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Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

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  • #76
    Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

    Originally posted by ironorehopper View Post
    Note from HK SAR:

    A resistant strain?

    (...)
    [On the Filipino patient in critical conditions]

    Secretary for Food and Health:
    I do not have the detailed information regarding this particular patient, but I think she is still in a critical condition in the intensive care unit of the United Christian Hospital. Whether Hong Kong has a fatal case or not will not affect our emergency measures at the moment. Of course, we will investigate the nature of the virus. We are doing genetic sequencing to see whether there is any significant change of the virus.
    (...)

    From: http://www.info.gov.hk/gia/general/2...0907130139.htm
    Yes, they switched from Tamiflu to Relenza and by now that should have a sequence (at least in the region encompassing H274Y).

    Comment


    • #77
      Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

      Originally posted by niman View Post
      More NA matches

      gb|GQ369275.1| Influenza A virus (A/Stockholm/37/2009(H1N1)) ... 2224 0.0
      gb|GQ365448.1| Influenza A virus (A/Sapporo/1/2009(H1N1)) seg... 2224 0.0
      gb|GQ355297.1| Influenza A virus (A/Catalonia/387/2009(H1N1))... 2224 0.0
      gb|GQ160533.1| Influenza A virus (A/New Jersey/01/2009(H1N1))... 2224 0.0
      gb|GQ379856.1| Influenza A virus (A/Catalonia/517/2009(H1N1))... 32.2 11
      gb|GQ379852.1| Influenza A virus (A/Catalonia/502/2009(H1N1))... 32.2 11
      gb|GQ379840.1| Influenza A virus (A/Catalonia/476/2009(H1N1))... 32.2 11
      gb|GQ379833.1| Influenza A virus (A/Catalonia/442/2009(H1N1))... 32.2 11
      gb|GQ369275.1| Influenza A virus (A/Stockholm/37/2009(H1N1)) ... 32.2 11
      gb|GQ365448.1| Influenza A virus (A/Sapporo/1/2009(H1N1)) seg... 32.2 11
      gb|GQ355297.1| Influenza A virus (A/Catalonia/387/2009(H1N1))... 32.2 11
      gb|GQ351316.1| Influenza A virus (A/Hong Kong/2369/2009(H1N1)... 32.2 11
      gb|GQ338380.1| Influenza A virus (A/Oklahoma/03/2009(H1N1)) s... 32.2 11
      gb|GQ160533.1| Influenza A virus (A/New Jersey/01/2009(H1N1))... 32.2 11

      Comment


      • #78
        Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

        The Tamiflu resistant precursor is spreading in Spain. The most recent additions were collected this month (July 3), yet the number of recent sequences (since April) in the US remains at ZERO.
        HA sequence hasn't been released, but it likely has D225E.

        Comment


        • #79
          Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

          Originally posted by niman View Post
          The Tamiflu resistant precursor is spreading in Spain. The most recent additions were collected this month (July 3), yet the number of recent sequences (since April) in the US remains at ZERO.
          HA sequence hasn't been released, but it likely has D225E.
          Agreed, and S206T as well.

          Comment


          • #80
            Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

            Another possible case of oseltamivir-resistant pandemic H1N1 2009 virus infection in Belgium: http://www.eurosurveillance.org/View...rticleId=19270

            (...)
            No complications have been detected so far.

            One confirmed case, already under treatment with oseltamivir, was hospitalised because influenza symptoms persisted and the patient had asthma as underlying condition.

            Respiratory samples from this patient are currently being cultured and tested for resistance against oseltamivir.

            One pregnant woman was confirmed to be infected with influenza A(H1N1)v.

            Information on underlying factors for the other 41 patients was not available.
            (...)
            -
            ------

            Comment


            • #81
              Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

              Originally posted by niman View Post
              gb|GQ379856.1| Influenza A virus (A/Catalonia/517/2009(H1N1))... 32.2 11
              gb|GQ379852.1| Influenza A virus (A/Catalonia/502/2009(H1N1))... 32.2 11
              gb|GQ379840.1| Influenza A virus (A/Catalonia/476/2009(H1N1))... 32.2 11
              gb|GQ379833.1| Influenza A virus (A/Catalonia/442/2009(H1N1))... 32.2 11
              gb|GQ369275.1| Influenza A virus (A/Stockholm/37/2009(H1N1)) ... 32.2 11
              gb|GQ365448.1| Influenza A virus (A/Sapporo/1/2009(H1N1)) seg... 32.2 11
              gb|GQ355297.1| Influenza A virus (A/Catalonia/387/2009(H1N1))... 32.2 11
              gb|GQ351316.1| Influenza A virus (A/Hong Kong/2369/2009(H1N1)... 32.2 11
              gb|GQ338380.1| Influenza A virus (A/Oklahoma/03/2009(H1N1)) s... 32.2 11
              gb|GQ160533.1| Influenza A virus (A/New Jersey/01/2009(H1N1))... 32.2 11
              Same travel log (Jun 22 isolate from China)

              LOCUS GQ396511 1332 bp cRNA linear VRL 22-JUL-2009
              DEFINITION Influenza A virus (A/Changsha/05/2009(H1N1)) segment 6
              nonfunctional neuraminidase (NA) gene, partial sequence.
              ACCESSION GQ396511
              VERSION GQ396511.1 GI:254575147
              DBLINK Project:37813
              KEYWORDS .
              SOURCE Influenza A virus (A/Changsha/05/2009(H1N1))
              ORGANISM Influenza A virus (A/Changsha/05/2009(H1N1))
              Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
              Influenzavirus A.
              REFERENCE 1 (bases 1 to 1332)
              AUTHORS Zhang,R.S., Su,L. and Ou,X.H.
              TITLE Direct Submission
              JOURNAL Submitted (21-JUL-2009) Center for Disease Control and Prevention
              of Changsha, Chang Sha, Hunan 410000, China
              COMMENT Swine influenza A (H1N1) virus isolated during human swine flu
              outbreak of 2009.
              FEATURES Location/Qualifiers
              source 1..1332
              /organism="Influenza A virus (A/Changsha/05/2009(H1N1))"
              /mol_type="viral cRNA"
              /strain="A/Changsha/05/2009"
              /serotype="H1N1"
              /isolation_source="nasopharyngeal"
              /host="Homo sapiens"
              /db_xref="taxon:660566"
              /segment="6"
              /country="China"
              /collection_date="22-Jun-2009"
              /note="lineage: swl"
              gene <1..1320
              /gene="NA"
              misc_feature <1..1320
              /gene="NA"
              /note="nonfunctional neuraminidase due to mutation"
              ORIGIN
              1 tcaatatgga ttagccactc aattcaactt gggaatcaaa atcagattga aacatgcaat
              61 caaagcgtca ttacttatga aaacaacact tgggtaaatc agacatatgt taacatcagc
              121 aacaccaact ttgctgctgg acagtcagtg gtttccgtga aattagcggg caattcctct
              181 ctctgccctg ttagtggatg ggctatatac agtaaagaca acagtataag aatcggttcc
              241 aagggggatg tgtttgtcat aagggaacca ttcatatcat gctccccctt ggaatgcaga
              301 accttcttct tgactcaagg ggccttgcta aatgacaaac attccaatgg aaccattaaa
              361 gacaggagcc catatcgaac cctaatgagc tgtcctattg gtgaagttcc ctctccatac
              421 aactcatgat ttgagtcagt cgcttggtca gcaagtgctt gtcatgatgg catcaattgg
              481 ctaacaattg gaatttctgg cccagacaat ggggcagtgg ctgtgttaaa gtacaacggc
              541 ataataacag acactatcaa gagttggaga aacaatatat tgagaacaca agagtctgaa
              601 tgtgcatgtg taaatggttc ttgctttact gtaatgaccg atggaccaag tgatggacag
              661 gcctcataca agatcttcag aatagaaaag ggaaagatag tcaaatcagt cgaaatgaat
              721 gcccctaatt atcactatga ggaatgctcc tgttatcctg attctagtga aatcacatgt
              781 gtatgcaggg ataactggca tggctcgaat cgaccgtggg tgtctttcaa ccagaatctg
              841 gaatatcaga taggatacat atgcagtggg attttcggag acaatccacg ccctaatgat
              901 aagacaggca gttgtggtcc agtatcgtct aatggagcaa atggagtaaa aggattttca
              961 ttcaaatacg gcaatggtgt ttggataggg agaactaaaa gcattagttc aagaaacggt
              1021 tttgagatga tttgggatcc gaacggatgg actgggacag acaataactt ctcaataaag
              1081 caagatatcg taggaataaa tgagtggtca ggatatagcg ggagttttgt tcagcatcca
              1141 gaactaacag ggctggattg tataagacct tgcttctggg ttgaactaat cagagggcga
              1201 cccaaagaga acacaatctg gactagcggg agcagcatat ccttttgtgg tgtaaacagt
              1261 gacactgtgg gttggtcttg gccagacggt gctgagttgc catttaccat tgacaagtaa
              1321 tttgttcaaa aa

              Comment


              • #82
                Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                Originally posted by niman View Post
                Over 90% of polymorphisms in 1918 can be found in the two H1N1 viruses (human and swine) from the 1930's (the two 1930's viruses represent what was circulating prior to 1918).
                Another HA travel log for Sapporro/1

                gb|GQ365446.1| Influenza A virus (A/Sapporo/1/2009(H1N1)) seg... 34.2 2.9
                gb|CY040594.1| Influenza A virus (A/swine/North Carolina/4511... 34.2 2.9
                gb|CY040543.1| Influenza A virus (A/swine/North Carolina/7386... 34.2 2.9
                gb|CY040510.1| Influenza A virus (A/swine/Ohio/63607-32/2008(... 34.2 2.9
                gb|CY040509.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040508.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040504.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040503.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040502.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040501.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040500.1| Influenza A virus (A/swine/North Carolina/6360... 34.2 2.9
                gb|CY040497.1| Influenza A virus (A/swine/North Carolina/225-... 34.2 2.9
                gb|CY040496.1| Influenza A virus (A/swine/North Carolina/225-... 34.2 2.9
                gb|CY040495.1| Influenza A virus (A/swine/North Carolina/225-... 34.2 2.9
                gb|CY040494.1| Influenza A virus (A/swine/North Carolina/225-... 34.2 2.9
                gb|CY040493.1| Influenza A virus (A/swine/Missouri/63607-16/2... 34.2 2.9
                gb|CY040490.1| Influenza A virus (A/swine/Minnesota/63607-40/... 34.2 2.9
                gb|CY040486.1| Influenza A virus (A/swine/Minnesota/63607-31/... 34.2 2.9
                gb|CY040485.1| Influenza A virus (A/swine/Minnesota/63607-30/... 34.2 2.9
                gb|CY040483.1| Influenza A virus (A/swine/Minnesota/63607-26/... 34.2 2.9
                gb|CY040480.1| Influenza A virus (A/swine/Minnesota/63607-15/... 34.2 2.9
                gb|CY040479.1| Influenza A virus (A/swine/Minnesota/63607-12/... 34.2 2.9
                gb|CY040477.1| Influenza A virus (A/swine/Minnesota/225-5/200... 34.2 2.9
                gb|CY040476.1| Influenza A virus (A/swine/Minnesota/225-4/200... 34.2 2.9
                gb|CY040475.1| Influenza A virus (A/swine/Minnesota/225-3/200... 34.2 2.9
                gb|CY040471.1| Influenza A virus (A/swine/Iowa/63607-23/2008(... 34.2 2.9
                gb|CY040468.1| Influenza A virus (A/swine/Iowa/63607-1/2008 (... 34.2 2.9
                gb|CY040466.1| Influenza A virus (A/swine/Iowa/225-8/2008(H1N... 34.2 2.9
                gb|CY040461.1| Influenza A virus (A/swine/Illinois/225-1/2008... 34.2 2.9
                gb|FJ986621.1| Influenza A virus (A/Ohio/02/2007(H1N1)) segme... 34.2 2.9
                gb|FJ986620.1| Influenza A virus (A/Ohio/01/2007(H1N1)) segme... 34.2 2.9
                gb|EU604689.1| Influenza A virus (A/swine/OH/511445/2007(H1N1... 34.2 2.9
                gb|EU409960.1| Influenza A virus (A/swine/Ohio/C62006/06(H1N1... 34.2 2.9
                gb|EU409948.1| Influenza A virus (A/swine/Ohio/24366/07(H1N1)... 34.2 2.9
                gb|AY060052.1| Influenza A virus (A/SW/MN/17138/01(H1N2)) hem... 34.2 2.9

                Comment


                • #83
                  Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                  The two Ohio human isolates are swine triple reassortants.

                  Comment


                  • #84
                    Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                    Originally posted by niman View Post
                    The two Ohio human isolates are swine triple reassortants.
                    The two Ohio human isolates closely match the Ohio source swine isolate.

                    Not so with the swine isolates in Alberta, Canada. They do not closely match the human Swine Flu virus H1N1.

                    It makes one wonder how long the Canadian pig herd had been infected to accumulate that many changes? Probably not a recent human infection being passed on as had been speculated.

                    Comment


                    • #85
                      Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                      Perhaps we will have a better understanding of just how quickly this pandemic virus changes when a human infects a pig once the Argentina swine isolates are released to the public.

                      If we do not see changes, especially in the more highly conserved gene segments, then we should revisit the Canadian event.

                      Comment


                      • #86
                        Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                        Originally posted by Mamabird View Post
                        The two Ohio human isolates closely match the Ohio source swine isolate.

                        Not so with the swine isolates in Alberta, Canada. They do not closely match the human Swine Flu virus H1N1.

                        It makes one wonder how long the Canadian pig herd had been infected to accumulate that many changes? Probably not a recent human infection being passed on as had been speculated.
                        Correct. The swine were not very sick (no fatalities and just a cough) and surveillance (as well as relase of sequences) is/was poor.

                        Comment


                        • #87
                          Re: Tamiflu Resistant Pandemic H1N1 Sequence Released (Hong Kong)

                          Originally posted by niman View Post
                          The Tamiflu resistant precursor is spreading in Spain. The most recent additions were collected this month (July 3), yet the number of recent sequences (since April) in the US remains at ZERO.
                          HA sequence hasn't been released, but it likely has D225E.
                          Catalonia/378 HA (Spain) is actually closer match to Hong Kong Tamiflu resistant strain than Sapporo/1. Has your D225E, plus S206T and P300S.

                          Italy/172 also has these unique HA markers, but no NA available yet.

                          Point is, these precursers are circulating widely and must be monitored.

                          Comment

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