EP1725686A4 - Compositions for use in identification of bacteria - Google Patents

Compositions for use in identification of bacteria

Info

Publication number
EP1725686A4
EP1725686A4 EP05856582A EP05856582A EP1725686A4 EP 1725686 A4 EP1725686 A4 EP 1725686A4 EP 05856582 A EP05856582 A EP 05856582A EP 05856582 A EP05856582 A EP 05856582A EP 1725686 A4 EP1725686 A4 EP 1725686A4
Authority
EP
European Patent Office
Prior art keywords
bacteria
compositions
identification
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Withdrawn
Application number
EP05856582A
Other languages
German (de)
French (fr)
Other versions
EP1725686A2 (en
Inventor
Christian Massire
Mark W Eshoo
David J Ecker
Thomas A Hall
Rangarajan Sampath
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Ibis Biosciences Inc
Original Assignee
Isis Pharmaceuticals Inc
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Isis Pharmaceuticals Inc filed Critical Isis Pharmaceuticals Inc
Publication of EP1725686A2 publication Critical patent/EP1725686A2/en
Publication of EP1725686A4 publication Critical patent/EP1725686A4/en
Withdrawn legal-status Critical Current

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
EP05856582A 2004-02-18 2005-02-18 Compositions for use in identification of bacteria Withdrawn EP1725686A4 (en)

Applications Claiming Priority (6)

Application Number Priority Date Filing Date Title
US54542504P 2004-02-18 2004-02-18
US55975404P 2004-04-05 2004-04-05
US63286204P 2004-12-03 2004-12-03
US63906804P 2004-12-22 2004-12-22
US64818805P 2005-01-28 2005-01-28
PCT/US2005/006133 WO2006071241A2 (en) 2004-02-18 2005-02-18 Compositions for use in identification of bacteria

Publications (2)

Publication Number Publication Date
EP1725686A2 EP1725686A2 (en) 2006-11-29
EP1725686A4 true EP1725686A4 (en) 2008-12-10

Family

ID=35125687

Family Applications (1)

Application Number Title Priority Date Filing Date
EP05856582A Withdrawn EP1725686A4 (en) 2004-02-18 2005-02-18 Compositions for use in identification of bacteria

Country Status (5)

Country Link
EP (1) EP1725686A4 (en)
JP (1) JP2007525978A (en)
AU (2) AU2005322640B2 (en)
CA (1) CA2560521C (en)
WO (2) WO2005098047A2 (en)

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WO2009155061A2 (en) * 2008-05-30 2009-12-23 Ibis Biosciences, Inc. Compositions for use in identification of strains of e. coli o157:h7
US20040121335A1 (en) 2002-12-06 2004-06-24 Ecker David J. Methods for rapid detection and identification of bioagents associated with host versus graft and graft versus host rejections
US7666588B2 (en) 2001-03-02 2010-02-23 Ibis Biosciences, Inc. Methods for rapid forensic analysis of mitochondrial DNA and characterization of mitochondrial DNA heteroplasmy
US7226739B2 (en) 2001-03-02 2007-06-05 Isis Pharmaceuticals, Inc Methods for rapid detection and identification of bioagents in epidemiological and forensic investigations
US20030027135A1 (en) 2001-03-02 2003-02-06 Ecker David J. Method for rapid detection and identification of bioagents
CA2348042A1 (en) 2001-06-04 2002-12-04 Ann Huletsky Sequences for detection and identification of methicillin-resistant staphylococcus aureus
US7217510B2 (en) 2001-06-26 2007-05-15 Isis Pharmaceuticals, Inc. Methods for providing bacterial bioagent characterizing information
US8073627B2 (en) 2001-06-26 2011-12-06 Ibis Biosciences, Inc. System for indentification of pathogens
EP1578399A4 (en) 2002-12-06 2007-11-28 Isis Pharmaceuticals Inc Methods for rapid identification of pathogens in humans and animals
US8057993B2 (en) 2003-04-26 2011-11-15 Ibis Biosciences, Inc. Methods for identification of coronaviruses
US8158354B2 (en) 2003-05-13 2012-04-17 Ibis Biosciences, Inc. Methods for rapid purification of nucleic acids for subsequent analysis by mass spectrometry by solution capture
US7964343B2 (en) 2003-05-13 2011-06-21 Ibis Biosciences, Inc. Method for rapid purification of nucleic acids for subsequent analysis by mass spectrometry by solution capture
US8242254B2 (en) 2003-09-11 2012-08-14 Ibis Biosciences, Inc. Compositions for use in identification of bacteria
US8097416B2 (en) 2003-09-11 2012-01-17 Ibis Biosciences, Inc. Methods for identification of sepsis-causing bacteria
US8546082B2 (en) 2003-09-11 2013-10-01 Ibis Biosciences, Inc. Methods for identification of sepsis-causing bacteria
US8163895B2 (en) 2003-12-05 2012-04-24 Ibis Biosciences, Inc. Compositions for use in identification of orthopoxviruses
US7666592B2 (en) 2004-02-18 2010-02-23 Ibis Biosciences, Inc. Methods for concurrent identification and quantification of an unknown bioagent
WO2005117270A2 (en) 2004-05-24 2005-12-08 Isis Pharmaceuticals, Inc. Mass spectrometry with selective ion filtration by digital thresholding
US20050266411A1 (en) 2004-05-25 2005-12-01 Hofstadler Steven A Methods for rapid forensic analysis of mitochondrial DNA
US7811753B2 (en) 2004-07-14 2010-10-12 Ibis Biosciences, Inc. Methods for repairing degraded DNA
US8084207B2 (en) 2005-03-03 2011-12-27 Ibis Bioscience, Inc. Compositions for use in identification of papillomavirus
US20060205040A1 (en) 2005-03-03 2006-09-14 Rangarajan Sampath Compositions for use in identification of adventitious viruses
CA2616281C (en) 2005-07-21 2014-04-22 Isis Pharmaceuticals, Inc. Methods for rapid identification and quantitation of mitochondrial dna variants
US11834720B2 (en) 2005-10-11 2023-12-05 Geneohm Sciences, Inc. Sequences for detection and identification of methicillin-resistant Staphylococcus aureus (MRSA) of MREJ types xi to xx
BRPI0605802A (en) * 2005-11-21 2007-09-04 Biosigma Sa method and arrangement for detecting and identifying microorganisms present in a sample using the genetic regions coding for the different rnat synthetases
US9149473B2 (en) 2006-09-14 2015-10-06 Ibis Biosciences, Inc. Targeted whole genome amplification method for identification of pathogens
US8871471B2 (en) 2007-02-23 2014-10-28 Ibis Biosciences, Inc. Methods for rapid forensic DNA analysis
WO2008151023A2 (en) 2007-06-01 2008-12-11 Ibis Biosciences, Inc. Methods and compositions for multiple displacement amplification of nucleic acids
EP1997905A1 (en) * 2007-06-01 2008-12-03 Friesland Brands B.V. Nucleic acid amplification
WO2010033625A1 (en) 2008-09-16 2010-03-25 Ibis Biosciences, Inc. Microplate handling systems and related computer program products and methods
US8148163B2 (en) 2008-09-16 2012-04-03 Ibis Biosciences, Inc. Sample processing units, systems, and related methods
WO2010033599A2 (en) 2008-09-16 2010-03-25 Ibis Biosciences, Inc. Mixing cartridges, mixing stations, and related kits, systems, and methods
US20110183345A1 (en) * 2008-10-03 2011-07-28 Ibis Biosciences, Inc. Compositions for use in identification of streptococcus pneumoniae
WO2010093943A1 (en) 2009-02-12 2010-08-19 Ibis Biosciences, Inc. Ionization probe assemblies
US9393564B2 (en) 2009-03-30 2016-07-19 Ibis Biosciences, Inc. Bioagent detection systems, devices, and methods
WO2011008971A1 (en) 2009-07-17 2011-01-20 Ibis Biosciences, Inc. Lift and mount apparatus
EP2454000A4 (en) 2009-07-17 2016-08-10 Ibis Biosciences Inc Systems for bioagent identification
WO2011014811A1 (en) 2009-07-31 2011-02-03 Ibis Biosciences, Inc. Capture primers and capture sequence linked solid supports for molecular diagnostic tests
EP2488656B1 (en) 2009-10-15 2015-06-03 Ibis Biosciences, Inc. Multiple displacement amplification
ES2626411T3 (en) 2010-03-10 2017-07-25 Ibis Biosciences, Inc. Single-chain circular nucleic acid production
US9068017B2 (en) 2010-04-08 2015-06-30 Ibis Biosciences, Inc. Compositions and methods for inhibiting terminal transferase activity
WO2013036603A1 (en) 2011-09-06 2013-03-14 Ibis Biosciences, Inc. Sample preparation methods
WO2013101935A1 (en) 2011-12-27 2013-07-04 Ibis Biosciences, Inc. Bioagent detection oligonucleotides
JP2013171343A (en) 2012-02-17 2013-09-02 Toshiba Corp Storage device
WO2014052590A1 (en) 2012-09-26 2014-04-03 Ibis Biosciences, Inc. Swab interface for a microfluidic device
JP7105454B2 (en) * 2018-09-28 2022-07-25 慶應義塾 Analysis method, analysis method and microorganism identification method
RU2765495C1 (en) * 2021-05-31 2022-01-31 Федеральное казенное учреждение здравоохранения "Ростовский-на-Дону ордена Трудового Красного Знамени научно-исследовательский противочумный институт" Федеральной службы по надзору в сфере защиты прав потребителей и благополучия человека Method for the determination of francisella tularensis subspecies by multi-primer pcr

Citations (2)

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US5849492A (en) * 1994-02-28 1998-12-15 Phylogenetix Laboratories, Inc. Method for rapid identification of prokaryotic and eukaryotic organisms
WO2002070664A2 (en) * 2001-03-02 2002-09-12 Isis Pharmaceuticals, Inc. Method for rapid detection and identification of bioagents

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US6503709B1 (en) * 1997-07-03 2003-01-07 Id Biomedical Corporation Methods for rapidly detecting methicillin resistant staphylococci
WO1999010570A1 (en) * 1997-08-26 1999-03-04 Sumitomo Metal Industries, Ltd. High-quality silicon single crystal and method of producing the same
US6613509B1 (en) * 1999-03-22 2003-09-02 Regents Of The University Of California Determination of base (nucleotide) composition in DNA oligomers by mass spectrometry
WO2002016649A2 (en) * 2000-08-25 2002-02-28 Illumina, Inc. Probes and decoder oligonucleotides
US20040121335A1 (en) * 2002-12-06 2004-06-24 Ecker David J. Methods for rapid detection and identification of bioagents associated with host versus graft and graft versus host rejections
JP2003061665A (en) * 2001-08-21 2003-03-04 Yakult Bio-Science Foundation Method for detecting spore forming bacterium

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5849492A (en) * 1994-02-28 1998-12-15 Phylogenetix Laboratories, Inc. Method for rapid identification of prokaryotic and eukaryotic organisms
WO2002070664A2 (en) * 2001-03-02 2002-09-12 Isis Pharmaceuticals, Inc. Method for rapid detection and identification of bioagents

Non-Patent Citations (12)

* Cited by examiner, † Cited by third party
Title
ARNAL C ET AL: "Quantification of Hepatitis A virus in shellfish by competitive reverse transcription PCR with coextraction of standard RNA", APPLIED AND ENVIRONMENTAL MICROBIOLOGY, AMERICAN SOCIETY FOR MICROBIOLOGY, US, vol. 65, no. 1, 1 January 1999 (1999-01-01), pages 322 - 326, XP003011821, ISSN: 0099-2240 *
BRIGHTWELL G ET AL: "Development of internal controls for PCR detection of Bacillus anthracis", MOLECULAR AND CELLULAR PROBES, ACADEMIC PRESS, LONDON, GB, vol. 12, no. 6, 1 December 1998 (1998-12-01), pages 367 - 377, XP004450119, ISSN: 0890-8508 *
DING CHUNMING ET AL: "A high-throughput gene expression analysis technique using competitive PCR and matrix-assisted laser desorption ionization time-of-flight MS", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF USA, NATIONAL ACADEMY OF SCIENCE, WASHINGTON, DC.; US, vol. 100, no. 6, 18 March 2003 (2003-03-18), pages 3059 - 3064, XP002306878, ISSN: 0027-8424 *
HAFF L A ET AL: "MULTIPLEX GENOTYPING OF PCR PRODUCTS WITH MASS TAG-LABELED PRIMERS", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, SURREY, GB, vol. 25, no. 18, 1 January 1997 (1997-01-01), pages 3749 - 3750, XP002975048, ISSN: 0305-1048 *
HASSAN A A ET AL: "Inter- and Intraspecies Variations of the 16S-23S rDNA Intergenic Spacer Region of Various Streptococcal Species", SYSTEMATIC AND APPLIED MICROBIOLOGY, XX, XX, vol. 26, no. 1, 1 January 2003 (2003-01-01), pages 97 - 103, XP004957559, ISSN: 0723-2020 *
HURST G B ET AL: "Detection of bacterial DNA polymerase chain reaction products by matrix assisted laser desorption/ionization mass spectrometry", RAPID COMMUNICATIONS IN MASS SPECTROMETRY, HEYDEN, LONDON, GB, vol. 10, 1 January 1996 (1996-01-01), pages 377 - 382, XP002955968, ISSN: 0951-4198 *
JURINKE C ET AL: "MALDI-TOF MASS SPECTROMETRY. A VERSATILE TOOL FOR HIGH-PERFORMANCE DNA ANALYSIS", MOLECULAR BIOTECHNOLOGY, HUMANA PRESS, INC, US, vol. 26, no. 2, 1 February 2004 (2004-02-01), pages 147 - 163, XP009051260, ISSN: 1073-6085 *
LEVINE S M ET AL: "PCR-based detection of Bacillus anthracis in formalin-fixed tissue from a patient receiving ciprofloxacin", JOURNAL OF CLINICAL MICROBIOLOGY 20021101 US, vol. 40, no. 11, 1 November 2002 (2002-11-01), pages 4360 - 4362, XP002499261, ISSN: 0095-1137 *
MAY ALEX C W: "Percent sequence identity: The need to be explicit", STRUCTURE (CAMBRIDGE), vol. 12, no. 5, May 2004 (2004-05-01), pages 737 - 738, XP002499260, ISSN: 0969-2126 *
MUDDIMAN D C ET AL: "Characterization of PCR Products from Bacilli Using Electrospray Ionization FTICR Mass Spectrometry", ANALYTICAL CHEMISTRY, AMERICAN CHEMICAL SOCIETY. COLUMBUS, US, vol. 68, no. 21, 1 November 1996 (1996-11-01), pages 3705 - 3712, XP002980423, ISSN: 0003-2700 *
RAMISSE V ET AL: "Identification and characterization of Bacillus anthracis by multiplex PCR analysis of sequences on plasmids pXO1 and pXO2 and chromosomal DNA", FEMS MICROBIOLOGY LETTERS, AMSTERDAM, NL, vol. 145, no. 1, 15 November 1996 (1996-11-15), pages 9 - 16, XP002226327, ISSN: 0378-1097 *
VAN BAAR B L M: "Characterisation of bacteria by matrix-assisted laser desorption/ionisation and electrospray mass spectrometry", FEMS MICROBIOLOGY REVIEWS, ELSEVIER, AMSTERDAM, NL, vol. 24, 1 January 2000 (2000-01-01), pages 195 - 219, XP002980425, ISSN: 0168-6445 *

Also Published As

Publication number Publication date
EP1725686A2 (en) 2006-11-29
CA2560521A1 (en) 2006-07-06
JP2007525978A (en) 2007-09-13
AU2005322640B2 (en) 2008-09-18
AU2008255266A1 (en) 2009-01-08
AU2008255266B2 (en) 2011-07-14
WO2005098047A3 (en) 2007-10-04
WO2005098047A2 (en) 2005-10-20
WO2006071241A3 (en) 2007-09-13
WO2006071241A2 (en) 2006-07-06
AU2005322640A1 (en) 2006-07-06
CA2560521C (en) 2012-01-03

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Legal Events

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PUAI Public reference made under article 153(3) epc to a published international application that has entered the european phase

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RIC1 Information provided on ipc code assigned before grant

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A4 Supplementary search report drawn up and despatched

Effective date: 20081110

RAP1 Party data changed (applicant data changed or rights of an application transferred)

Owner name: IBIS BIOSCIENCES, INC.

17Q First examination report despatched

Effective date: 20090429

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