Dominant subtype switch in avian influenza viruses during 2016-2019 in China

Nature Communications
Yuhai BiWeifeng Shi

Abstract

We have surveyed avian influenza virus (AIV) genomes from live poultry markets within China since 2014. Here we present a total of 16,091 samples that were collected from May 2016 to February 2019 in 23 provinces and municipalities in China. We identify 2048 AIV-positive samples and perform next generation sequencing. AIV-positive rates (12.73%) from samples had decreased substantially since 2016, compared to that during 2014-2016 (26.90%). Additionally, H9N2 has replaced H5N6 and H7N9 as the dominant AIV subtype in both chickens and ducks. Notably, novel reassortants and variants continually emerged and disseminated in avian populations, including H7N3, H9N9, H9N6 and H5N6 variants. Importantly, almost all of the H9 AIVs and many H7N9 and H6N2 strains prefer human-type receptors, posing an increased risk for human infections. In summary, our nation-wide surveillance highlights substantial changes in the circulation of AIVs since 2016, which greatly impacts the prevention and control of AIVs in China and worldwide.

References

Jan 28, 2004·Proceedings of the National Academy of Sciences of the United States of America·Ron A M FouchierAlbert D M E Osterhaus
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Jan 5, 2005·Vaccine·Enrique T Muñoz, Michael W Deem
Jan 25, 2005·Emerging Infectious Diseases·S Aleina TweedAnnie Mak
Oct 19, 2007·Journal of Virology·Yiming BaoDavid Lipman
May 20, 2009·Bioinformatics·Heng Li, Richard Durbin
Jun 6, 2009·Bioinformatics·Ruiqiang LiJun Wang
Jun 10, 2009·Bioinformatics·Heng LiUNKNOWN 1000 Genome Project Data Processing Subgroup
Aug 1, 1943·The Journal of Experimental Medicine·G K Hirst
Mar 4, 2011·Proceedings of the National Academy of Sciences of the United States of America·Yipeng SunJinhua Liu
Jun 20, 2012·Emerging Infectious Diseases·Belinda OstrowskyTimothy M Uyeki
Apr 13, 2013·The New England Journal of Medicine·Rongbao GaoYuelong Shu
Jun 12, 2013·Cell·Kannan TharakaramanRam Sasisekharan
Jan 28, 2014·The Lancet. Respiratory Medicine·Sung-Hsi WeiFeng-Yee Chang
Feb 5, 2014·Trends in Biotechnology·Chengjun LiHualan Chen
Apr 20, 2014·Science·George F Gao
Oct 24, 2014·Emerging Infectious Diseases·Peng WuHongjie Yu
Nov 12, 2014·Protein & Cell·Yipeng Sun, Jinhua Liu
Dec 31, 2014·Proceedings of the National Academy of Sciences of the United States of America·Juan PuRobert G Webster
Jan 22, 2015·The Journal of General Virology·Yuhai BiQuanjiao Chen
Oct 16, 2016·Science·UNKNOWN Global Consortium for H5N8 and Related Influenza Viruses
Dec 6, 2016·Cell Host & Microbe·Yuhai BiGeorge Fu Gao
Apr 7, 2017·Euro Surveillance : Bulletin Européen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin·Yuelong Shu, John McCauley
Apr 10, 2017·The Journal of Infection·Fuchun ZhangGeorge F Gao
Jul 12, 2017·EMBO Molecular Medicine·Robert P de VriesJames C Paulson
Sep 2, 2017·Journal of Veterinary Science·Dong-Hun LeeDavid E Swayne
Jan 3, 2018·Science China. Life Sciences·Yuhai BiGeorge F Gao

❮ Previous
Next ❯

Citations

May 22, 2021·Science·Weifeng Shi, George F Gao
Jul 1, 2021·Transboundary and Emerging Diseases·Jiaqi CuiGuohua Deng
Jul 31, 2021·Frontiers in Immunology·Jidang ChenHinh Ly
Aug 17, 2021·Emerging Microbes & Infections·Juan LiYuhai Bi

❮ Previous
Next ❯

Methods Mentioned

BETA
glycosylation
nucleic acid purification
PCR

Software Mentioned

SOAP2
ArcGIS
SAMtools
MEGA
Muscle
Bioedit
INFLUENZA
RAxML

Related Concepts