Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids.
Identifieur interne : 002B12 ( Ncbi/Merge ); précédent : 002B11; suivant : 002B13Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids.
Auteurs : L D Simon [États-Unis] ; K H Abramo ; J K Sell ; L B McgownSource :
- Biospectroscopy [ 1075-4261 ] ; 1998.
Descripteurs français
- KwdFr :
- ADN simple brin (), ADN simple brin (métabolisme), Benzoxazoles (métabolisme), Colorants fluorescents (métabolisme), Composition en bases nucléiques, Conformation d'acide nucléique, Dichroïsme circulaire, Fixation compétitive, Polarisation de fluorescence, Poly A (), Poly A (métabolisme), Poly C (), Poly C (métabolisme), Poly DA-DT (), Poly DA-DT (métabolisme), Poly G (), Poly G (métabolisme), Poly T (), Poly T (métabolisme), Polydésoxyribonucléotides (), Polydésoxyribonucléotides (métabolisme), Quinoléines (métabolisme), Relation structure-activité, Spectrométrie de fluorescence, Spectrophotométrie UV, Séquences répétées d'acides nucléiques.
- MESH :
- métabolisme : ADN simple brin, Benzoxazoles, Colorants fluorescents, Poly A, Poly C, Poly DA-DT, Poly G, Poly T, Polydésoxyribonucléotides, Quinoléines.
- ADN simple brin, Composition en bases nucléiques, Conformation d'acide nucléique, Dichroïsme circulaire, Fixation compétitive, Polarisation de fluorescence, Poly A, Poly C, Poly DA-DT, Poly G, Poly T, Polydésoxyribonucléotides, Relation structure-activité, Spectrométrie de fluorescence, Spectrophotométrie UV, Séquences répétées d'acides nucléiques.
English descriptors
- KwdEn :
- Base Composition, Benzoxazoles (metabolism), Binding, Competitive, Circular Dichroism, DNA, Single-Stranded (chemistry), DNA, Single-Stranded (metabolism), Fluorescence Polarization, Fluorescent Dyes (metabolism), Nucleic Acid Conformation, Poly A (chemistry), Poly A (metabolism), Poly C (chemistry), Poly C (metabolism), Poly G (chemistry), Poly G (metabolism), Poly T (chemistry), Poly T (metabolism), Poly dA-dT (chemistry), Poly dA-dT (metabolism), Polydeoxyribonucleotides (chemistry), Polydeoxyribonucleotides (metabolism), Quinolines (metabolism), Repetitive Sequences, Nucleic Acid, Spectrometry, Fluorescence, Spectrophotometry, Ultraviolet, Structure-Activity Relationship.
- MESH :
- chemical , chemistry : DNA, Single-Stranded, Poly A, Poly C, Poly G, Poly T, Poly dA-dT, Polydeoxyribonucleotides.
- chemical , metabolism : Benzoxazoles, DNA, Single-Stranded, Fluorescent Dyes, Poly A, Poly C, Poly G, Poly T, Poly dA-dT, Polydeoxyribonucleotides, Quinolines.
- Base Composition, Binding, Competitive, Circular Dichroism, Fluorescence Polarization, Nucleic Acid Conformation, Repetitive Sequences, Nucleic Acid, Spectrometry, Fluorescence, Spectrophotometry, Ultraviolet, Structure-Activity Relationship.
Abstract
Interactions between short single-stranded DNA oligomers of homogeneous base composition and the fluorescent probes oxazole yellow (YO) and its homodimer YOYO are described. The oligomers included 15-mers and 30-mers of polydA, polydT, polydG, and polydC. Interactions between the dyes and DNA hybrids formed from complementary homogeneous strands of equal length were also investigated. No interactions were observed between the dyes and the monomeric monophosphate nucleosides A, G, T, or C. The dyes were found to interact much more strongly with the purine oligomers polydA and polydG than with the pyrimidine oligomers polydT and polydC. PolydA of both lengths has strong interactions with YOYO, whereas the polydG 30-mer interacts strongly with monomeric YO. The 15-mers of polydG and polydC of both lengths show little interaction with either dye. Interactions of the dyes with the polydA/polydT and polydG/polydC hybrids tend to be dominated by interactions with polydA and polydG, respectively. Although dye interactions generally were facilitated by hybridization, particularly for polydA/polydT, the interactions were similar to those with the single strands and different from those that have been observed in long double-stranded DNA.
DOI: 10.1002/(sici)1520-6343(1998)4:1<17::aid-bspy2>3.0.co;2-p
PubMed: 9547011
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pubmed:9547011Le document en format XML
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B" last="Mcgown">L B Mcgown</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="1998">1998</date><idno type="RBID">pubmed:9547011</idno><idno type="pmid">9547011</idno><idno type="doi">10.1002/(sici)1520-6343(1998)4:1<17::aid-bspy2>3.0.co;2-p</idno><idno type="wicri:Area/PubMed/Corpus">002696</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002696</idno><idno type="wicri:Area/PubMed/Curation">002696</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002696</idno><idno type="wicri:Area/PubMed/Checkpoint">002518</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002518</idno><idno type="wicri:Area/Ncbi/Merge">002B12</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids.</title><author><name sortKey="Simon, L D" sort="Simon, L D" uniqKey="Simon L" first="L D" last="Simon">L D Simon</name><affiliation wicri:level="1"><nlm:affiliation>Department of Chemistry, Duke University, Durham, North Carolina 27708-0346, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Chemistry, Duke University, Durham, North Carolina 27708-0346</wicri:regionArea><wicri:noRegion>North Carolina 27708-0346</wicri:noRegion></affiliation></author><author><name sortKey="Abramo, K H" sort="Abramo, K H" uniqKey="Abramo K" first="K H" last="Abramo">K H Abramo</name></author><author><name sortKey="Sell, J K" sort="Sell, J K" uniqKey="Sell J" first="J K" last="Sell">J K Sell</name></author><author><name sortKey="Mcgown, L B" sort="Mcgown, L B" uniqKey="Mcgown L" first="L B" last="Mcgown">L B Mcgown</name></author></analytic><series><title level="j">Biospectroscopy</title><idno type="ISSN">1075-4261</idno><imprint><date when="1998" type="published">1998</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Composition</term><term>Benzoxazoles (metabolism)</term><term>Binding, Competitive</term><term>Circular Dichroism</term><term>DNA, Single-Stranded (chemistry)</term><term>DNA, Single-Stranded (metabolism)</term><term>Fluorescence Polarization</term><term>Fluorescent Dyes (metabolism)</term><term>Nucleic Acid Conformation</term><term>Poly A (chemistry)</term><term>Poly A (metabolism)</term><term>Poly C (chemistry)</term><term>Poly C (metabolism)</term><term>Poly G (chemistry)</term><term>Poly G (metabolism)</term><term>Poly T (chemistry)</term><term>Poly T (metabolism)</term><term>Poly dA-dT (chemistry)</term><term>Poly dA-dT (metabolism)</term><term>Polydeoxyribonucleotides (chemistry)</term><term>Polydeoxyribonucleotides (metabolism)</term><term>Quinolines (metabolism)</term><term>Repetitive Sequences, Nucleic Acid</term><term>Spectrometry, Fluorescence</term><term>Spectrophotometry, Ultraviolet</term><term>Structure-Activity Relationship</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN simple brin ()</term><term>ADN simple brin (métabolisme)</term><term>Benzoxazoles (métabolisme)</term><term>Colorants fluorescents (métabolisme)</term><term>Composition en bases nucléiques</term><term>Conformation d'acide nucléique</term><term>Dichroïsme circulaire</term><term>Fixation compétitive</term><term>Polarisation de fluorescence</term><term>Poly A ()</term><term>Poly A (métabolisme)</term><term>Poly C ()</term><term>Poly C (métabolisme)</term><term>Poly DA-DT ()</term><term>Poly DA-DT (métabolisme)</term><term>Poly G ()</term><term>Poly G (métabolisme)</term><term>Poly T ()</term><term>Poly T (métabolisme)</term><term>Polydésoxyribonucléotides ()</term><term>Polydésoxyribonucléotides (métabolisme)</term><term>Quinoléines (métabolisme)</term><term>Relation structure-activité</term><term>Spectrométrie de fluorescence</term><term>Spectrophotométrie UV</term><term>Séquences répétées d'acides nucléiques</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>DNA, Single-Stranded</term><term>Poly A</term><term>Poly C</term><term>Poly G</term><term>Poly T</term><term>Poly dA-dT</term><term>Polydeoxyribonucleotides</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Benzoxazoles</term><term>DNA, Single-Stranded</term><term>Fluorescent Dyes</term><term>Poly A</term><term>Poly C</term><term>Poly G</term><term>Poly T</term><term>Poly dA-dT</term><term>Polydeoxyribonucleotides</term><term>Quinolines</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>ADN simple brin</term><term>Benzoxazoles</term><term>Colorants fluorescents</term><term>Poly A</term><term>Poly C</term><term>Poly DA-DT</term><term>Poly G</term><term>Poly T</term><term>Polydésoxyribonucléotides</term><term>Quinoléines</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Composition</term><term>Binding, Competitive</term><term>Circular Dichroism</term><term>Fluorescence Polarization</term><term>Nucleic Acid Conformation</term><term>Repetitive Sequences, Nucleic Acid</term><term>Spectrometry, Fluorescence</term><term>Spectrophotometry, Ultraviolet</term><term>Structure-Activity Relationship</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ADN simple brin</term><term>Composition en bases nucléiques</term><term>Conformation d'acide nucléique</term><term>Dichroïsme circulaire</term><term>Fixation compétitive</term><term>Polarisation de fluorescence</term><term>Poly A</term><term>Poly C</term><term>Poly DA-DT</term><term>Poly G</term><term>Poly T</term><term>Polydésoxyribonucléotides</term><term>Relation structure-activité</term><term>Spectrométrie de fluorescence</term><term>Spectrophotométrie UV</term><term>Séquences répétées d'acides nucléiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Interactions between short single-stranded DNA oligomers of homogeneous base composition and the fluorescent probes oxazole yellow (YO) and its homodimer YOYO are described. The oligomers included 15-mers and 30-mers of polydA, polydT, polydG, and polydC. Interactions between the dyes and DNA hybrids formed from complementary homogeneous strands of equal length were also investigated. No interactions were observed between the dyes and the monomeric monophosphate nucleosides A, G, T, or C. The dyes were found to interact much more strongly with the purine oligomers polydA and polydG than with the pyrimidine oligomers polydT and polydC. PolydA of both lengths has strong interactions with YOYO, whereas the polydG 30-mer interacts strongly with monomeric YO. The 15-mers of polydG and polydC of both lengths show little interaction with either dye. Interactions of the dyes with the polydA/polydT and polydG/polydC hybrids tend to be dominated by interactions with polydA and polydG, respectively. Although dye interactions generally were facilitated by hybridization, particularly for polydA/polydT, the interactions were similar to those with the single strands and different from those that have been observed in long double-stranded DNA.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">9547011</PMID><DateCompleted><Year>1998</Year><Month>04</Month><Day>16</Day></DateCompleted><DateRevised><Year>2019</Year><Month>11</Month><Day>02</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">1075-4261</ISSN><JournalIssue CitedMedium="Print"><Volume>4</Volume><Issue>1</Issue><PubDate><Year>1998</Year></PubDate></JournalIssue><Title>Biospectroscopy</Title><ISOAbbreviation>Biospectroscopy</ISOAbbreviation></Journal><ArticleTitle>Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids.</ArticleTitle><Pagination><MedlinePgn>17-25</MedlinePgn></Pagination><Abstract><AbstractText>Interactions between short single-stranded DNA oligomers of homogeneous base composition and the fluorescent probes oxazole yellow (YO) and its homodimer YOYO are described. The oligomers included 15-mers and 30-mers of polydA, polydT, polydG, and polydC. Interactions between the dyes and DNA hybrids formed from complementary homogeneous strands of equal length were also investigated. No interactions were observed between the dyes and the monomeric monophosphate nucleosides A, G, T, or C. The dyes were found to interact much more strongly with the purine oligomers polydA and polydG than with the pyrimidine oligomers polydT and polydC. PolydA of both lengths has strong interactions with YOYO, whereas the polydG 30-mer interacts strongly with monomeric YO. The 15-mers of polydG and polydC of both lengths show little interaction with either dye. Interactions of the dyes with the polydA/polydT and polydG/polydC hybrids tend to be dominated by interactions with polydA and polydG, respectively. Although dye interactions generally were facilitated by hybridization, particularly for polydA/polydT, the interactions were similar to those with the single strands and different from those that have been observed in long double-stranded DNA.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Simon</LastName><ForeName>L D</ForeName><Initials>LD</Initials><AffiliationInfo><Affiliation>Department of Chemistry, Duke University, Durham, North Carolina 27708-0346, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Abramo</LastName><ForeName>K H</ForeName><Initials>KH</Initials></Author><Author ValidYN="Y"><LastName>Sell</LastName><ForeName>J K</ForeName><Initials>JK</Initials></Author><Author ValidYN="Y"><LastName>McGown</LastName><ForeName>L B</ForeName><Initials>LB</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Biospectroscopy</MedlineTA><NlmUniqueID>9605413</NlmUniqueID><ISSNLinking>1075-4261</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D001583">Benzoxazoles</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004277">DNA, Single-Stranded</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D005456">Fluorescent Dyes</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D011089">Polydeoxyribonucleotides</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D011804">Quinolines</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="C097015">oxazole yellow</NameOfSubstance></Chemical><Chemical><RegistryNumber>24937-83-5</RegistryNumber><NameOfSubstance UI="D011061">Poly A</NameOfSubstance></Chemical><Chemical><RegistryNumber>25086-81-1</RegistryNumber><NameOfSubstance UI="D011071">Poly T</NameOfSubstance></Chemical><Chemical><RegistryNumber>25191-14-4</RegistryNumber><NameOfSubstance UI="D011068">Poly G</NameOfSubstance></Chemical><Chemical><RegistryNumber>26966-61-0</RegistryNumber><NameOfSubstance UI="D011067">Poly dA-dT</NameOfSubstance></Chemical><Chemical><RegistryNumber>30811-80-4</RegistryNumber><NameOfSubstance UI="D011066">Poly C</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001482" MajorTopicYN="N">Base Composition</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001583" MajorTopicYN="N">Benzoxazoles</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D001667" MajorTopicYN="N">Binding, Competitive</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002942" MajorTopicYN="N">Circular Dichroism</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004277" MajorTopicYN="N">DNA, Single-Stranded</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D005454" MajorTopicYN="N">Fluorescence Polarization</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005456" MajorTopicYN="N">Fluorescent Dyes</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D009690" MajorTopicYN="N">Nucleic Acid Conformation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D011061" MajorTopicYN="N">Poly A</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011066" MajorTopicYN="N">Poly C</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011068" MajorTopicYN="N">Poly G</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011071" MajorTopicYN="N">Poly T</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011067" MajorTopicYN="N">Poly dA-dT</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011089" MajorTopicYN="N">Polydeoxyribonucleotides</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011804" MajorTopicYN="N">Quinolines</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012091" MajorTopicYN="N">Repetitive Sequences, Nucleic Acid</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013050" MajorTopicYN="N">Spectrometry, Fluorescence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013056" MajorTopicYN="N">Spectrophotometry, Ultraviolet</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013329" MajorTopicYN="N">Structure-Activity Relationship</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>1998</Year><Month>4</Month><Day>18</Day></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>1998</Year><Month>4</Month><Day>18</Day><Hour>0</Hour><Minute>1</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>1998</Year><Month>4</Month><Day>18</Day><Hour>0</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">9547011</ArticleId><ArticleId IdType="doi">10.1002/(sici)1520-6343(1998)4:1<17::aid-bspy2>3.0.co;2-p</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country></list><tree><noCountry><name sortKey="Abramo, K H" sort="Abramo, K H" uniqKey="Abramo K" first="K H" last="Abramo">K H Abramo</name><name sortKey="Mcgown, L B" sort="Mcgown, L B" uniqKey="Mcgown L" first="L B" last="Mcgown">L B Mcgown</name><name sortKey="Sell, J K" sort="Sell, J K" uniqKey="Sell J" first="J K" last="Sell">J K Sell</name></noCountry><country name="États-Unis"><noRegion><name sortKey="Simon, L D" sort="Simon, L D" uniqKey="Simon L" first="L D" last="Simon">L D Simon</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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