Assembly and structural analysis of a covalently closed nano-scale DNA cage

Félicie Faucon Andersen; Bjarne Knudsen; Cristiano Luis Pinto De Oliveira; Rikke Frøhlich Hougaard; Dinna Krüger; Jörg Bungert; Mavis Agbandje-McKenna; Robert McKenna; Sissel Juul Jensen; Christopher Veigaard; Jørn Koch; John L Rubinstein; Bernt Guldbrandtsen; Marianne Smedegaard Hede; Göran Karlsson; Anni Hangaard Andersen; Jan Skov Pedersen; Birgitta R. Knudsen

doi:10.1093/nar/gkm1124

Assembly and structural analysis of a covalently closed nano-scale DNA cage

Félicie Faucon Andersen, Bjarne Knudsen, Cristiano Luis Pinto De Oliveira, Rikke Frøhlich Hougaard, Dinna Krüger, Jörg Bungert, Mavis Agbandje-McKenna, Robert McKenna, Sissel Juul Jensen, Christopher Veigaard, Jørn Koch, John L Rubinstein, Bernt Guldbrandtsen, Marianne Smedegaard Hede, Göran Karlsson, Anni Hangaard Andersen, Jan Skov Pedersen, Birgitta R. Knudsen

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

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Abstract

The inherent properties of DNA as a stable polymer with uniqueaffinity for partner molecules determined by the specific Watson-Crickbase pairing makes it an ideal component in self-assemblingstructures. This has been exploited for decades in the designof a variety of artificial substrates for investigations ofDNA-interacting enzymes. More recently, strategies for synthesisof more complex two-dimensional (2D) and 3D DNA structures haveemerged. However, the building of such structures is still inprogress and more experiences from different research groupsand different fields of expertise are necessary before complexDNA structures can be routinely designed for the use in basalscience and/or biotechnology. Here we present the design, constructionand structural analysis of a covalently closed and stable 3DDNA structure with the connectivity of an octahedron, as definedby the double-stranded DNA helices that assembles from eightoligonucleotides with a yield of 30%. As demonstrated by SmallAngle X-ray Scattering and cryo-Transmission Electron Microscopyanalyses the eight-stranded DNA structure has a central cavitylarger than the apertures in the surrounding DNA lattice andcan be described as a nano-scale DNA cage, Hence, in theoryit could hold proteins or other bio-molecules to enable theirinvestigation in certain harmful environments or even allowtheir organization into higher order structures

Original language	English
Journal	Nucleic Acids Research
Volume	36
Issue	4
Pages (from-to)	1113-1119
Number of pages	7
ISSN	0305-1048
DOIs	https://doi.org/10.1093/nar/gkm1124
Publication status	Published - 2008

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Nucleic Acids Research 1113-119Final published version, 4.47 MB

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Andersen, F. F., Knudsen, B., Oliveira, C. L. P. D., Hougaard, R. F., Krüger, D., Bungert, J., Agbandje-McKenna, M., McKenna, R., Jensen, S. J., Veigaard, C., Koch, J., Rubinstein, J. L., Guldbrandtsen, B., Hede, M. S., Karlsson, G., Andersen, A. H., Pedersen, J. S., & Knudsen, B. R. (2008). Assembly and structural analysis of a covalently closed nano-scale DNA cage. Nucleic Acids Research, 36(4), 1113-1119. https://doi.org/10.1093/nar/gkm1124

@article{8e0cf510a26611dcb18d000ea68e967b,

title = "Assembly and structural analysis of a covalently closed nano-scale DNA cage",

abstract = " The inherent properties of DNA as a stable polymer with unique affinity for partner molecules determined by the specific Watson-Crick base pairing makes it an ideal component in self-assembling structures. This has been exploited for decades in the design of a variety of artificial substrates for investigations of DNA-interacting enzymes. More recently, strategies for synthesis of more complex two-dimensional (2D) and 3D DNA structures have emerged. However, the building of such structures is still in progress and more experiences from different research groups and different fields of expertise are necessary before complex DNA structures can be routinely designed for the use in basal science and/or biotechnology. Here we present the design, construction and structural analysis of a covalently closed and stable 3D DNA structure with the connectivity of an octahedron, as defined by the double-stranded DNA helices that assembles from eight oligonucleotides with a yield of 30%. As demonstrated by Small Angle X-ray Scattering and cryo-Transmission Electron Microscopy analyses the eight-stranded DNA structure has a central cavity larger than the apertures in the surrounding DNA lattice and can be described as a nano-scale DNA cage, Hence, in theory it could hold proteins or other bio-molecules to enable their investigation in certain harmful environments or even allow their organization into higher order structures",

author = "Andersen, {F{\'e}licie Faucon} and Bjarne Knudsen and Oliveira, {Cristiano Luis Pinto De} and Hougaard, {Rikke Fr{\o}hlich} and Dinna Kr{\"u}ger and J{\"o}rg Bungert and Mavis Agbandje-McKenna and Robert McKenna and Jensen, {Sissel Juul} and Christopher Veigaard and J{\o}rn Koch and Rubinstein, {John L} and Bernt Guldbrandtsen and Hede, {Marianne Smedegaard} and G{\"o}ran Karlsson and Andersen, {Anni Hangaard} and Pedersen, {Jan Skov} and Knudsen, {Birgitta R.}",

year = "2008",

doi = "10.1093/nar/gkm1124",

language = "English",

volume = "36",

pages = "1113--1119",

journal = "Nucleic Acids Research",

issn = "0305-1048",

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Andersen, FF, Knudsen, B, Oliveira, CLPD, Hougaard, RF, Krüger, D, Bungert, J, Agbandje-McKenna, M, McKenna, R, Jensen, SJ, Veigaard, C, Koch, J, Rubinstein, JL, Guldbrandtsen, B, Hede, MS, Karlsson, G, Andersen, AH, Pedersen, JS & Knudsen, BR 2008, 'Assembly and structural analysis of a covalently closed nano-scale DNA cage', Nucleic Acids Research, vol. 36, no. 4, pp. 1113-1119. https://doi.org/10.1093/nar/gkm1124

Assembly and structural analysis of a covalently closed nano-scale DNA cage. / Andersen, Félicie Faucon; Knudsen, Bjarne; Oliveira, Cristiano Luis Pinto De et al.
In: Nucleic Acids Research, Vol. 36, No. 4, 2008, p. 1113-1119.

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

TY - JOUR

T1 - Assembly and structural analysis of a covalently closed nano-scale DNA cage

AU - Andersen, Félicie Faucon

AU - Knudsen, Bjarne

AU - Oliveira, Cristiano Luis Pinto De

AU - Hougaard, Rikke Frøhlich

AU - Krüger, Dinna

AU - Bungert, Jörg

AU - Agbandje-McKenna, Mavis

AU - McKenna, Robert

AU - Jensen, Sissel Juul

AU - Veigaard, Christopher

AU - Koch, Jørn

AU - Rubinstein, John L

AU - Guldbrandtsen, Bernt

AU - Hede, Marianne Smedegaard

AU - Karlsson, Göran

AU - Andersen, Anni Hangaard

AU - Pedersen, Jan Skov

AU - Knudsen, Birgitta R.

PY - 2008

Y1 - 2008

N2 - The inherent properties of DNA as a stable polymer with unique affinity for partner molecules determined by the specific Watson-Crick base pairing makes it an ideal component in self-assembling structures. This has been exploited for decades in the design of a variety of artificial substrates for investigations of DNA-interacting enzymes. More recently, strategies for synthesis of more complex two-dimensional (2D) and 3D DNA structures have emerged. However, the building of such structures is still in progress and more experiences from different research groups and different fields of expertise are necessary before complex DNA structures can be routinely designed for the use in basal science and/or biotechnology. Here we present the design, construction and structural analysis of a covalently closed and stable 3D DNA structure with the connectivity of an octahedron, as defined by the double-stranded DNA helices that assembles from eight oligonucleotides with a yield of 30%. As demonstrated by Small Angle X-ray Scattering and cryo-Transmission Electron Microscopy analyses the eight-stranded DNA structure has a central cavity larger than the apertures in the surrounding DNA lattice and can be described as a nano-scale DNA cage, Hence, in theory it could hold proteins or other bio-molecules to enable their investigation in certain harmful environments or even allow their organization into higher order structures

AB - The inherent properties of DNA as a stable polymer with unique affinity for partner molecules determined by the specific Watson-Crick base pairing makes it an ideal component in self-assembling structures. This has been exploited for decades in the design of a variety of artificial substrates for investigations of DNA-interacting enzymes. More recently, strategies for synthesis of more complex two-dimensional (2D) and 3D DNA structures have emerged. However, the building of such structures is still in progress and more experiences from different research groups and different fields of expertise are necessary before complex DNA structures can be routinely designed for the use in basal science and/or biotechnology. Here we present the design, construction and structural analysis of a covalently closed and stable 3D DNA structure with the connectivity of an octahedron, as defined by the double-stranded DNA helices that assembles from eight oligonucleotides with a yield of 30%. As demonstrated by Small Angle X-ray Scattering and cryo-Transmission Electron Microscopy analyses the eight-stranded DNA structure has a central cavity larger than the apertures in the surrounding DNA lattice and can be described as a nano-scale DNA cage, Hence, in theory it could hold proteins or other bio-molecules to enable their investigation in certain harmful environments or even allow their organization into higher order structures

U2 - 10.1093/nar/gkm1124

DO - 10.1093/nar/gkm1124

M3 - Journal article

C2 - 18096620

SN - 0305-1048

VL - 36

SP - 1113

EP - 1119

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - 4

ER -

Assembly and structural analysis of a covalently closed nano-scale DNA cage

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