Abstract

During the last decade, endemic swine H1 influenza A viruses (IAV) from six different genetic clades of the hemagglutinin gene caused zoonotic infections in humans. The majority of zoonotic events with swine IAV were restricted to a single case with no subsequent transmission. However, repeated introduction of human-seasonal H1N1, continual reassortment between endemic swine IAV, and subsequent drift in the swine host resulted in highly diverse swine IAV with human-origin genes that may become a risk to the human population. To prepare for the potential of a future swine-origin IAV pandemic in humans, public health laboratories selected candidate vaccine viruses (CVV) for use as vaccine seed strains. To assess the pandemic risk of contemporary US swine H1N1 or H1N2 strains, we quantified the genetic diversity of swine H1 HA genes, and identified representative strains from each circulating clade. We then characterized the representative swine IAV against human seasonal vaccine and CVV strains using ferret antisera in hemagglutination inhibition assays (HI). HI assays revealed that 1A.3.3.2 (pdm) and 1B.2.1 (delta-2) demonstrated strong cross reactivity to human seasonal vaccines or CVVs. However, swine IAV from three clades that represent more than 50% of the detected swine IAVs in the USA showed significant reduction in cross-reactivity compared to the closest CVV virus: 1A.1.1.3 (alpha-deletion), 1A.3.3.3-clade 3 (gamma), and 1B.2.2.1 (delta-1a). Representative viruses from these three clades were further characterized in a pig-to-ferret transmission model and shown to exhibit variable transmission efficiency. Our data prioritize specific genotypes of swine H1N1 and H1N2 to further investigate in the risk they pose to the human population. ImportanceInfluenza A virus (IAV) is endemic in both humans and pigs and there is occasional bidirectional transmission of viruses. The process of interspecies transmission introduces novel viruses that increases the viral diversity in each host, impacting viral ecology and challenging control efforts through vaccine programs. Swine-origin IAVs have the potential to cause human pandemics, and pandemic preparation efforts include the identification and generation of candidate vaccine viruses (CVV) derived from epidemiologically relevant swine IAV surface proteins. The CVVs are derived from swine IAV detected and isolated in humans, and are updated infrequently; consequently the efficacy of these vaccines against contemporary swine IAV is unclear given rapid turnover and change of diversity. In this report we perform a risk assessment of contemporary swine H1 IAVs, determine whether current CVVs cross-react, and illustrate how swine-origin IAV replicate, transmit, and cause disease in a swine-to-ferret model system. In doing so, we identify the swine IAV that have lost cross-reactivity to current pandemic preparedness vaccines and demonstrate the utility of swine-to-ferret transmission experiments to further inform risk assessment.