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  • New Flu Virus Found in Peruvian Bats

    previous thread abouts Guatemala bat-flu here:
    http://www.flutrackers.com/forum/sho...d.php?t=183271

    --------------------------------------------------------------------------

    http://www.plospathogens.org/article...l.ppat.1003657

    we identified a novel influenza A virus, designated as H18N11,
    in a flat-faced fruit bat (Artibeus planirostris) from Peru

    GenBank accession
    numbers CY125942-CY125949), and this virus was designated A/
    flat-faced bat/Peru/033/2010 (A/bat/Peru/10) (Table S1).

    We sampled 114 Peruvian bats captured during 2010 in
    Truenococha and Santa Marta
    #

    not yet at genbank: http://www.ncbi.nlm.nih.gov/nuccore/CY125942


    they knew it since 2010, but didn't talk about it. I guess, it's because if the
    current system of funding,grants,journals
    they want to have it exclusively and they don't want others working
    on it, or talking/speculating about it, before they publish their paper (?)
    The Guatemala paper was published in Feb.2012

    [ it might take 3 years before they tell us, when there was a (failed) bioterrorist
    attack or lab accident using a new manmade virus ?!?
    or just when someone succeeded to make/reassort a new flu-virus of real pandemic potential ]
    ----------------------------
    googling for A/flat-faced bat/Peru/033/2010 :
    #
    PLOS Pathogens: New World Bats Harbor Diverse Influenza A Viruses
    Table S1. - PLOS Pathogens
    www.ebi.ac.uk/pdbe-srv/view/entry/.../summary‎
    www.ebi.ac.uk/pdbe-srv/view/entry/.../summary‎
    http://www.readcube.com/articles/......l.ppat.1003657... - Diese Seite übersetzen
    ftp.cbi.pku.edu.cn/pub/database/PDB/derived_data/.../pending_waiting.list
    http://www.bmrb.wisc.edu/ftp/pub/pdb...ng.list‎
    Warum sehe ich diese Anzeige?
    terrestrial.animalhealth.org/.../new-world-bats-harbo...
    biointel.org/‎
    zero hits for http://www.ncbi.nlm.nih.gov/nuccore/CY125942
    -----------------------------------

    ---------edit---------------
    now available at genbank ! Oct.20.18:00 MET


    differences in promille in the 8 segments:

    Code:
       0    0 2280    1 >A/flat-faced bat/Peru/033/2010(H18N11)
    ----------segment 1------------- 
    2350  536 2280    2 >A/little yellow-shouldered bat/Guatemala/153/2009/05/(H17N10)
    3364  767 2280 5954 >DQ064564,A/chicken/Ningxia/4/99,1999//,China,H9N2,1
    3364  767 2280 7909 >HM145701,A/duck/Fujian/420/2005,2005//,China,H6N2,1
    3368  768 2280   18 >AB256703,A/chicken/Yokohama/aq45/2002,2002//,Japan,H9N2,1
    ----------segment 2------------- 
    2302  523 2271    2 >A/little yellow-shouldered bat/Guatemala/153/2009/05/(H17N10)
    2800  636 2271 6797 >EU871834,A/duck/LA/17G/1987,1987//,USA,H3N8
    2818  640 2271 2259 >CY053827,A/pekin duck/California/P30/2006,2006/03/06,USA,H4N2
    2822  641 2271 8245 >HQ825164,A/turkey/BC/1529-3/2005,2005/05/26,Canada,H3N2
    2826  642 2271 5188 >CY139967,A/mallard/Minnesota/AI06-1135/2006,2006//,USA,H4N6
    2835  644 2271    4 >A/Brevig Mission/1/1918(H1N1)
    ----------segment 3------------- 
    2174  465 2138    3 >A/little yellow-shouldered bat/Guatemala/164/2009/05/
    3199  646 2019 5539 >A/mallard/Interior Alaska/10BM12362R0/2010,2010/08/14,USA,H3N8,3
    3208  684 2132 6989 >A/pheasant/MD/4457/1993,1993//,USA,H5N2,3
    3216  650 2021 2837 >A/mallard/Interior Alaska/9BM1863/2009,2009/07/01,USA,N6,3
    3217  686 2132 6998 >A/chicken/NY/21665-73/1998,1998//,USA,H1N1,3
    3222  687 2132 3365 >A/bufflehead/Alberta/399/2007,2007/08/28,Canada,mixed,3
    3227  688 2132  446 >A/mallard duck/ALB/1151/1979,1979/08/22,Canada,H6N9,3
    3227  688 2132 2899 >A/turkey/Wisconsin/1/1968,1968/06/11,USA,H5N9,3
    ----------segment 4------------- 
    4478  755 1686 4879 >A/turkey/Minnesota/40550/1987,1987//,H5N2,USA
    4567  770 1686 4469 >A/sanderling/New Jersey/766/1986,1986/05/12,H2N7,USA
    ----------segment 5------------- 
    2112  315 1491    2 >A/little yellow-shouldered bat/Guatemala/153/2009/05/(H17N10)
    2858  427 1494 7472 >A/avian/Saudi Arabia/910134/2006,2006//,Saudi Arabia,H9N2
    2877  427 1484 7471 >A/chicken/Dubai/463/2003,2003//,United Arab Emirates,H9N2
    2891  432 1494 7464 >A/chicken/Iran/AH-1/2006,2006/10/10,Iran,H9N2
    2911  435 1494 7466 >A/chicken/Iran/TH88/2009,2009/05/,Iran,H9N2
    2911  435 1494 7850 >A/duck/Victoria/5384/2002,2002//,Australia,H4N8
    2915  423 1451 7465 >A/chicken/Iran/Ahwaz-1/2006,2006/10/10,Iran,H9N2
    2918  436 1494 4332 >A/white fronted goose/Netherlands/22/1999,1999//,Netherlands,H2N2
    2918  436 1494 7112 >A/duck/Altai/1285/1991,1991/08/15,Russia,H5N3
    ----------segment 6------------- 
    5989  796 1329    2 >A/little yellowshouldered bat/Guatemala/153/2009/05/(H17N10)
    6364  688 1081 5727 >A/chicken/Pakistan/1/2004,2004//,H7N3
    6389  683 1069 5655 >A/mallard/Gurjev/263/1982,1982//,H14N5
    ----------segment 7------------- 
    1885  184  976    2 >A/little yellow-shouldered bat/Guatemala/153/2009/05/(H17N10)
    3196  289  904  741 >AY664421,A/shorebird/Delaware/224/1997,1997//,USA,H13N6,7
    3226  292  905  249 >AB704722,A/duck/Vietnam/OIE-2562/2011,2011/09/17,Viet Nam,H6N6,7
    3247  289  890 7762 >EU599304,A/shoveler/Egypt/909864/2004,2004//,Egypt,H7N7,7
    3264  300  919  775 >AY664456,A/shorebird/Delaware/207/98 ,1998//,USA,H5N8,7
    3278  321  979 4428 >CY125326,A/hooded merganser/New Brunswick/03749/2009,2009/09/14,Canada,H3N8,7
    ----------segment 8------------- 
       0    0  844    1 >A/flat-faced bat/Peru/033/2010(H18N11)
    2109  178  844    2 >A/little yellow-shouldered bat/Guatemala/153/2009/05/(H17N10)
    3871  314  811 7614 >A/chicken/PA/19241/1997,1997//,USA,H7N2,8
    3894  317  814  262 >A/duck/Vietnam/G18-1/2011,2011//,Viet Nam,H3N8,8
    3894  317  814 9218 >A/Steller's eider/Alaska/44222-192/2006,2006/09/06,USA,H3N3,8
    3901  316  810 1958 >A/chicken/New York/88291-6/2005,2005/07/20,USA,H7N2,8
    this is likely all random and doesn't show a more recent common ancester with one of the known
    virus-segments than with another one
    except maybe the 17g in segment 2 (and H9N2 in segment 5 ?)


    comparing the 2 bats with my index-file k4k4s:

    Code:
    27 >A/little yellow-shouldered bat/Guatemala/153/2009/05/(H17N10)
      1:343,307,339,---,313,---,336,---   1980//,A/Avian/Index/Africa,HxNx,South Africa,Avian
      9:337,297,335,---,309,---,332,---   1980//,A/Avian/Index/Oceania/,HxNx,Australia
     28: 46, 44, 29, 26, 46, 68, 20, 40   A/LYS bat/Guatemala/060/2010,2010/09/(H17N10)
     34:338,288,335,519,308,597,348,380   A/equine/Lexington/1/1966(H7N7)
     42:340,301,330,428,305,575,331,405   A/Brisbane/59/2007/07/01(H1N1)
     54:234,230,217,359,210,449,188,210   A/flat-faced bat/Peru/033/2010(H18N11)
     29:345,285,338,528,317,595,328,399   A/duck/LA/17G/1987,1987//,H3N8
     30:341,285,332,506,317,604,328,404   A/pekin duck/CA/P30/2006,2006/03/06,H4N2
     31:347,280,332,529,314,600,329,401   A/cinnamon teal/CA/44287-325/2007,2007/01/27,H3N8
     12:347,293,329,436,315,562,330,388   Index 7 birds similar to BM18 plus BM18
     40:344,297,330,436,305,567,340,389   A/Index/early human
     41:345,298,328,429,310,563,338,391   A/Puerto Rico/8-1/1934(H1N1)
     51:344,294,328,448,322,567,336,388   A/Sw/Jiangsu/s15/2011,2011/02/05
     25:348,302,338,427,321,598,334,389   A/mallard/WI/42/1975,1975//
     10:344,298,335,---,303,---,332,---   A/Avian/Index/Ozeania
     11:345,305,338,---,298,---,333,---   A/Avian/Index/South America
     49:359,295,340,438,315,553,335,409   A/Sw/Guangdong/34/2006(H1N1)
      5:346,301,334,---,312,---,328,---   1980//,A/Avian/Index/Europe,HxNx,Germany,Avian
     45:350,296,342,436,313,566,328,413   A/******/index/2009/02/01
     50:347,305,332,445,311,567,333,373   A/Sw/Germany/2/1981(H1N1)=1578
    
     54 >A/flat-faced bat/Peru/033/2010(H18N11)
      2:344,291,334,---,306,---,342,---   2000,A/Avian/Index/Africa,HxNx,Egypt,Avian
      3:343,291,340,---,295,---,331,---   1980//,A/Avian/Index/Asia,HxNx,China,Avian
     10:336,285,333,---,287,---,334,---   A/Avian/Index/Ozeania
     11:347,289,330,---,298,---,323,---   A/Avian/Index/South America
     27:234,230,217,359,210,449,188,210   A/LYS bat/Guatemala/153/2009/05/(H17N10)
     28:232,237,216,355,216,442,189,209   A/LYS bat/Guatemala/060/2010,2010/09/(H17N10)   2283 2271 2142 1695 1494 1329  979  844
     33:336,284,337,531,298,576,324,415   A/equine/Gansu/7/2008,2008//,H3N8
     34:329,287,309,503,295,615,338,415   A/equine/Lexington/1/1966(H7N7)
      9:338,289,341,---,292,---,331,---   1980//,A/Avian/Index/Oceania/,HxNx,Australia
     29:342,279,332,526,305,573,345,410   A/duck/LA/17G/1987,1987//,H3N8
     30:345,281,328,516,307,592,331,411   A/pekin duck/CA/P30/2006,2006/03/06,H4N2
     31:347,281,328,521,300,568,330,416   A/cinnamon teal/CA/44287-325/2007,2007/01/27,H3N8
     40:347,280,337,423,308,573,332,425   A/Index/early human
     39:352,283,331,421,308,573,334,424   A/Brevig Mission/1/1918(H1N1)
     44:354,283,338,527,303,590,330,440   A/Sw/Ontario/33853/2005(H3N2)
     48:354,293,328,423,304,567,334,433   A/Sw/Iowa/24297/1991(H1N1)
     12:351,289,335,421,305,573,325,427   Index 7 birds similar to BM18 plus BM18
     17:348,295,338,409,307,580,324,413   A/Ck/Mexico/31381-7/1994,1994//(H5N2)
     32:346,295,331,532,297,575,326,415   A/equine/Miami/1/1963,1963//,H3N8
     50:351,287,340,428,293,574,328,400   A/Sw/Germany/2/1981(H1N1)=1578
    252,147,200,---,128,---,109,185 amino differences from the bird index
    234,155,204,---,135,---,097,178 for the Guatemala bat


    the Peru bat-virus has much higer AT-scores in all segments than the Guatemala bat
    --> more mammalean-like, less avian:

    Code:
    6316,6393,6479,6208,5702,5814,5740,5936, = 6152(13098)   >A/flat-faced bat/Peru/033/2010(H18N11)
    5711,5719,5873,5802,5361,5613,5419,5734, = 5680(13035)   >A/LYS bat/Guatemala/153/2009/05/(H17N10)
    5716,5719,5873,5808,5361,5613,5419,5734, = 5682(13035)   >A/LYS bat/Guatemala/164/2009/05/
    5561,5659,5620,5802,5310,5751,5152,5465, = 5574(13133)   >A/Brevig Mission/1/1918(H1N1)
    this is even higher than the equine H7N7 and influenza B !!
    Only flu-C has higher AT-score
    so there is maybe either a big difference in the methylation
    capabilities of these 2 bat-species, or there is a mammalean reservoir
    in Peru that feeds the bats with flu

    someone please test the alpacas and llamas
    ----------edit--------------- better piccaries and tapirs

    the common ancester of the Peru and Guatemala bat viruses could have "lived" ~150-200 years ago,
    except segments 4,6 , assuming the same mutation rate as in humans,swine,horses

    .........................................
    since the date of the most recent common ancester of the bat and any other known flu-A segment
    is before the date of the most recent common ancester of any two other flu-As (same segment),
    the phylo-distance to all known contemporary flu-A segments must be the same.

    Any differences can be due to periods of slow evolution or lack of amino-acid mutations
    in inner segments of mallard-flu or other such constraints or are just random.
    I'm interested in expert panflu damage estimates
    my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

  • #2
    Re: PNAS: A distinct lineage of influenza A virus from bats

    I posted a comment about it at plospathogens:
    http://www.plospathogens.org/article...6C8D5BC998D903
    ahh, sessionid, so the link will likely vanish
    goto http://www.plospathogens.org/article...l.ppat.1003657
    and click on comments

    ------ no reply -------

    61.52%(6316,6393,6479,6208,5702,5814,5740,5936)
    of the nucleotides are from {A,T}.
    For the Guatemala bat-virus it was only
    56.80%(5719,5873,5802,5361,5613,5419,5734),
    which was more similar to the usual value in birds.
    61.52% is very high, it's high in all 8 segments,
    and higher than in any human or swine flu virus,
    even higher than in the extinct equine H7N7 or in flu-B -
    only flu-C has a higher proportion of A,T nucleotides.
    It is supposed to happen by RNA-methylation and
    indicates another mammalean reservoir (equine ?),
    where it evolves. I am posting about it here :
    http://www.flutrackers.com/forum/sho...d.php?t=183271


    http://www.plospathogens.org/article...l.ppat.1003657
    I'm interested in expert panflu damage estimates
    my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

    Comment


    • #3
      New Flu Virus Found in Peruvian Bats

      Source: http://www.livescience.com/40642-new...bats-peru.html

      New Flu Virus Found in Peruvian Bats
      Rachael Rettner, Senior Writer | October 23, 2013 11:02am ET

      A brand new flu virus has been found in Peruvian bats, according to a new study from researchers at the Centers for Disease Control and Prevention.

      The virus, called A/bat/Peru/10, belongs to a family of flu viruses known as influenza A, which mainly infect birds, but can also infect other animals, including people...

      Comment


      • #4
        Re: New Flu Virus Found in Peruvian Bats

        btw. I also sent emails to Adriano Bravo and Simon J Ghanem
        who (co-) authored papers about bats meeting at Collpas
        in Amazon rainforest.
        Speculating that they transmit flu that way
        and maybe smell the Collpas, visited by tapirs and piccaries ("skunk pigs")

        --- No reply ---

        also emails with mixin


        interesting bat videos at youtube (link)

        http://www.youtube.com/watch?v=LUDSAHkOV-Q


        another idea, how bats maybe find the Collpas at night:
        http://www.youtube.com/watch?v=gZxLUNHEmPw
        trilogy in German:
        http://www.youtube.com/watch?v=DGoLYbZDCZw
        nice videos, how they catch insects, raise babies

        fruit bats:
        http://www.youtube.com/watch?v=j_SjhcdF_J4
        (shorter,funny)


        see also:
        www.batlab.de



        bats-faq: (big flying foxes)
        http://www.dse.vic.gov.au/plants-and...lying-fox-faqs


        http://www.acoustics.hut.fi/u/mairas...on_in_bats.pdf
        all microchiroptera use echolocation


        ================================================== ====

        > DNA methylation plays a crucial role in higher organisms
        > Bats exhibited a lower relative rate of substitutions at ... CpG Islands; DNA Methylation*;
        http://www.ncbi.nlm.nih.gov/pubmed/15190129
        > Bats exhibited a lower relative rate of substitutions at CpG-containing codons.

        more support for the speculation that the batflu in Peru (but not the one in Guatemala)
        evolves in "higher organisms" (= peccaries,tapirs ?) and not bats

        this could also be relevant to rabies research, occasinally in Brazil rabies was found in fruit bats,
        not only vampire bats

        ------------------------------------------------------------
        many viruses in bats:
        http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3343228/
        -----------------------------------------------------------------
        I'm interested in expert panflu damage estimates
        my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

        Comment


        • #5
          New Flu Virus, 'A/bat/Peru/10,' Found In Peruvian Bats

          http://www.huffingtonpost.com/2013/1...n_4156576.html

          Tests done by the researchers so far suggest the virus is not an immediate concern for people, said study researcher Ruben Donis, associate director of Policy, Evaluation and Preparedness at the CDC’s Influenza Division. The researchers have not been able to grow the virus in human or primate cells, or by other methods, which is characteristic of viruses that do not infect humans, Donis said. The virus may have very specific requirements for growth, for instance it may only be able to replicate in the intestinal cells of bats, he said.

          On the other hand, the researchers do not have enough information to say for sure that the new flu virus cannot eventually infect people, Donis said.

          Last year, the same group of researchers identified a distinct influenza A virus, H17N10, in fruit bats living in Guatemala.

          Comment


          • #6
            Re: New Flu Virus Found in Peruvian Bats

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

            Comment


            • #7
              Re: New Flu Virus Found in Peruvian Bats

              E on December 5, 2013 at 1:35 pm said:
              We modified the bat virus sequences in order to rescue it. Soon you will
              see the publication with a modified bat virus growing in cells and eggs
              I'm interested in expert panflu damage estimates
              my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

              Comment

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