Effect of primary and secondary structure of oligodeoxyribonucleotides on the fluorescent properties of conjugated dyes

Nucleic Acids Research

Volumn 30, Issue 9, 2002, Pages 2089-2095

  Nazarenko, Irina ^a,b   Pires, Rick ^a   Lowe, Brian ^a   Obaidy, Mohamad ^a   Rashtchian, Ayoub ^a  

^a INVITROGEN CORPORATION   (United States)

^b MetriGenix Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED DNA; FLUORESCENT DYE; GUANOSINE; OLIGODEOXYRIBONUCLEOTIDE;

ARTICLE; BASE PAIRING; CHEMICAL LABELING; CHEMICAL PROCEDURES; CHEMICAL STRUCTURE; CONTROLLED STUDY; FLUORESCENCE POLARIZATION; HYBRIDIZATION; PHOTOCHEMICAL QUENCHING; PRIORITY JOURNAL; SEQUENCE ANALYSIS; STRUCTURE ANALYSIS;

BASE PAIRING; BASE SEQUENCE; FLUORESCEIN; FLUORESCENCE; FLUORESCENT DYES; KINETICS; NUCLEIC ACID CONFORMATION; NUCLEIC ACID DENATURATION; NUCLEIC ACID HYBRIDIZATION; OLIGODEOXYRIBONUCLEOTIDES; TEMPERATURE;

EID: 0036567249     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (38)

1. Fluorescence studies of DNA and RNA structure and dynamics
2. Energy-transfer fluorescent reagents for DNA analyses
3. A fluorescent complex between ethidium bromide and nucleic acids. Physical-chemical characterization
4. The fluorescence of dye-nucleic acids complexes
5. Spectroscopic analysis of drug-nucleic acid interactions
6. Nonintercalating DNA-binding ligands: Specificity of the interaction and their use as tools in biophysical, biochemical and biological investigations of the genetic material
7. Binding characteristics of Hoechst 33258 with calf thymus DNA, poly[d(A-T)] and d(CCGGAATTCCGG): Multiple stoichiometries and determination of tight binding with a wide spectrum of site affinities
8. Detection of nucleic acid hybridization by nonradiative fluorescence resonance energy transfer
9. Fluorescence energy transfer shows that the four-way DNA junction is a right-handed cross of antiparallel molecules
10. Analysis of fluorescence energy transfer in duplex and branched DNA molecules
11. Fluorescence resonance energy transfer analysis of the structure of the four-way DNA junction
12. A fluorometric assay for DNA cleavage reactions characterized with BamH1 restriction endonuclease
13. Dynamics of the electron transfer reaction between an oxazine dye and DNA oligonucleotides monitored on the single-molecule level
14. Real-time monitoring of hairpin ribozyme kinetics through base-specific quenching of fluorescein-labeled substrates
15. Melting and premelting transitions of an oligomer measured by DNA base fluorescence and absorption
16. Fluorescence properties of pteridine nucleoside analogs as monomers and incorporated into oligonucleotides
17. Structure and dynamics of a fluorescent DNA oligomer containing the EcoR1 recognition sequence: Fluorescence, molecular dynamics and NMR studies
18. Fluorescent d(CGCGAATTCGCG): Characterization of major groove polarity and study of minor groove interactions through a major groove semantophore conjugate
19. Pyrene derivatives as fluorescent probes of conformation near the 3′ termini of polyribonucleotides
20. Base sequence dependence of emission lifetimes for DNA oligomers and duplexes covalently labeled with pyren: Relative electron transfer quenching efficiencies of A, G, C and T nucleoside towards pyren
21. Conformational transitions monitored for single molecules in solution
22. Monitoring conformational dynamics of a single molecule by selective fluorescence spectroscopy
23. Stability, specificity and fluorescence brightness of multiply-labeled fluorescent DNA probes
24. Complex formation between pyrene and the nucleotides GMP, CMP, TMP, and AMP
25. Proton-coupled photoinduced electron transfer, deuterium isotope effects and fluorescence quenching in noncovalent benzo[α]pyrenetetraol-nucleoside complexes in aqueous solutions
26. Nucleobase-specific quenching of fluorescent dyes. 1. Nucleobase one-electron redox potentials and their correlation with static and dynamic quenching efficiencies
27. Fast interactions between Rh6G and dGTP in water studied by fluorescence correlation spectroscopy
28. Dynamics of photoinduced charge transfer and hole transport in synthetic DNA hairpins
29. How easily oxidizable is DNA? One-electron reduction potentials of adenosine and guanosine radicals in aqueous solution
30. Probes for detection of specific DNA sequences at the single-molecule level
31. Fluorescein-labeled oligonucleotides for real-time PCR: Using the inherent quenching of deoxyguanosine nucleotides
32. Fluorescent quenching-based quantitative detection of specific DNA/RNA using a BODIPY® FL-labeled probe or primer
33. Long-range photoinduced electron transfer through a DNA helix
34. Direct measurement of electrical transport through DNA molecules
35. Fluorescence energy transfer dye-labeled primers for DNA sequencing and analysis
36. Fluorescence characteristics of 5-carboxytetramethylrhodamine linked covalently to the 5′ end of oligonucleotides: Multiple conformers of single-stranded and double-stranded dye-DNA complexes
37. Multiplex quantitative PCR using self-quenched primers labeled with a single fluorophore