COMPOSITIONS AND METHODS TO DETECT CANDIDA ALBICANS NUCLEIC ACID

• US 20100159530A1
• Filed: 03/01/2010
• Published: 06/24/2010
• Est. Priority Date: 12/26/2007
• Status: Active Grant

• Current Assignee: Gen-Probe Incorporated (Hologic Incorporated)
• Original Assignee: Gen-Probe Incorporated (Hologic Incorporated)
• Inventors: ANDRUSZKIEWICZ, IRENE, BUNGO, JENNIFER J., KAPLAN, SHANNON K., HOGAN, JAMES J.
• Granted Patent: US 9,109,262 B2
• Time in Patent Office: Days
• US Class Current: 435/91.200
• CPC Class Codes: C12Q 1/6895 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

1. A set of oligomers for use in amplifying a Candida albicans 26S rRNA sequence or DNA encoding the 26S rRNA sequence, the set of oligomers comprising first and second amplification oligomers, each of the first and second amplification oligomers being up to 60 bases in length, wherein the first amplification oligomer comprises a target binding region having at least 12 contiguous bases of the base sequence of SEQ ID NO:

1, the DNA equivalent of SEQ ID NO;

1, or a combination RNA/DNA equivalent of SEQ ID NO;

1.

2. The set of oligomers of claim 1, wherein the first amplification oligomer comprises the base sequence of SEQ ID NO:

1, the DNA equivalent of SEQ ID NO;

1, or a combination RNA/DNA equivalent of SEQ ID NO;

1.

3. The set of oligomers of claim 1, wherein the first amplification oligomer consists of the base sequence of SEQ ID NO:

1, the DNA equivalent of SEQ ID NO;

1, or a combination RNA/DNA equivalent of SEQ ID NO;

1.

4. The set of oligomers of claim 1, wherein the first amplification oligomer comprises the base sequence of SEQ ID NO:

2, the DNA equivalent of SEQ ID NO;

2, or a combination RNA/DNA equivalent of SEQ ID NO;

2.

5. The set of oligomers of claim 1, wherein the first amplification oligomer consists of the base sequence of SEQ ID NO:

2, the DNA equivalent of SEQ ID NO;

2, or a combination RNA/DNA equivalent of SEQ ID NO;

2.

6. The set of oligomers of claim 1, wherein the second amplification oligomer is up to 60 bases in length, and wherein the second amplification oligomer has at least 12 contiguous bases sequences of the base sequence of SEQ ID NO:

6, the DNA equivalent of SEQ ID NO;

6, or a combination RNA/DNA equivalent of SEQ ID NO;

6.

7. The set of oligomers of claim 6, wherein the second amplification oligomer comprises the base sequence of SEQ ID NO:

6, the DNA equivalent of SEQ ID NO;

6, or a combination RNA/DNA equivalent of SEQ ID NO;

6.

8. The set of oligomers of claim 7, wherein the first amplification oligomer comprises the base sequence of SEQ ID NO:

1, the DNA equivalent of SEQ ID NO;

1, or a combination RNA/DNA equivalent of SEQ ID NO;

1.

9. The set of oligomers of claim 7, wherein the first amplification oligomer comprises the base sequence of SEQ ID NO:

2, the DNA equivalent of SEQ ID NO;

2, or a combination RNA/DNA equivalent of SEQ ID NO;

2.

10. The set of oligomers of claim 6, wherein the second amplification oligomer consists of the base sequence of SEQ ID NO:

6, the DNA equivalent of SEQ ID NO;

6, or a combination RNA/DNA equivalent of SEQ ID NO;

6 and, optionally, a 5′

promoter sequence.

11. The set of oligomers of claim 10, wherein the first amplification oligomer consists of the base sequence of SEQ ID NO:

1, the DNA equivalent of SEQ ID NO;

1, or a combination RNA/DNA equivalent of SEQ ID NO;

1.

12. The set of oligomers of claim 10, wherein the first amplification oligomer consists of the base sequence of SEQ ID NO:

2, the DNA equivalent of SEQ ID NO;

2, or a combination RNA/DNA equivalent of SEQ ID NO;

2.

13. The set of oligomers of claim 10, wherein the base sequence of the second amplification oligomer consists of the base sequence of SEQ ID NO:

7.

14. The set of oligomers of claim 13, wherein the first amplification oligomer consists of the base sequence of SEQ ID NO:

1, the DNA equivalent of SEQ ID NO;

1, or a combination RNA/DNA equivalent of SEQ ID NO;

1.

15. The set of oligomers of claim 13, wherein the first amplification oligomer consists of the base sequence of SEQ ID NO:

2, the DNA equivalent of SEQ ID NO;

2, or a combination RNA/DNA equivalent of SEQ ID NO;

2.

16. The set of oligomers of claim 6 further comprising a probe up to 50 bases in length and comprising a target binding sequence that includes at least 10 contiguous bases of the base sequence of SEQ ID NO:

10, the DNA equivalent of SEQ ID NO;

10, or a combination RNA/DNA equivalent of SEQ ID NO;

10.

17. The set of oligomers of claim 16, wherein the target binding sequence of the probe comprises the base sequence of SEQ ID NO:

10, the DNA equivalent of SEQ ID NO;

10, or a combination RNA/DNA equivalent of SEQ ID NO;

10.

18. The set of oligomers of claim 17, wherein the base sequence of the probe consists of the base sequence of SEQ ID NO:

11, the DNA equivalent of SE ID NO;

11, or a combination RNA/DNA equivalent of SEQ ID NO;

11.

19. The set of oligomers of claim 16, wherein the target binding sequence of the probe comprises the base sequence of SEQ ID NO:

12, the DNA equivalent of SEQ ID NO;

12, or a combination RNA/DNA equivalent of SEQ ID NO;

12.

20. The set of oligomers of claim 19, wherein the base sequence of the probe consists of the base sequence of SEQ ID NO:

13, the DNA equivalent of SE ID NO;

13, or a combination RNA/DNA equivalent of SEQ ID NO;

13.

21. The set of oligomers of claim 16, wherein the target binding sequence of the probe comprises the base sequence of SEQ ID NO:

14, the DNA equivalent of SEQ ID NO;

14, or a combination RNA/DNA equivalent of SEQ ID NO;

14.

22. The set of oligomers of claim 21, wherein the base sequence of the probe consists of the base sequence of SEQ ID NO:

15, the DNA equivalent of SE ID NO;

15, or a combination RNA/DNA equivalent of SEQ ID NO;

15.

23. The set of oligomers of claim 16, wherein the probe comprises a label.