Fluorescent Oligonucleotide Probes
Fluorescent Oligonucleotide Probes - Related Videos
06:08
In Situ Hybridization Using Oligonucleotide Probes to Study RNA Expression in Rat Brain Sections
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2025
This video demonstrates the detection of serotonin receptor RNA synthesis using oligonucleotide probes in rat brain tissue affected by serotonin syndrome. The protocol includes tissue pretreatment, probe hybridization, and enzymatic detection to visualize and quantify serotonin receptor RNA expression under a microscope.
09:58
An Optimized Protocol for Electrophoretic Mobility Shift Assay Using Infrared Fluorescent Dye-labeled Oligonucleotides
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Cited by 14 •
2016
We describe here an optimized protocol of fluorescent Electrophoretic Mobility Shift Assays (fEMSA) using purified SOX-2 proteins together with infrared fluorescent dye-labeled DNA probes as a case study to tackle an important biological question.
08:49
Rapid In Situ Hybridization using Oligonucleotide Probes on Paraformaldehyde-prefixed Brain of Rats with Serotonin Syndrome
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Cited by 2 •
2015
This protocol describes a rapid and simplified in situ hybridization method ideal forparaformaldehyde-prefixed brain, thus reducing the need for prolonged complex steps while using fresh frozen tissues. The method is validated using the identification of the serotonin 5-HT2A receptor gene htr2a in rats.
11:09
Multiplex Detection of Bacteria in Complex Clinical and Environmental Samples using Oligonucleotide-coupled Fluorescent Microspheres
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Cited by 5 •
2011
We describe a multiplex method for the detection of microorganisms within a sample using oligonucleotide-coupled fluorescent beads. Amplicon from all organisms within a sample is hybridized to a panel of probe-coupled beads. A Luminex or Bio-Plex instrument is used to query each bead for bead type and hybridization signal.
07:14
Assessing Phagocytic Clearance of Cell Death in Experimental Stroke by Ligatable Fluorescent Probes
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Cited by 4 •
2014
We present a new fluorescence technique for selective in situ labeling of active phagocytic cells, which clear off cell corpses in stroke. The approach is important for assessing brain reaction to ischemia because only a small proportion of phagocytes present in ischemic brain participate in clearance of cell death.
FAQs
Specificity depends on how closely the probe sequence matches the intended DNA or RNA target and on the conditions used for hybridization. Appropriate design and controlled hybridization favor binding to the complementary sequence rather than unrelated nucleic acids. These factors determine whether fluorescence more reliably indicates the target of interest in a biological sample.
The fluorescent reporter converts a binding event into a detectable signal. When the target sequence is present and the probe binds, fluorescence can be measured or imaged, allowing investigators to identify the molecular sequence. The resulting signal can also connect molecular detection with spatial information or quantitative analysis, depending on how the sample is examined.
Complementary base pairing provides the sequence-recognition mechanism that directs a probe toward a particular DNA or RNA target. Because the probe sequence is selected to match the target, binding links fluorescence to molecular identity rather than to general nucleic-acid presence. This sequence-based recognition supports specific analysis of genes, chromosomes, pathogens, or other genetic sequences.
A typical workflow starts by selecting the DNA or RNA sequence of interest and designing a complementary oligonucleotide with an attached fluorescent reporter. The probe is then used under chosen hybridization conditions so it can bind the target in the sample. Researchers finally measure or image the resulting fluorescence to assess target presence and location.
These probes support several distinct questions: whether a particular nucleic acid sequence is present, how gene expression varies, where a sequence occurs within chromosomes or cells, and whether pathogen or genetic sequences can be visualized. Their value comes from combining sequence-specific detection with either imaging-based localization or measurable fluorescence signals.
Fluorescent oligonucleotide probes can show not only that a target sequence is present but also where the signal appears in a biological sample. Imaging supports chromosome and cellular localization, while measured fluorescence provides a basis for quantitative analysis. This combination helps relate molecular identity to organization, distribution, or expression in biological research and diagnostic applications.