Compositions for stabilizing DNA, RNA and proteins in saliva and other biological samples during shipping and storage at ambient temperatures

• US 9,845,489 B2
• Filed: 07/26/2011
• Issued: 12/19/2017
• Est. Priority Date: 07/26/2010
• Status: Active Grant

• Current Assignee: Biomatrica, Inc. (Exact Sciences Corporation)
• Original Assignee: Biomatrica, Inc. (Exact Sciences Corporation)
• Inventors: Whitney, Scott E., Ghirmai, Senait, Muller, Rolf
• Primary Examiner(s): HANLEY, SUSAN MARIE
• Application Number:
  US13/812,288
• Publication Number:
  US 20130209997A1
• Time in Patent Office: 2,338 Days
• CPC Class Codes: A01N 1/021 Preservation or perfusion media, liquids, solids or gases used in the preservation of cells, tissue, organs or bodily fluids
• CPC Class Codes: C12Q 1/6806 Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay C12Q1/6804 takes precedence
• CPC Class Codes: C12Q 2527/137 Concentration of a component of medium

Abstract

Compositions and methods are disclosed for substantially liquid, gel, suspension, slurry, semisolid and/or colloid storage of biological samples following admixture with the herein disclosed storage composition, permitting substantial recovery of biological activity following storage without refrigeration. In certain embodiments, unfractionated saliva samples may be stored without refrigeration for weeks, months or years in a form that permits recovery of intact DNA following the storage period.

Claims

1. An admixture comprising:

A) a composition for substantially stable storage of nucleic acid and polypeptide molecules in a biological sample at room temperature, comprising;

(a) a compound selected from the group consisting of;

1-methyl-3-carboxyethyl-imidazolium bromide,

1-hexyl-3-methylimidazolium bromide,

1-octyl-3-methylimidazolium bromide,

1-decyl-3-methylimidazolium bromide, and

1-(2-hydroxyethyl)-3-methylimidazolium bromide;

(b) one, two, or all three of;

(i) at least one precipitating agent,

(ii) at least one lower alcohol, and

(iii) at least one chaotrope;

(c) one or more of;

(i) a chelating agent,

(ii) a reducing agent,

(iii) a pH buffer, and

(iv) water; and

(d) a surfactant or detergent,

wherein the composition is an aqueous solution and the compound of (a) is present in the composition at a concentration of about 0.1% to about 10% (w/v); and

B) a biological sample comprising saliva or sputum.

2. The admixture of claim 1 wherein the precipitating agent is selected from the group consisting of:

5-(4-dimethyl)amino benzylidene rhodanine,

sulfosalicylic acid,

lithium chloride, and

lithium hydroxide.

3. The admixture of claim 1 wherein the lower alcohol is selected from the group consisting of methanol, ethanol, n-propanol, isopropanol, n-butanol, and isobutanol (2-methylpropan-1-ol).

4. The admixture of claim 1 wherein the chaotrope is selected from the group consisting of:

guanidine hydrochloride, guanidine thiocyanate, potassium thiocyanate, sodium thiocyanate and urea.

5. The admixture of claim 1 wherein the chelating agent is selected from the group consisting of diethylenetriaminepentaacetic acid (DTPA), ethylenediaminetetraacetic acid (EDTA), ethylene glycol tetraacetic acid (EGTA), trans-1,2-diaminocyclohexane-N,N,N′

,N′

-tetraacetic acid (CDTA), 1,2-bis(2-aminophenoxy)ethane-N,N,N′

,N′

-tetraacetic acid (BAPTA), 1,4,7,10-tetraazacyclododecane-1,4,7,10-tetraacetic acid (DOTA), N-(2-hydroxyethyl)ethylenediamine-N,N′

,N′

-triacetic acid, and nitrilotriacetic acid (NTA).

6. The admixture of claim 1 wherein the reducing agent is selected from the group consisting of 2-mercaptoethanol, thiosulfate, TCEP (tris-(2-carboxyethyl) phosphine), dithiothreitol and dithioerythritol.

7. The admixture of claim 1 wherein the pH buffer is selected from the group consisting of citric acid, tartaric acid, malic acid, sulfosalicylic acid, sulfoisophtalic acid, oxalic acid, borate, CAPS (3-(cyclohexylamino)-1-propanesulfonic acid), CAPSO (3-(cyclohexylamino)-2-hydroxy-1-propanesulfonic acid), EPPS (4-(2-hydroxyethyl)-1-piperazinepropanesulfonic acid), HEPES (4-(2-hydroxyethyl)piperazine-1-ethanesulfonic acid), MES (2-(N-morpholino)ethanesulfonic acid), MOPS (3-(N-morpholino)propanesulfonic acid), MOPSO (3-morpholino-2-hydroxypropanesulfonic acid), PIPES (1,4-piperazinediethanesulfonic acid), TAPS (N-[tris(hydroxymethyl)methyl]-3-aminopropanesulfonic acid), TAPSO (2-hydroxy-3-[tris(hydroxymethyl)methylamino]-1-propanesulfonic acid), TES (N-[tris(hydroxymethyl)methyl]-2-aminoethanesulfonic acid), bicine (N,N-Bis(2-hydroxyethyl)glycine), tricine (N-[Tris(hydroxymethyl)methyl]glycine), tris (tris(hydroxymethyl)aminomethane) and bis-tris (2-[Bis(2-hydroxyethyl)amino]-2-(hydroxymethyl)-1,3-propanediol).

8. The admixture of claim 1 wherein the surfactant or detergent is selected from 4-(1,1,3,3-Tetramethylbutyl)phenyl-polyethylene glycol and octylphenoxypolyethoxyethanol.

9. The admixture of claim 1 wherein the saliva or sputum is unfractionated.

10. The admixture of claim 1 wherein the saliva or sputum is human saliva.

11. The admixture of claim 10 wherein the human saliva is unfractionated.

12. The admixture of claim 1, wherein the surfactant is any of the Tween family of nonionic polyoxyethylene surfactants.

13. An admixture of claim 1, wherein the composition comprises

(a) a compound selected from the group consisting of:

1-methyl-3-carboxyethyl-imidazolium bromide,

1-hexyl-3-methylimidazolium bromide,

1-octyl-3-methylimidazolium bromide,

1-decyl-3-methylimidazolium bromide, and

1-(2-hydroxyethyl)-3-methylimidazolium bromide;

(b) at least one chaotrope;

(c) a pH buffer,

(d) water, and

(e) a surfactant or detergent,

wherein the composition is an aqueous solution and the compound of (a) is present in the composition at a concentration of about 0.1% to about 10% (w/v).

14. The admixture of claim 1 which is capable, upon storage without refrigeration for a time period of at least 60 days, of substantially preventing degradation of at least 70% of recoverable DNA from the admixture, relative to DNA recoverable from a second sample of the biological sample comprising saliva or sputum that is stored at −

20°

C. during said time period.

15. The admixture of claim 1 which is capable, upon storage without refrigeration for a time period of at least 21 days, of substantially preventing degradation of at least 70% of recoverable RNA from the admixture, relative to RNA recoverable from a second sample of the biological sample comprising saliva or sputum that is stored at −

80°

C. during said time period.

16. A substantially stably-stored nucleic acid molecule from a biological sample comprising saliva or sputum, comprising the composition of claim 1.

17. A substantially stably-stored polypeptide molecule from a human saliva sample, comprising the composition of claim 1.

18. The substantially stably-stored nucleic acid molecule of claim 16 wherein the nucleic acid molecule comprises one or more of a DNA molecule and an RNA molecule.

19. A method for substantially stabilizing one or a plurality of nucleic acid or polypeptide molecules that are present in a biological sample comprising saliva or sputum, comprising:

(a) admixing the biological sample comprising saliva or sputum with a composition comprising

(A) a compound selected from the group consisting of;

1-methyl-3-carboxyethyl-imidazolium bromide,

1-hexyl-3-methylimidazolium bromide,

1-octyl-3-methylimidazolium bromide,

1-decyl-3-methylimidazolium bromide, and

1-(2-hydroxyethyl)-3-methylimidazolium bromide;

(B) one, two, or all three of;

(i) at least one precipitating agent,

(ii) at least one lower alcohol, and

(iii) at least one chaotrope;

(C) one or more of;

(i) a chelating agent,

(ii) a reducing agent,

(iii) a pH buffer, and

(iv) water; and

(D) a surfactant or detergent,

wherein the composition is an aqueous solution and the compound of (A) is present in the composition at a concentration of about 0.1% to about 10% (w/v), to obtain a mixture; and

(b) maintaining the mixture without refrigeration for a time period of at least 7 days, and thereby substantially stabilizing said one or a plurality of nucleic acid or polypeptide molecules that are present in the biological sample, wherein either one, two or all three of;

(1) degradation is substantially prevented of at least 70% of recoverable DNA in the mixture, relative to an amount of DNA or polypeptide that is recoverable from the sample when stored for the time period at −

20°

C. without the composition,

(2) degradation is substantially prevented of at least 70% of recoverable RNA in the mixture, relative to an amount of RNA that is recoverable from the sample when stored for the time period at −

80°

C. without the composition, and

(3) degradation is substantially prevented of at least 70% of recoverable polypeptide molecules in the mixture, relative to an amount of polypeptide molecules that is recoverable from the sample when stored for the time period at −

20°

C. without the composition.

20. The method of claim 19 wherein the biological sample comprises vertebrate saliva or sputum.

21. The method of claim 20 wherein the vertebrate saliva or sputum is unfractionated.

22. The method of claim 19 wherein the biological sample comprises human saliva.

23. The method of claim 22 wherein the human saliva is unfractionated.

24. The method of claim 19 wherein the step of maintaining comprises maintaining for a time period of at least 10, 20, 30, 40, 50, 60 or 70 days.