HAL Id: pasteur-00589044
https://hal-riip.archives-ouvertes.fr/pasteur-00589044
Submitted on 27 Apr 2011
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Rapid genotyping of Swine influenza viruses.
Polly W Y Mak, Chloe K S Wong, Olive T W Li, Kwok Hung Chan, Chung Lam Cheung, Edward S Ma, Richard J Webby, Yi Guan, Joseph S Malik
Peiris, Leo L M Poon
To cite this version:
Polly W Y Mak, Chloe K S Wong, Olive T W Li, Kwok Hung Chan, Chung Lam Cheung, et al.. Rapid
genotyping of Swine influenza viruses.. Emerging Infectious Diseases, Centers for Disease Control and
Prevention, 2011, 17 (4), pp.691-4. �10.3201/eid1704.101726�. �pasteur-00589044�
of Swine Infl uenza Viruses
Polly W.Y. Mak, Chloe K.S. Wong, Olive T.W. Li, Kwok Hung Chan, Chung Lam Cheung, Edward S. Ma, Richard J. Webby, Yi Guan, Joseph S. Malik Peiris, and Leo L.M. Poon
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S75$ H%#&'/('$K(+#)</*9:$L/:#-:#:$M$===?).)?'*8N#/.$M$O*;?$2PJ$3*?$QJ$R,&/;$5622 Table 1. Primer–probe sets selective for pandemic (H1N1) 2009 virus gene segments*
Segment Primer and probe† Sequence, 5ƍ o 3ƍ‡
PB2 PB2-1877F§ AACTTCTCCCCTTTGCTGCT
PB2-2062R§ GATCTTCAGTCAATGCACCTG
PB2-2028RP Cy5-AACTGTAAGTCGTTTGGT-BHQ2
PB1 PB1-825F§ ACAGTCTGGGCTCCCAGTA
PB1-1023R GAACCACTCGGGTTGATTTCTG
PB1-863FP Cy5-CCAAACTGGCAAATG-BHQ2
PA PA-821F§ GCCCCCTCAGATTGCCTG
PA-1239R§ GCTTGCTAGAGATCTGGGC
PA-844FP Cy5-CCTCTTTGCCATCAGC-BHQ2
HA HA-398F§ GAGCTCAGTGTCATCATTTGAA
HA-570R§ TGCTGAGCTTTGGGTATGAA
HA-470FP Cy5-CAAAGGTGTAACGGCA-BHQ2
NP NP-593F§ TGAAAGGAGTTGGAACAATAGCAA
NP-942R§ GACCAGTGAGTACCCTTCCC
NP-872RP Cy5-AGGCAGGATTTATGTG-BHQ2
NA NA-163F§ CATGCAATCAAAGCGTCATT
NA-268R§ ACGGAAACCACTGACTGTCC
NA-248RP Cy5-AGCAGCAAAGTTGGTG-BHQ2
M M-504F§ GGTCTCACAGACAGATGGCT
M-818R§ GATCCCAATGATATTTGCTGCAATG
M-530FP Cy5-ACCAATCCACTAATCAGG-BHQ2
NS NS-252F§ ACACTTAGAATGACAATTGCATCTGT
NS-345R GCATGAGCATGAACCAGTCTCG
NS-288FP Cy5-CGCTACCTTTCTGACAT/BHQ2/
*PB, polymerase basic protein; PA, polymerase acidic protein; HA, hemagglutinin; NP, nucleocapsid protein; NA, neuraminidase; M, matrix protein; NS, nonstructural protein; Cy5, cyanine 5; BHQ2, Black Hole Quencher 2.
†Number represents nucleotide position of the first base in the target sequence (cRNA sense).
‡Locked nucleic acid–modified bases are underlined.
§Primers adapted from the assays as previously described (5,6).
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d-%$)"2-6*!-%->-;*S5'04*Y%&'()*Z$1;*DEAEgA]e[E]NJ;
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