Mutation detection in DNA oligonucleotides based on a guanine quenching method coupled with enzymatic digestion of single-stranded DNA

Biotechnology Letters

Volumn 27, Issue 18, 2005, Pages 1349-1354

  Maruyama, Tatsuo ^a   Shinohara, Toshimitsu ^a   Ichinose, Hirofumi ^b   Kitaoka, Momoko ^b   Okamura, Nobuko ^b   Kamiya, Noriho ^a   Goto, Masahiro ^a,b  

^a KYUSHU UNIVERSITY   (Japan)

^b JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

Author keywords

DNA; Fluorescence resonance energy transfer (FRET); Guanine quenching; Single nucleotide polymorphisms (SNPs); T7 endonuclease

Indexed keywords

BIOTECHNOLOGY; ENZYMES; FLUORESCENCE; MUTAGENESIS; QUENCHING;

GUANINE QUENCHING; MUTATION; T7 ENDONUCLEASE;

DNA;

4 CARBOXYFLUORESCEIN; 4-CARBOXYFLUORESCEIN; 5 CARBOXYTETRAMETHYLRHODAMINE SUCCINIMIDYL ESTER; 5-CARBOXYTETRAMETHYLRHODAMINE SUCCINIMIDYL ESTER; DNA DIRECTED DNA POLYMERASE; EXODEOXYRIBONUCLEASE; FLUORESCEIN DERIVATIVE; FLUORESCEIN ISOTHIOCYANATE; GENE B EXONUCLEASE; GUANOSINE TRIPHOSPHATE; OLIGODEOXYRIBONUCLEOTIDE; RHODAMINE; SINGLE STRANDED DNA;

ARTICLE; CHEMISTRY; COMPARATIVE STUDY; ENZYMOLOGY; FLUORESCENCE; FLUORESCENCE RESONANCE ENERGY TRANSFER; GENETICS; HEPATITIS B VIRUS; HUMAN; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; NUCLEIC ACID HYBRIDIZATION; NUCLEOTIDE SEQUENCE; OLIGONUCLEOTIDE PROBE; POINT MUTATION;

BASE SEQUENCE; DNA, SINGLE-STRANDED; DNA-DIRECTED DNA POLYMERASE; EXODEOXYRIBONUCLEASES; FLUORESCEIN-5-ISOTHIOCYANATE; FLUORESCEINS; FLUORESCENCE; FLUORESCENCE RESONANCE ENERGY TRANSFER; GUANOSINE TRIPHOSPHATE; HEPATITIS B VIRUS; HUMANS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; OLIGODEOXYRIBONUCLEOTIDES; OLIGONUCLEOTIDE PROBES; POINT MUTATION; RHODAMINES;

EID: 29144531861     PISSN: 01415492     EISSN: 15736776     Source Type: Journal    
DOI: 10.1007/s10529-005-3681-x     Document Type: Article

References (18)

1. Abravaya K, Carrino JJ, Muldoon S, Lee HH (1995) Detection of point mutations with a modified ligase chain reaction. Nucleic Acids Res. 23: 675-682.
2. Chen X, Zehnbauer B, Gnirke A, Kwok PY (1997) Fluorescence energy transfer detection as a homogeneous DNA diagnostic method. Proc. Natl. Acad. Sci. USA 94: 10756-10761.
3. Chin R, Locarnini S (2003) Treatment of chronic hepatitis B: current challenges and future directions. Rev. Med. Virol 13: 255-272.
4. Cooper JP, Hagerman PJ (1990) Analysis of fluorescence energy-transfer in duplex and branched DNA-molecules. Biochemistry 29: 9261-9268.
5. Hall JG, Eis PS, Law SM, Reynaldo LP, Prudent JR, Marshall DJ, Allawi HT, Mast AL, Dahlberg JE, Kwiatkowski RW, de Arruda M, Neri BP, Lyamichev VI (2000) Sensitive detection of DNA polymorphisms by the serial invasive signal amplification reaction. Proc. Natl. Acad. Sci. USA 97: 8272-8277.
6. Horn T, Chang CA, Urdea MS (1997) Chemical synthesis and characterization of branched oligodeoxyribonucleotides (bDNA) for use as signal amplifiers in nucleic acid quantification assays. Nucleic Acids Res. 25: 4842-4849.
7. Lee SP, Porter D, Chirikjian JG, Knutson JR, Han MK (1994) A fluorometric assay for DNA cleavage reactions characterized with BamHI restriction endonuclease. Anal. Biochem. 220: 377-383.
8. Li GH, Tolstonog GV, Sabasch M, Traub P (2003) Type III intermediate filament proteins interact with four-way junction DNA and facilitate its cleavage by the junction-resolving enzyme T7 endonuclease I. DNA Cell Biol. 22: 261-291.
9. Kurata S, Kanagawa T, Yamada K, Torimura M, Yokomaku T, Kamagata Y, Kurane R (2001) Fluorescent quenching-based quantitative detection of specific DNA/RNA using a BODIPY® FL-labeled probe or primer. Nucleic Acids Res. 29: e34-.
10. Livak KJ, Marmaro J, Todd JA (1995) Towards fully automated genome-wide polymorphism screening. Nature Genet. 4: 341-342.
11. Myakishev MV, Khripin Y, Hu S, Hamer DH (2001) High-throughput SNP genotyping by allele-specific PCR with universal energy-transfer-labeled primers. Genome Res. 11: 163-169.
12. Peyret NP, Seneviratne A, Allawi HT, SantaLucia J (1999) Nearest-neighbor thermodynamics and NMR of DNA sequences with internal A center dot A, C center dot C, G center dot G, and T center dot T mismatches. Biochemistry 38: 3468-3477.
13. Pettipher R, Cardon LR (2002) The application of genetics to the discovery of better medicines. Pharmacogenomics 3: 257-263.
14. Piatek AS, Tyagi S, Pol AC, Telenti A, Miller LP, Kramer FR, Alland D (1998) Molecular beacon sequence analysis for detecting drug resistance in Mycobacterium tuberculosis. Nat. Biotechnol. 16: 359-363.
15. Picksley SM, Parsons CA, Kemper B, West SC (1990) Cleavage specificity of bacteriophage-T4 endonuclease-VII and bacteriophage-T7 endonuclease-I on synthetic branch migratable holliday junctions. J. Mol. Biol. 212: 723-735.
16. Schena M. (1999) DNA Microarrays, New York: Oxford University Press.
17. Shalon D, Smith SJ, Brown PO (1996) A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization. Genome Res. 6: 639-645.
18. Torimura M, Kurata S, Yamada K, Yokomaku T, Kamagata Y, Kanagawa T, Kurane R. (2001) Fluorescence-quenching phenomenon by photoinduced electron transfer between a fluorescent dye and a nucleotide base. Anal. Sci. 17: 155-160.