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Labeling DNA Probes

Labeling DNA Probes

DNA probes are fragments of DNA labeled with a reporter tag to enable their detection or purification. The resulting labeled DNA probes can then hybridize to target nucleic acid sequences through complementary base-pairing, and may be used to recover or identify these regions.
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...

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Updated: May 21, 2026

Detection of Bacteria Using Fluorogenic DNAzymes

Detection of Bacteria Using Fluorogenic DNAzymes

Published on: May 28, 2012

Detection of bacteria using fluorogenic DNAzymes.

Sergio D Aguirre¹, M Monsur Ali, Pushpinder Kanda

¹Department of Biochemistry and Biomedical Sciences, McMaster University, Canada.

Journal of Visualized Experiments : Jove

|June 13, 2012

Summary

This summary is machine-generated.

This study introduces a novel DNAzyme-based sensor for rapid and specific detection of E. coli. The sensor utilizes engineered DNAzymes that fluoresce in the presence of bacterial extracellular mixtures, offering a promising tool for early pathogen identification.

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Detection of Bacteria Using Fluorogenic DNAzymes

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Fluorescence Microscopy Methods for Determining the Viability of Bacteria in Association with Mammalian Cells

Fluorescence Microscopy Methods for Determining the Viability of Bacteria in Association with Mammalian Cells

Published on: September 5, 2013

Area of Science:

Molecular Biology
Biosensing
Biotechnology

Background:

Food-borne and hospital-acquired pathogens cause significant mortality, hospitalizations, and economic losses annually.
Current pathogen detection methods often lack a combination of high specificity, sensitivity, speed, simplicity, and cost-effectiveness.
There is a continuous need for innovative bacterial detection methods that improve upon existing limitations.

Purpose of the Study:

To investigate the potential of DNAzymes as molecular probes for bacterial detection.
To develop a novel biosensing approach for rapid and specific identification of pathogenic bacteria.
To establish a DNAzyme-based assay for detecting E. coli using its crude extracellular mixture.

Main Methods:

Isolation of RNA-cleaving fluorescent DNAzymes (RFDs) using in vitro selection (SELEX).
Development of RFDs engineered to respond to the crude extracellular mixture (CEM) of specific bacteria.
Establishment of an E. coli-specific RFD (RFD-EC1) that generates a fluorescence signal upon interaction with CEM-EC.

Main Results:

An RFD (RFD-EC1) was successfully isolated that specifically detects the crude extracellular mixture (CEM) of E. coli (CEM-EC).
RFD-EC1 demonstrated high specificity, showing no response to CEMs from other bacterial species.
The developed method offers a simple assay procedure by targeting extracellular bacterial components.

Conclusions:

DNAzymes represent a promising class of molecular probes for developing innovative bacterial detection tools.
The engineered RFD-EC1 provides a sensitive and specific method for detecting E. coli.
This approach simplifies bacterial detection by utilizing crude extracellular mixtures, bypassing the need for target purification.