Rhiza Labs FluTracker Forum

Recently released sequences from Thailand, India, Australia, and New Zealand have G605C, which encodes S188T, which is adjacent to RBD position 190.

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S188T travel log

EPI279083 A/CHRISTCHURCH/15/2010 (A/H1N1 swl) segment 4 (HA) 52.8 0.00000
EPI279064 A/VICTORIA/512/2010 (A/H1N1 swl) segment 4 (HA) 52.8 0.00000
EPI278873 A/India/8910/2010 (A/H1N1 swl) segment 4 (HA) 52.8 0.00000
EPI278871 A/India/5107/2010 (A/H1N1 swl) segment 4 (HA) 52.8 0.00000
EPI255118 A/swine/Thailand/CU-RA75/2010 (A/H1N1 swl) segment 4 (HA) 52.8 0.00000
gb|HQ207569.1| Influenza A virus (A/Thailand/34-9937/2010(H1N... 28.2 1.2
gb|HQ207566.1| Influenza A virus (A/Thailand/34-9912/2010(H1N... 28.2 1.2
gb|CY062316.1| Influenza A virus (A/swine/Thailand/CU-RA75/20... 28.2 1.2

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The samples from Thailand were collected July 14, 2010.

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The samples in India were collected May 8 and June 28, 2010.

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The sample in Australia was collected July 30, 2010.

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The sample in New Zealand (South Island) was collected July 12, 2010.

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LOCUS HQ207566 420 bp cRNA linear VRL 08-SEP-2010
DEFINITION Influenza A virus (A/Thailand/34-9912/2010(H1N1)) segment 4
hemagglutinin (HA) gene, partial cds.
ACCESSION HQ207566
VERSION HQ207566.1 GI:305861108
DBLINK Project: 37813
KEYWORDS .
SOURCE Influenza A virus (A/Thailand/34-9912/2010(H1N1))
ORGANISM Influenza A virus (A/Thailand/34-9912/2010(H1N1))
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 420)
AUTHORS Chantratita,W., Sukasem,C., Srichunrusami,C., Janchompoo,P.,
Keeratiwongsa,Y. and Pasomsub,E.
TITLE Epidemiology of the HA gene of Influenza H1N1 in Thailand
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 420)
AUTHORS Chantratita,W., Sukasem,C., Srichunrusami,C., Janchompoo,P.,
Keeratiwongsa,Y. and Pasomsub,E.
TITLE Direct Submission
JOURNAL Submitted (01-SEP-2010) Clinical Pathology, Faculty of Medicine,
Virology and Molecular Microbiology Unit, Ramathibodi Hospital,
Mahidol University, 270, Rama IV Road, Tungprayathai, Rajtavee,
Bangkok 10400, Thailand
COMMENT Swine influenza A (H1N1) virus isolated during human swine flu
outbreak of 2009.
FEATURES Location/Qualifiers
source 1..420
/organism="Influenza A virus
(A/Thailand/34-9912/2010(H1N1))"
/mol_type="viral cRNA"
/strain="A/Thailand/34-9912/2010"
/serotype="H1N1"
/host="Homo sapiens"
/db_xref="taxon:881906"
/segment="4"
/country="Thailand"
/collection_date="14-Jul-2010"
/note="lineage: swl"
gene <1..>420
/gene="HA"
CDS <1..>420
/gene="HA"
/codon_start=1
/product="hemagglutinin"
/protein_id="ADM72794.1"
/db_xref="GI:305861109"
/translation="FERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYKNLIWLVKK
GNSYPKLSKSYINDKGKEVLVLWGIHHPSTTADQQSLYQNADTYVFVGTSRYSKKFKP
EIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVV"
ORIGIN
1 tttgaaaggt ttgagatatt ccccaagaca agttcatggc ccaatcatga ctcgaacaaa
61 ggtgtaacgg cagcatgtcc tcatgctgga gcaaaaagct tctacaaaaa tttaatatgg
121 ctagttaaaa aaggaaattc atacccaaag ctcagcaaat cctacattaa tgataaaggg
181 aaagaagtcc tcgtgctatg gggcattcac catccatcta ctactgctga ccaacaaagt
241 ctctatcaga atgcagatac atatgttttt gtggggacat caagatacag caagaagttc
301 aagccggaaa tagcaataag acccaaagtg agggatcaag aagggagaat gaactattac
361 tggacactag tagagccggg agacaaaata acattcgaag caactggaaa tctagtggta

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LOCUS HQ207569 414 bp cRNA linear VRL 08-SEP-2010
DEFINITION Influenza A virus (A/Thailand/34-9937/2010(H1N1)) segment 4
hemagglutinin (HA) gene, partial cds.
ACCESSION HQ207569
VERSION HQ207569.1 GI:305861114
DBLINK Project: 37813
KEYWORDS .
SOURCE Influenza A virus (A/Thailand/34-9937/2010(H1N1))
ORGANISM Influenza A virus (A/Thailand/34-9937/2010(H1N1))
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 414)
AUTHORS Chantratita,W., Sukasem,C., Srichunrusami,C., Janchompoo,P.,
Keeratiwongsa,Y. and Pasomsub,E.
TITLE Epidemiology of the HA gene of Influenza H1N1 in Thailand
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 414)
AUTHORS Chantratita,W., Sukasem,C., Srichunrusami,C., Janchompoo,P.,
Keeratiwongsa,Y. and Pasomsub,E.
TITLE Direct Submission
JOURNAL Submitted (01-SEP-2010) Clinical Pathology, Faculty of Medicine,
Virology and Molecular Microbiology Unit, Ramathibodi Hospital,
Mahidol University, 270, Rama IV Road, Tungprayathai, Rajtavee,
Bangkok 10400, Thailand
COMMENT Swine influenza A (H1N1) virus isolated during human swine flu
outbreak of 2009.
FEATURES Location/Qualifiers
source 1..414
/organism="Influenza A virus
(A/Thailand/34-9937/2010(H1N1))"
/mol_type="viral cRNA"
/strain="A/Thailand/34-9937/2010"
/serotype="H1N1"
/host="Homo sapiens"
/db_xref="taxon:881909"
/segment="4"
/country="Thailand"
/collection_date="14-Jul-2010"
/note="lineage: swl"
gene <1..>414
/gene="HA"
CDS <1..>414
/gene="HA"
/codon_start=1
/product="hemagglutinin"
/protein_id="ADM72797.1"
/db_xref="GI:305861115"
/translation="RFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYKNLIWLVKKGN
SYQKLSKSYINDKGKEVLVLWGIHHPSTTADQQSLYQNADAYVFVGTSRYSKKFKPEI
AIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVV"
ORIGIN
1 aggtttgaga tattccccaa gacaagttca tggcccaatc atgactcgaa caaaggtgta
61 acggcagcat gtcctcatgc tggagcaaaa agcttctaca aaaatttaat atggctagtt
121 aaaaaaggaa attcatacca aaagctcagc aaatcctaca ttaatgataa agggaaagaa
181 gtcctcgtgc tatggggcat tcaccatcca tctactactg ctgaccaaca aagtctctat
241 cagaatgcag atgcatatgt ttttgtgggg acatcaagat acagcaagaa gttcaagccg
301 gaaatagcaa taagacccaa agtgagggat caagaaggga gaatgaacta ttactggaca
361 ctagtagagc cgggagacaa aataacattc gaagcaactg gaaatctagt ggta

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The Thai swine sample was collected in January, 2010.

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LOCUS CY062316 1692 bp cRNA linear VRL 28-APR-2010
DEFINITION Influenza A virus (A/swine/Thailand/CU-RA75/2010(H1N1)) segment 4
sequence.
ACCESSION CY062316
VERSION CY062316.1 GI:295345653
DBLINK Project: 37813
KEYWORDS .
SOURCE Influenza A virus (A/swine/Thailand/CU-RA75/2010(H1N1))
ORGANISM Influenza A virus (A/swine/Thailand/CU-RA75/2010(H1N1))
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 1692)
AUTHORS Amonsin,A.
TITLE unpublished
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 1692)
AUTHORS Amonsin,A.
TITLE Direct Submission
JOURNAL Submitted (28-APR-2010) Department of Veterinary Public Health,
Chulalongkorn University, Henri Dunant road, Patumwan, BANGKOK
10330, Thailand
FEATURES Location/Qualifiers
source 1..1692
/organism="Influenza A virus
(A/swine/Thailand/CU-RA75/2010(H1N1))"
/mol_type="viral cRNA"
/strain="A/swine/Thailand/CU-RA75/2010"
/serotype="H1N1"
/isolation_source="nasal swab"
/host="swine; gender M; age 6 W"
/db_xref="taxon:759895"
/segment="4"
/country="Thailand"
/collection_date="Jan-2010"
gene <1..>1692
/gene="HA"
CDS <1..>1692
/gene="HA"
/function="receptor binding and fusion protein"
/codon_start=1
/product="hemagglutinin"
/protein_id="ADG01968.1"
/db_xref="GI:295345654"
/translation="AILVVLLYTFATANADTLCIGYHANNSTDTVDTVLEKNVTVTHS
VNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETSSSDN
GTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFY
KNLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTTADQQSLYQNADAYVFVGT
SRYSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERDA
GSGIIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLR
NVPSIQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDEITN
KVNSVIEKMNTQFTAVGKEFNHLEKRIENLNKKIDDGFLDIWTYNAELLVLLENERTL
DYHDSNVKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEA
KLNREEIDGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSLQCRICI"
sig_peptide <1..45
/gene="HA"
mat_peptide 46..1026
/gene="HA"
/product="HA1"
mat_peptide 1027..>1692
/gene="HA"
/product="HA2"
misc_feature 1..1692
/db_xref="IRD:CEIRS-UMN028-CURA75.4"
ORIGIN
1 gcaatactag tagttctgct atatacattt gcaaccgcaa atgcagacac attatgtata
61 ggttatcatg cgaacaattc aacagacact gtagacacag tactagaaaa gaatgtaaca
121 gtaacacact ctgttaacct tctagaagac aagcataacg ggaaactatg caaactaaga
181 ggggtagccc cattgcattt gggtaaatgt aacattgctg gctggatcct gggaaatcca
241 gagtgtgaat cactctccac agcaagctca tggtcctaca ttgtggaaac atctagttca
301 gacaatggaa cgtgttaccc aggagatttc atcgattatg aggagctaag agagcaattg
361 agctcagtgt catcatttga aaggtttgag atattcccca agacaagttc atggcccaat
421 catgactcga acaaaggtgt aacggcagca tgtcctcatg ctggagcaaa aagcttctac
481 aaaaatttaa tatggctagt taaaaaagga aattcatacc caaagctcag caaatcctac
541 attaatgata aagggaaaga agtcctcgtg ctatggggca ttcaccatcc atctactact
601 gctgaccaac aaagtctcta tcagaatgca gatgcatatg tttttgtggg gacatcaaga
661 tacagcaaga agttcaagcc ggaaatagca ataagaccca aagtgaggga tcaagaaggg
721 agaatgaact attactggac actagtagag ccgggagaca aaataacatt cgaagcaact
781 ggaaatctag tggtaccgag atatgcattc gcaatggaaa gagatgctgg atctggtatt
841 atcatttcag atacaccagt ccacgattgc aatacaactt gtcagacacc caagggtgct
901 ataaacacca gcctcccatt tcagaatata catccgatca caattggaaa atgtccaaaa
961 tatgtaaaaa gcacaaaatt gagactggcc acaggattga ggaatgtccc gtctattcaa
1021 tctagaggcc tatttggggc cattgccggt ttcattgaag gggggtggac agggatggta
1081 gatgggtggt acggttatca ccatcaaaat gagcaggggt caggatatgc agccgacctg
1141 aagagcacac agaatgccat tgacgagatt actaacaaag taaattctgt tattgaaaag
1201 atgaatacac agttcacagc agtaggtaaa gagttcaacc acctggaaaa aagaatagag
1261 aatttaaata aaaaaattga tgatggtttc ctggacattt ggacttacaa tgccgaactg
1321 ttggttctat tggaaaatga aagaactttg gactaccacg attcaaatgt gaagaactta
1381 tatgaaaagg taagaagcca gttaaaaaac aatgccaagg aaattggaaa cggctgcttt
1441 gaattttacc acaaatgcga taacacgtgc atggaaagtg tcaaaaacgg gacttatgac
1501 tacccaaaat actcagagga agcaaaatta aacagagaag aaatagatgg ggtaaagctg
1561 gaatcaacaa ggatttacca gattttggcg atctattcaa ctgtcgccag ttcattggta
1621 ctggtagtct ccctgggggc aatcagtttc tggatgtgct ctaatgggtc tctacagtgt
1681 agaatatgta tt

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