Selection of Fluorophore and Quencher Pairs for Fluorescent Nucleic Acid Hybridization Probes

2006 ◽  
pp. 3-16 ◽  
Author(s):  
Salvatore A. E. Marras
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acid Hybridization ◽  
Hybridization Probes ◽  
Selection Of

Synergistic Combination of Unquenching and Plasmonic Fluorescence Enhancement in Fluorogenic Nucleic Acid Hybridization Probes

Nano Letters ◽  
2017 ◽  
Vol 17 (10) ◽  
pp. 6496-6500 ◽  
Author(s):  
Carolin Vietz ◽  
Birka Lalkens ◽  
Guillermo P. Acuna ◽  
Philip Tinnefeld
Keyword(s):  
Nucleic Acid ◽  
Fluorescence Enhancement ◽  
Nucleic Acid Hybridization ◽  
Hybridization Probes ◽  
Synergistic Combination

scholarly journals Chemically synthesized non-radioactive biotinylated long-chain nucleic acid hybridization probes

1988 ◽  
Vol 251 (3) ◽  
pp. 935-938 ◽  
Author(s):  
A H al-Hakim ◽  
R Hull
Keyword(s):  
Nucleic Acid ◽  
Blot Hybridization ◽  
Nucleic Acid Hybridization ◽  
Cross Linking ◽  
Dot Blot ◽  
Hybridization Probes ◽  
Target Dna ◽  
Amino Derivatives ◽  
Biotin Molecule ◽  
Long Chain

A new method for the chemical labelling of nucleic acid with biotin to produce non-radioactive probes has been developed. NN'-Bis-(3-aminopropyl)butane-1,4-diamine (spermine) and long-chain diamino compounds (diaminohexane, diaminodecane and diaminododecane) were linked covalently to biotin and the resultant conjugates were attached to nucleic acid by using a cross-linking reagent (glutaraldehyde or diepoxyoctane). Iodoacetylation and biotinylation of the long-chain diamino compounds produced modified biotinylated conjugates that can be linked to DNA without the use of a cross-linking reagent. These types of probes attach one biotin molecule to each linker arm of spermine, diamino and iodoacetylated amino derivatives. Such probes have long linker arms separating the biotin moiety from the hybridization sites of the nucleic acid. These probes can detect 10 pg of target DNA by dot-blot hybridization.

scholarly journals Expanding detection windows for discriminating single nucleotide variants using rationally designed DNA equalizer probes

2020 ◽  
Vol 11 (1) ◽  
Author(s):  
Guan A. Wang ◽  
Xiaoyu Xie ◽  
Hayam Mansour ◽  
Fangfang Chen ◽  
Gabriela Matamoros ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Rural Areas ◽  
Simultaneous Detection ◽  
Dna Nanotechnology ◽  
Quantitative Relationship ◽  
Nucleic Acid Amplification ◽  
Nucleic Acid Hybridization ◽  
Single Nucleotide Variants ◽  
Single Nucleotide ◽  
Hybridization Probes

Abstract Combining experimental and simulation strategies to facilitate the design and operation of nucleic acid hybridization probes are highly important to both fundamental DNA nanotechnology and diverse biological/biomedical applications. Herein, we introduce a DNA equalizer gate (DEG) approach, a class of simulation-guided nucleic acid hybridization probes that drastically expand detection windows for discriminating single nucleotide variants in double-stranded DNA (dsDNA) via the user-definable transformation of the quantitative relationship between the detection signal and target concentrations. A thermodynamic-driven theoretical model was also developed, which quantitatively simulates and predicts the performance of DEG. The effectiveness of DEG for expanding detection windows and improving sequence selectivity was demonstrated both in silico and experimentally. As DEG acts directly on dsDNA, it is readily adaptable to nucleic acid amplification techniques, such as polymerase chain reaction (PCR). The practical usefulness of DEG was demonstrated through the simultaneous detection of infections and the screening of drug-resistance in clinical parasitic worm samples collected from rural areas of Honduras.

Real-time assays with molecular beacons and other fluorescent nucleic acid hybridization probes

2006 ◽  
Vol 363 (1-2) ◽  
pp. 48-60 ◽  
Author(s):  
Salvatore A.E. Marras ◽  
Sanjay Tyagi ◽  
Fred Russell Kramer
Keyword(s):  
Nucleic Acid ◽  
Real Time ◽  
Molecular Beacons ◽  
Nucleic Acid Hybridization ◽  
Hybridization Probes
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