COMPOSITIONS AND METHODS TO DETECT ENTEROCOCCI NUCLEIC ACID

• US 20070264658A1
• Filed: 05/11/2007
• Published: 11/15/2007
• Est. Priority Date: 05/12/2006
• Status: Active Grant

• Current Assignee: Gen-Probe Incorporated (Hologic Incorporated)
• Original Assignee: Gen-Probe Incorporated (Hologic Incorporated)
• Inventors: LIVEZEY, Kristin W., POLLNER, Reinhold B.
• Granted Patent: US 7,588,897 B2
• Time in Patent Office: Days
• US Class Current: 435/6
• CPC Class Codes: C12Q 1/689 for bacteria

Abstract

The disclosed invention includes nucleic acid oligomers that may be used as amplification oligomers, including primers, capture probes for sample preparation, and detection probes for detection of indicator enterococci 23S rRNA sequences in samples by using methods of specific nucleic acid amplification and detection.

Claims

1. A detection probe oligomer for detecting Enterococcus nucleic acid in a sample comprising:

a target binding region consisting of SEQ ID NO;

45,

wherein said target binding region is capable of forming a detectable hybrid with nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, and E. columbae, and

wherein said target binding region is not capable of forming a detectable hybrid with nucleic acid derived from E. avium, E. malodoratus, E. pseudoavium, E. raffinosus, E. saccharolyticus, and E. dispar;

and

wherein said detection probe oligomer does not comprise another target binding region capable of forming a detectable hybrid with nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, and E. columbae.

2. The detection probe oligomer of claim 1 further comprising at least one non-target binding region.

3. The detection probe oligomer of claim 2, wherein said detection probe oligomer comprises two non-target binding regions that hybridize to each other when said detection probe oligomer is not hybridized to nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, or E. columbae.

4. The detection probe oligomer of claim 1 further comprising a detectable label.

5. A composition comprising said detection probe oligomer of claim 1 hybridized to nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, or E. columbae.

6. A kit for detecting Enterococcus nucleic acid in a sample comprising said detection probe oligomer of claim 1.

7. A kit for amplifying and detecting Enterococcus nucleic acid in a sample comprising:

a first amplification oligomer comprising a target binding region consisting of SEQ ID NO;

30;

a second amplification oligomer comprising a target binding region consisting of SEQ ID NO;

31; and

said detection probe oligomer of claim 1.

8. A method for detecting Enterococcus nucleic acid in a sample comprising the steps of:

a) contacting said sample with a detection probe oligomer comprising a target binding region consisting of SEQ ID NO;

45,

wherein said target binding region is capable of forming a detectable hybrid with nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, and E. columbae,

wherein said target binding region is not capable of forming a detectable hybrid with nucleic acid derived from E. avium, E. malodoratus, E. pseudoavium, E. raffinosus, E. saccharolyticus, and E. dispar, and

wherein said detection probe oligomer does not comprise another target binding region capable of forming a detectable hybrid with nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, and E. columbae;

and

b) determining whether said nucleic acid is in said sample.

9. A method for amplifying and detecting Enterococcus nucleic acid in a sample comprising the steps of:

a) contacting said sample with a first amplification oligomer comprising a target binding region consisting of SEQ ID NO;

30, a second amplification oligomer comprising a target binding region consisting of SEQ ID NO;

31, and a detection probe oligomer comprising a target binding region consisting of SEQ ID NO;

45,

wherein said target binding region of said detection probe oligomer is capable of forming a detectable hybrid with nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, and E. columbae,

wherein said target binding region of said detection probe oligomer is not capable of forming a detectable hybrid with nucleic acid derived from E. avium, E. malodoratus, E. pseudoavium, E. raffinosus, E. saccharolyticus, and E. dispar, and

wherein said detection probe oligomer does not comprise another target binding region capable of forming a detectable hybrid with nucleic acid derived from E. faecalis, E. faecium, E. casseliflavus, E. gallinarum, E. mundtii, E. durans, E. hirae, and E. columbae;

b) exposing said test sample to conditions sufficient to amplify Enterococcus nucleic acid; and

c) determining whether said nucleic acid is in said sample.