Molecular beacons, or molecular beacon probes, are oligonucleotidehybridization probes that can report the presence of specific nucleic acids in homogenous solutions. Molecular beacons are hairpin-shaped molecules with an internally quenchedfluorophore whose fluorescence is restored when they bind to a target nucleic acid sequence. This is a novel non-radioactive method for detecting specific sequences of nucleic acids. They are useful in situations where it is either not possible or desirable to isolate the probe-target hybrids from an excess of the hybridization probes.
Structure of molecular beacons in their native conformations (top) or hybridized with a DNA strand (bottom)
A typical molecular beacon probe is 25 nucleotides long.[citation needed] The middle 15 nucleotides are complementary to the target DNA or RNA and do not base pair with one another, while the five nucleotides at each terminus are complementary to each other rather than to the target DNA. A typical molecular beacon structure can be divided in 4 parts: 1) loop, an 18–30 base pair region of the molecular beacon that is complementary to the target sequence; 2) stem formed by the attachment to both termini of the loop of two short (5 to 7 nucleotide residues) oligonucleotides that are complementary to each other; 3) 5' fluorophore at the 5' end of the molecular beacon, a fluorescent dye is covalently attached; 4) 3' quencher (non fluorescent) dye that is covalently attached to the 3' end of the molecular beacon. When the beacon is in closed loop shape, the quencher resides in proximity to the fluorophore, which results in quenching the fluorescent emission of the latter.
If the nucleic acid to be detected is complementary to the strand in the loop, the event of hybridization occurs. The duplex formed between the nucleic acid and the loop is more stable than that of the stem because the former duplex involves more base pairs. This causes the separation of the stem and hence of the fluorophore and the quencher. Once the fluorophore is no longer next to the quencher, illumination of the hybrid with light results in the fluorescent emission. The presence of the emission reports that the event of hybridization has occurred and hence the target nucleic acid sequence is present in the test sample.
Use in Cell Engineeringedit
Fluorogenic signaling oligonucleotide probes were reported for use to detect and isolate cells expressing one or more desired genes, including the production of multigene stable cell lines expressing heteromultimeric epithelial sodium channel (αβγ-ENaC), sodium voltage-gated ion channel 1.7 (NaV1.7-αβ1β2), four unique γ-aminobutyric acid A (GABAA) receptor ion channel subunit combinations α1β3γ2s, α2β3γ2s, α3β3γ2s and α5β3γ2s, cystic fibrosis conductance regulator (CFTR), CFTR-Δ508 and two G-protein coupled receptors (GPCRs).[1]
Molecular beacons are syntheticoligonucleotides whose preparation is well documented. In addition to the conventional set of nucleoside phosphoramidites, the synthesis also requires a solid support derivatized with a quencher and a phosphoramidite building block designed for the attachment of a protected fluorescent dye.
The first use of the term molecular beacons, synthesis and demonstration of function was in 1996.[2]
^ abcTäpp I, Malmberg L, Rennel E, Wik M, Syvänen AC (April 2000). "Homogeneous scoring of single-nucleotide polymorphisms: comparison of the 5'-nuclease TaqMan assay and Molecular Beacon probes". BioTechniques. 28 (4): 732–8. doi:10.2144/00284rr02. PMID 10769752.
^Okamoto A (December 2011). "ECHO probes: a concept of fluorescence control for practical nucleic acid sensing". Chemical Society Reviews. 40 (12): 5815–28. doi:10.1039/c1cs15025a. PMID 21660343.
January 04, 2024
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Molecular beacons or molecular beacon probes are oligonucleotide hybridization probes that can report the presence of specific nucleic acids in homogenous solutions Molecular beacons are hairpin shaped molecules with an internally quenched fluorophore whose fluorescence is restored when they bind to a target nucleic acid sequence This is a novel non radioactive method for detecting specific sequences of nucleic acids They are useful in situations where it is either not possible or desirable to isolate the probe target hybrids from an excess of the hybridization probes Structure of molecular beacons in their native conformations top or hybridized with a DNA strand bottom Contents 1 Molecular beacon probes 2 Use in Cell Engineering 3 Synthesis 4 Alternative homogeneous assay technologies 5 Applications 6 ReferencesMolecular beacon probes edit nbsp The structure of a typical molecular beacon probeA typical molecular beacon probe is 25 nucleotides long citation needed The middle 15 nucleotides are complementary to the target DNA or RNA and do not base pair with one another while the five nucleotides at each terminus are complementary to each other rather than to the target DNA A typical molecular beacon structure can be divided in 4 parts 1 loop an 18 30 base pair region of the molecular beacon that is complementary to the target sequence 2 stem formed by the attachment to both termini of the loop of two short 5 to 7 nucleotide residues oligonucleotides that are complementary to each other 3 5 fluorophore at the 5 end of the molecular beacon a fluorescent dye is covalently attached 4 3 quencher non fluorescent dye that is covalently attached to the 3 end of the molecular beacon When the beacon is in closed loop shape the quencher resides in proximity to the fluorophore which results in quenching the fluorescent emission of the latter If the nucleic acid to be detected is complementary to the strand in the loop the event of hybridization occurs The duplex formed between the nucleic acid and the loop is more stable than that of the stem because the former duplex involves more base pairs This causes the separation of the stem and hence of the fluorophore and the quencher Once the fluorophore is no longer next to the quencher illumination of the hybrid with light results in the fluorescent emission The presence of the emission reports that the event of hybridization has occurred and hence the target nucleic acid sequence is present in the test sample Use in Cell Engineering editFluorogenic signaling oligonucleotide probes were reported for use to detect and isolate cells expressing one or more desired genes including the production of multigene stable cell lines expressing heteromultimeric epithelial sodium channel abg ENaC sodium voltage gated ion channel 1 7 NaV1 7 ab1b2 four unique g aminobutyric acid A GABAA receptor ion channel subunit combinations a1b3g2s a2b3g2s a3b3g2s and a5b3g2s cystic fibrosis conductance regulator CFTR CFTR D508 and two G protein coupled receptors GPCRs 1 Synthesis editMain article Oligonucleotide synthesis Molecular beacons are synthetic oligonucleotides whose preparation is well documented In addition to the conventional set of nucleoside phosphoramidites the synthesis also requires a solid support derivatized with a quencher and a phosphoramidite building block designed for the attachment of a protected fluorescent dye The first use of the term molecular beacons synthesis and demonstration of function was in 1996 2 Alternative homogeneous assay technologies edit5 nuclease TaqMan assay 3 Exciton controlled hybridization sensitive fluorescent oligonucleotide ECHO probes 4 Dual Hybridization LightCycler probes Scorpions Probes LUX Light Upon Extension Probes DNA binding dye assays e g SYBR Green SYTO9 Melt Doctor LCGreen Plus etc Applications editSNP detection 3 Real time nucleic acid detection Real time PCR quantification Allelic discrimination and identification 3 Multiplex PCR assays Diagnostic clinical assaysReferences edit Shekdar K Langer J Venkatachalan S Schmid L Anobile J Shah P et al March 2021 Cell engineering method using fluorogenic oligonucleotide signaling probes and flow cytometry Biotechnology Letters doi 10 1007 s10529 021 03101 5 PMC 7937778 PMID 33683511 Tyagi S Kramer FR March 1996 Molecular beacons probes that fluoresce upon hybridization Nature Biotechnology 14 3 303 8 doi 10 1038 nbt0396 303 PMID 9630890 S2CID 27010207 a b c Tapp I Malmberg L Rennel E Wik M Syvanen AC April 2000 Homogeneous scoring of single nucleotide polymorphisms comparison of the 5 nuclease TaqMan assay and Molecular Beacon probes BioTechniques 28 4 732 8 doi 10 2144 00284rr02 PMID 10769752 Okamoto A December 2011 ECHO probes a concept of fluorescence control for practical nucleic acid sensing Chemical Society Reviews 40 12 5815 28 doi 10 1039 c1cs15025a PMID 21660343 Retrieved from https en wikipedia org w index php title Molecular beacon amp oldid 1060770057, wikipedia, wiki, book, 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