Influenza in people and pigs - August 10, 2015

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Influenza

Influenza in people and pigs - August 10, 2015

CDC Info

• H5 viruses in the United States
• Influenza (Flu)
• Are you at high risk for serious illness from flu? 
• The flu: What to do if you get sick
• Influenza virus genome sequencing and genetic characterization
• CDC paper:Emergence of highly pathogenic avian influenza A(H5N1) virus PB1-F2 variants and their virulence in BALB/c mice.Kamal RP et al. J Virology, March 2015
• CDC paper:A pilot study of host genetic variants associated with influenza-associated deaths among children and young adults.Ferdinands J et al.Emerging Inf Dis 2011

This little piggy went to market-but perhaps should have stayed home.
Webby R et al. Clin. Infect. Dis. 2015 Jul 29.

Live animal markets in Minnesota: a potential source for emergence of novel influenza A viruses and interspecies transmission.
Choi MJ et al. Clin. Infect. Dis. 2015 Jul 29.

Influenza A viruses of human origin in swine, Brazil.
Nelson MI et al. Emerging Infect. Dis. 2015 Aug (8) 1339-47

Genetic surveillance study finds flu viruses at two US swine markets, GenomeWeb, Jul 31 [by free subscription only]

Molecular epidemiology and evolution of influenza viruses circulating within European swine between 2009 and 2013.
Watson SJ et al. J. Virol. 2015 Jul 22.

The repeated introduction of the H3N2 virus from human to swine during 1979-1993 in China.
Zhu W et al. Infect. Genet. Evol. 2015 Jul 20-4

Global migration of influenza A viruses in swine.
Nelson MI et al. Nat Commun 2015 6696

Molecular epidemiology study of swine influenza virus revealing a reassorted virus H1N1 in swine farms in Cuba.
Pérez LJ et al. Prev. Vet. Med. 2015 May 1. (3-4) 172-8

Influenza: Insights from Genomics - April 30, 2015

CDC information: H5 viruses in the United States

Rapid emergence of highly pathogenic avian influenza subtypes from a subtype H5N1 hemagglutinin variant.
de Vries E et al. Emerging Infect. Dis. 2015 May (5) 842-6

CDC paper: Emergence of highly pathogenic avian influenza A(H5N1) virus PB1-F2 variants and their virulence in BALB/c mice.
Kamal RP et al. J Virology, March 2015

Integrated sentinel surveillance linking genetic, antigenic and epidemiologic monitoring of influenza vaccine-virus relatedness and effectiveness, 2013-14 season.
Skowronski DM et al. J. Infect. Dis. 2015 Mar 17.

Complete genome sequences of influenza A/H1N1 strains isolated from patients during the 2013-2014 epidemic season in Finland.
Jalovaara P et al. Genome Announc 2015 (2)

SnapShot: Evolution of human influenza A viruses.
Wendel I et al. Cell Host Microbe 2015 Mar 11. (3) 416-416.e1

Analysis of the genetic diversity of influenza A viruses using next-generation DNA sequencing.
Van den Hoecke S et al. BMC Genomics 2015 Feb 14. (1) 79

Variations in genome-wide RNAi screens: lessons from influenza research.
Chou YC et al. J Clin Bioinforma 2015 2

Characterization of a large cluster of influenza A(H1N1)pdm09 virus cross-resistant to oseltamivir and peramivir during the 2013/2014 influenza season in Japan.
Takashita E et al. Antimicrob. Agents Chemother. 2015 Feb 17.

Clinical utility comparison of two benchtop deep sequencing instruments for rapid diagnosis of newly emergent influenza infections.
Ren X et al. Clin. Microbiol. Infect. 2014 Oct 29.

A host susceptibility gene, DR1, facilitates influenza A virus replication by suppressing host innate immunity and enhancing viral RNA replication.
Hsu SF et al. J. Virol. 2015 Apr 1. (7) 3671-82

Bad gene cripples flu defenses, by Mitch Leslie, Science Magazine, Mar 26

A single gene may determine why some people get so sick with the flu, National Public Radio, Mar 26

Under the influence: Is influenza a genetic disease? The Economist, Mar 28

Influenza: Public Health Information and Recent Genomic Insights - January 15, 2015

CDC information: Are you at high risk for serious illness from flu?  Some people are at high risk for serious flu complications, including people with certain birth defects and genetic health conditions

Mutations associated with severity of the pandemic influenza A(H1N1)pdm09 in humans: A systematic review and meta-analysis of epidemiological evidence.
Goka EA, et al. Arch Virol. 2014 Dec;159(12):3167-83.

Disease severity is associated with differential gene expression at the early and late phases of infection in nonhuman primates infected with different H5N1 highly pathogenic avian influenza viruses. 
Muramoto Y, et al. J Virol. 2014 Aug;88(16):8981-97.

Influenza: Public Health Information and Recent Genomic Insights - January 8, 2015

CDC information: The flu season in the United States has begun and about half the country is experiencing high levels of flu activity

CDC information: The flu: What to do if you get sick

CDC information: Influenza virus genome sequencing and genetic characterization

This season’s flu activity has reached the epidemic threshold, the CDC says, Washington Post, Dec 30, 2014

CDC: Flu at epidemic level; 15 children dead this season, by Eve Bower, for CNN, Dec 31, 2014

Get your flu shot anyway, despite genetic "drift", Kroll D. Forbes.com, Dec 31, 2014

Predicting host tropism of influenza A virus proteins using random forest.
Eng CL, et al. BMC Med Genomics. 2014 Dec 8;7 Suppl 3:S1

Global avian influenza surveillance in wild birds: a strategy to capture viral diversity Machalaba C, et al. Emerg Infect Dis, April 2015.

Reverse zoonosis of influenza to swine: new perspectives on the human–animal interface Nelson MI, Vincent AL. Trends Microbiol, Jan 4, 2015.

Evolution of the H9N2 influenza genotype that facilitated the genesis of the novel H7N9 virus Pu J, et al. Proc Natl Acad Sci USA, Dec 29, 2014.

Contemporary avian influenza A virus subtype H1, H6, H7, H10, and H15 hemagglutinin genes encode a mammalian virulence factor similar to the 1918 pandemic virus H1 hemagglutinin
Qi L, et al. mBio 2014; 5(6): e02116-14.

Influenza: Genomics and Public Health - November 6, 2014

CDC information: Flu season is around the corner

Improving pandemic influenza risk assessment.
Russell CA, et al. Elife. 2014 Oct 16;3.

Detection of avian influenza A/H7N9/2013 virus by real-time reverse transcription-polymerase chain reaction. 
Kang X, et al. J Virol Methods. 2014 Sep;206:140-

Identification of Influenza A/H7N9 virus infection-related human genes based on shortest paths in a virus-human protein interaction network.
Zhang N, et al. Biomed Res Int. 2014;2014:239462.

Influenza A immunomics and public health omics: the dynamic pathway interplay in host response to H1N1 infection.
Dimitrakopoulou K, et al. OMICS. 2014 Mar;18(3):167-83

Identification and chronological analysis of genomic signatures in influenza A viruses.
Hu YJ,et al. PLoS One. 2014 Jan 8;9(1):e84638.

Influenza: Genomics and Severity - January 30, 2014

CDC information: Are you at high risk for serious illness from flu? People with certain genetic conditions are at increased risk of severe illness from flu

Role of polymorphisms in host immune genes in determining the severity of respiratory illness caused by pandemic H1N1 influenza. 
Kenyan W, et al. Public Health Genomics, Mar 2013

CDC paper: A pilot study of host genetic variants associated with influenza-associated deaths among children and young adults. 
Ferdinands J et al. Emerging Inf Dis 2011

Full genome of influenza A (H7N9) virus derived by direct sequencing without culture. 
X Ren et al. Emerging Infectious Diseases, November 2013

NIH-Influenza Genome Sequencing Project