A new minor groove binding asymmetric cyanine reporter dye for real-time PCR

Nucleic Acids Res. 2003 Apr 15;31(8):e45. doi: 10.1093/nar/gng045.

Abstract

The minor groove binding asymmetric cyanine dye 4-[(3-methyl-6-(benzothiazol-2-yl)-2,3-dihydro- (benzo-1,3-thiazole)-2-methylidene)]-1-methyl-pyridin ium iodide (BEBO) is tested as sequence non- specific label in real-time PCR. The fluorescence intensity of BEBO increases upon binding to double-stranded DNA allowing emission to be measured at the end of the elongation phase in the PCR cycle. BEBO concentrations between 0.1 and 0.4 micro M generated sufficient fluorescence signal without inhibiting the PCR. A comparison with the commonly used reporter dye SYBR Green I shows that the two dyes behave similarly in all important aspects.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Benzothiazoles
  • Carbocyanines / chemistry*
  • DNA / chemistry*
  • DNA / genetics
  • Diamines
  • Fluorescent Dyes / chemistry
  • Humans
  • Mice
  • Nucleic Acid Conformation
  • Organic Chemicals*
  • Polymerase Chain Reaction / methods*
  • Pyridinium Compounds / chemistry*
  • Quinolines
  • Spectrometry, Fluorescence
  • Thiazoles / chemistry*

Substances

  • 4-((3-methyl-6-(benzothiazol-2-yl)-2,3-dihydro- (benzo-1,3-thiazole)-2-methylidene))-1-methyl-pyridinium iodide
  • Benzothiazoles
  • Carbocyanines
  • Diamines
  • Fluorescent Dyes
  • Organic Chemicals
  • Pyridinium Compounds
  • Quinolines
  • Thiazoles
  • SYBR Green I
  • DNA