Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2007-12-04
2007-12-04
Fredman, Jeffrey (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C536S023100, C435S287200
Reexamination Certificate
active
10647423
ABSTRACT:
The present invention relates to methods and compositions for using nucleotide sequence variations of 16S and 23S rRNA within theB. cereusgroup to discriminate a highly infectious bacteriumB. anthracisfrom closely related microorganisms. Sequence variations in the 16S and 23S rRNA of theB. cereussubgroup includingB. anthracisare utilized to construct an array that can detect these sequence variations through selective hybridizations and discriminateB. cereusgroup that includesB. anthracis. Discrimination of single base differences in rRNA was achieved with a microchip during analysis ofB. cereusgroup isolates from both single and in mixed samples, as well as identification of polymorphic sites. Successful use of a microchip to determine the appropriate subgroup classification using eight reference microorganisms from theB. cereusgroup as a study set, was demonstrated.
REFERENCES:
patent: 5580971 (1996-12-01), Mitsuhashi
Ash et al. Comparative analysis ofBacillus anthracis, Bacillus cereusand related species on the basis of reverse transcriptase sequencing of 16s rRNA. 1991. Int. J. Systematic Bacteriology. vol. 41, No. 3, pp. 343-346.
Ash et al. Comparative analysis of 23s ribosomal RNA gene sequences ofBacillus anthracisand emeticBacillus cereusdetermined by PCR-direct sequencing. 1992. FEMS Microbiol Lett. vol. 94, pp. 75-80.
Chee et al. Accessing genetic information with high-density DNA arrays. 1996. Science. vol. 274, No. 5287, pp. 610-614.
Genbank accession No. GI:3929652, Dec. 4, 1998.
Genbank accession No. GI:8452887, Jun. 11, 2000.
Genbank accession No. GI:3929664, Dec. 4, 1998.
Genbank accession No. GI:3929662, Dec. 4, 1998.
Genbank accession No. GI:927390, Jul. 28, 1995.
Genbank accession No. GI:1149455, Jan. 5, 1996.
Ash, C., et al. 1992. “Comparative analysis of 23S ribosomal RNA gene sequences ofBacillus anthracisand emeticBacillus cereusdetermined by PCR-directsequencing.” FEMS Microbiol. Lett. 94:75-80.
Ash, C., et al. 1991. “Comparative analysis ofBacillus anthracis, Bacillus cereus, and related species on the basis of reverse transcriptase sequencing of 16S rRNA.” Int. J. Syst. Bacteriol. 41:343-346.
Ash, C., et al. 1991. “Phylogenetic heterogeneity of the genusBacillusrevealed by comparative analysis of small-subunit-ribosomal RNA sequences.” Lett. Appl. Microbiol. 3:202-206.
Bavykin, S. G. et al. 2001. “Portable system for microbial sample preparation and oligonucleotide microarray analysis.” Appl. Environ. Microbiol., 67: 922-928.
Beyer, W., et al. 1996. “A nested PCR and DNA-amplification-fingerprinting method for detection and identification ofBacillus anthracisin soil samples from former tanneries.” Salisbury Medical Bulletin, Special Supplement No. 87:47-49.
Chee, M., et al. 1996. “Accessing genetic information with high-density DNA arrays.” Science 274: 610-614.
Daffonchio, D., et al. 2000. “Homoduplex and heteroduplex polymorphisms of the amplified ribosomal 16S-23S internal transcribed spacers describe genetic relationships in the ‘Bacillus cereusGroup.’” Appl. Environ. Microbiol. 66:5460-5468.
Giffel, M.C., et al. 1997. “Discrimination betweenBacillus cereusandBacillus thuringiensisusing specific DNA probes based in variable regions of 16S rRNA. FEMS Microbiol.” Lett. 146:47-51.
Guschin, D., et al. 1997. “Manual manufacturing of oligonucleotide, DNA, and protein microchips.” Anal. Biochem. 250:203-211.
Gushin, D. Y., et al. 1997. “Oligonucleotide microchips as genosensors for determinative and environmental studies in microbiology.” Appl. Environ. Microbiol. 63:2397-2402.
Harrell, L. J., et al. 1995. “Genetic variability, ofBacillus anthracisand related species.” J. Clin. Microbiol. 33:1847-1850.
Helgason, E., et al. 2000. “Bacillus anthracis, Bacillus cereus, andBacillus thuringiensis-one species on the basis of genetic evidence.” Appl. Environ. Microbiol. 66:2627-2630.
Henderson, I. 1996. “FingerprintingBacillus anthracisstrains.” Salisbury Medical Bulletin, Special Supplement No. 87:55-58.
Henderson, I., et al. 1994. “Differentiation ofBacillus anthracisfrom otherBacillus cereusgroup bacteria with the PCR.” Int. J. Syst. Bacteriol. 44:99-105.
Henderson, I., et al. 1995. “Differentiation ofBacillus anthracisand otherBacillus cereusgroup bacteria using IS231-derived sequences.” FEMS Microbiol. Lett. 128:113-118.
Hutson, R. A., et al. 1993. “The development and assessment of DNA and oligonucleotide probes for the specific detection ofBacillus anthracis.” J. Appl. Bacteriol. 75:463-472.
Jackson, P. J., et al. 1999. “Genetic comparison ofBacillus anthracisand its close relatives using amplified fragment length polymorphism and polymerase chain reaction analysis.” J. Appl. Microbiol. 87:263-269.
Kiem, P., et al. 1997. “Molecular evolution and diversity inBacillus anthracisas detected by amplified fragment length polymorphism markers.” J. Bacteriol. 179:818-824.
Longchamp, P., et al. 1999. “Molecular recognition specificity ofBacillus anthracisspore antibodies.” J. Appl. Microbiol. 87:246-249.
Patra, G., et al. 1996. “DNA fingerprintingBacillus anthracisstrains.”Salisbury Medical Bulletin, Special Supplement No. 87:59.
Patra, G., et al. 1996. “Isolation of a specific chromosomic DNA sequence ofBacillus anthracisand its possible use in diagnosis.” EMS Immunol. Med. Microbiol. 15:223-231.
Priest, F. G., et al. 1994. “Characterization ofBacillus thuringiensisand related bacteria by ribosomal RNA gene restriction fragment length polymorphisms.” Microbiology 140:1015-1022.
Proudnikov, D., et al. 1998. “Immobilization of DNA in polyacrylamide gel for the manufacture of DNA and DNA-oligonucleotide microchips.” Anal. Biochem. 259:34-41.
Ramissse, V., et al. 1996. “Identification and characterization ofBacillus anthracisby multiplex PCR analysis of sequences on plasmids pX01 and pX02 and chromosomal DNA.” FEMS Microbiol. Lett. 145:9-16.
Ryzhov, V., et al. 2000. “Rapid characterization of spores ofBacillus cereusgroup bacteria by matrix-assisted laser desorption-ionization time-of-flight mass spectrometry.” Appl Environ. Microbiol. 66:3828-3834.
Shangkuan, Y.-H., et al. 2000. Comparison of PCR-RFLP, ribotyping and ERIC-PCR for typingBacillus anthracisandBacillus cereusstrains. J. Appl. Microbiol. 89:452-462.
Strizhkov, B. N., et al. 2000. “PCR amplification on a microarray of gel-immobilized oligonucleotides: detection of bacterial toxin- and drug-resistant genes and their mutations.” BioTechniques 29:844-857.
Wunschel, D., et al. 1994. “Discrimination among theBacillus cereusgroup, in comparison toB. subtilis, by structural carbohydrate profiles and ribosomal RNA spaser region PCR.” Syst. Appl. Microbiol. 17:625-635.
Yershov, G., et al. 1996. “DNA analysis and diagnostics on oligonucleotide microchips.” Proc. Natl. Acad. Sci. USA. 93:4913-4918.
Zlatanova, J., et al. 2001. “Gel immobilized microarrays of nucleic acids and proteins.” In J. B. Rampal (ed.), Methods in Molecular Biology: DNA Arrays, Methods, and Protocols, in press, Human Press, Inc., Totowa, NJ.
Bavykin Sergei G.
Mirzabekova, legal representative Natalia V.
Barnes & Thornburg LLP
Fredman Jeffrey
Martin Alice O.
The University of Chicago
Woolwine Samuel
LandOfFree
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