Influenza A Virus–Host Specificity: An Ongoing Cross-Talk Between Viral and Host Factors

Zhang, Miaomiao; Liu, Mingbin; Bai, Shimeng; Zhao, Chen; Li, Zejun; Xu, Jianqing; Zhang, Xiaoyan

doi:10.3389/fmicb.2021.777885

Cited by 11 publications

(7 citation statements)

References 77 publications

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“…Influenza A viruses (IAVs) are capable of causing disease in a variety of hosts including humans, equines, canines, felines, avians, sea mammals, bats, and swine [1][2][3][4][5][6]. Although influenza viruses were first isolated in 1933, accounts of probable occurrences were described as early as 412 BC, with an influenza-like disease reported by Hippocrates [7,8].…”

Section: Introductionmentioning

confidence: 99%

A Review on Equine Influenza from a Human Influenza Perspective

Whitlock

Murcia

Newton

2022

Viruses

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Influenza A viruses (IAVs) have a main natural reservoir in wild birds. IAVs are highly contagious, continually evolve, and have a wide host range that includes various mammalian species including horses, pigs, and humans. Furthering our understanding of host-pathogen interactions and cross-species transmissions is therefore essential. This review focuses on what is known regarding equine influenza virus (EIV) virology, pathogenesis, immune responses, clinical aspects, epidemiology (including factors contributing to local, national, and international transmission), surveillance, and preventive measures such as vaccines. We compare EIV and human influenza viruses and discuss parallels that can be drawn between them. We highlight differences in evolutionary rates between EIV and human IAVs, their impact on antigenic drift, and vaccine strain updates. We also describe the approaches used for the control of equine influenza (EI), which originated from those used in the human field, including surveillance networks and virological analysis methods. Finally, as vaccination in both species remains the cornerstone of disease mitigation, vaccine technologies and vaccination strategies against influenza in horses and humans are compared and discussed.

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Section: Introductionmentioning

confidence: 99%

A Review on Equine Influenza from a Human Influenza Perspective

Whitlock

Murcia

Newton

2022

Viruses

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“…We detected only canonical, monobasic low-pathogenicity cleavage motifs, corroborating the conclusions drawn above from the best-matching reference sequences and phylogenetic context of recovered H5 fragments. While we focused on HA cleavage sites, this same concept could be applied to other phenotypic markers of virulence and host range ( 32 – 35 ).…”

Section: Discussionmentioning

confidence: 99%

Targeted genomic sequencing of avian influenza viruses in wetland sediment from wild bird habitats

Kuchinski,

Coombe,

Mansour

et al. 2024

Appl Environ Microbiol

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Diverse influenza A viruses (IAVs) circulate in wild birds, including highly pathogenic strains that infect poultry and humans. Consequently, surveillance of IAVs in wild birds is a cornerstone of agricultural biosecurity and pandemic preparedness. Surveillance is traditionally done by testing wild birds directly, but obtaining these specimens is labor intensive, detection rates can be low, and sampling is often biased toward certain avian species. As a result, local incursions of dangerous IAVs are rarely detected before outbreaks begin. Testing environmental specimens from wild bird habitats has been proposed as an alternative surveillance strategy. These specimens are thought to contain diverse IAVs deposited by a broad range of avian hosts, including species that are not typically sampled by surveillance programs. To enable this surveillance strategy, we developed a targeted genomic sequencing method for characterizing IAVs in these challenging environmental specimens. It combines custom hybridization probes, unique molecular index-based library construction, and purpose-built bioinformatic tools, allowing IAV genomic material to be enriched and analyzed with single-fragment resolution. We demonstrated our method on 90 sediment specimens from wetlands around Vancouver, Canada. We recovered 2,312 IAV genome fragments originating from all eight IAV genome segments. Eleven hemagglutinin subtypes and nine neuraminidase subtypes were detected, including H5, the current global surveillance priority. Our results demonstrate that targeted genomic sequencing of environmental specimens from wild bird habitats could become a valuable complement to avian influenza surveillance programs. IMPORTANCE In this study, we developed genome sequencing tools for characterizing avian influenza viruses in sediment from wild bird habitats. These tools enable an environment-based approach to avian influenza surveillance. This could improve early detection of dangerous strains in local wild birds, allowing poultry producers to better protect their flocks and prevent human exposures to potential pandemic threats. Furthermore, we purposefully developed these methods to contend with viral genomic material that is diluted, fragmented, incomplete, and derived from multiple strains and hosts. These challenges are common to many environmental specimens, making these methods broadly applicable for genomic pathogen surveillance in diverse contexts.

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“…We focused on H5 cleavage sites and corroborated the presence of low-pathogenicity H5 strains by detecting only canonical monobasic cleavage site motifs (Table 1). This same concept could be applied to other phenotypic markers of virulence and host range, however [35][36][37][38] .…”

Section: Discussionmentioning

confidence: 99%

Targeted genomic sequencing of avian influenza viruses in wetlands sediment from wild bird habitats

Kuchinski

Coombe

Mansour

et al. 2023

Preprint

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Diverse influenza A viruses (IAVs) circulate in wild birds, including dangerous strains that infect poultry and humans. Consequently, surveillance of IAVs in wild birds is a cornerstone of outbreak prevention and pandemic preparedness. Surveillance is traditionally done by testing birds, but dangerous IAVs are rarely detected before outbreaks begin. Testing environmental specimens from wild bird habitats has been proposed as an alternative. These specimens are thought to contain diverse IAVs deposited by broad range of avian hosts, including species that are not typically sampled by surveillance programs. We developed a targeted genomic sequencing method for recovering IAV genome fragments from these challenging environmental specimens, including purpose-built bioinformatic analysis tools for counting, subtyping, and characterizing each distinct fragment recovered. We demonstrated our method on 90 sediment specimens from wetlands around Vancouver, Canada. We recovered 2,058 IAV genome fragments originating from all 8 IAV genome segments. 11 haemagglutinin subtypes and 9 neuraminidase subtypes were detected, including H5, the current global surveillance priority. Recovered fragments originated predominantly from IAV lineages that circulate in North American resident wild birds. Our results demonstrate that targeted genomic sequencing of environmental specimens from wild bird habitats can be a valuable complement to avian influenza surveillance programs.

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Influenza A Virus–Host Specificity: An Ongoing Cross-Talk Between Viral and Host Factors

Cited by 11 publications

References 77 publications

A Review on Equine Influenza from a Human Influenza Perspective

A Review on Equine Influenza from a Human Influenza Perspective

Targeted genomic sequencing of avian influenza viruses in wetland sediment from wild bird habitats

Targeted genomic sequencing of avian influenza viruses in wetlands sediment from wild bird habitats

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