer and, more recently, on the nanometer scale. Certainly, the semiconductor and integrated circuit industry has put the pressure on scientist and engineers to develop better and faster nanofabrication techniques. Furthermore, our curiosity as to how life works, and how it can be improved from a medical perspective, stands to gain a great deal from advances in nanotechnology. Novel nanofabrication techniques are opening up the possibilities for mimicking the inherently nano-world of the cell, i.e., the nanotopographies of the extracellular matrix (ECM) and the nanochemistry presented on both the cell membrane and the ECM. In addition, biosensing applications that rely on fabrication of high-density, precision arrays, e.g., DNA or gene chips and protein arrays, will gain significantly in efficiency and, thus, in usefulness once it becomes possible to fabricate heterogeneous nanoarrays. Clearly, continued advances in nanotechnology are desired and required for advances in biotechnology. In this review, we describe the leading techniques for generating nanopatterns with biological function including parallel techniques such as extreme ultraviolet interference lithography (EUV-IL), soft-lithographic techniques (e.g., replica molding (RM) and microcontact printing (muCP)), nanoimprint lithography (NIL), nanosphere lithography (NSL) (e.g., colloid lithography or colloidal block-copolymer micelle lithography) and the nanostencil technique, in addition to direct-writing techniques including e-beam lithography (EBL), focused ion-beam lithography (FIBL) and dip-pen nanolithography (DPN). Details on how the patterns are generated, how biological function is imparted to the nanopatterns, and examples of how these surfaces can and are being used for biological applications will be presented. This review further illustrates the rapid pace by which advances are being made in the field of nanobiotechnology, owing to an increasing number of research endeavors, for an ever increasing number of applications.

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“…Very recently, the deformability of DNA, in particular of the bending rigidity of DNA double helix and anomalous flexibility of its single-stranded segments, mismatches and other peculiar DNA conformations, is well-understood and widely used for studying and modeling molecular recognition processes by physicists and biologists [25]. This concept is also increasingly exploited for developing electrochemical sensing systems or biochips.…”

Section: Introductionmentioning

confidence: 99%

High Sensitive Electrochemical Detection of Sequence‐Specific DNA Using Low Current Voltammetry

et al. 2008

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In this article, we report on efforts to construct a high sensitive electrochemical sensor with immobilized sandwichtype DNA borne ferrocene (Fc) head for sequence-specific DNA detection using ultramicroelectrode and low current voltammetry. Based on the difference in deformability between the bending rigid complementary DNA double helix and its anomalous flexile mismatches, the fully complementary target can be distinguished from mismatched targets including the single-base mismatched target. Detection limit estimated as the amount of DNA is observed to be 100 fM via low current voltammetry. The method offers great promise of high sensitivity and selectivity simultaneously for effective gene identification.

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DNA Codes for Nanoscience

Cited by 76 publications

References 181 publications

Intravesicular and intervesicular interaction by orthogonal multivalent host–guest and metal–ligand complexation

Intravesicular and intervesicular interaction by orthogonal multivalent host–guest and metal–ligand complexation

Nanopatterns with Biological Functions

High Sensitive Electrochemical Detection of Sequence‐Specific DNA Using Low Current Voltammetry

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