Table 1.

Primers and probes used in this study

AssayaTarget genebPrimer/probe sequence (5′ to 3′)cFinal concn (nM)Source or reference
Influenza virus type AMBiosearch Technologies
Influenza virus type A subtype H1HABiosearch Technologies
Influenza virus type A subtype H3HABiosearch Technologies
Influenza virus type BNSBiosearch Technologies
Respiratory syncytial virusMF, GGC AAA TAT GGA AAC ATA CGT GAA5004
R, TCT TTT TCT AGG ACA TTG TAY TGA ACA G250
P, FAM-CTG TGT ATG TGG AGC CTT CGT GAA GCT50
Human parainfluenza virus type 1HNF, AGT TGT CAA TGT CTT AAT TCG TAT CAA T500Internal, unpublished
R, TCG GCA CCT AAG TAA TTT TGA GTT500
P, FAM-ATA GGC CAA AGA “T”TG TTG TCG AGA CTA TTC CAA50
Human parainfluenza virus type 2HNF, GCA TTT CCA ATC TAC AGG ACT ATG A750Internal, unpublished
R, ACC TCC TGG TAT AGC AGT GAC TGA AC750
P, FAM-CCA TTT ACC “T”AA GTG ATG GAA TCA ATC GCA AA50
Human parainfluenza virus type 3HNF, TGG YTC AAT CTC AAC AAC AAG ATT TAA G750Internal, unpublished
R, TAC CCG AGA AAT ATT ATT TTG CC500
P, FAM-CCC RTC TG“T” TGG ACC AGG GAT ATA CTA CAA A200
Human metapneumovirusFF, CAA GTG TGA CAT TGC TGA YCT RAA600Internal, unpublished
R, ACT GCC GCA CAA CAT TTA GRA A600
P, FAM-TGG CYG TYA GCT TCA GTC AAT TCA ACA GA100
Rhinovirus5′ NCRF, CPA GCC TGC GTG GC1,00014
R, GAA ACA CGG ACA CCC AAA GTA1,000
P, FAM-TCC TCC GGC CCC TGA ATG YGG C100
Enterovirus5′ NTRF, CCT GAA TGC GGC TAA TCC40012
R, TTG TCA CCA TWA GCA GYC A400
P, FAM-CCG ACT ACT TTG GGW GTC CGT GT200
Human parechovirus5′ NTRF, GTA ACA SWW GCC TCT GGG SCC AAA AG40016
R, GGC CCC WGR TCA GAT CCA YAG T400
P, FAM-CCT RYG GGT ACC TYC WGG GCA TCC TTC200
Pan-adenovirusHexonF, GCC CCA GTG GTC TTA CAT GCA CAT C5007
R, GCC ACG GTG GGG TTT CTA AAC TT500
P, FAM-TGC ACC AGA CCC GGG CTC AGG TAC TCC GA100
Pan-Legionella/Legionella pneumophila5S-23SF, GTA CTA ATT GGC TGA TTG TCT TGA CC20026
R, CCT GGC GAT GAC CTA CTT TCG400
P1, FAM-ATC GTG TAA ACT CTG AC“T” CTT TAC CAA ACC TGT GG200
P2, HEX-ATC TCG AAC TCA GAA GTG AAA C200
Haemophilus influenzaebexAF, TGC GGT AGT GTT AGA AAA TGG TAT TAT G60024
R, GGA CAA ACA TCA CAA GCG GTT A600
P, FAM-ACA AAG CGT ATC AA“T” ACT ACA ACG AGA CGC AAA AA100
Streptococcus pneumoniaelytAF, ACG CAA TCT AGC AGA TGA AGC A5002
R, TCG TGC GTT TTA ATT CCA GCT500
P, FAM-TGC CGA AAA CGC TTG ATA CAG GGA G100
Streptococcus pyogenesspy1258F, GCA CTC GCT ACT ATT TCT TAC CTC AA300CDC, Streptococcus Laboratory Protocolsd
R, GTC ACA ATG TCT TGG AAA CCA GTA AT300
P, FAM-CCG CAA CTC ATC AAG GAT TTC TGT TAC CA100
Mycoplasma pneumoniaeATPaseF, AAG AAG CTT ATG GTA CAG GTT GGT TAA300Internal, unpublished
R, TGG AGG TTG GTA GCT AAG TAA GCA900
P, FAM-TGA CTG GAA GGA “T”GT TAA GCA GGA CAA CAA ATT T150
Chlamydophila pneumoniaeMOMPF, GGG CTA TAA AGG CGT TGC TTT50015
R, AGA CTT TGT TCC AGT AGC TGT TGC T500
P, FAM-CCT TGC CAA CAG ACG CTG GCG100
Bordetella pertussis target IIS481aF, CAA GGC CGA ACG CTT CAT30023
R, GAG TTC TGG TAG GTG TGA GCG TAA300
P, FAM-CAG TCG GCC TTG CGT GAG TGG G300
Bordetella pertussis target IIPtxS1F, CGC CAG CTC GTA CTT C70023
R, GAT ACG GCC GGC ATT700
P, FAM-AAT ACG TCG ACA CTT ATG GCG A300
  • a The rhinovirus, enterovirus, and Mycoplasma pneumoniae assays have been updated and will be replaced on future cards. For the Mycoplasma pneumoniae assay, see reference 25.

  • b NCR, noncoding region; NTR, nontranslated region; MOMP, major outer membrane protein.

  • c F, forward primer; R, reverse primer; P, probe. Quotation marks around a letter indicate an internal quencher. Underlining and boldface indicate a locked nucleic acid.

  • d http://www.cdc.gov/ncidod/biotech/strep/protocols.htm.