CA2715991A1 - Amplification oligomers and methods to detect candida albicans 26s rrna or encoding dna - Google Patents

Amplification oligomers and methods to detect candida albicans 26s rrna or encoding dna Download PDF

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Publication number
CA2715991A1
CA2715991A1 CA2715991A CA2715991A CA2715991A1 CA 2715991 A1 CA2715991 A1 CA 2715991A1 CA 2715991 A CA2715991 A CA 2715991A CA 2715991 A CA2715991 A CA 2715991A CA 2715991 A1 CA2715991 A1 CA 2715991A1
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CA
Canada
Prior art keywords
seq
nucleic acid
sequence
target binding
amplification
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.)
Abandoned
Application number
CA2715991A
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French (fr)
Inventor
James J. Hogan
Irene Andruszkiewicz
Jennifer J. Bungo
Shannon K. Kaplan
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.)
Gen Probe Inc
Original Assignee
Gen Probe 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 Gen Probe Inc filed Critical Gen Probe Inc
Publication of CA2715991A1 publication Critical patent/CA2715991A1/en
Abandoned legal-status Critical Current

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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
    • C12Q1/6895—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for plants, fungi or algae

Abstract

Compositions are disclosed as nucleic acid sequences that may be used as amplification oligomers, including primers, capture probes for sample preparation, and detection probes specific for Candida albicans 26S rRNA sequences or DNA
encoding 26S rRNA. Methods are disclosed for detecting the presence of C.
albicans in samples by using the disclosed compositions in methods that include in vitro nucleic acid amplification of a 26S rRNA sequence or DNA encoding the 26S rRNA
sequence to produce a detectable amplification product.

Claims (10)

1. A method of detecting Candida albicans in a sample, comprising the steps of:
mixing a sample that contains a C. albicans target nucleic acid that is a 26S
rRNA sequence or DNA
encoding the 26S rRNA sequence with a first amplification oligomer comprising a target binding region consisting of SEQ ID NO: 1 or SEQ ID NO: 2 and a second amplification oligomer comprising a target binding region consisting of SEQ ID NO: 6;
providing an enzyme with nucleic acid polymerase activity and nucleic acid precursors to make an amplification mixture that includes the first and second amplification oligomers and the C. albicans target nucleic acid;
elongating in vitro a 3' end of at least one of the amplification oligomers hybridized to the C, albicans target nucleic acid by using the enzyme with nucleic acid polymerase activity and the C. albicans target nucleic acid as a template to produce an amplified product; and detecting the amplified product by hybridizing the amplified product specifically to a detection probe oligomer comprising a target binding sequence consisting of SEQ 1D NO: 10 to indicate the presence Candida albicans in the sample.
2, The method of claim 1, further comprising a sample processing step that captures the C. albicans target nucleic acid from the sample before the mixing step.
3. The method of claim 2, wherein the sample processing step uses a capture probe oligomer that contains a target binding sequence consisting of SEQ ID NO: 35 or 36, wherein the target binding sequence is optionally covalently attached to a 3' tail sequence.
4. A composition for detecting Candida albicans 26S rRNA sequence or DNA
encoding the 26S rRNA sequence by using in vitro amplification, comprising a first amplification oligomer comprising a target binding region consisting of SEQ ID NO:1 or SEQ ID NO: 2, a second amplification oligomer comprising a target binding region consisting of SEQ ID NO: 6, and a detection probe oligomer comprising a target binding region consisting of SEQ ID NO:10.
5. The composition of claim 4, further comprising at least one capture probe oligomer that contains a target binding region consisting of SEQ ID NO: 35 or 36, optionally with a 3' tail sequence covalently attached to the target specific sequence.
6. A method of detecting Candida albicans in a sample, comprising the steps of:
mixing a sample that contains a C. albicans target nucleic acid that is a 26S
rRNA sequence or DNA
encoding the 26S rRNA sequence with a first amplification oligomer comprising a target binding region consisting of SEQ ID NO:19 and a second amplification oligomer comprising a target binding region consisting of SEQ ID NO:
24;
providing an enzyme with nucleic acid polymerase activity and nucleic acid precursors to make an amplification mixture that includes the first and second amplification oligomers and the C. albicans target nucleic acid;
elongating in vitro a 3' end of at least one of the amplification oligomers hybridized to the C. albicans target nucleic acid by using the enzyme with nucleic acid polymerase activity and the C. albicans target nucleic acid as a template to produce an amplified product; and detecting the amplified product by hybridizing the amplified product specifically to a detection probe oligomer comprising a target binding sequence consisting of SEQ ID NO: 28 to indicate the presence Candida albicans in the sample.
7. The method of claim 6, further comprising a sample processing step that captures the C. albicans target nucleic acid from the sample before the mixing step.
8. The method of claim 7, wherein the sample processing step uses a capture probe oligomer that contains a target binding sequence consisting of SEQ ID NO: 35 or 36, wherein the target binding sequence is optionally covalently attached to a 3'tall sequence.
9. A composition for detecting Candida albicans 26S rRNA sequence or DNA
encoding the 26S rRNA sequence by using in vitro amplification, comprising a first amplification oligomer comprising a target binding region consisting of SEQ ID NO: 19, a second amplification oligomer comprising a target binding region consisting of SEQ ID NO: 24, and a detection probe oligomer comprising a target binding region consisting of SEQ ID NO: 28.
10. The composition of claim 9, further comprising at least one capture probe oligomer that contains a target binding region consisting of SEQ ID NO: 35 or 36, optionally with a 3' tail sequence covalently attached to the target specific sequence.
CA2715991A 2007-12-26 2008-12-15 Amplification oligomers and methods to detect candida albicans 26s rrna or encoding dna Abandoned CA2715991A1 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US1677707P 2007-12-26 2007-12-26
US61/016,777 2007-12-26
PCT/US2008/086863 WO2009085704A2 (en) 2007-12-26 2008-12-15 Compositions and methods to detect candida albicans nucleic acid

Publications (1)

Publication Number Publication Date
CA2715991A1 true CA2715991A1 (en) 2009-07-09

Family

ID=40798912

Family Applications (1)

Application Number Title Priority Date Filing Date
CA2715991A Abandoned CA2715991A1 (en) 2007-12-26 2008-12-15 Amplification oligomers and methods to detect candida albicans 26s rrna or encoding dna

Country Status (5)

Country Link
US (4) US7595164B2 (en)
EP (1) EP2235214B1 (en)
AU (1) AU2008343380B2 (en)
CA (1) CA2715991A1 (en)
WO (1) WO2009085704A2 (en)

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Also Published As

Publication number Publication date
WO2009085704A3 (en) 2009-09-03
US20090170110A1 (en) 2009-07-02
US20090305293A1 (en) 2009-12-10
US7595164B2 (en) 2009-09-29
WO2009085704A2 (en) 2009-07-09
EP2235214A2 (en) 2010-10-06
EP2235214B1 (en) 2014-07-09
US7670780B2 (en) 2010-03-02
US20100286383A1 (en) 2010-11-11
AU2008343380A1 (en) 2009-07-09
EP2235214A4 (en) 2011-01-12
US20100159530A1 (en) 2010-06-24
US9109262B2 (en) 2015-08-18
WO2009085704A9 (en) 2009-11-05
US9109263B2 (en) 2015-08-18
AU2008343380B2 (en) 2012-07-12

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FZDE Discontinued

Effective date: 20161215