Israel H5N1 Wild Bird Sequence Matches 2015 Egypt Poultry and Human Cases

niman · July 15, 2015

Edited July 15, 2015 by niman

niman · July 15, 2015

LOCUS       KR701613                1641 bp    cRNA    linear   VRL 10-JUN-2015
DEFINITION  Influenza A virus (A/spur-winged lapwing/Israel/101/2015(H5N1))
            segment 4 hemagglutinin (HA) gene, partial cds.
ACCESSION   KR701613
VERSION     KR701613.1  GI:827500800
KEYWORDS    .
SOURCE      Influenza A virus (A/spur-winged lapwing/Israel/101/2015(H5N1))
  ORGANISM  Influenza A virus (A/spur-winged lapwing/Israel/101/2015(H5N1))
            Viruses; ssRNA viruses; ssRNA negative-strand viruses;
            Orthomyxoviridae; Influenzavirus A.
REFERENCE   1  (bases 1 to 1641)
  AUTHORS   Shkoda,I., Lapin,K., Simanov,L. and Lublin,A.
  TITLE     Highly pathogenic avian influenza A virus H5N1 isolated in Israel
            2015
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1641)
  AUTHORS   Shkoda,I., Lapin,K., Simanov,L. and Lublin,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-MAY-2015) Division of Avian Diseases, Kimron
            Veterinari Institute, P.O.Box 12, Bet Dagan 50250, Israel
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: SeqMan DNAStar v. DNASTAR Lasergene 8
            Sequencing Technology :: IonTorrent
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..1641
                     /organism="Influenza A virus (A/spur-winged
                     lapwing/Israel/101/2015(H5N1))"
                     /mol_type="viral cRNA"
                     /strain="A/spur-winged lapwing/Israel/101/2015"
                     /serotype="H5N1"
                     /isolation_source="trachea swab"
                     /host="spur-winged lapwing"
                     /db_xref="taxon:1653489"
                     /segment="4"
                     /country="Israel"
                     /collection_date="23-Jan-2015"
                     /note="passage details: E1"
     gene            <1..>1641
                     /gene="HA"
     CDS             <1..>1641
                     /gene="HA"
                     /note="receptor binding and fusion protein"
                     /codon_start=1
                     /product="hemagglutinin"
                     /protein_id="AKJ83264.1"
                     /db_xref="GI:827500801"
                     /translation="QICIGYHANNSTEQVDTIMEKNVTVTHAQDILEKTHNGKLCNLD
                     GVKPLILRDCRVAGWLLGNPMCDEFLNVPEWSYIVEKINPANDLCYPGNFNDYEELKH
                     LLSRINHFEKIQIIPKNSWSDHEASGVSSACPYQGRSSFFRNVVWLTKKNDAYPTIKK
                     SYNNTNQEDLLVLWGIHHPNDAAEQTRLYQNPTTYISVGTSTLNQRLVPKIATRSKVN
                     GQSGRMEFFWTILKSNDAINFESNGNFIAPENAYKIVKKGDSTIMKSELEYSNCNTKC
                     QTPIGAINSSMPFHNIHPLTIGECPKYVKSNRLVLATGLRNSPQGEKRRKKRGLFGAI
                     AGFIEGGWQGMVDGWYGYHHSNEQGSGYAADKESTQRAIDGVTNKVNSIIDKMNTQFE
                     AVGREFNNLERRIENLNKKMEDGFLDVWTYNAELLVLMENERTLDFHDSNVKNLYDKA
                     RLQLRDNAKELGNGCFEFYHRCDNECMESVRNGTYDYPQYSEEARLKREEISGVKLES
                     IGTYQILSIYSTVASSLALAIMVAGLSLWMCSNGSLQCR"
ORIGIN      
        1 cagatttgca ttggttacca tgcaaacaac tcgacagagc aggttgacac aataatggaa
       61 aagaacgtca ctgttacaca cgcccaagac atactggaaa agacacacaa cgggaaactc
      121 tgcaatctag atggagtgaa gcctctcatt ttaagagatt gtagggtagc tggatggctc
      181 ctcgggaacc caatgtgcga tgaattcctc aatgtgccgg aatggtctta catagtggag
      241 aaaatcaatc cagccaatga cctctgttat ccagggaatt tcaacgacta tgaagaactg
      301 aaacacctat tgagcagaat aaaccatttt gagaaaattc agatcattcc caaaaattct
      361 tggtcagatc atgaagcctc aggagtgagc tcagcatgcc cataccaagg aagatcctcc
      421 ttttttagaa atgttgtatg gcttaccaaa aagaacgatg catacccaac aataaagaaa
      481 agttacaata atactaacca agaagatctt ttggtactat gggggattca ccatccaaat
      541 gatgctgcag agcagacaag gctttatcaa aacccaacta cctatatctc cgttgggaca
      601 tcaacactaa accagagatt ggtacccaaa atagctacta gatctaaggt aaacgggcaa
      661 agtggaagga tggagttctt ttggacaatt ttaaaatcga atgatgcaat aaactttgag
      721 agcaatggaa acttcattgc tccagaaaat gcatacaaaa ttgtcaagaa aggagattca
      781 acaattatga aaagtgagtt ggaatatagt aactgcaaca ccaagtgtca gactccaata
      841 ggggcgataa actccagtat gccattccac aacatccacc ctctcaccat cggggaatgc
      901 cccaaatatg tgaaatcaaa cagattagtt cttgctactg ggctcaggaa tagccctcaa
      961 ggagagaaaa gaagaaaaaa gagaggacta ttcggagcca tagcaggctt tatagaggga
     1021 ggatggcagg gaatggtaga tggttggtat gggtaccacc atagcaacga gcaggggagt
     1081 gggtacgctg cagacaaaga atccactcaa agggctatag atggagtcac caataaggtc
     1141 aattcgatca ttgacaaaat gaacactcag tttgaggctg ttggaaggga atttaataac
     1201 ttagaaagga gaatagaaaa tttaaacaag aagatggaag acggattcct agatgtctgg
     1261 acttataatg ctgaacttct ggttcttatg gaaaatgaga gaactctaga ctttcatgac
     1321 tcaaatgtca agaatcttta tgacaaggcc cgactacagc ttagggataa tgcaaaggag
     1381 cttggtaacg gttgtttcga gttctatcac agatgtgata atgaatgtat ggaaagtgta
     1441 agaaacggaa cgtatgacta ccctcaatat tcagaagaag caagattaaa aagagaggaa
     1501 ataagtggag taaaattgga gtcaatagga acttaccaaa tactgtcaat ttattcaaca
     1561 gtggcgagct ccctagcact ggcaatcatg gtggctggtc tatctttatg gatgtgctcc
     1621 aatggatcgc tacaatgcag a

niman · July 15, 2015

Segment-ID	Name	Score	E-Value	Identity
EPI608787	A/spur-winged lapwing/Israel/101/2015 (A/H5N1) segment 4 (HA)	3031.5	0.000000e+00	1641/1641 (100%)
EPI608783	A/turkey/Israel/188/2015 (A/H5N1) segment 4 (HA)	3003.8	0.000000e+00	1636/1641 (99%)
EPI608778	A/chicken/Israel/88/2015 (A/H5N1) segment 4 (HA)	3003.8	0.000000e+00	1636/1641 (99%)
EPI608777	A/turkey/Israel/107/2015 (A/H5N1) segment 4 (HA)	3003.8	0.000000e+00	1636/1641 (99%)
EPI608786	A/turkey/Israel/209/2015 (A/H5N1) segment 4 (HA)	2998.2	0.000000e+00	1635/1641 (99%)
EPI608781	A/turkey/Israel/274/2015 (A/H5N1) segment 4 (HA)	2994.5	0.000000e+00	1633/1639 (99%)
EPI608782	A/turkey/Israel/174/2015 (A/H5N1) segment 4 (HA)	2992.7	0.000000e+00	1634/1641 (99%)
EPI584778	A/chicken/Egypt/A10351A/2014 (A/H5N1) segment 4 (HA)	2992.7	0.000000e+00	1634/1641 (99%)
EPI608780	A/turkey/Jenin/39/2015 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI579781	A/duck/Egypt/CLEVB-25_N00239/2015 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI579780	A/duck/Egypt/CLEVB-24_N00238/2015 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI579520	A/chicken/Egypt/CLEVB-17_N00231/2015 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI579325	A/chicken/Egypt/CLEVB-16_N00230/2014 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI579324	A/chicken/Egypt/CLEVB-19_N00233/2015 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI573252	A/Turkey/Egypt/AR235-S240NLQP/2014 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI573244	A/chicken/Egypt/AR231-CA113NLQP/2014 (A/H5N1) segment 4 (HA)	2987.2	0.000000e+00	1633/1641 (99%)
EPI579006	A/chicken/Egypt/CLEVB-1_N00215/2014 (A/H5N1) segment 4 (HA)	2983.5	0.000000e+00	1632/1641 (99%)
EPI608784	A/chicken/Israel/333/2015 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI608779	A/chicken/Qalqilya/53/2015 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI574132	A/Egypt/MOH-NRC-7305/2014 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI573268	A/Turkey/Egypt/AR238-SD177NLQP/2014 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI573250	A/chicken/Egypt/AR234-FAOF8NLQP/2014 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI573248	A/chicken/Egypt/AR233-S283NLQP/2014 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI557138	A/Quail/Egypt/BSU5514-AR2219/2014 (A/H5N1) segment 4 (HA)	2981.6	0.000000e+00	1632/1641 (99%)
EPI579784	A/chicken/Egypt/CLEVB-18_N00232/2015 (A/H5N1) segment 4 (HA)	2976.1	0.000000e+00	1631/1641 (99%)
EPI579783	A/chicken/Egypt/CLEVB-21_N00235/2015 (A/H5N1) segment 4 (HA)	2976.1	0.000000e+00	1631/1641 (99%)
EPI579782	A/chicken/Egypt/CLEVB-20_N00234/2015 (A/H5N1) segment 4 (HA)	2976.1	0.000000e+00	1631/1641 (99%)
EPI573260	A/Duck/Egypt/AR236-A3NLQP/2015 (A/H5N1) segment 4 (HA)	2970.5	0.000000e+00	1630/1641 (99%)
EPI573321	A/chicken/Egypt/153AF/2015 (A/H5N1) segment 4 (HA)	2963.1	0.000000e+00	1620/1628 (99%)
EPI608785	A/chicken/Israel/156/2015 (A/H5N1) segment 4 (HA)	2959.5	0.000000e+00	1628/1641 (99%)
EPI574125	A/Egypt/MOH-NRC-7271/2014 (A/H5N1) segment 4 (HA)	2959.5	0.000000e+00	1628/1641 (99%)
EPI573246	A/Duck/Egypt/AR232-A13NLQP/2014 (A/H5N1) segment 4 (HA)	2959.5	0.000000e+00	1628/1641 (99%)
EPI573328	A/chicken/Egypt/14168CA/2014 (A/H5N1) segment 4 (HA)	2955.8	0.000000e+00	1614/1621 (99%)
EPI573315	A/duck/Egypt/BS-146RS-f6/2014 (A/H5N1) segment 4 (HA)	2952.1	0.000000e+00	1614/1622 (99%)
EPI584783	A/Egypt/MOH-NRC-8434/2014 (A/H5N1) segment 4 (HA)	2948.4	0.000000e+00	1626/1641 (99%)
EPI573330	A/chicken/Egypt/1476CA/2014 (A/H5N1) segment 4 (HA)	2942.8	0.000000e+00	1613/1623 (99%)
EPI573322	A/chicken/Egypt/152RS/2015 (A/H5N1) segment 4 (HA)	2939.1	0.000000e+00	1612/1623 (99%)
EPI573318	A/chicken/Egypt/1478CAL/2014 (A/H5N1) segment 4 (HA)	2939.1	0.000000e+00	1605/1612 (99%)
EPI550493	A/duck/Egypt/14VIR784-4-133AD/2013 (A/H5N1) segment 4 (HA)	2937.3	0.000000e+00	1624/1641 (98%)
EPI573319	A/chicken/Egypt/152/2015 (A/H5N1) segment 4 (HA)	2926.2	0.000000e+00	1608/1620 (99%)
EPI557194	A/Duck/Egypt/NLQP27SG-AR750/2013 (A/H5N1) segment 4 (HA)	2926.2	0.000000e+00	1622/1641 (98%)
EPI557178	A/chicken/Egypt/NLQP33SD-AR748/2013 (A/H5N1) segment 4 (HA)	2920.7	0.000000e+00	1622/1642 (98%)
EPI500079	A/goose/Egypt/M7221D/2013 (A/H5N1) segment 4 (HA)	2915.1	0.000000e+00	1620/1641 (98%)
EPI500078	A/chicken/Egypt/M7217A/2013 (A/H5N1) segment 4 (HA)	2915.1	0.000000e+00	1620/1641 (98%)
EPI487342	A/chicken/Egypt/M7217B/2013 (A/H5N1) segment 4 (HA)	2915.1	0.000000e+00	1620/1641 (98%)
EPI557218	A/chicken/Egypt/NLQP139V-AR753/2013 (A/H5N1) segment 4 (HA)	2909.6	0.000000e+00	1619/1641 (98%)
EPI574389	A/Turkey/Egypt/14240FAOS/2014 (A/H5N1) segment 4 (HA)	2905.9	0.000000e+00	1599/1611 (99%)
EPI500109	A/chicken/Egypt/Q5283C/2012 (A/H5N1) segment 4 (HA)	2905.9	0.000000e+00	1618/1641 (98%)
EPI504991	A/chicken/Egypt/BSU-BS-R24/2012 (A/H5N1) segment 4 (HA)	2904.1	0.000000e+00	1618/1641 (98%)
EPI504990	A/chicken/Egypt/BSU-BS-F27/2012 (A/H5N1) segment 4 (HA)	2904.1	0.000000e+00	1618/1641 (98%)
EPI348153	A/chicken/Egypt/11VIR4453-266/2010 (A/H5N1) segment 4 (HA)	2900.4	0.000000e+00	1617/1641 (98%)
EPI597822	A/duck/Egypt/1471SG/2014 (A/H5N1) segment 4 (HA)	2898.5	0.000000e+00	1618/1642 (98%)
EPI500082	A/duck/Egypt/M7218B/2013 (A/H5N1) segment 4 (HA)	2898.5	0.000000e+00	1618/1642 (98%)
EPI340133	A/goose/Egypt/1117SF/2011 (A/H5N1) segment 4 (HA)	2898.5	0.000000e+00	1617/1641 (98%)
EPI600754	A/chicken/Egypt/N05832-CLEVB754/2011 (A/H5N1) segment 4 (HA)	2893.0	0.000000e+00	1616/1641 (98%)
EPI597815	A/turkey/Egypt/1438S/2014 (A/H5N1) segment 4 (HA)	2893.0	0.000000e+00	1616/1641 (98%)
EPI340135	A/chicken/Egypt/1113/2011 (A/H5N1) segment 4 (HA)	2893.0	0.000000e+00	1616/1641 (98%)
EPI338733	A/duck/Egypt/M2583B/2010 (A/H5N1) segment 4 (HA)	2893.0	0.000000e+00	1617/1642 (98%)
EPI338732	A/duck/Egypt/M2583C/2010 (A/H5N1) segment 4 (HA)	2893.0	0.000000e+00	1617/1642 (98%)
EPI338616	A/duck/Egypt/M2583D/2010 (A/H5N1) segment 4 (HA)	2893.0	0.000000e+00	1617/1642 (98%)
EPI597818	A/chicken/Egypt/1461S/2014 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI597812	A/chicken/Egypt/1422S/2014 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI557136	A/Turkey/Egypt/BSU5114-AR2218/2014 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI372907	A/Egypt/N7562/2011 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1616/1642 (98%)
EPI348152	A/chicken/Egypt/11VIR4453-268/2010 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI340138	A/duck/Egypt/1125S/2011 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI340101	A/chicken/Egypt/1112AF/2011 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI340087	A/duck/Egypt/11193SF/2011 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI340085	A/chicken/Egypt/1118AF/2011 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI338615	A/duck/Egypt/Q2645C/2010 (A/H5N1) segment 4 (HA)	2887.4	0.000000e+00	1615/1641 (98%)
EPI538767	A/chicken/Egypt/13VIR-2962-109/2013 (A/H5N1) segment 4 (HA)	2885.6	0.000000e+00	1614/1640 (98%)
EPI603916	A/duck/Egypt/154FAOFL/2015 (A/H5N1) segment 4 (HA)	2883.7	0.000000e+00	1580/1589 (99%)
EPI603908	A/chicken/Egypt/1456CAL/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI603902	A/chicken/Egypt/1439CAL/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI603901	A/chicken/Egypt/1436CAL/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI597825	A/turkey/Egypt/1414CAL/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI597823	A/turkey/Egypt/14125S/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI597816	A/duck/Egypt/1435CAS/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1615/1642 (98%)
EPI550507	A/duck/Egypt/14VIR784-8-1339S/2013 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI537618	A/Egypt/N01754/2014 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI373013	A/Egypt/N00166/2011 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1615/1642 (98%)
EPI348160	A/chicken/Egypt/11VIR4453-267/2010 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI348158	A/chicken/Egypt/11VIR4453-109/VRLCU/2011 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI348157	A/chicken/Egypt/11VIR4453-15/VRLCU/2010 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI348155	A/chicken/Egypt/11VIR4453-68/VRLCU/2011 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI340165	A/duck/Egypt/10228SF/2010 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI340151	A/chicken/Egypt/10513S/2010 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI340106	A/duck/Egypt/1110AF/2011 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI340104	A/chicken/Egypt/117AD/2011 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI340103	A/chicken/Egypt/111766V/2011 (A/H5N1) segment 4 (HA)	2881.9	0.000000e+00	1614/1641 (98%)
EPI348156	A/chicken/Egypt11VIR4453-269/2010 (A/H5N1) segment 4 (HA)	2880.0	0.000000e+00	1613/1641 (98%)
EPI373020	A/Egypt/N08932/2010 (A/H5N1) segment 4 (HA)	2878.2	0.000000e+00	1613/1641 (98%)
EPI348151	A/chicken/Egypt/11VIR4453-270/2010 (A/H5N1) segment 4 (HA)	2878.2	0.000000e+00	1613/1641 (98%)
EPI603900	A/turkey/Egypt/1419FAOS/2014 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1613/1641 (98%)
EPI597817	A/chicken/Egypt/1460S/2014 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1614/1642 (98%)
EPI597814	A/chicken/Egypt/1429S/2014 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1613/1641 (98%)
EPI597811	A/duck/Egypt/141AI/2014 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1614/1642 (98%)
EPI573334	A/chicken/Egypt/141/2014 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1614/1642 (98%)
EPI460395	A/chicken/Egypt/1094/2010 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1613/1641 (98%)
EPI373016	A/Egypt/N10954/2010 (A/H5N1) segment 4 (HA)	2876.4	0.000000e+00	1613/1641 (98%)

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