Typing of human enteroviruses

Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving virus or bacteriophage

Reexamination Certificate

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C435S006120, C435S034000, C435S091200, C435S091300, C435S091320, C435S091330, C435S040510, C435S040520, C536S024330

Reexamination Certificate

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06846621

ABSTRACT:
The present invention discloses a method for detecting the presence of an enterovirus in a clinical sample. The invention additionally discloses a method for typing an enterovirus in a clinical sample. Both methods employ a set of primer oligonucleotides for reverse transcription and amplification that hybridize to conserved regions of the enterovirus genome, and that provide amplicons that include significant portions of the VP1 region that are characteristic of the various serotypes. In the typing method, the invention further provides a database consisting of nucleotide sequences from prototypical enteroviral serotypes, which is used to type the clinical sample by comparing the sequence of its amplicon with each prototypical sequence in the database. The invention additionally provides mixtures of primer oligonucleotides, and a kit for use in conducting the typing method that includes a mixture of the primer oligonucleotides.

REFERENCES:
patent: 4683195 (1987-07-01), Mullis et al.
patent: 4683202 (1987-07-01), Mullis
patent: 4717653 (1988-01-01), Webster et al.
patent: 4965188 (1990-10-01), Mullis et al.
patent: 5075212 (1991-12-01), Rotbart
patent: 5185243 (1993-02-01), Ullman et al.
patent: 5268465 (1993-12-01), Bredt et al.
patent: 5516641 (1996-05-01), Ullman et al.
patent: 5545522 (1996-08-01), Van Gelder et al.
patent: 5578467 (1996-11-01), Schuster et al.
patent: 5585477 (1996-12-01), Kilpatrick
patent: 5624833 (1997-04-01), Gelfand et al.
patent: 5691134 (1997-11-01), Kilpatrick
patent: 5723031 (1998-03-01), Durr et al.
patent: 5726012 (1998-03-01), Bacheler et al.
patent: 5789208 (1998-08-01), Sharon
patent: WO 9814611 (1998-04-01), None
patent: WO 9953097 (1999-10-01), None
Sequence alignment of instant SEQ ID NO: 85 with SEQ ID NO: 19947 of US Patent 6,551,795 in the Issued Patents AA database with an earliest prior filing date of Feb. 18, 1998.*
Sequence alignment of instant SEQ ID NO: 85 with SwissProt database accession No: P12915 submitted Oct. 1, 1998.*
Kilpatrick et al. Journal of Clinical Microbiology. Feb. 1998; 36 (2): 352-357.*
Kilpatrick et al. Journal of Clinical Microbiology. 1996; 34 (12): 2990-2996.*
Geneseq database sequence alignment of instant SEQ ID NO: 22 with accession No: AAV34811; entry date: Sep. 24, 1998; primer 43A from WO 98/14611 of Kilpatrick.*
Oberste et al. Molecular Evolution of the Human Enteroviruses: Correlation of Serotype with VP1 Sequence and Application to Picornavirus Classification.J. Virol.73(3):1941-1948 (Mar. 1999).
Oberste et al. Typing of Human Enteroviruses by Partial Sequencing of VP1.J. Clin. Microbiol.37(5):1288-1293 (May, 1999).
CDC. Nonpolio Enterovirus Surveillance—U.S.. 1993-1996. MMWR 46(32):748-750 (Aug. 15, 1997).
Mateu. Antibody recognition of picornaviruses and escape from neutralization: a structural view.Virus Res.38:1-24 (1995).
Drebot et al. Molecular Epidemiology of Enterovirus Outbreaks in Canada During 1991-1992: Identification of Echovirus 30 and Coxsackievirus B1 Strains by Amplicon Sequencing.J. Med. Virol.44:340-347 (1994).
Arola et al. Identification of Enteroviruses in Clinical Specimens by Competitive PCR Followed by Genetic Typing Using Sequence Analysis.J. Clin. Microbiol.34(2):313-318 (Feb. 1996).
Oberste et al. Molecular phylogeny of all human enterovirus serotypes based on comparison of sequences at the 5′ end of the region encoding VP2.Virus Res.58:35-43 (1998).
Kopecka et al. Genotypic variation in Coxsackievirus 85 isolates from three different outbreaks in the United States.Virus Res.38:125-136 (1995).
Diedrich et al., Sequence Comparison of Echovirus Type 30 Isolates to Other Enteroviruses in the 5′Noncoding Region.J. Med. Virol.46:148-152 (1995).
Bailly et al. Natural Isolates of ECHO Virus Type 25 with Extensive Variations in IRES Sequences and Different Translational Efficiencies.Virology215:83-96 (1996).
Holland et al. Differentiation and Characterization of Enteroviruses by Computer-Assisted Viral Protein Fingerprinting.J. Clin. Microbiol.36(6):1588-1594 (Jun. 1998).
Melnick et al. Lyophilized combination pools of enterovirus equine antisera: preparation and test procedures for the identification of field strains of 42 enteroviruses.Bull. W.H.O.48:263-268 (1973).
Rotbart et al. Laboratory Diagnosis of Enteroviral Infections. InHuman Enterovirus Infections(Rotbart. Eds) ASM Press. Washington, D.C. pp. 401-418 (1995).
Needleman et al., A General Method Applicable to the Search for Similarities in the Amino Acid Sequences of Two Proteins.J. Mol. Biol.48:443-453 (1970).
Rorbart et al. Diagnosis of Enterovirus Infection by Polymerase Chain Reaction of Multiple Specimen Types.Ped. Infect. Dis.16(4):409-411 (Apr. 1997).
Alksnis et al.Use of synthetic oligodeoxyribonucleotides for type-specific identification of coxsackie B viruses. Mol. Cell. Probes3:103-108 (1989).
Petitjean et al. Specific detection of enteroviruses in clinical samples by molecular hybridization using poliovirus subgenomic riboprobes.J. Clin. Microbiol.28(2):307-311 (1990).
Melnick. The discovery of the enteroviruses and the classification of poliovirus among them.Biologicals21:305-309 (1993).
Clements et al. Detection of Enterovirus-Specific RNA in Serum: The Relationship to Chronic Fatigue,J. Med. Virol.45:156-161 (1995).
Rotbart et al. Development and application of RNA probes for the study of picornaviruses.Mol. Cell. Probes2:65-73 (1988).
Rotbart. Enzymatic RNA amplication of the enteroviruses.J. Clin. Microbiol.28(3):438-442 (Mar. 1990).
Chapman et al. Molecular detection and identification of enteroviruses using enzymatic amplification and nucleic acid hybridization.J. Clin. Microbiol.28(5):843-850 (May. 1990).
Hyypia et al. Polymerase chain reaction for human picornaviruses.J. Gen. Virol.70:3261-3268 (1989).
Olive et al. Detection and differentiation of picornaviruses in clinical samples following genomic amplification.J. Gen. Virol.71:2141-2147 (1990).
Gilmaker et al. Detection of enteroviral RNA by polymerase chain reaction in faecal samples from patients with aseptic meningitis.J. Med. Virol.38:54-61 (1992).
Yang et al. Genotype-specific in vitro amplification of sequences of the wild type 3 polioviruses from Mexico and Guatemala.Virus Res.24:277-296 (Aug. 1992).
Zoll et al. General primer-mediated polymerase chain reaction for detection of enteroviruses: application for diagnostic routine and persistent infections.J. Clin. Microbiol.30(1):160-165 (Jan. 1992).
Muir et al. Rapid diagnosis of enterovirus infection by magnetic bead extraction and polymerase chain reaction detection of enterovirus RNA in clinical specimens.J. Clin. Microbiol.31(1):31-38 (Jan. 1993).
Rotbart et al. Diagnosis of enteroviral meningitis by using PCR with a colorimetric microwell detection assay.J. Clin. Microbiol.32(10):2590-2592 (Oct. 1994).
Cova et al. Use of cRNA probes for the detection of enteroviruses by molecular hybridization.J. Med. Virol.24:11-18 (Jan. 1988).
Kim et al. Nucleotide sequencing of a part of the 5-noncoding region of echovirus type 9 and rapid virus detection during the acute phase of aseptic meningitis.Arch. Virol.142:853-860 (1997).
Santti et al. Molecular detection and typing of human picornaviruses.Virus Res.62:177-183 (1999).
Casas et al. Molecular Characterization of Human Enteroviruses in Clinical Samples: Comparison Between VP2. VP1. and RNA Polymerase Regions Using RT Nested PCR Assays and Direct Sequencing of Products.J. Med. Virol.65:138-148 (2001).
Caro et al. Molecular strategy for ‘serotyping’ of human enteroviruses. J. Gen. Virol. 82:79-91 (2001).
Norder et al. Homotypic Echoviruses Share Aminoterminal VP1 Sequence Homology Applicable for Typing. J. Med. Virol. 63:35-44 (2001).
Oberste et al. Comparison of Classic and Molecular Approaches for the Identification of untypeable Enteroviruses.J. Clin. Microbiol. 38(3):1170-1174 (Mar. 2000).
Oberste et al.Identification and genetic analysis of Panama-genotype Venezuelan equine encephalitis virus subtype ID in Peru.Am. J. Trop. Med. Hyg. 58(1):41-46 (1998).

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