Table 1.

MBs and control probes used in this study

MB

NA mRNA MB (nucleotides 594–618)

TAMRA-GCGACTTTCAGTTATTATGCCGTTGTATTTGTCGC-DABCYL

FAM-GCGACTTTCAGTTATTATGCCGTTGTATTTGTCGC-BHQ1

M1 mRNA MB (nucleotides 526–550)

TAMRA-GCGACATGTCTGATTAGTGGGTTGGTTGTTGTCGC-DABCYL

M2 mRNA MB (nucleotides 912–936)

TAMRA-GCGACCTTCCCTCATAGACTTTGGCACTCCGTCGC-DABCYL

Random MB

TAMRA-CCAGCCTACAAACTAGCATTCTGGTGAGCTGG-DABCYL

Control probes (without 3′ quencher)

NA mRNA control probe (nucleotides 594–618)

TAMRA-GCGACTTTCAGTTATTATGCCGTTGTATTTGTCGC

M1 mRNA control probe (nucleotides 526–550; 203–227)

TAMRA-GCGACATGTCTGATTAGTGGGTTGGTTGTTGTCGC M1 (526–550)

FAM-GCGACCGGTGAGCGTGAACACAAATCCTAAGTCGC M1-2 (203–227)

M2 mRNA control probe (nucleotides 912–936)

TAMRA-GCGACCTTCCCTCATAGACTTTGGCACTCCGTCGC

All sequences are listed from their 5′ end to their 3′ end. The underlined bases are bases added to create the stem domain of MBs. The nucleotides numbers of NA, M1 and M2 mRNA-specific MBs refer to positions in the NA mRNA sequence (accession number NC_002018) and M1 mRNA sequence (accession number NC_002016). The random MB that can not bind the mRNAs of influenza A virus [A/PR/8/34 (H1N1)] was used to verify the specificity of the MBs designed to target influenza A virus mRNAs in infected cells.