Announcement

Collapse
No announcement yet.

Indonesia H5N1 sequences released (June 2011) from 2007 - avian

Collapse
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • #16
    Re: Indonesia H5N1 sequences released (June 2011) from 2007 - avian

    oops, the deletion in Egypt is _not_ in that vax-escape substrain

    0879

    so that does not support my idea that chicken vax-escape
    or just high nonsyn/syn ratio caused the deletion
    I'm interested in expert panflu damage estimates
    my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

    Comment


    • #17
      Re: Indonesia H5N1 sequences released (June 2011) from 2007 - avian

      ratio wrt. A/Gs/GD/1996 for my 14 H5N1-HA substrains:

      Code:
      IDN,QH5,VNM,FUJ,MN8,VN8,HK7,HB5,YN3,MU1,MU2,XIN,RES
      035,035,036,040,039,034,045,047,038,037,038,037,032
      
      deletion viruses:
      EGY,IDN,SX2,HE1,HE2
      033,046,046,051,050
      
      
      A/Scotland/1959: 021
      I'm interested in expert panflu damage estimates
      my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

      Comment


      • #18
        Re: Indonesia H5N1 sequences released (June 2011) from 2007 - avian

        http://www.oie.int/doc/ged/D6176.PDF
        http://vir.sgmjournals.org/content/91/10/2491.full

        Two vaccine strains, Re4 and Re5, generated using reverse genetics, have been widely used in China since 2006 to prevent poultry infections and deaths caused by the HPAI viruses within Clades 7 and 2.3 (including Clades 2.3.2 and 2.3.4), respectively (Chen, 2009). Their HA genes were from A/chicken/Shanxi/2/2006(H5N1) within Clade 7 and A/chicken/Anhui/1/2006(H5N1) within Clade 2.3.4, respectively (Chen, 2009).

        and 7 (“Shanxi”) are believed to represent such vaccine-escape strains [17].

        http://www.cnic.org.cn/pdf/2011-1-29...fluenza%20.pdf

        ----------------------------------------
        This new vaccine Re-4 (Shanxi/2) was approved in August. 2006 for use in the Shanxi and Ningxia ...

        http://en.hvriwk.com/comcontent_deta...552533628.html

        Harbin Weike Biotechnology Development Co., Ltd
        2006 Produced by recombinant vaccine (Re-4),some provinces for vaccination.
        2006 H5 subtype of avian influenza exported inactivated vaccine to Egypt, Mongolia.
        2007 production of recombinant H5 bivalent vaccine (Re-1+ Re-4).
        2007 H5 subtype of avian influenza exported to Indonesia inactivated vaccine.

        ---------------------------------------
        I'm interested in expert panflu damage estimates
        my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

        Comment


        • #19
          Re: Indonesia H5N1 sequences released (June 2011) from 2007 - avian

          Indonesia vaccination program:
          http://bbalitvet.litbang.deptan.go.i...nts/217_21.pdf

          Sukabumi,2006:
          http://www.civas.net/content/vaccina...enza-diagnosis

          http://www.flutrackers.com/forum/arc...p/t-24751.html

          According to him(Nidom), in handling the bird flu danger, the government used and permitted approximately 12 vaccines.
          (May 25 2007)

          A/turkey/England/N28/73 H5N2).
          Afield trial is described that might provide insight into the efficacy of vaccination on farms in sector 3.


          mass vaccination in mid 2004, continued 2005 and early 2006
          vaccination in sectors 1,2, and 3 at their own cost with coverage estimated
          to be 90% in commercial layer and 100% in breeding flocks

          Available isolates - region - Need more samples from West Java
          I'm interested in expert panflu damage estimates
          my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

          Comment


          • #20
            Re: Indonesia H5N1 sequences released (June 2011) from 2007 - avian

            update from Feb.2012, 413 HAs

            41 misaligned or "bad" sequences are excluded (deletions,sequencing errors)




            http://www.ncbi.nlm.nih.gov/pubmed/22323117

            http://www.ncbi.nlm.nih.gov/pmc/arti...9/?tool=pubmed
            (their "2.1.3" is the big "human" strain in my pic.)

            2.1.1 is my "early"
            2.1.2 is my "Karo"
            2.1.3 is my "human"



            ------------------------
            To date, all Indonesian H5N1 viruses have been classified into clade 2.1, with three virus sublineages
            being present within this clade: 2.1.1, 2.1.2 and 2.1.3 [18]. The viruses within clade 2.1.1 were mainly
            isolated from HPAI-infected poultry during the outbreaks between 2003 and 2005. Clade 2.1.2 consisted
            of avian- and human-derived viruses, isolated predominantly from Sumatra between 2004 and 2007.
            Clade 2.1.3 comprised a range of viruses that were isolated either from birds or from humans since 2004.
            While clade 2.1.3 viruses have predominated and they continue to circulate in Indonesia, the number of
            isolated H5N1 viruses from clade 2.1.1 and 2.1.2 has substantially declined since 2005 [19]. Although 2.1.3
            viruses have spread and become endemic in many provinces in Indonesia, a new sublineage virus has
            emerged since 2004 [19,20].
            -----------------------------
            I'm interested in expert panflu damage estimates
            my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

            Comment

            Working...
            X