Fast results hybrid capture assay on an automated platform

• US 8,877,436 B2
• Filed: 10/26/2009
• Issued: 11/04/2014
• Est. Priority Date: 10/27/2008
• Status: Active Grant

• Current Assignee: QIAGEN Gaithersburg, Inc. (Qiagen NV)
• Original Assignee: QIAGEN Gaithersburg, Inc. (Qiagen NV)
• Inventors: Eder, Paul, Payne, Eric, Nazarenko, Irina, Ramachandran, Suganthi, Virmani, Arvind, Bell, Laura
• Primary Examiner(s): WHISENANT, ETHAN C
• Application Number:
  US12/605,605
• Publication Number:
  US 20100105060A1
• Time in Patent Office: 1,835 Days
• Field of Search: 435/6, 435/7.1, 435/6.1
• US Class Current: 435/6.1
• CPC Class Codes: C12Q 1/6804 Nucleic acid analysis using immunogens immunoassay G01N33/53
• CPC Class Codes: C12Q 1/708 for papilloma
• CPC Class Codes: C12Q 2527/125 Specific component of sample, medium or buffer
• CPC Class Codes: C12Q 2527/153 Viscosity

Abstract

The present invention comprises a method that provides fast and reliable results for detecting the presence of a target nucleic acid molecule in a sample.

Claims

1. A method for determining the presence of a target nucleic acid molecule in a sample, the method comprising:

a) suspending the sample in a collection medium comprising an anionic detergent and a non-ionic detergent;

b) denaturing the target nucleic acid molecule in the sample;

c) forming a double-stranded nucleic acid hybrid by contacting at least one polynucleotide probe with the target nucleic acid molecule;

d) forming a double-stranded nucleic acid hybrid-support complex by capturing the double-stranded nucleic acid hybrid on a magnetic bead comprising a first antibody;

e) forming a double-stranded nucleic acid hybrid-support-second antibody complex by contacting the double-stranded nucleic acid hybrid-support complex with a second antibody, wherein the second antibody is labeled with a detectable marker;

f) washing the double-stranded nucleic acid hybrid-support-second antibody complex with a wash buffer; and

g) detecting the marker on the second antibody wherein the detecting indicates the presence of the target nucleic acid molecule,

wherein the collection medium is present at least from step a) to step d).

2. The method of claim 1, wherein the double-stranded nucleic acid hybrid-support complex is separated from nucleic acid molecules not captured on the support before forming the double-stranded nucleic acid hybrid-support-second antibody complex.

3. The method of claim 1, wherein the collection medium further comprises a buffer, a chelator, and a preservative.

4. The method of claim 3, wherein the non-ionic detergent is NP-40, the anionic detergent is sodium deoxycholate, the chelator is EDTA, and the preservative is sodium azide.

5. The method of claim 1 wherein the wash buffer comprises a detergent.

6. The method of claim 1, wherein the wash buffer comprises 40 mM Tris pH 8.2, 100 mM NaCl, 0.1% to 0.5% Triton X-100, and 0.09% sodium azide.

7. The method of claim 1, wherein the sample is a cervical cell sample.

8. The method of claim 1, wherein the target nucleic acid molecule in the sample is denatured with an alkaline solution and the pH of the alkaline solution is between about pH 12 and about pH 14.

9. The method of claim 1, wherein the at least one polynucleotide probe is selected from probes for HPV high risk types 16, 18, 26, 31, 33, 35, 39, 45, 51, 52, 56, 58, 59, 66, 68, and 82.

10. The method of claim 1, wherein the polynucleotide probes comprises RNA.

11. The method of claim 1, wherein the at least one polynucleotide probe is present in a solution comprising a buffer, polyacrylic acid, a base, and preservative.

12. The method of claim 1, wherein either the first antibody, or the second antibody, or both the first and second antibodies are monoclonal antibodies.

13. The method of claim 1, wherein the forming of the double-stranded nucleic acid hybrid is at a temperature of from about 67°

C. to about 70°

C.

14. The method of claim 13, wherein the temperature is about 68.5°

.

15. The method of claim 14, further comprising shaking the samples at a speed of about 300 rpm.

16. The method of claim 1, wherein the presence of the target nucleic acid molecule is determined in 4 hours or less.

17. The method of claim 1, wherein the method is performed on an apparatus for determining the presence of a target nucleic acid molecule in a sample, the apparatus comprising:

a) a container configured to contain the sample and one or more media;

b) a pipetter configured to add the one or more media to the container;

c) a mixer configured to mix the sample and the one or more media in the container;

d) a heater configured to heat the sample and the one or more media in the container;

e) a magnet configured to separate the target nucleic acid molecule; and

f) a detector configured to detect the presence of the target nucleic acid molecule.

18. The method of claim 5, wherein the detergent in the wash buffer comprises Triton X-100.

19. The method of claim 1, wherein said collection medium comprises about 0.5% to about 2.0% NP-40, about 0.10% to about 0.40% sodium deoxycholate, and about 10 mM to about 50 mM EDTA.

20. The method of claim 1 wherein one of the detergents of the collection media is selected to control background signal and another of the detergents is selected to improve magnetic bead behavior.