Discrimination of Bacillus anthracis from closely related microorganisms by analysis of 16S and 23S rRNA with oligonucleotide microchips

Bavykin, Sergei G

Discrimination of Bacillus anthracis from closely related microorganisms by analysis of 16S and 23S rRNA with oligonucleotide microchips

Patent · Tue Dec 04 04:00:00 EST 2007

OSTI ID:920673

Bavykin, Sergei G ^[1]

Darien, IL

The present invention relates to methods and compositions for using nucleotide sequence variations of 16S and 23S rRNA within the B. cereus group to discriminate a highly infectious bacterium B. anthracis from closely related microorganisms. Sequence variations in the 16S and 23S rRNA of the B. cereus subgroup including B. anthracis are utilized to construct an array that can detect these sequence variations through selective hybridizations and discriminate B. cereus group that includes B. anthracis. Discrimination of single base differences in rRNA was achieved with a microchip during analysis of B. cereus group 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 the B. cereus group as a study set, was demonstrated.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL

Sponsoring Organization:: United States Department of Energy

DOE Contract Number:: W-31109-ENG-38

Assignee:: The University of Chicago (Chicago, IL)

Patent Number(s):: 7,303,874

Application Number:: 10/647,423

OSTI ID:: 920673

Country of Publication:: United States

Language:: English

References (27)

Accessing Genetic Information with High-Density DNA Arrays Chee, M.; Yang, R.; Hubbell, E. Science, Vol. 274, Issue 5287 https://doi.org/10.1126/science.274.5287.610	journal	October 1996
Comparison of PCR-RFLP, ribotyping and ERIC-PCR for typing Bacillus anthracis and Bacillus cereus strains: typing b. anthracis and b. cereus Shangkuan, Y. -H.; Yang, J. -F.; Lin, H. -C. Journal of Applied Microbiology, Vol. 89, Issue 3 https://doi.org/10.1046/j.1365-2672.2000.01134.x	journal	September 2000
Comparative Analysis of Bacillus anthracis, Bacillus cereus, and Related Species on the Basis of Reverse Transcriptase Sequencing of 16S rRNA Ash, C.; Farrow, J. A. E.; Dorsch, M. International Journal of Systematic Bacteriology, Vol. 41, Issue 3 https://doi.org/10.1099/00207713-41-3-343	journal	July 1991
Rapid Characterization of Spores of Bacillus cereusGroup Bacteria by Matrix-Assisted Laser Desorption-Ionization Time-of-Flight Mass Spectrometry Ryzhov, Victor; Hathout, Yetrib; Fenselau, Catherine Applied and Environmental Microbiology, Vol. 66, Issue 9 https://doi.org/10.1128/AEM.66.9.3828-3834.2000	journal	September 2000
Discrimination between Bacillus cereus and Bacillus thuringiensis using specific DNA probes based on variable regions of 16S rRNA te Giffel, M. FEMS Microbiology Letters, Vol. 146, Issue 1 https://doi.org/10.1016/S0378-1097(96)00439-9	journal	January 1997
Characterization of Bacillus thuringiensis and related bacteria by ribosomal RNA gene restriction fragment length polymorphisms Priest, F. G.; Kaji, D. A.; Rosato, Y. B. Microbiology, Vol. 140, Issue 5 https://doi.org/10.1099/13500872-140-5-1015	journal	May 1994
Manual Manufacturing of Oligonucleotide, DNA, and Protein Microchips Guschin, Dmitry; Yershov, Gennadiy; Zaslavsky, Alexander Analytical Biochemistry, Vol. 250, Issue 2 https://doi.org/10.1006/abio.1997.2209	journal	August 1997
Differentiation of Bacillus anthracis from Other Bacillus cereus Group Bacteria with the PCR Henderson, I.; Duggleby, C. J.; Turnbull, P. C. B. International Journal of Systematic Bacteriology, Vol. 44, Issue 1 https://doi.org/10.1099/00207713-44-1-99	journal	January 1994
Homoduplex and Heteroduplex Polymorphisms of the Amplified Ribosomal 16S-23S Internal Transcribed Spacers Describe Genetic Relationships in the “Bacillus cereus Group” Daffonchio, Daniele; Cherif, Ameur; Borin, Sara Applied and Environmental Microbiology, Vol. 66, Issue 12 https://doi.org/10.1128/AEM.66.12.5460-5468.2000	journal	December 2000
PCR Amplification on a Microarray of Gel-Immobilized Oligonucleotides: Detection of Bacterial Toxin- and Drug-Resistant Genes and Their Mutations Strizhkov, Boris N.; Drobyshev, Alexei L.; Mikhailovich, Vladimir M. BioTechniques, Vol. 29, Issue 4 https://doi.org/10.2144/00294rr01	journal	October 2000
Comparative analysis of 23S ribosomal RNA gene sequences of Bacillus anthracis and emetic Bacillus cereus determined by PCR-direct sequencing Ash, Carol; Collins, Matthew D. FEMS Microbiology Letters, Vol. 94, Issue 1-2 https://doi.org/10.1111/j.1574-6968.1992.tb05292.x	journal	July 1992
Differentiation of Bacillus anthracis and other â Bacillus cereus groupâ bacteria using IS 231 -derived sequences Henderson, Ian; Dongzheng, Yu; Turnbull, Peter C. B. FEMS Microbiology Letters, Vol. 128, Issue 2 https://doi.org/10.1111/j.1574-6968.1995.tb07509.x	journal	May 1995
Oligonucleotide microchips as genosensors for determinative and environmental studies in microbiology. Guschin, D. Y.; Mobarry, B. K.; Proudnikov, D. Applied and environmental microbiology, Vol. 63, Issue 6 https://doi.org/10.1128/AEM.63.6.2397-2402.1997	journal	January 1997
The development and assessment of DNA and oligonucleotide probes for the specific detection of Bacillus anthracis Hutson, R. A.; Duggleby, C. J.; Lowe, J. R. Journal of Applied Bacteriology, Vol. 75, Issue 5 https://doi.org/10.1111/j.1365-2672.1993.tb02803.x	journal	November 1993
Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit-ribosomal RNA sequences Ash, Carol; Farrow, J. A. E.; Wallbanks, Sally Letters in Applied Microbiology, Vol. 13, Issue 4 https://doi.org/10.1111/j.1472-765X.1991.tb00608.x	journal	October 1991
Molecular evolution and diversity in Bacillus anthracis as detected by amplified fragment length polymorphism markers. Keim, P.; Kalif, A.; Schupp, J. Journal of bacteriology, Vol. 179, Issue 3 https://doi.org/10.1128/JB.179.3.818-824.1997	journal	January 1997
Genetic variability of Bacillus anthracis and related species. Harrell, L. J.; Andersen, G. L.; Wilson, K. H. Journal of clinical microbiology, Vol. 33, Issue 7 https://doi.org/10.1128/JCM.33.7.1847-1850.1995	journal	January 1995
Identification and characterization of Bacillus anthracis by multiplex PCR analysis of sequences on plasmids pXO1 and pXO2 and chromosomal DNA Ramisse, Vincent; Patra, Guy; Garrigue, Henri FEMS Microbiology Letters, Vol. 145, Issue 1 https://doi.org/10.1111/j.1574-6968.1996.tb08548.x	journal	November 1996
Molecular recognition specificity of Bacillus anthracis spore antibodies Longchamp, P.; Leighton, T. Journal of Applied Microbiology, Vol. 87, Issue 2 https://doi.org/10.1046/j.1365-2672.1999.00879.x	journal	August 1999
Gel-Immobilized Microarrays of Nucleic Acids and Proteins: Production and Application for Macromolecular Research Zlatanova, Jordanka; Mirzabekov, Andrei DNA Arrays https://doi.org/10.1385/1-59259-234-1:17	book
Genetic comparison of Bacillus anthracis and its close relatives using amplified fragment length polymorphism and polymerase chain reaction analysis Jackson, P. J.; Hill, K. K.; Laker, M. T. Journal of Applied Microbiology, Vol. 87, Issue 2 https://doi.org/10.1046/j.1365-2672.1999.00884.x	journal	August 1999
Immobilization of DNA in Polyacrylamide Gel for the Manufacture of DNA and DNA–Oligonucleotide Microchips Proudnikov, Dmitri; Timofeev, Edward; Mirzabekov, Andrei Analytical Biochemistry, Vol. 259, Issue 1 https://doi.org/10.1006/abio.1998.2620	journal	May 1998
Discrimination Among the B. Cereus Group, in Comparison to B. Subtilis, by Structural Carbohydrate Profiles and Ribosomal RNA Spacer Region PCR Wunschel, David; Fox, Karen F.; Black, Gavin E. Systematic and Applied Microbiology, Vol. 17, Issue 4 https://doi.org/10.1016/S0723-2020(11)80085-8	journal	February 1995
Bacillus anthracis, Bacillus cereus, and Bacillus thuringiensis---One Species on the Basis of Genetic Evidence Helgason, E.; Okstad, O. A.; Caugant, D. A. Applied and Environmental Microbiology, Vol. 66, Issue 6 https://doi.org/10.1128/AEM.66.6.2627-2630.2000	journal	June 2000
Isolation of a specific chromosomic DNA sequence of Bacillus anthracis and its possible use in diagnosis Patra, Guy; Sylvestre, Patricia; Ramisse, Vincent FEMS Immunology & Medical Microbiology, Vol. 15, Issue 4 https://doi.org/10.1111/j.1574-695X.1996.tb00088.x	journal	October 1996
Portable System for Microbial Sample Preparation and Oligonucleotide Microarray Analysis Bavykin, S. G.; Akowski, J. P.; Zakhariev, V. M. Applied and Environmental Microbiology, Vol. 67, Issue 2 https://doi.org/10.1128/AEM.67.2.922-928.2001	journal	February 2001
DNA analysis and diagnostics on oligonucleotide microchips. Yershov, G.; Barsky, V.; Belgovskiy, A. Proceedings of the National Academy of Sciences, Vol. 93, Issue 10 https://doi.org/10.1073/pnas.93.10.4913	journal	May 1996

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