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Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

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  • Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

    Hong Kong has released the sequence of Tamiflu resistant NA.

  • #2
    Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

    LOCUS GQ351316 1410 bp cRNA linear VRL 06-JUL-2009
    DEFINITION Influenza A virus (A/Hong Kong/2369/2009(H1N1)) segment 6
    neuraminidase (NA) gene, complete cds.
    ACCESSION GQ351316
    VERSION GQ351316.1 GI:251748197
    DBLINK Project:37813
    KEYWORDS .
    SOURCE Influenza A virus (A/Hong Kong/2369/2009(H1N1))
    ORGANISM Influenza A virus (A/Hong Kong/2369/2009(H1N1))
    Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
    Influenzavirus A.
    REFERENCE 1 (bases 1 to 1410)
    AUTHORS Tai,A.L.S., Cheng,P.K.C., Leung,T.W.C. and Lim,W.W.L.
    TITLE Direct Submission
    JOURNAL Submitted (05-JUL-2009) Virology Division, PHLSB, Centre for Health
    Protection, 382 Nam Cheong Street, Shek Kip Mei, Kolwoon, Hong
    Kong, China
    COMMENT Swine influenza A (H1N1) virus isolated during human swine flu
    outbreak of 2009.
    FEATURES Location/Qualifiers
    source 1..1410
    /organism="Influenza A virus (A/Hong
    Kong/2369/2009(H1N1))"
    /mol_type="viral cRNA"
    /strain="A/Hong Kong/2369/2009"
    /serotype="H1N1"
    /host="Homo sapiens"
    /db_xref="taxon:657077"
    /segment="6"
    /country="China: Hong Kong"
    /collection_date="11-Jun-2009"
    /note="lineage: swl"
    gene 1..1410
    /gene="NA"
    CDS 1..1410
    /gene="NA"
    /codon_start=1
    /product="neuraminidase"
    /protein_id="ACT10319.1"
    /db_xref="GI:251748198"
    /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHS IQLGNQN
    QIETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPV SGWAIYSK
    DNSIRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDR SPYRTLMS
    CPIGEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNG IITDTIKS
    WRNNILRTQESECACVNGSCFTVMTDGPSDGQASYKIFRIEKGKIVKSVE MNAPNYYY
    EECSCYPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNP RPNDKTGS
    CGPVSSNGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTD NNFSIKQD
    IVGINEWSGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSS ISFCGVNS
    DTVGWSWPDGAELPFTIDK"
    ORIGIN
    1 atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct
    61 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt
    121 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact
    181 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg
    241 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac
    301 agtaaagaca acagtataag aatcggttcc aagggggatg tgtttgtcat aagggaacca
    361 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta
    421 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc
    481 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca
    541 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat
    601 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga
    661 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact
    721 gtaatgaccg atggaccaag tgatggacag gcctcataca agatcttcag aatagaaaag
    781 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt attactatga ggaatgctcc
    841 tgttatcctg attctagtga aatcacatgt gtatgcaggg ataactggca tggctcgaat
    901 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg
    961 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct
    1021 aatggagcaa atggagtaaa aggattttca ttcaaatacg gcaatggtgt ttggataggg
    1081 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg
    1141 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca
    1201 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct
    1261 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg
    1321 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt
    1381 gctgagttgc catttaccat tgacaagtaa

    Comment


    • #3
      Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

      can't wait to hear the results.

      Comment


      • #4
        Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

        Jersey girl

        Comment


        • #5
          Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

          NA identical to sequence below (except for H274Y)

          LOCUS GQ160533 1410 bp cRNA linear VRL 15-MAY-2009
          DEFINITION Influenza A virus (A/New Jersey/01/2009(H1N1)) segment 6
          neuraminidase (NA) gene, complete cds.
          ACCESSION GQ160533
          VERSION GQ160533.1 GI:237651369
          DBLINK Project:37813
          KEYWORDS .
          SOURCE Influenza A virus (A/New Jersey/01/2009(H1N1))
          ORGANISM Influenza A virus (A/New Jersey/01/2009(H1N1))
          Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
          Influenzavirus A.
          REFERENCE 1 (bases 1 to 1410)
          AUTHORS Shu,B., Balish,A., Garten,R., Smith,C., Emery,S., Barnes,J.,
          Deyde,V., Klimov,A. and Cox,N.
          TITLE Human infection with novel swine H1N1 influenza
          JOURNAL Unpublished
          REFERENCE 2 (bases 1 to 1410)
          AUTHORS Shu,B., Balish,A., Garten,R., Smith,C., Emery,S., Barnes,J.,
          Deyde,V., Klimov,A. and Cox,N.
          TITLE Direct Submission
          JOURNAL Submitted (14-MAY-2009) WHO Collaborating Center for Surveillance,
          Epidemiology and Control of Influenza, Influenza Division, Centers
          for Disease Control and Prevention, 1600 Clifton Road, N.E.,
          Atlanta, GA 30333, USA
          COMMENT Swine influenza A (H1N1) virus isolated during human swine flu
          outbreak of 2009. For more information, see http://www.cdc.gov/.

          Some of the information does not have GenBank feature identifiers
          and is being provided in the comment section.

          ##EpifluData-START##
          Isolate A/New Jersey/01/2009
          Subtype H1N1
          Segment_name NA
          Host_gender F
          Host_age 12
          Passage_history C1
          Adamantane_resistance resistant
          Zanamivir_resistance sensitive
          Oseltamivir_resistance sensitive
          Country USA
          State/Province New Jersey state
          Collection_month 4
          Collection_year 2009
          EPI_accession EPI179148
          ##EpifluData-END##
          FEATURES Location/Qualifiers
          source 1..1410
          /organism="Influenza A virus (A/New Jersey/01/2009(H1N1))"
          /mol_type="viral cRNA"
          /strain="A/New Jersey/01/2009"
          /serotype="H1N1"
          /host="Homo sapiens; gender F; age 12"
          /db_xref="taxon:645236"
          /segment="6"
          /country="USA:New Jersey state"
          /collection_date="Apr-2009"
          gene 1..1410
          /gene="NA"
          CDS 1..1410
          /gene="NA"
          /codon_start=1
          /product="neuraminidase"
          /protein_id="ACR08567.1"
          /db_xref="GI:237651370"
          /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHS IQLGNQN
          QIETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPV SGWAIYSK
          DNSIRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDR SPYRTLMS
          CPIGEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNG IITDTIKS
          WRNNILRTQESECACVNGSCFTVMTDGPSDGQASYKIFRIEKGKIVKSVE MNAPNYHY
          EECSCYPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNP RPNDKTGS
          CGPVSSNGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTD NNFSIKQD
          IVGINEWSGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSS ISFCGVNS
          DTVGWSWPDGAELPFTIDK"
          ORIGIN
          1 atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct
          61 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt
          121 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact
          181 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg
          241 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac
          301 agtaaagaca acagtataag aatcggttcc aagggggatg tgtttgtcat aagggaacca
          361 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta
          421 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc
          481 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca
          541 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat
          601 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga
          661 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact
          721 gtaatgaccg atggaccaag tgatggacag gcctcataca agatcttcag aatagaaaag
          781 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc
          841 tgttatcctg attctagtga aatcacatgt gtatgcaggg ataactggca tggctcgaat
          901 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg
          961 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct
          1021 aatggagcaa atggagtaaa aggattttca ttcaaatacg gcaatggtgt ttggataggg
          1081 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg
          1141 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca
          1201 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct
          1261 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg
          1321 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt
          1381 gctgagttgc catttaccat tgacaagtaa

          Comment


          • #6
            Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

            Originally posted by hawkeye View Post
            can't wait to hear the results.
            Hopes and dreams of reassorters dashed. It is swine NA, and exactly matches NJ isolate and only one difference (besides H274Y) with larger series.

            Comment


            • #7
              Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

              Is it tamiflu resistant Dr niman....?,thanks.

              Comment


              • #8
                Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                Originally posted by vinny View Post
                Is it tamiflu resistant Dr niman....?,thanks.
                Only the Hong Kong sequence has H274Y.

                Comment


                • #9
                  Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                  Travel log of polymorphism shared with NJ (and OK) in pandemic H1N1.

                  gb|GQ338380.1| Influenza A virus (A/Oklahoma/03/2009(H1N1)) s... 30.2 45
                  gb|CY041452.1| Influenza A virus (A/California/UR06-0439/2007... 30.2 45
                  gb|GQ160533.1| Influenza A virus (A/New Jersey/01/2009(H1N1))... 30.2 45
                  gb|CY032399.1| Influenza A virus (A/equine/Sao Paulo/1/1969(H... 30.2 45
                  gb|CY032295.1| Influenza A virus (A/equine/Sao Paulo/6/1963(H... 30.2 45
                  gb|EU409969.1| Influenza A virus (A/swine/Ohio/K1207/06(H1N1)... 30.2 45
                  gb|EU516136.1| Influenza A virus (A/New Mexico/05/2007(H1N1))... 30.2 45
                  gb|EU516135.1| Influenza A virus (A/Alaska/01/2007(H1N1)) seg... 30.2 45
                  gb|EU429796.1| Influenza A virus (A/chicken/Germany/N/1949(H1... 30.2 45
                  gb|CY028774.1| Influenza A virus (A/Virginia/UR06-0361/2007(H... 30.2 45
                  gb|CY028461.1| Influenza A virus (A/California/UR06-0442/2007... 30.2 45
                  gb|CY028421.1| Influenza A virus (A/Illinois/UR06-0215/2007(H... 30.2 45
                  gb|CY028405.1| Influenza A virus (A/Ohio/UR06-0429/2007(H1N1)... 30.2 45
                  gb|EU158122.1| Influenza A virus (A/mallard/Italy/250/02(H7N1... 30.2 45
                  gb|CY028149.1| Influenza A virus (A/Kentucky/UR06-0182/2007(H... 30.2 45
                  gb|CY028141.1| Influenza A virus (A/Kansas/UR06-0191/2007(H1N... 30.2 45
                  gb|CY028069.1| Influenza A virus (A/Illinois/UR06-0093/2007(H... 30.2 45
                  gb|CY027941.1| Influenza A virus (A/Virginia/UR06-0295/2007(H... 30.2 45
                  gb|CY027845.1| Influenza A virus (A/California/UR06-0125/2007... 30.2 45
                  gb|CY027821.1| Influenza A virus (A/Illinois/UR06-0074/2007(H... 30.2 45
                  gb|CY027765.1| Influenza A virus (A/Ohio/UR06-0112/2007(H1N1)... 30.2 45
                  gb|CY027709.1| Influenza A virus (A/Virginia/UR06-0549/2007(H... 30.2 45
                  gb|CY027701.1| Influenza A virus (A/Illinois/UR06-0131/2007(H... 30.2 45
                  gb|CY027677.1| Influenza A virus (A/Kentucky/UR06-0449/2007(H... 30.2 45
                  gb|CY027373.1| Influenza A virus (A/Kentucky/UR06-0424/2007(H... 30.2 45
                  gb|CY027485.1| Influenza A virus (A/Illinois/UR06-0115/2007(H... 30.2 45
                  gb|CY027469.1| Influenza A virus (A/Ohio/UR06-0394/2007(H1N1)... 30.2 45
                  gb|CY027437.1| Influenza A virus (A/Illinois/UR06-0094/2007(H... 30.2 45
                  gb|CY027421.1| Influenza A virus (A/Tennessee/UR06-0262/2007(... 30.2 45
                  gb|CY027397.1| Influenza A virus (A/Illinois/UR06-0136/2007(H... 30.2 45
                  gb|CY027357.1| Influenza A virus (A/California/UR06-0564/2007... 30.2 45
                  gb|CY027277.1| Influenza A virus (A/Illinois/UR06-0116/2007(H... 30.2 45
                  gb|CY027245.1| Influenza A virus (A/Tennessee/UR06-0124/2007(... 30.2 45
                  gb|CY027237.1| Influenza A virus (A/Virginia/UR06-0117/2007(H... 30.2 45
                  gb|CY027229.1| Influenza A virus (A/Colorado/UR06-0499/2007(H... 30.2 45
                  gb|CY027213.1| Influenza A virus (A/California/UR06-0585/2007... 30.2 45
                  gb|CY027149.1| Influenza A virus (A/North Carolina/UR06-0011/... 30.2 45
                  gb|CY027141.1| Influenza A virus (A/Ohio/UR06-0177/2007(H1N1)... 30.2 45
                  gb|CY027093.1| Influenza A virus (A/Illinois/UR06-0137/2007(H... 30.2 45

                  Comment


                  • #10
                    Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                    thanks!

                    Comment


                    • #11
                      Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                      If it is YHY rather than YYY what is conferring the resistance?

                      Comment


                      • #12
                        Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                        Originally posted by niman View Post
                        Hopes and dreams of reassorters dashed. It is swine NA, and exactly matches NJ isolate and only one difference (besides H274Y) with larger series.
                        Hmmm. Is it a recombinant? If it's a recombinant, what did it recombine with in order to acquire H274Y? If there aren't any flanking polymorphisms that are derived from a different strain, how can you tell the difference between recombination and de novo mutation?

                        Comment


                        • #13
                          Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                          Did anyone in her family, or any traveling HK acquaintances, have a lingering seasonal H1N1 from HK - thereby setting the stage for a dual infection?

                          .
                          "The next major advancement in the health of American people will be determined by what the individual is willing to do for himself"-- John Knowles, Former President of the Rockefeller Foundation

                          Comment


                          • #14
                            Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                            Originally posted by JJackson View Post
                            If it is YHY rather than YYY what is conferring the resistance?
                            There is only one resistant sequence (from Hong Kong). The NJ sequence matches at all other positions.

                            Comment


                            • #15
                              Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                              Originally posted by pjie2 View Post
                              Hmmm. Is it a recombinant? If it's a recombinant, what did it recombine with in order to acquire H274Y? If there aren't any flanking polymorphisms that are derived from a different strain, how can you tell the difference between recombination and de novo mutation?
                              Coincidences get very old very fast. The recombination leads to exchanges of SNPs, as described in the Nature Precedings paper. The donor sequence would be seasonal H1N1, which matches on the 3' side (like A/Indiana/1/2008).

                              Comment

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