研究目的
To develop a novel and sensitive detection method for monitoring T4 PNK activity, overcoming the shortcomings of traditional methods such as low sensitivity, time-consuming nature, and radioactive hazards.
研究成果
A novel, label-free, turn-off fluorescence system for assaying T4 PNK activity was developed, utilizing DNA-templated AgNCs and exonuclease cleavage. It offers a wide linear range, low detection limit, and applicability in cell extracts and inhibitor screening, with potential for use in DNA phosphorylation-related processes, drug discovery, and diagnostics.
研究不足
The method is a 'signal off' sensor, which may have limited signaling capacity compared to 'signal on' approaches. It relies on specific enzymatic reactions and may be affected by complex biological matrices.
1:Experimental Design and Method Selection:
The method is based on a turn-off fluorometric approach using DNA-templated silver nanoclusters (AgNCs). It involves the phosphorylation of DNA probes by T4 PNK, followed by cleavage with Lambda exonuclease (λ exo), leading to separation of G-rich and C-rich sequences and a decrease in fluorescence.
2:Sample Selection and Data Sources:
Oligonucleotide sequences (DNA S1 and DNA S2) were synthesized and used. T4 PNK, λ exo, ATP, and other reagents were purchased from commercial sources. Cell extracts from PC-3 M cells were used for practical applications.
3:List of Experimental Equipment and Materials:
Equipment includes a PerkinElmer LS-55 fluorescence spectrometer and field emission transmission electron microscopy. Materials include DNA sequences, T4 PNK, λ exo, ATP, silver nitrate, sodium borohydride, Tris-HCl buffer, MgCl2, DTT, fetal calf serum, DMEM medium, and Na2HPO
4:Experimental Procedures and Operational Workflow:
DNA-AgNCs were synthesized and hybridized with DNA S2. The phosphorylation reaction was performed in Tris-HCl buffer with MgCl2, DTT, ATP, λ exo, and T4 PNK at 37°C for 30 min, followed by heat inactivation. Fluorescence was measured at 650 nm with excitation at 580 nm. Cell assays involved culturing cells, lysing them, and applying the same detection procedure.
5:The phosphorylation reaction was performed in Tris-HCl buffer with MgCl2, DTT, ATP, λ exo, and T4 PNK at 37°C for 30 min, followed by heat inactivation. Fluorescence was measured at 650 nm with excitation at 580 nm. Cell assays involved culturing cells, lysing them, and applying the same detection procedure. Data Analysis Methods:
5. Data Analysis Methods: Fluorescence intensities were measured and analyzed to determine T4 PNK activity, with linear range and detection limit calculated based on signal-to-noise ratio. Inhibition studies used Na2HPO4, and recoveries in cell extracts were evaluated.
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fluorescence spectrometer
LS-55
PerkinElmer
Measurement of fluorescence intensities with excitation and emission slits set at 10 nm band pass
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field emission transmission electron microscopy
FEI
Characterization of DNA-AgNCs at an accelerated voltage of 200 kV
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Lambda exonuclease
Thermo Scientific
Enzyme used for cleaving phosphorylated DNA strands in the detection assay
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T4 polynucleotide kinase
Thermo Scientific
Enzyme whose activity is being detected and measured in the assay
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adenosine triphosphate
Thermo Scientific
Substrate used in the phosphorylation reaction catalyzed by T4 PNK
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silver nitrate
Sigma-Aldrich
Chemical used in the synthesis of DNA-templated silver nanoclusters
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sodium borohydride
Sigma-Aldrich
Reducing agent used in the synthesis of DNA-templated silver nanoclusters
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fetal calf serum
Sangon Biotech
Component of cell culture medium used in cell assays
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DMEM medium
Sangon Biotech
Cell culture medium used for growing PC-3 M cells
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