Light-up probes: Thiazole orange-conjugated peptide nucleic acid for detection of target nucleic acid in homogeneous solution

Analytical Biochemistry

Volumn 281, Issue 1, 2000, Pages 26-35

  Svanvik, Nicke ^a   Westman, Gunnar ^b   Wang, Dongyuan ^a   Kubista, Mikael ^a  

^a Lundberg Laboratory   (Sweden)

^b CHALMERS UNIVERSITY OF TECHNOLOGY   (Sweden)

Author keywords

Asymmetric cyanine dye; Fluorescent hybridization probe; Homogeneous assays; Peptide nucleic acid; PNA; Thiazole orange

Indexed keywords

CITRUS FRUITS; DNA; FLUORESCENCE; OLIGONUCLEOTIDES; PEPTIDES; QUANTUM THEORY;

CYANINE DYES; HOMOGENEOUS ASSAYS; HYBRIDIZATION PROBE; PEPTIDE NUCLEIC ACID; THIAZOLE ORANGES;

PROBES;

DNA; NUCLEIC ACID; PEPTIDE NUCLEIC ACID; THIAZOLE ORANGE;

ARTICLE; CHEMICAL STRUCTURE; COMPLEX FORMATION; GENE TARGETING; HYBRIDIZATION; NONHUMAN; NUCLEIC ACID ANALYSIS; NUCLEIC ACID PROBE; PRIORITY JOURNAL; QUANTUM MECHANICS; SEQUENCE HOMOLOGY; THERMOSTABILITY;

EID: 0034658648     PISSN: 00032697     EISSN: None     Source Type: Journal    
DOI: 10.1006/abio.2000.4534     Document Type: Article

References (25)

1. Yguerabide J., Talavera E., Alvarez J. M., Afkir M. Pyrene-labeled DNA probes for homogeneous detection of complementary DNA sequences: Poly(C) model system. Anal. Biochem. 241:1996;238-247.
2. Ishiguro T., Saitoh J., Yawata H., Otsuka M., Inoue T., Sugiura Y. Fluorescence detection of specific sequence of nucleic acids by oxazole yellow-linked oligonucleotides. Homogeneous quantitative monitoring of in vitro transcription. Nucleic Acids Res. 24:1996;4992-4997.
3. Livak K. J., Flood S. J., Marmaro J., Giusti W., Deetz K. Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization. PCR Methods Appl. 4:1995;357-362.
4. Heid C. A., Stevens J., Livak K. J., Williams P. M. Real time quantitative PCR. Genome Res. 6:1996;986-994.
5. Tyagi S., Kramer F. R. Molecular beacons: Probes that fluoresce upon hybridization. Nat. Biotechnol. 14:1996;303-308.
6. Tyagi S., Bratu D. P., Kramer F. R. Multicolor molecular beacons for allele discrimination. Nat. Biotechnol. 16:1998;49-53.
7. Whitcombe D., Theaker J., Guy S. P., Brown T., Little S. Detection of PCR products using self-probing amplicons and fluorescence. Nat. Biotechnol. 17:1999;804-807.
8. Egholm M., Buchardt O., Christiansen L., Behrens K., Freier S. M., Driver D. A., Berg R. H., Kim S. K., Nordén B., Nielsen P. E. PNA hybridizes to complementary oligonucleotides obeying the Watson-Crick hydrogen-bonding rules. Nature. 365:1993;566-568.
9. Haugland R. P. Spence M. T. Z. Handbook of Fluorescent Probes and Research Chemicals. 1996;Molecular Probes Inc. Eugene.
10. Christensen L., Fitzpatrick R., Gildea B., Petersen K. H., Hansen H. F., Koch T., Egholm M., Buchardt O., Nielsen P. E., Coull J. Solid-phase synthesis of peptide nucleic acids. J. Peptide Sci. 1:1995;175-183.
11. Egholm M., Nielsen P., Buchardt O., Berg R. H. Recognition of guanine and adenine in DNA by cytosine and thymine containing peptide nucleic acids (PNA). J. Am. Chem. Soc. 114:1992;9677-9678.
12. Kim S. K., Nielsen P. E., Egholm M., Buchardt O., Berg R. H., Nordén B. Right-handed triplex formed between peptide nucleic-acid PNA-T(8) and poly(dA) shown by linear and circular-dichroism spectroscopy. J. Am. Chem. Soc. 115:1993;6477-6481.
13. Sambrook J., Fritsch E. F., Maniatis T. Molecular Cloning, A Laboratory Manual. 1989;Cold Spring Harbor Laboratory Press, Cold Spring Harbor. p. 11.30.
14. Zhou X.-f., Peng Z-h., Geise J., Peng B-x., Li Z-x., Yan M., Dommisse R., Carieer R., Claeys M. Blue sensitizing dyes: Synthesis, spectroscopy, and performance in photographic emulsions. J. Imaging Sci. Technol. 39:1995;244-252.
15. Kubista M., Sjöback R., Eriksson S., Albinsson B. Experimental correction for the inner-filter effect in fluorescence Spectra. Analyst. 119:1994;417-419.
16. Nygren J., Svanvik N., Kubista M. The interactions between the fluorescent dye thiazole orange and DNA. Biopolymers. 46:1998;39-51.
17. Sjöback R., Nygren J., Kubista M. Absorption and fluorescence properties of fluorescien. Spectrochim. Acta. 51:1995;L7-L21.
18. Egholm M., Buchardt O., Nielsen P. E., Berg R. H. Peptide nucleic acids (PNA). Oligonucleotide analogs with an achiral peptide backbone. J. Am. Chem. Soc. 114:1992;1895-1897.
19. Wittung P., Kim S. K., Buchardt O., Nielsen P., Norden B. Interactions of DNA binding ligands with PNA-DNA hybrids. Nucleic Acids Res. 22:1994;5371-5377.
20. Egholm M., Christensen L., Dueholm K. L., Buchardt O., Coull J., Nielsen P. E. Efficient pH-independent sequence-specific DNA binding by pseudoisocytosine-containing bis-PNA. Nucleic Acids Res. 23:1995;217-222.
21. Nielsen P. E., Egholm M., Berg R. H., Buchardt O. Sequence selective recognition by strand displacement with a thymine-substituted polyamid. Science. 254:1991;1497-1500.
22. Nielsen P. E., Egholm M., Buchardt O. Evidence for (PNA)2/DNA triplex structure upon binding of PNA to dsDNA by strand displacement. J. Mol. Recognit. 7:1994;165-170.
23. Kuhn H., Demidov V. V., Nielsen P. E., Frank-Kamenetskii M. D. An experimental study of mechanism and specificity of peptide nucleic acid (PNA) binding to duplex DNA. J. Mol. Biol. 286:1999;1337-1345.
24. Wittung P., Nielsen P., Nordén B. Direct observation of strand invasion by peptide nucleic acid (PNA) into double-stranded DNA. J. Am. Chem. Soc. 118:1996;7049-7054.
25. Wittung P., Nielsen P., Norden B. Extended DNA-recognition repertoire of peptide nucleic acid (PNA): PNA-dsDNA triplex formed with cytosine-rich homopyrimidine PNA. Biochemistry. 36:1997;7973-7979.