Use of DNA and peptide nucleic acid molecular beacons for detection and quantification of rRNA in solution and in whole cells

Chuanwu Xi, Michal Balberg, Stephen A. Boppart, Lutgarde Raskin

Research output: Contribution to journalArticle

Abstract

DNA and peptide nucleic acid (PNA) molecular beacons were successfully used to detect rRNA in solution. In addition, PNA molecular beacon hybridizations were found to be useful for the quantification of rRNA: hybridization signals increased in a linear fashion with the 16S rRNA concentrations used in this experiment (between 0.39 and 25 nM) in the presence of 50 nM PNA MB. DNA and PNA molecular beacons were successfully used to detect whole cells in fluorescence in situ hybridization (FISH) experiments without a wash step. The FISH results with the PNA molecular beacons were superior to those with the DNA molecular beacons: the hybridization kinetics were much faster, the signal-to-noise ratio was much higher, and the specificity was much better for the PNA molecular beacons. Finally, it was demonstrated that the combination of the use of PNA molecular beacons in FISH and flow cytometry makes it possible to rapidly collect quantitative FISH data. Thus, PNA molecular beacons might provide a solution for limitations of traditional FISH methods, such as variable target site accessibility, poor sensitivity for target cells with low rRNA content, background fluorescence, and applications of FISH in microfluidic devices.

Original languageEnglish (US)
Pages (from-to)5673-5678
Number of pages6
JournalApplied and environmental microbiology
Volume69
Issue number9
DOIs
StatePublished - Sep 1 2003

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Peptide Nucleic Acids
nucleic acid
peptide
nucleic acids
fluorescence in situ hybridization
Fluorescence In Situ Hybridization
ribosomal RNA
peptides
DNA
fluorescence
cells
hybridization
Lab-On-A-Chip Devices
detection
Signal-To-Noise Ratio
flow cytometry
accessibility
signal-to-noise ratio
Flow Cytometry
in situ

ASJC Scopus subject areas

  • Biotechnology
  • Food Science
  • Applied Microbiology and Biotechnology
  • Ecology

Cite this

Use of DNA and peptide nucleic acid molecular beacons for detection and quantification of rRNA in solution and in whole cells. / Xi, Chuanwu; Balberg, Michal; Boppart, Stephen A.; Raskin, Lutgarde.

In: Applied and environmental microbiology, Vol. 69, No. 9, 01.09.2003, p. 5673-5678.

Research output: Contribution to journalArticle

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