Nanoplasmonic molecular ruler for nuclease activity and DNA footprinting
AssigneeThe Regents of the University of California
InventorsFanqing Frank Chen, Gang L. Liu, Luke P. Lee
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Abstract
This invention provides a nanoplasmonic molecular ruler, which can perform label-free and real-time monitoring of nucleic acid (e.g., DNA) length changes and perform nucleic acid footprinting. In various embodiments the ruler comprises a nucleic acid attached to a nanoparticle, such that changes in the nucleic acid length are detectable using surface plasmon resonance. The nanoplasmonic ruler provides a fast and convenient platform for mapping nucleic acid-protein interactions, for nuclease activity monitoring, and for other footprinting related methods.
Claims17
A nanoplasmon resonance ruler for calibrating nucleic acid length changes in a plasmon resonance system, said ruler comprising:
- a nanoparticle having a nucleic acid attached thereto to form a nanoparticle-nucleic acid conjugate, where said nucleic acid comprises at least a first restriction site and a second restriction site positioned such that the conjugates cleaved at the first restriction site provide plasmon resonance signatures that are distinguishable from the plasmon resonance signatures produced by the nucleic acid conjugates cleaved at second restriction site, and/or the intact conjugate, and wherein the nanoparticle surface is functionalized with a phosphine layer.
A nanoplasmon resonance ruler for calibrating nucleic acid length changes in a plasmon resonance system, said ruler comprising:
- a nanoparticle having a nucleic acid attached thereto to form a nanoparticle-nucleic acid conjugate, where said nucleic acid comprises at least a first restriction site and a second restriction site positioned such that the conjugates cleaved at the first restriction site provide plasmon resonance signatures that are distinguishable from the plasmon resonance signatures produced by the nucleic acid conjugates cleaved at second restriction site, and/or the intact conjugate, and wherein the nanoparticle surface is silica coated and functionalized using amino-silane molecules.
A nanoplasmon resonance ruler for calibrating nucleic acid length changes in a plasmon resonance system, said ruler comprising:
- a nanoparticle having a nucleic acid attached thereto to form a nanoparticle-nucleic acid conjugate, where said nucleic acid comprises at least a first restriction site and a second restriction site positioned such that the conjugates cleaved at the first restriction site provide plasmon resonance signatures that are distinguishable from the plasmon resonance signatures produced by the nucleic acid conjugates cleaved at second restriction site, and/or the intact conjugate, and wherein the conjugate comprises from about 10 to about 10,000 nucleic acid molecules per nanoparticle.
A nanoplasmon resonance ruler for calibrating nucleic acid length changes in a plasmon resonance system, said ruler comprising:
- a nanoparticle having a nucleic acid attached thereto to form a nanoparticle-nucleic acid conjugate, where said nucleic acid comprises at least a first restriction site and a second restriction site positioned such that the conjugates cleaved at the first restriction site provide plasmon resonance signatures that are distinguishable from the plasmon resonance signatures produced by the nucleic acid conjugates cleaved at second restriction site, and/or the intact conjugate, and wherein the conjugate is immobilized on a substrate appropriate for surface plasmon resonance.
A nanoplasmon resonance ruler for calibrating nucleic acid length changes in a plasmon resonance system, said ruler comprising:
- a nanoparticle having a nucleic acid attached thereto to form a nanoparticle-nucleic acid conjugate, where said nucleic acid comprises at least a first restriction site and a second restriction site positioned such that the conjugates at the first restriction site provide plasmon resonance signatures that are distinguishable from the plasmon resonance signatures produced by the nucleic acid conjugates cleaved at second restriction site, and/or the intact conjugate, and wherein the conjugate is electrostatically immobilized on a glass, quartz, or ceramic surface.
Dependencies are inferred from the claim text.