Compositions and methods to detect atopobium vaginae nucleic acid
AssigneeGen-Probe Incorporated
InventorDamon K. GETMAN
Life of this patent
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Abstract
The disclosed invention include nucleic acid oligomers that may be used as amplification oligomers, including primers, as capture probes for sample preparation, and detection probes for detection of 16S rRNA from Atopobium vaginae in samples by using methods of specific nucleic acid amplification and detection.
Claims40
A method for detecting in a sample a 16S rRNA of A. vaginae or a gene encoding a 16S rRNA of A. vaginae, comprising the steps of:
- a. providing a sample, wherein said sample is suspected of containing an Atopobium vaginae bacterium;
- b. contacting said sample with at least two amplification oligomers, wherein a first amplification oligomer is from about 15 to about 25 contiguous nucleotides in length and is about 90% or more identical to SEQ ID NO:2, and wherein a second amplification oligomer comprises a target hybridizing sequence that is from about 15 to about 25 contiguous nucleotides in length and is about 90% or more identical to SEQ ID NO:27, and wherein said first and second amplification oligomers are configured to specifically hybridize to a target sequence within a 16S rRNA of A. vaginae or a gene encoding a 16S rRNA of A. vaginae in the presence of one or more of Gardnerella vaginalis, Prevotella sp, anaerobic gram positive cocci, Mobiluncus sp, Mycoplasma hominis, Eggerthella hongkongensis, Megasphaera sp, and/or Leptotrichia sanguinegens;
- c. performing an in vitro nucleic acid amplification reaction wherein any target nucleic acid present in said sample is used as a template for generating an amplification product;
- and
- d. contacting said in vitro nucleic acid amplification reaction with a detection probe oligomer and providing conditions for a detection reaction to determine the presence or absence of an amplification product.
(canceled)
A method for detecting in a sample a 16S rRNA of A. vaginae or a gene encoding a 16S rRNA of A. vaginae, comprising the steps of:
- a. providing a sample, wherein said sample is suspected of containing an Atopobium vaginae bacterium;
- b. contacting said sample with at least two amplification oligomers configured to generate from a 16S rRNA of A. vaginae or a gene encoding a 16S rRNA of A. vaginae, an amplicon that is from 150 to 235 nucleotides in length and has a contiguous nucleotide sequence that is at least 80% identical to SEQ ID NO:43, wherein a one of said at least two amplification oligomers is selected from the group consisting of SEQ ID NO:2, oligomers at least 90% identical to SEQ ID NO:2, SEQ ID NO:27, SEQ ID NO:27 joined at its 5′ end to a promoter sequence, and SEQ ID NO:3;
- c. performing an in vitro nucleic acid amplification reaction wherein any target nucleic acid present in said sample is used as a template for generating an amplification product;
- and
- d. performing a detection reaction to determine the presence or absence of an amplification product.
-5. (canceled)
-9. (canceled)
(canceled)
-29. (canceled)
Amplification oligomers for amplifying a 16S rRNA of A. vaginae or a gene encoding 16S rRNA of A. vaginae, wherein said amplification oligomers are configured to specifically hybridize to said 16S rRNA of A. vaginae or a gene encoding 16S rRNA of A. vaginae and generate an amplicon comprising a target specific sequence that is from about 150 nucleotides in length to about 235 nucleotides in length and is at least 80% identical to SEQ ID NO:43.
-83. (canceled)
Dependencies are inferred from the claim text.