Method for rapid detection and identification of bioagents
First Claim
Patent Images
1. A method of preparing a database for use in identification of an organism comprising:
- a) aligning a plurality of nucleic acid gene sequences of a plurality of organisms of known identity;
b) analyzing said plurality of sequences for regions of conservation;
c) identifying a plurality of primer binding sites within said regions of conservation for priming and obtaining one or more amplifiable regions within said plurality of sequences;
d) determining the base compositions of said one or more amplifiable regions for members of said plurality of known organisms wherein said base composition identifies the number of A residues, C residues, T residues, G residues, U residues, analogs thereof and mass tag residues thereof in said amplifiable region to obtain a plurality of base compositions of amplifiable regions indexed to the identity of one or more members of said plurality of organisms of known identity; and
e) populating a database with said base compositions and indexed identities of members of said plurality of organisms obtained in step d) wherein said database is not populated with nucleic acid sequences.
1 Assignment
0 Petitions
Accused Products
Abstract
Method for detecting and identifying unknown bioagents, including bacteria, viruses and the like, by a combination of nucleic acid amplification and molecular weight determination using primers which hybridize to conserved sequence regions of nucleic acids derived from a bioagent and which bracket variable sequence regions that uniquely identify the bioagent. The result is a “base composition signature” (BCS) which is then matched against a database of base composition signatures, by which the bioagent is identified.
159 Citations
10 Claims
-
1. A method of preparing a database for use in identification of an organism comprising:
-
a) aligning a plurality of nucleic acid gene sequences of a plurality of organisms of known identity; b) analyzing said plurality of sequences for regions of conservation; c) identifying a plurality of primer binding sites within said regions of conservation for priming and obtaining one or more amplifiable regions within said plurality of sequences; d) determining the base compositions of said one or more amplifiable regions for members of said plurality of known organisms wherein said base composition identifies the number of A residues, C residues, T residues, G residues, U residues, analogs thereof and mass tag residues thereof in said amplifiable region to obtain a plurality of base compositions of amplifiable regions indexed to the identity of one or more members of said plurality of organisms of known identity; and e) populating a database with said base compositions and indexed identities of members of said plurality of organisms obtained in step d) wherein said database is not populated with nucleic acid sequences. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10)
-
Specification