Serologic and genetic characterization analyses of a highly pathogenic influenza virus (H5N1) isolated from an infected man in Shenzhen
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Cheng X (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Cheng%20X%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Wu C (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Wu%20C%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), He J (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22He%20J%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Lv X (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Lv%20X%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Zhang S (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Zhang%20S%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Zhou L (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Zhou%20L%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Wang J (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Wang%20J%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Deng R (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Deng%20R%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Long Q (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Long%20Q%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Wang X (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Wang%20X%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus), Cheng J (http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Search&Term=%22Cheng%20J%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus).
Centers for Disease Control and Prevention, Shenzhen, Guangdong, China.
Highly pathogenic avian influenza (HPAI) H5N1 virus caused a wave of outbreaks in China during 2005-2006, resulting in a total of 20 cases of human infection in 14 provinces of China. On June16, 2006, a case of H5N1 human infection was confirmed in Shenzhen. The virus isolated from the patient, A/Guangdong/2/06, was characterized genetically and the relationship between the tracheal virus load and the antibody titer of the infected man was analyzed. Serological analysis confirmed that the patient's neutralizating antibodies had been generated 2 weeks after the onset of symptoms. The patient's serum antibodies could efficiently neutralize A/Guandong/2/06 infectivity in vitro. Phylogenetic analysis showed that the H5N1 virus of Shenzhen belonged to subclade 2.3.4, which contained viruses that were mainly responsible for the outbreaks in domestic poultry and in the cases of human infection in southern China. Homology and molecular characterization analysis revealed that all the segments of Shenzhen H5N1 virus still belonged to avian segments. Several specific amino acid residue mutations were detected. J. Med. Virol. 80:1058-1064, 2008. (c) 2008 Wiley-Liss, Inc.
http://www.ncbi.nlm.nih.gov/pubmed/18428128?ordinalpos=1&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsP anel.Pubmed_RVDocSum
human genomes
1 >A/Beijing/01/2003(H5N1) 2 >A/Shenzhen/406H/2006(H5N1) 3 >A/human/China/GD02/2006(H5N1) 4 >A/China/GD01/2006(H5N1) 5 >A/Jiangsu/1/2007(H5N1) 6 >A/Jiangsu/2/2007(H5N1)
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1 >A/Beijing/01/2003(H5N1) 1: 0, 0, 0, 0, 0, 0, 0, 0, - 2: 59, 55, 96, 73, 17, 56, 11, 23, - 3: 59, 55, 96, 76, 19, 57, 11, 23, - 4:180, 43, 95, 73, 31, 44, 11, 18, - 5:179, 55,100, 80, 38, 49, 12, 26, - 6:179, 55,100, 80, 38, 49, 12, 27,
2 >A/Shenzhen/406H/2006(H5N1) 1: 59, 55, 96, 73, 17, 56, 11, 23, - 2: 0, 0, 0, 0, 0, 0, 0, 0, - 3: 0, 0, 0, 0, 1, 0, 0, 0, - 4:194, 28, 22, 15, 28, 57, 7, 12, - 5:196, 42, 33, 27, 36, 42, 9, 23, - 6:196, 42, 33, 27, 36, 42, 9, 24,
3 >A/human/China/GD02/2006(H5N1) 1: 59, 55, 96, 76, 19, 57, 11, 23, - 2: 0, 0, 0, 0, 1, 0, 0, 0, - 3: 0, 0, 0, 0, 0, 0, 0, 0, - 4:194, 28, 22, 15, 29, 58, 7, 12, - 5:196, 42, 33, 28, 37, 43, 9, 23, - 6:196, 42, 33, 28, 37, 43, 9, 24,
4 >A/China/GD01/2006(H5N1) 1:180, 43, 95, 73, 31, 44, 11, 18, - 2:194, 28, 22, 15, 28, 57, 7, 12, - 3:194, 28, 22, 15, 29, 58, 7, 12, - 4: 0, 0, 0, 0, 0, 0, 0, 0, - 5: 20, 28, 31, 25, 28, 44, 4, 11, - 6: 20, 28, 31, 25, 28, 44, 4, 12,
5 >A/Jiangsu/1/2007(H5N1) 1:179, 55,100, 80, 38, 49, 12, 26, - 2:196, 42, 33, 27, 36, 42, 9, 23, - 3:196, 42, 33, 28, 37, 43, 9, 23, - 4: 20, 28, 31, 25, 28, 44, 4, 11, - 5: 0, 0, 0, 0, 0, 0, 0, 0, - 6: 0, 0, 0, 0, 0, 0, 0, 1,
6 >A/Jiangsu/2/2007(H5N1) 1:179, 55,100, 80, 38, 49, 12, 27, - 2:196, 42, 33, 27, 36, 42, 9, 24, - 3:196, 42, 33, 28, 37, 43, 9, 24, - 4: 20, 28, 31, 25, 28, 44, 4, 12, - 5: 0, 0, 0, 0, 0, 0, 0, 1, - 6: 0, 0, 0, 0, 0, 0, 0, 0,
here the differences in percent (factor ??)
so you can spot the reassortments.
Reassortment in H5N1 is common in China,
but rare outside China
all the 8 numbers in one block should be similar - else expect reassortment
Well, segment 7 could be an exception, there is sometimes particularly
little evolution in it.
1 >A/Beijing/01/2003(H5N1) 1: 0, 0, 0, 0, 0, 0, 0, 0, - 2: 26, 24, 44, 44, 11, 43, 11, 27, - 3: 25, 24, 44, 44, 12, 42, 11, 27, - 4: 76, 18, 42, 41, 19, 31, 10, 20, - 5: 78, 24, 46, 46, 25, 36, 12, 31, - 6: 78, 24, 46, 46, 25, 36, 12, 32,
2 >A/Shenzhen/406H/2006(H5N1) 1: 26, 24, 44, 44, 11, 43, 11, 27, - 2: 0, 0, 0, 0, 0, 0, 0, 0, - 3: 0, 0, 0, 0, 0, 0, 0, 0, - 4: 86, 12, 10, 9, 18, 44, 7, 14, - 5: 87, 18, 15, 16, 24, 32, 9, 27, - 6: 87, 18, 15, 16, 24, 32, 9, 29,
3 >A/human/China/GD02/2006(H5N1) 1: 25, 24, 44, 44, 12, 42, 11, 27, - 2: 0, 0, 0, 0, 0, 0, 0, 0, - 3: 0, 0, 0, 0, 0, 0, 0, 0, - 4: 85, 12, 10, 8, 19, 42, 7, 14, - 5: 85, 18, 15, 16, 24, 31, 9, 27, - 6: 85, 18, 15, 16, 24, 31, 9, 29,
4 >A/China/GD01/2006(H5N1) 1: 76, 18, 42, 41, 19, 31, 10, 20, - 2: 86, 12, 10, 9, 18, 44, 7, 14, - 3: 85, 12, 10, 8, 19, 42, 7, 14, - 4: 0, 0, 0, 0, 0, 0, 0, 0, - 5: 8, 12, 14, 14, 18, 32, 4, 13, - 6: 8, 12, 14, 14, 18, 32, 4, 14,
5 >A/Jiangsu/1/2007(H5N1) 1: 78, 24, 46, 46, 25, 36, 12, 31, - 2: 87, 18, 15, 16, 24, 32, 9, 27, - 3: 85, 18, 15, 16, 24, 31, 9, 27, - 4: 8, 12, 14, 14, 18, 32, 4, 13, - 5: 0, 0, 0, 0, 0, 0, 0, 0, - 6: 0, 0, 0, 0, 0, 0, 0, 1,
6 >A/Jiangsu/2/2007(H5N1) 1: 78, 24, 46, 46, 25, 36, 12, 32, - 2: 87, 18, 15, 16, 24, 32, 9, 29, - 3: 85, 18, 15, 16, 24, 31, 9, 29, - 4: 8, 12, 14, 14, 18, 32, 4, 14, - 5: 0, 0, 0, 0, 0, 0, 0, 1, - 6: 0, 0, 0, 0, 0, 0, 0, 0,
so gd02 seems to be same person as Shenzhen/406 - only one difference in the genome
http://www.blackwell-synergy.com/doi/full/10.1111/j.1750-2659.2007.00032.x?cookieSet=1
> Influenza A (H5N1) virus was isolated in Madin-Darby canine-kidney cells from a tracheal
> aspirate specimen obtained on June 12, 2006 using previously described methods
Molecular and phylogenetic analysis of H5N1 virus from two humans
in Guangdong
Yes, I believe you are correct. A/China/GD01/2006 (H5N1) is from a 32M from Guangzhou City, Guangdong Province, with onset on Feb 22, 2006. This individual died on March 2, 2006. http://www.who.int/csr/don/2006_03_06a/en/index.html
This article refers to the 31M, surname Jiang, from Shenzhen City, Guangdong Province, with onset on June 3, 2006, A/China/GD01/2006 (H5N1). http://www.who.int/csr/don/2006_06_16/en/index.html
Molecular and phylogenetic analysis of H5N1 virus from two humans
in Guangdong
here is gd01:
http://www.springerlink.com/content/b6533450117v17vt/
> in March 2006...gd01...
> 36-year-old man was diagnosed with pneumonia. and was hospitalized.
> Despite active treatment, the .....
I have a 31M, surname Jiang, from Shenzhen City, Guangdong Province, with onset on June 3, 2006. http://www.who.int/csr/don/2006_06_16/en/index.html
I have sample A/China/GD01/2006(H5N1) associated with this individual. Is this the same individual referenced in this article, (A/China/GD02/2006(H5N1))?
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