Whole genome analysis of human H3N2 influenza virus outbreak in a poultry farm
10.3760/cma.j.issn.1003-9279.2018.04.007
- VernacularTitle: 引起某禽类养殖场疫情的H3N2亚型流感病毒全基因组进化分析
- Author:
Chunxue XU
1
,
2
;
Wei LIU
3
;
Boyan JIAO
3
;
Zhen WANG
4
;
Ti LIU
5
;
Lin SUN
5
;
Qinfeng ZHANG
1
;
Xianjun WANG
5
Author Information
1. Taishan Medical Univeristy, Taishan 271000, China
2. Shandong Provincial Center for Disease Control and Prevention, Academy of Preventive Medicine of Shandong University, Shandong Provincial Key Laboratory of Infectious Disease Control and Prevention, Jinan 250014, China
3. Jining Center for Disease Control and Prevention, Jining 272000, China
4. Yanzhou District Center for Disease Control and Prevention of Jining City, Yanzhou 272100, China
5. Shandong Provincial Center for Disease Control and Prevention, Academy of Preventive Medicine of Shandong University, Shandong Provincial Key Laboratory of Infectious Disease Control and Prevention, Jinan 250014, China
- Publication Type:Journal Article
- Keywords:
Influenza A;
Outbreak;
Gene sequence;
Antigenic analysis
- From:
Chinese Journal of Experimental and Clinical Virology
2018;32(4):367-372
- CountryChina
- Language:Chinese
-
Abstract:
Objective:To understand the epidemiological characteristics of outbreaks and analyze the genetic characteristics of the whole genome of influenza H3N2 virus among avian-human-swine, and to elaborate the source of influenza virus.
Methods:The epidemic information was collected using the case investigation, the pharyngeal swab samples from influenza-like-illness cases were detected by real-time PCR and virus isolation. The phylogeny and molecular features of whole-genome were analyzed with EditSeq and MEGA 5.05 software.
Results:The prevalence rate of this outbreak was 34.88%, 15 samples of throat swabs were collected, the positive rate of nucleic acid detection was 73.33%, 5 strains of seasonal influenza A (H3N2) influenza viruses were isolated. The phylogenetic analysis showed the eight gene segments of the isolated influenza viruses belonged to the same cluster with 2015-2016 influenza vaccine strain A/Switzerland/9715293/2013(H3N2), and no recombination was found. Compared with vaccine strain, 14 variant amino acids of protein of HA were identified, and 8 of them were located in antigenic sites. All strains were sensitive to neuraminidase inhibitors while they showed resistance to blockers of M2 ion channel. The glycosylation sites analysis showed that two new glycosylation sites NRT151-153 and NAT245-247were added.
Conclusions:The outbreak was caused by seasonal influenza A (H3N2) virus which had an antigenic drift and no genetic avian-human-swine recombination was found.
