MersV1, PubMed, Corpus, bibRecord, 002290

Nucleobase orientation and ordering in films of single-stranded DNA on gold.

Identifieur interne : 002290 ( PubMed/Corpus ); précédent : 002289; suivant : 002291

Nucleobase orientation and ordering in films of single-stranded DNA on gold.

Auteurs : Dmitri Y. Petrovykh ; V. Pérez-Dieste ; Aric Opdahl ; Hiromi Kimura-Suda ; J M Sullivan ; Michael J. Tarlov ; F J Himpsel ; Lloyd J. Whitman

Source :

Journal of the American Chemical Society [ 0002-7863 ] ; 2006.

RBID : pubmed:16390092

English descriptors

KwdEn :
- DNA, Single-Stranded (chemistry), Gold (chemistry), Models, Molecular, Nucleic Acid Conformation, Oligodeoxyribonucleotides (chemistry), Spectroscopy, Fourier Transform Infrared (methods), Spectrum Analysis (methods), Thymine (chemistry), X-Rays.
MESH :
- chemical , chemistry : DNA, Single-Stranded, Gold, Oligodeoxyribonucleotides, Thymine.
- methods : Spectroscopy, Fourier Transform Infrared, Spectrum Analysis.
- Models, Molecular, Nucleic Acid Conformation, X-Rays.

Abstract

We demonstrate how the orientation and ordering of DNA bases in ultrahigh vacuum (UHV) and ambient environments can be determined using complementary spectroscopic methods. Near-edge X-ray absorption fine structure (NEXAFS) with fluorescence detection, X-ray photoelectron (XPS), and Fourier transform infrared (FTIR) spectroscopies are used to quantify the coverage, chemical composition, orientation, and ordering of thymine bases in model self-assembled monolayers of thymine homo-oligonucleotides [oligo(dT)] on gold. We find that, in monolayers of thiol-modified oligo(dT), thymine bases tend to orient parallel to the Au substrate, and this preferential orientation is significantly more pronounced in monolayers of thiolated 5-mers compared to 25-mers. We interpret this preferential orientation as a signature of significant correlations (local ordering) between individual nuleobases, which offers a way to quantify and compare nucleobase interactions in films under both ambient and UHV conditions.

DOI: 10.1021/ja052443e
PubMed: 16390092

Links to Exploration step

pubmed:16390092

Le document en format XML

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<author><name sortKey="Petrovykh, Dmitri Y" sort="Petrovykh, Dmitri Y" uniqKey="Petrovykh D" first="Dmitri Y" last="Petrovykh">Dmitri Y. Petrovykh</name>
<affiliation><nlm:affiliation>Physics Department, University of Maryland, College Park, MD 20742, USA. dmitri.petrovykh@nrl.navy.mil</nlm:affiliation>
</affiliation>
</author>
<author><name sortKey="Perez Dieste, V" sort="Perez Dieste, V" uniqKey="Perez Dieste V" first="V" last="Pérez-Dieste">V. Pérez-Dieste</name>
</author>
<author><name sortKey="Opdahl, Aric" sort="Opdahl, Aric" uniqKey="Opdahl A" first="Aric" last="Opdahl">Aric Opdahl</name>
</author>
<author><name sortKey="Kimura Suda, Hiromi" sort="Kimura Suda, Hiromi" uniqKey="Kimura Suda H" first="Hiromi" last="Kimura-Suda">Hiromi Kimura-Suda</name>
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<author><name sortKey="Sullivan, J M" sort="Sullivan, J M" uniqKey="Sullivan J" first="J M" last="Sullivan">J M Sullivan</name>
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<author><name sortKey="Tarlov, Michael J" sort="Tarlov, Michael J" uniqKey="Tarlov M" first="Michael J" last="Tarlov">Michael J. Tarlov</name>
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<author><name sortKey="Himpsel, F J" sort="Himpsel, F J" uniqKey="Himpsel F" first="F J" last="Himpsel">F J Himpsel</name>
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<author><name sortKey="Whitman, Lloyd J" sort="Whitman, Lloyd J" uniqKey="Whitman L" first="Lloyd J" last="Whitman">Lloyd J. Whitman</name>
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<author><name sortKey="Perez Dieste, V" sort="Perez Dieste, V" uniqKey="Perez Dieste V" first="V" last="Pérez-Dieste">V. Pérez-Dieste</name>
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<term>Nucleic Acid Conformation</term>
<term>Oligodeoxyribonucleotides (chemistry)</term>
<term>Spectroscopy, Fourier Transform Infrared (methods)</term>
<term>Spectrum Analysis (methods)</term>
<term>Thymine (chemistry)</term>
<term>X-Rays</term>
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<keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>DNA, Single-Stranded</term>
<term>Gold</term>
<term>Oligodeoxyribonucleotides</term>
<term>Thymine</term>
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<keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Spectroscopy, Fourier Transform Infrared</term>
<term>Spectrum Analysis</term>
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<front><div type="abstract" xml:lang="en">We demonstrate how the orientation and ordering of DNA bases in ultrahigh vacuum (UHV) and ambient environments can be determined using complementary spectroscopic methods. Near-edge X-ray absorption fine structure (NEXAFS) with fluorescence detection, X-ray photoelectron (XPS), and Fourier transform infrared (FTIR) spectroscopies are used to quantify the coverage, chemical composition, orientation, and ordering of thymine bases in model self-assembled monolayers of thymine homo-oligonucleotides [oligo(dT)] on gold. We find that, in monolayers of thiol-modified oligo(dT), thymine bases tend to orient parallel to the Au substrate, and this preferential orientation is significantly more pronounced in monolayers of thiolated 5-mers compared to 25-mers. We interpret this preferential orientation as a signature of significant correlations (local ordering) between individual nuleobases, which offers a way to quantify and compare nucleobase interactions in films under both ambient and UHV conditions.</div>
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<Title>Journal of the American Chemical Society</Title>
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<ArticleTitle>Nucleobase orientation and ordering in films of single-stranded DNA on gold.</ArticleTitle>
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<Abstract><AbstractText>We demonstrate how the orientation and ordering of DNA bases in ultrahigh vacuum (UHV) and ambient environments can be determined using complementary spectroscopic methods. Near-edge X-ray absorption fine structure (NEXAFS) with fluorescence detection, X-ray photoelectron (XPS), and Fourier transform infrared (FTIR) spectroscopies are used to quantify the coverage, chemical composition, orientation, and ordering of thymine bases in model self-assembled monolayers of thymine homo-oligonucleotides [oligo(dT)] on gold. We find that, in monolayers of thiol-modified oligo(dT), thymine bases tend to orient parallel to the Au substrate, and this preferential orientation is significantly more pronounced in monolayers of thiolated 5-mers compared to 25-mers. We interpret this preferential orientation as a signature of significant correlations (local ordering) between individual nuleobases, which offers a way to quantify and compare nucleobase interactions in films under both ambient and UHV conditions.</AbstractText>
</Abstract>
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Nucleobase orientation and ordering in films of single-stranded DNA on gold.

Nucleobase orientation and ordering in films of single-stranded DNA on gold.

Source :

English descriptors

Abstract

Links to Exploration step

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