Nucleobase orientation and ordering in films of single-stranded DNA on gold.
Identifieur interne : 000391 ( Ncbi/Curation ); précédent : 000390; suivant : 000392Nucleobase orientation and ordering in films of single-stranded DNA on gold.
Auteurs : Dmitri Y. Petrovykh [États-Unis] ; V. Pérez-Dieste ; Aric Opdahl ; Hiromi Kimura-Suda ; J M Sullivan ; Michael J. Tarlov ; F J Himpsel ; Lloyd J. WhitmanSource :
- Journal of the American Chemical Society [ 0002-7863 ] ; 2006.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- 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 toward previous steps (curation, corpus...)
- to stream PubMed, to step Corpus: Pour aller vers cette notice dans l'étape Curation :002290
- to stream PubMed, to step Curation: Pour aller vers cette notice dans l'étape Curation :002290
- to stream PubMed, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :002107
- to stream Ncbi, to step Merge: Pour aller vers cette notice dans l'étape Curation :000391
Links to Exploration step
pubmed:16390092Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Nucleobase orientation and ordering in films of single-stranded DNA on gold.</title><author><name sortKey="Petrovykh, Dmitri Y" sort="Petrovykh, Dmitri Y" uniqKey="Petrovykh D" first="Dmitri Y" last="Petrovykh">Dmitri Y. Petrovykh</name><affiliation wicri:level="4"><nlm:affiliation>Physics Department, University of Maryland, College Park, MD 20742, USA. dmitri.petrovykh@nrl.navy.mil</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Physics Department, University of Maryland, College Park, MD 20742</wicri:regionArea><placeName><region type="state">Maryland</region><settlement type="city">College Park (Maryland)</settlement></placeName><orgName type="university">Université du Maryland</orgName></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></author><author><name sortKey="Sullivan, J M" sort="Sullivan, J M" uniqKey="Sullivan J" first="J M" last="Sullivan">J M Sullivan</name></author><author><name sortKey="Tarlov, Michael J" sort="Tarlov, Michael J" uniqKey="Tarlov M" first="Michael J" last="Tarlov">Michael J. Tarlov</name></author><author><name sortKey="Himpsel, F J" sort="Himpsel, F J" uniqKey="Himpsel F" first="F J" last="Himpsel">F J Himpsel</name></author><author><name sortKey="Whitman, Lloyd J" sort="Whitman, Lloyd J" uniqKey="Whitman L" first="Lloyd J" last="Whitman">Lloyd J. Whitman</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2006">2006</date><idno type="RBID">pubmed:16390092</idno><idno type="pmid">16390092</idno><idno type="doi">10.1021/ja052443e</idno><idno type="wicri:Area/PubMed/Corpus">002290</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002290</idno><idno type="wicri:Area/PubMed/Curation">002290</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002290</idno><idno type="wicri:Area/PubMed/Checkpoint">002107</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002107</idno><idno type="wicri:Area/Ncbi/Merge">000391</idno><idno type="wicri:Area/Ncbi/Curation">000391</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Nucleobase orientation and ordering in films of single-stranded DNA on gold.</title><author><name sortKey="Petrovykh, Dmitri Y" sort="Petrovykh, Dmitri Y" uniqKey="Petrovykh D" first="Dmitri Y" last="Petrovykh">Dmitri Y. Petrovykh</name><affiliation wicri:level="4"><nlm:affiliation>Physics Department, University of Maryland, College Park, MD 20742, USA. dmitri.petrovykh@nrl.navy.mil</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Physics Department, University of Maryland, College Park, MD 20742</wicri:regionArea><placeName><region type="state">Maryland</region><settlement type="city">College Park (Maryland)</settlement></placeName><orgName type="university">Université du Maryland</orgName></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></author><author><name sortKey="Sullivan, J M" sort="Sullivan, J M" uniqKey="Sullivan J" first="J M" last="Sullivan">J M Sullivan</name></author><author><name sortKey="Tarlov, Michael J" sort="Tarlov, Michael J" uniqKey="Tarlov M" first="Michael J" last="Tarlov">Michael J. Tarlov</name></author><author><name sortKey="Himpsel, F J" sort="Himpsel, F J" uniqKey="Himpsel F" first="F J" last="Himpsel">F J Himpsel</name></author><author><name sortKey="Whitman, Lloyd J" sort="Whitman, Lloyd J" uniqKey="Whitman L" first="Lloyd J" last="Whitman">Lloyd J. Whitman</name></author></analytic><series><title level="j">Journal of the American Chemical Society</title><idno type="ISSN">0002-7863</idno><imprint><date when="2006" type="published">2006</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>DNA, Single-Stranded (chemistry)</term><term>Gold (chemistry)</term><term>Models, Molecular</term><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></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN simple brin ()</term><term>Analyse spectrale ()</term><term>Conformation d'acide nucléique</term><term>Modèles moléculaires</term><term>Oligodésoxyribonucléotides ()</term><term>Or ()</term><term>Rayons X</term><term>Spectroscopie infrarouge à transformée de Fourier ()</term><term>Thymine ()</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>DNA, Single-Stranded</term><term>Gold</term><term>Oligodeoxyribonucleotides</term><term>Thymine</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Spectroscopy, Fourier Transform Infrared</term><term>Spectrum Analysis</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Models, Molecular</term><term>Nucleic Acid Conformation</term><term>X-Rays</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ADN simple brin</term><term>Analyse spectrale</term><term>Conformation d'acide nucléique</term><term>Modèles moléculaires</term><term>Oligodésoxyribonucléotides</term><term>Or</term><term>Rayons X</term><term>Spectroscopie infrarouge à transformée de Fourier</term><term>Thymine</term></keywords></textClass></profileDesc></teiHeader><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></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Ncbi/Curation
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000391 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Ncbi/Curation/biblio.hfd -nk 000391 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= MersV1
|flux= Ncbi
|étape= Curation
|type= RBID
|clé= pubmed:16390092
|texte= Nucleobase orientation and ordering in films of single-stranded DNA on gold.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Ncbi/Curation/RBID.i -Sk "pubmed:16390092" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Ncbi/Curation/biblio.hfd \
| NlmPubMed2Wicri -a MersV1
| This area was generated with Dilib version V0.6.33. |  |