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July San Paolo Sequence Released

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  • Re: July San Paolo Sequence Released

    Originally posted by wotan View Post
    Can you tell us when and where?
    It was collected in May from a location with no reported sequences with H274Y (and not in the HA travel log). I'll comment more if it shows up at Genbank.

    Comment


    • Re: July San Paolo Sequence Released

      Originally posted by niman View Post
      It was collected in May from a location with no reported sequences with H274Y. I'll comment more if it shows up at Genbank.
      May? Wow, that early date alone would seem to have some importance. It should also narrow the location somewhat, to Mexico or the US most likely (although I think Spain or New Zealand might also be possible, if memory serves). Hopefully we will also get some case information.
      Wotan (pronounced Voton with the ton rhyming with on) - The German Odin, ruler of the Aesir.

      I am not a doctor, virologist, biologist, etc. I am a layman with a background in the physical sciences.

      Attempting to blog an nascent pandemic: Diary of a Flu Year

      Comment


      • Re: July San Paolo Sequence Released

        Originally posted by niman View Post
        It was collected in May from a location with no reported sequences with H274Y (and not in the HA travel log). I'll comment more if it shows up at Genbank.
        Singapore/57, perhaps?

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        • Re: July San Paolo Sequence Released

          Originally posted by Mamabird View Post
          Singapore/57, perhaps?
          That would be my guess.

          Comment


          • Re: July San Paolo Sequence Released

            Originally posted by niman View Post
            That would be my guess.
            Your guess?

            Why the secrecy? You have said yourself that this stuff is all over the place, and but for the fact that noone on earth has a surveillance program worth a flip, more would be found.

            OK, Singapore/57, collected May 30 has been placed in the GISAID database and is clearly labeled as "resistant" to Tamiflu. Give the folks some credit. They detected what you claim was there already.

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            • Re: July San Paolo Sequence Released

              sounds like a remake of the 1957 pandemic
              I'm interested in expert panflu damage estimates
              my current links: [url]http://bit.ly/hFI7H[/url] ILI-charts: [url]http://bit.ly/CcRgT[/url]

              Comment


              • Re: July San Paolo Sequence Released

                Originally posted by gsgs View Post
                sounds like a remake of the 1957 pandemic
                Don't think so. 1957 had no swine involvement. 1918 did.

                Comment


                • Re: July San Paolo Sequence Released

                  Originally posted by Mamabird View Post
                  Your guess?

                  Why the secrecy? You have said yourself that this stuff is all over the place, and but for the fact that noone on earth has a surveillance program worth a flip, more would be found.

                  OK, Singapore/57, collected May 30 has been placed in the GISAID database and is clearly labeled as "resistant" to Tamiflu. Give the folks some credit. They detected what you claim was there already.
                  I don't think I said I "discovered" H274Y (anywhere).

                  Comment


                  • Re: July San Paolo Sequence Released

                    Any chance there are other early sequences that have H274Y, and not noticed?

                    Comment


                    • Re: July San Paolo Sequence Released

                      Originally posted by Snicklefritz View Post
                      Any chance there are other early sequences that have H274Y, and not noticed?
                      None of the other pandemic sequences at Genbank have H274Y (other than those listed previously). There are about 30 new isolates at GISAID and most have NA, and I haven't looked hard yet, but I am pretty sure that A/Singapore/57/2009 is the only new sequence with H274Y.

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                      • Re: July San Paolo Sequence Released

                        Thank you.

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                        • Re: July San Paolo Sequence Released

                          Originally posted by Snicklefritz View Post
                          Any chance there are other early sequences that have H274Y, and not noticed?
                          Here's the H274Y travel log (Denmark isn't in yet)

                          gb|GQ397279.1| Influenza A virus (A/Yamaguchi/22/2009(H1N1)) ... 36.2 0.73
                          gb|GQ365445.1| Influenza A virus (A/Osaka/180/2009(H1N1)) seg... 36.2 0.73
                          gb|GQ351316.1| Influenza A virus (A/Hong Kong/2369/2009(H1N1)... 36.2 0.73
                          gb|EU567011.1| Influenza A virus (A/Indiana/01/2008(H1N1)) se... 36.2 0.73
                          gb|DQ493078.1| Influenza A virus (A/Vietnam/CL2009/2005(H5N1)... 36.2 0.73
                          gb|DQ250165.1| Influenza A virus (A/Vietnam/CL2009/2005(H5N1)... 36.2 0.73

                          Comment


                          • Re: July San Paolo Sequence Released

                            Originally posted by Snicklefritz View Post
                            Any chance there are other early sequences that have H274Y, and not noticed?
                            No H274Y in recently released sequences at GISAID other than Singapore.

                            Comment


                            • Re: July San Paolo Sequence Released

                              Originally posted by wotan View Post
                              May? Wow, that early date alone would seem to have some importance. It should also narrow the location somewhat, to Mexico or the US most likely (although I think Spain or New Zealand might also be possible, if memory serves). Hopefully we will also get some case information.
                              The fact that the Singpore isolate was collected in May , and just released today at GISAID (and not released at Genbank) is significant. There either is a large backlog in sequencing, so data is being withheld. Meanwhile, the HA associated with this isolate is widespread and is also in Kenya (in addition to the travel log below).

                              These results raise concerns of significant levels of H274Y fly below the radar, worldwide.
                              8574-Argentina-2009-S4-HA-41
                              gb|GQ414768.1| Influenza A virus (A/Sao Paulo/43812/2009(H1N1... 36.2 0.73
                              gb|GQ377095.1| Influenza A virus (A/California/24/2009(H1N1))... 36.2 0.73
                              gb|GQ359765.1| Influenza A virus (A/Stockholm/31/2009(H1N1)) ... 36.2 0.73
                              gb|GQ292961.1| Influenza A virus (A/Mexico City/22/2009(H1N1)... 36.2 0.73
                              gb|GQ229293.1| Influenza A virus (A/swine/Hong Kong/NS1659/20... 36.2 0.73
                              gb|GQ232085.1| Influenza A virus (A/Guangdong/02/2009(H1N1)) ... 36.2 0.73
                              gb|GQ223435.1| Influenza A virus (A/Guangdong/05/2009(H1N1)) ... 36.2 0.73
                              gb|GQ132144.1| Influenza A virus (A/Canada-ON/RV1529/2009(H1N... 36.2 0.73

                              Comment


                              • Re: July San Paolo Sequence Released

                                Originally posted by niman View Post
                                None of the initial sequences from Argentina have V252M

                                7785-Argentina-2009-S4-HA-4
                                7937-Argentina-2009-S4-HA-11f
                                7953-Argentina-2009-S4-HA-16
                                7967-Argentina-2009-S4-HA-1
                                7980-Argentina-2009-S4-HA-12
                                8019-Argentina-2009-S4-HA-2
                                8574-Argentina-2009-S4-HA-41
                                9576-Argentina-2009-S4-HA-6
                                9588-Argentina-2009-S4-HA-5
                                9597-Argentina-2009-S4-HA-3
                                9711-Argentina-2009-S4-HA-9
                                Looks like all of these sequences were collected on 6/18 or 6/19

                                Comment

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