Reassortments among Avian Influenza A(H5N1) Viruses Circulating in Indonesia, 2015-2016.

Emerging Infectious Diseases
Desniwaty Karo-KaroGuus Koch

Abstract

Highly pathogenic avian influenza (HPAI) A(H5N1) viruses have been circulating since 2003 in Indonesia, with major impacts on poultry health, severe economic losses, and 168 fatal laboratory-confirmed human cases. We performed phylogenetic analysis on 39 full-genome H5N1 virus samples collected during outbreaks among poultry in 2015-2016 in West Java and compared them with recently published sequences from Indonesia. Phylogenetic analysis revealed that the hemagglutinin gene of all samples belonged to 2 genetic groups in clade 2.3.2.1c. We also observed these groups for the neuraminidase, nucleoprotein, polymerase, and polymerase basic 1 genes. Matrix, nonstructural protein, and polymerase basic 2 genes of some HPAI were most closely related to clade 2.1.3 instead of clade 2.3.2.1c, and a polymerase basic 2 gene was most closely related to Eurasian low pathogenicity avian influenza. Our results detected a total of 13 reassortment types among HPAI in Indonesia, mostly in backyard chickens in Indramayu.

References

Jan 29, 2002·Archives of Virology·E HoffmannD R Perez
Jul 16, 2004·Journal of Virology·Chang-Won LeeDavid L Suarez
Jun 12, 2010·Transboundary and Emerging Diseases·E BasunoN Ilham
Aug 5, 2011·Preventive Veterinary Medicine·Leo LothXiangming Xiao
Jan 21, 2012·Influenza and Other Respiratory Viruses·R Burke SquiresRichard H Scheuermann
Dec 6, 2012·Biology Open·U Chandimal de SilvaTeruo Yasunaga
May 1, 2013·Emerging Infectious Diseases·Trevon L FullerThomas B Smith
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Oct 29, 2013·Biochimica Et Biophysica Acta·Caroline M MairChristian Sieben
May 13, 2015·Influenza and Other Respiratory Viruses·Gavin J D SmithUNKNOWN World Health Organization/World Organisation for Animal Health/Food and Agriculture Organization (WHO/OIE/FAO) H5 Evolution
May 14, 2016·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Chakradhar ToshDiwakar D Kulkarni
Dec 6, 2016·Cell Host & Microbe·Yuhai BiGeorge Fu Gao
Nov 8, 2017·PLoS Pathogens·Mara Villa, Michael Lässig

❮ Previous
Next ❯

Citations

Nov 27, 2019·Transboundary and Emerging Diseases· LestariAlongkorn Amonsin
Aug 25, 2020·Heliyon·I Made ArtikaAgeng Wiyatno
Feb 2, 2020·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·I Made ArtikaChairin Nisa Ma'roef
Feb 28, 2021·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Xiao LiWeixin Jia
Aug 10, 2021·Frontiers in Public Health·Beatriz Delgado-HernándezPastor Alfonso

❮ Previous
Next ❯

Methods Mentioned

BETA
reverse transcription PCR
PCRs
PCR

Software Mentioned

GISAID
MUSCLE
Lasergene SeqMan Pro
BLAST

Related Concepts