Molecular tag code for monitoring a product and process using same

• US 20040137458A1
• Filed: 12/23/2003
• Published: 07/15/2004
• Est. Priority Date: 05/03/2001
• Status: Abandoned Application

• Current Assignee: Warnex Research, Inc. (Diagnos, Inc.)
• Original Assignee: Warnex Research, Inc. (Diagnos, Inc.)
• Inventors: Archambault, Christian, Plante, Daniel
• Application Number:
  US10/476,373
• Publication Number:
  US 20040137458A1
• Time in Patent Office: Days
• US Class Current: 435/6
• CPC Class Codes: C12Q 1/68 involving nucleic acids
• CPC Class Codes: C12Q 2563/185 Nucleic acid dedicated to use as a hidden marker/bar code, e.g. inclusion of nucleic acids to mark art objects or animals

Abstract

In a first aspect of the invention, there is provided a nucleic acid tag comprising: a single-stranded nucleic acid sequence portion having a 5′ end portion and a 3′ end portion; at least two amplification primer binding sequences in said 5′ end and 3′ end portions; internal to these primer binding sequences, at least one marker of about 18 to about 25 nucleotides; and between these markers, a spacer, wherein the spacer has a length sufficient to allow molecular beacons to properly attach to amplification copies of the marker sequences bordering the amplification copy of the spacer and wherein the nucleic acid sequences of primer binding sequences, the marker and the spacer are chosen so as to minimize or prevent secondary structure formation. The said 5′ end and 3′ end portions are preferably protected from degradation. This molecular tag is simple and inexpensive to produce and easy to detect. There is also provided methods of identifying 15 substances with same and methods of detecting same in a substance. In a second aspect of the invention, there is also provided a use of a molecular tag for characterizing qualitatively and/or quantitatively at least one procedure of a manufacturing process for manufacturing an end product from at least one raw and/or intermediate product.

Claims

1. A nucleic acid tag for monitoring, detecting or tracing substances comprising said tag comprising:

(a) a single-stranded nucleic acid region;

(b) two ends being capable of pairing with a complementary nucleotide sequence; and

(c) at least one marker sequence having a number of non-complementary nucleotides sufficient to minimize or prevent the formation of secondary structure within said marker under conditions of use.

2. The nucleic acid tag of claim 1, wherein said nucleic acid is DNA.

3. The nucleic acid tag of claim 1 or 2, wherein said tag comprises two marker sequences of sufficient length and separated by a spacer sequence so as to be detectable by at least one molecular beacon.

4. The nucleic acid tag of any one of claims 1 to 3, wherein said ends are complementary to each other and form a stem structure.

5. The nucleic acid tag of any one of claims 1 to 4, having a length shorter than about 1000 nucleotides.

6. The nucleic acid tag of any one of claims 1 to 5, having a length shorter than about 100 nucleotides.

7. The nucleic acid tag of any one of claims 1 to 6, further comprising sequences that are complementary to amplification primers and having a sequence which minimizes or prevents the formation of secondary structure therein under conditions of use.

8. The nucleic acid tag of any one of claims 1 to 7, further comprising a spacer sequence having a sufficient number of non-complementary nucleotides to prevent the formation of secondary structure in said single strand region, internal to said two ends under conditions of use.

16. The method for detecting a molecular tag according to of any one of claims 1 to 14 in a substance comprising:

(a) taking a sample of said substance suspected to contain the tag;

(b) submitting said substance to an amplification step;

whereby a detection of an amplification product by a detection probe, positively identifies said molecular tag.

17. The method of claim 16, wherein said amplification step is a PCR amplification and said detection probe is a molecular beacon.

22. The use according to any one of claims 18-21, wherein said molecular tag is a nucleic acid tag as defined in any one of claims 1-14.

24. The method of claim 23 wherein said molecular tag is a nucleic acid tag as defined in any one of claims 1-14.

9. A nucleic acid tag comprising:

(a) a single-stranded nucleic acid sequence portion having a 5′

end portion and a 3′

end portion;

(b) at least two amplification primer binding sequences in said 5′

end and 3′

end portions;

(c) at least two marker sequences having a length of about 18 to about 25 nucleotides internal to said primer binding sequences; and

(d) a spacer between said marker sequences, wherein said spacer has a length which is sufficient to allow a specific binding of molecular beacons to amplification copies of said marker sequences and wherein the nucleic acid sequences of said primer binding sequences, of said marker sequences and of said spacer are chosen so as to minimize or prevent secondary structure formation.

10. The nucleic acid tag of claim 9 wherein said 5′

end and the 3′

end portions are protected from degradation.

11. The nucleic acid tag of claim 9 or 10, wherein said nucleic acid sequence of said primer binding sequences, said marker sequences and said spacer are made of non-complementary nucleotides.

12. The molecular tag of any one of claims 9 to 11, wherein said single stranded nucleic acid comprises 100 nucleotides or less.

13. The molecular tag of any one of claims 9 to 11, wherein said nucleic acid is DNA.

14. The nucleic acid tag recited in claim 13, wherein said amplification primer binding sequences are PCR primer binding sequences enabling PCR amplification procedure, and further comprising a nested PCR primer binding sequence located internally with respect to said PCR primer binding sequences thereby enabling a carrying out of nested asymmetric PCR for increased detection sensitivity.

15. A method of tagging a substance for its identification comprising:

(a) tagging said substance with a molecular tag as in one of the above-mentioned claims;

(b) releasing the tagged substance in the stream of trade or in the environment;

whereby the substance suspected to contain the tag can be identified by subsequent amplification and qualitative and/or quantitative detection of said molecular tag in the substance.

18. Use of a molecular tag for characterizing qualitatively and/or quantitatively at least one procedure of a manufacturing process for manufacturing an end product from at least one raw and/or intermediate product.

19. Use of a molecular tag as in claim 18, wherein said at least one procedure is a mixing procedure comprising:

(a) adding a defined quantity of a specific molecular tag in one of the raw and/or intermediate products, prior to mixture with at least one other raw and/or intermediate product, to obtain a tagged product;

(b) mixing said tagged product with said at least one other raw and/or intermediate product to obtain a mixture;

(c) determining the quantity of said molecular tag in said mixture, whereby the quantity of said tagged product in said mixture can be deduced from the quantity of molecular tag contained in said mixture.

20. Use of a molecular tag as in claim 18, wherein said at least one procedure is a timing of a manufacturing step and comprises:

(a) adding a predetermined amount of said molecular tag at a defined rate to said raw and/or intermediate product during the timed manufacturing step;

(b) determining the quantity of said molecular tag in said raw and/or intermediate product after said timed manufacturing step,

whereby the duration of the manufacturing step can be deduced from said quantity of said molecular tag in said raw and/or intermediate product after said timed manufacturing step.

21. Use of a molecular tag as in claim 20, wherein said manufacturing step is selected from the group consisting of pasteurizing, mixing, heating and cooling.

23. A method of identifying a defective production line in a manufacturing process which comprises a pooling of manufactured products from at least two production lines to generate a pooled manufactured product comprising:

(a) adding a specific molecular tag to said manufactured product in each production line prior to said pooling;

(b) identifying a defective pooled manufactured product;

(c) identifying said molecular tag in said defective product, whereby the identity of said molecular tag in said defective product leads to the identification of said defective production line.