Two stage nucleic acid amplification using an amplification oligomer

An system to detect one or more nucleic acids of interest, the system comprising:

• 1) first amplification reaction components comprising:
• a solid support capable of capturing the one or more nucleic acids of interest;
• one or more amplification oligomers;
• and,
• one or more amplification multimers comprising a plurality of sequences complementary to at least one of the amplification oligomers, and comprising sequences complimentary to the one or more of the nucleic acids of interest or to a label extender complimentary to the nucleic acids of interest, whereby hybridization of the components in the presence of the one or more nucleic acids of interest provides one or more complexes binding two or more of the amplification oligomers to the solid support;
• and,
• 2) a non-enzymatic nucleic acid assay capable of detecting bound amplification oligomer or amplification oligomer after it has been bound;
• wherein detection of the amplification oligomer by the nucleic acid assay indicates the presence of the one or more nucleic acids of interest in first amplification reaction.

A method of detecting the presence or absence of nucleic acids of interest, the method comprising:

• providing a sample comprising or suspected of comprising one or more nucleic acids of interest;
• capturing those nucleic acids of interest present in the sample on a first solid support;
• providing a first amplification multimer comprising a first M-2 sequence and capable of hybridizing directly or indirectly to a first nucleic acid of interest;
• providing a second amplification multimer comprising a second M-2 sequence different from the first M-2 sequence and capable of hybridizing directly or indirectly to a second nucleic acid of interest different from the first nucleic acid of interest;
• providing a first amplification oligomer comprising a sequence complimentary to the first M-2 sequence and a second amplification oligomer comprising a sequence complimentary to the second M-2 sequence;
• directly or indirectly hybridizing the captured nucleic acids of interest to the first or second amplification multimers;
• hybridizing the amplification oligomers to the amplification multimer M-2 sequences;
• and,
• detecting the amplification oligomers that have been hybridized to the M-2 sequences using a nucleic acid assay.

A method of identifying amplification oligomers, the method comprising:

• providing a first label system comprising a first sequence complimentary to a first label probe comprising a first label;
• providing a second label system comprising a second sequence complimentary to a second label probe comprising a second label different from the first label;
• providing a sample comprising or suspected of comprising a first amplification oligomer comprising a sequence complimentary to a component of the first label system, or which sample comprises or is suspected of comprising a second amplification oligomer comprising a sequence complimentary to a component of the second label system;
• hybridizing the sample with the first and second label system;
• and,
• detecting a signal from the first label or from the second label;
• wherein detection of the signal from the first label indicates the presence of the first amplification oligomer in the sample or detection of the signal from the second label indicates the presence of the second amplification oligomer in the sample.

A method of identifying a nucleic acid of interest in a sample, which method comprises:

• providing a sample comprising or suspected of comprising one or more nucleic acids of interest;
• providing a first solid support which comprises a first capture probe sequence or a first capture extender sequence complimentary to a first nucleic acid of interest;
• providing a second solid support which comprises a second capture probe sequence or a second capture extender sequence complimentary to a second nucleic acid of interest;
• contacting the first and second solid supports with the sample;
• capturing the first nucleic acid of interest on the first solid support or capturing the second nucleic acid of interest on the second solid support;
• hybridizing a first labeling system directly or indirectly to the first or second nucleic acid of interest;
• hybridizing the first labeling system to one or more amplification oligomers;
• separating the first solid support from the second solid support;
• and,
• separately detecting the amplification oligomers that have been hybridized on each solid support in a nucleic acid assay;
• whereby the presence of the first nucleic acid of interest is identified if the amplification oligomers are detected on the first solid support and presence of the second nucleic acid of interest is identified if the amplification oligomers are detected on the second solid support.