Compositions to detect adenovirus nucleic acids

Abstract

The disclosed invention is related to methods, compositions, kits and isolated nucleic acid sequences for targeting Adenovirus nucleic acid. Compositions include amplification oligomers and/or detection probe oligomers. Kits and methods comprise at least one of these oligomers.

We claim: 
     
         1 . A composition comprising a detection probe configured to hybridize to a portion of an Adenovirus nucleic acid or to a portion of an amplicon generated therefrom, wherein the detection probe comprises
 (a) a target hybridizing sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:29, SEQ ID NO:30, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:39 and SEQ ID NO:40; and   (b) one or more of
 (i) a label, 
 (ii) a substitution at the 2′ position of at least one ribose moiety, and 
 (iii) a blocking moiety at or near the 3′ end of the detection probe, wherein the blocking moiety is configured to prevent enzyme-mediated extension of the detection probe in an amplification reaction. 
   
     
     
         2 . The composition of  claim 1 , wherein the detection probe comprises the label and the label is selected from the group consisting of a fluorescent label, a chemiluminescent label, a radiolabel, an enzyme label, a hapten label, a linked oligonucleotide label, or an electronically detectable label. 
     
     
         3 . The composition of  claim 1 , wherein the detection probe comprises an interactive pair of labels. 
     
     
         4 . The composition of  claim 3 , wherein the interactive pair of labels is a fluorescent label in combination with a quencher. 
     
     
         5 . The composition of  claim 3 , wherein the detection probe is a hairpin probe. 
     
     
         6 . The composition of  claim 5 , wherein the hairpin probe is a molecular torch or a molecular beacon. 
     
     
         7 . A composition comprising at least two detection probes configured to hybridize to a portion of an Adenovirus nucleic acid or to a portion of an amplicon generated therefrom, wherein each of the detection probes comprises
 (a) a target hybridizing sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:29, SEQ ID NO:30, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:39 and SEQ ID NO:40; and   (b) one or more of
 (i) a label, 
 (ii) a substitution at the 2′ position of at least one ribose moiety, and 
 (iii) a blocking moiety at or near the 3′ end of the detection probe, wherein the blocking moiety is configured to prevent enzyme-mediated extension of the detection probe in an amplification reaction. 
   
     
     
         8 . The composition of  claim 7 , wherein each of the at least two detection probes comprises the label and the label is selected from the group consisting of a fluorescent label, a chemiluminescent label, a radiolabel, an enzyme label, a hapten label, a linked oligonucleotide label, or an electronically detectable label. 
     
     
         9 . The composition of  claim 7 , wherein each of the at least two detection probes comprises an interactive pair of labels. 
     
     
         10 . The composition of  claim 9 , wherein the interactive pair of labels is a fluorescent label in combination with a quencher. 
     
     
         11 . The composition of  claim 9 , wherein each of the at least two detection probes is a hairpin probe. 
     
     
         12 . The composition of  claim 11 , wherein the hairpin probe is a molecular torch or a molecular beacon. 
     
     
         13 . A hybridization assay reaction mixture comprising:
 (1) a detection probe configured to hybridize to a portion of an Adenovirus nucleic acid or to a portion of an amplicon generated therefrom, wherein the detection probe comprises 
 (a) a target hybridizing sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:29, SEQ ID NO:30, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:39 and SEQ ID NO:40; and 
 (b) one or more of
 (i) a label, 
 (ii) a substitution at the 2′ position of at least one ribose moiety, and 
 (iii) a blocking moiety at or near the 3′ end of the detection probe, wherein the blocking moiety is configured to prevent enzyme-mediated extension of the detection probe in an amplification reaction; and 
 
   (2) a salt.   
     
     
         14 . The reaction mixture of  claim 13 , wherein the detection probe comprises the label and the label is a homogeneous detectable label. 
     
     
         15 . The reaction mixture of  claim 14 , wherein the homogeneous detectable label is a fluorescent label, a chemiluminescent label, or an electronically detectable label. 
     
     
         16 . The reaction mixture of  claim 13 , wherein the detection probe comprises an interactive pair of labels. 
     
     
         17 . The reaction mixture of  claim 16 , wherein the interactive pair of labels is a fluorescent label in combination with a quencher. 
     
     
         18 . The reaction mixture of  claim 16 , wherein the detection probe is a hairpin probe. 
     
     
         19 . The reaction mixture of  claim 18 , wherein the hairpin probe is a molecular torch or a molecular beacon. 
     
     
         20 . The reaction mixture of  claim 13 , wherein the salt is selected from the group consisting of lithium chloride, sodium chloride, and sodium citrate.