Compositions for the detection of Chlamydia trachomatis
AssigneeGen-Probe Incorporated
InventorsYeasing Yang, Paul D. Stull, Marc Spingola
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Abstract
Oligonucleotides and methods for the amplification and specific detection of Chlamydia trachomatis. The invention relates to amplification oligonucleotides capable of amplifying Chlamydia trachomatis nucleotide sequences and to probes and helper oligonucleotides for the specific detection of Chlamydia trachomatis nucleic acids. The invention also relates to methods for using the oligonucleotides of the present invention and specific combinations and kits useful for the detection of Chlamydia trachomatis.
Claims29
A probe mix for the specific detection of Chlamydia trachomatis comprising:
- a) an oligonucleotide hybridization assay probe having a nucleotide sequence of SEQ ID NO:
- 1 or a conservatively modified variant of SEQ ID NO:
- 1, and
- b) at least one helper oligonucleotide.
A probe mix for the specific detection of Chlamydia trachomatis comprising:
- a) an oligonucleotide hybridization assay probe having a nucleotide sequence SEQ ID NO:
- 46 or a conservatively modified variant of SEQ ID NO:
- 46, and
- b) at least one helper oligonucleotide.
A composition for the specific detection of Chlamydia trachomatis nucleic acids over nucleic acids from Chlamydia psittaci and Chlamydia pneumoniae comprising:
- a) at least one amplification oligonucleotide having a nucleotide sequence substantially similar to a nucleotide sequence selected from the group consisting of:
- i) SEQ. ID. NO:
- 7,
- ii) SEQ. ID. NO:
- 8,
- iii) RNA equivalents of these sequences having uracil substituted for thymine,
- b) at least one oligonucleotide hybridization assay probe having a nucleotide sequence substantially similar to a nucleotide sequence selected from the group consisting of:
- i) SEQ. ID. NO:
- 3,
- ii) SEQ. ID. NO:
- 10, and
- iii) RNA equivalents of these sequences having uracil substituted for thymine,
- iv) nucleotide triphosphates, and
- v) at least one nucleic acid polymerizing activity.
A composition for the specific detection of Chlamydia trachomatis nucleic acids over nucleic acids from Chlamydia psittici and Chlamydia pneumoniae comprising:
- a) at least one amplification oligonucleotide having a nucleotide sequence substantially similar to a nucleotide sequence selected from the group consisting of:
- i) SEQ. ID. NO:
- 4,
- ii) SEQ. ID. NO:
- 5,
- iii) SEQ. ID. NO:
- 6, and
- iv) RNA equivalents of these sequences having uracil substituted for thymine,
- b) at least one oligonucleotide hybridization assay probe having a nucleotide sequence substantially similar to a nucleotide sequence selected from the group consisting of:
- i) SEQ. ID. NO:
- 1,
- ii) SEQ. ID. NO:
- 9, and
- iii) RNA equivalents of these sequences having uracil substituted for thymine,
- iv) nucleotide triphosphates, and
- v) at least one nucleic acid polymerizing activity.
A composition for the specific detection of Chlamydia trachomatis nucleic acids over nucleic acids from Chlamydia psittici and Chlamydia pneumoniae comprising:
- a) at least one amplification oligonucleotide having a nucleotide sequence substantially similar to a nucleotide sequence selected from the group consisting of:
- i) SEQ. ID. NO:
- 44,
- ii) SEQ. ID. NO:
- 50,
- iii) RNA equivalents of these sequences having uracil substituted for thymine,
- b) at least one oligonucleotide hybridization assay probe having a nucleotide sequence substantially similar to a nucleotide sequence selected from the group consisting of:
- i) SEQ. ID. NO:
- 46,
- ii) SEQ. ID. NO:
- 47, and
- iii) RNA equivalents of these sequences having uracil substituted for thymine,
- iv) nucleotide triphosphates, and
- v) at least one nucleic acid polymerizing activity.
An amplification oligonucleotide for the amplification of nucleic acids derived from Chlamydia trachomatis having a nucleotide sequence selected from the group consisting of:
- a) SEQ ID NO:
- 17,
- b) SEQ ID NO:
- 18,
- c) SEQ ID NO:
- 19,
- d) SEQ ID NO:
- 20,
- e) SEQ ID NO:
- 21,
- f) SEQ ID NO:
- 22,
- g) SEQ ID NO:
- 23,
- h) SEQ ID NO:
- 24,
- i) SEQ ID NO:
- 25,
- j) SEQ ID NO:
- 26,
- k) SEQ ID NO:
- 27,
- l) SEQ ID NO:
- 28, and
- m) SEQ ID NO:
- 29.
A primer array for the amplification of nucleic acids derived from Chlamydia trachomatis comprising at least two amplification oligonucleotides of the same sense, wherein amplification oligonucleotides of a positive sense are selected from the group consisting of:
- A. SEQ ID NO:
- 17,
- B. SEQ ID NO:
- 18,
- C. SEQ ID NO:
- 19,
- D. SEQ ID NO:
- 20,
- E. SEQ ID NO:
- 21,
- F. SEQ ID NO:
- 22, and
- G. SEQ ID NO:
- 23,
- and amplification oligonucleotides of a negative sense are selected from the group consisting of:
- H. SEQ ID NO:
- 24,
- I. SEQ ID NO:
- 25,
- J. SEQ ID NO:
- 26,
- K. SEQ ID NO:
- 27,
- L. SEQ ID NO:
- 28, and
- M. SEQ ID NO:
- 29,
- wherein both said positive and said negative sense are defined relative to the same reference nucleic acid sequence.
A kit for the amplification of Chlamydia trachomatis nucleic acids comprising two or more amplification oligonucleotides having nucleotide sequences selected from the group consisting of:
- a) SEQ ID NO:
- 17,
- b) SEQ ID NO:
- 18,
- c) SEQ ID NO:
- 19,
- d) SEQ ID NO:
- 20,
- e) SEQ ID NO:
- 21,
- f) SEQ ID NO:
- 22,
- g) SEQ ID NO:
- 23,
- h) SEQ ID NO:
- 24,
- i) SEQ ID NO:
- 25,
- j) SEQ ID NO:
- 26,
- k) SEQ ID NO:
- 27,
- l) SEQ ID NO:
- 28, and
- m) SEQ ID NO:
- 29.
A composition for the amplification of Chlamydia trachomatis nucleic acids comprising at least one amplification oligonucleotide that will bind to or cause polymerization through a region of Chlamydia trachomatis nucleic acids of between 20 and 100 nucleotides, said region having a nucleotide sequence selected from the group consisting of:
- i. SEQ ID NO:
- 4,
- ii. SEQ ID NO:
- 13,
- iii. SEQ ID NO:
- 14,
- iv. SEQ ID NO:
- 11, and
- v. RNA equivalents of these sequences having uracil substituted for thymine.
A composition for the amplification of Chlamydia trachomatis nucleic acids comprising at least one amplification oligonucleotide that will bind to or cause polymerization through a region of Chlamydia trachomatis nucleic acids of between 22 and 100 nucleotides, said region having a nucleotide sequence selected from the group consisting of:
- i. SEQ ID NO:
- 12,
- ii. SEQ ID NO:
- 5,
- iii. SEQ ID NO:
- 6, and
- iv. RNA equivalents of these sequences having uracil substituted for thymine.
A composition for the amplification of Chlamydia trachomatis nucleic acids comprising at least one amplification oligonucleotide that will bind to or cause polymerization through a region of Chlamydia trachomatis nucleic acids of between 24 and 100 nucleotides, said region having a nucleotide sequence selected from the group consisting of:
- i. SEQ ID NO:
- 8,
- ii. SEQ ID NO:
- 15,
- iii. RNA equivalents of these sequences having uracil substituted for thymine.
A composition for the amplification of Chlamydia trachomatis nucleic acids comprising at least one amplification oligonucleotide that will bind to or cause polymerization through a region of Chlamydia trachomatis nucleic acids of between 24 and 100 nucleotides, said region having a nucleotide sequence selected from the group consisting of:
- i. SEQ ID NO:7,
- ii. SEQ ID NO:
- 16,
- iii. RNA equivalents of these sequences having uracil substituted for thymine.
A composition for the amplification of Chlamydia trachomatis nucleic acids comprising at least one amplification oligonucleotide that will bind to or cause polymerization through a region of Chlamydia trachomatis nucleic acids, said region having a nucleotide sequence selected from the group consisting of:
- i SEQ ID NO:
- 44,
- ii. SEQ ID NO:
- 51,
- iii. SEQ ID NO:
- 48, and
- iv. RNA equivalents of these sequences having uracil substituted for thymine.
A composition for the amplification of Chlamydia trachomatis nucleic acids comprising at least one amplification oligonucleotide that will bind to or cause polymerization through a region of Chlamydia trachomatis nucleic acids, said region having a nucleotide sequence selected from the group consisting of:
- i. SEQ ID NO:
- 45,
- ii. SEQ ID NO:
- 50,
- iii. RNA equivalents of these sequences having uracil substituted for thymine.
Dependencies are inferred from the claim text.