{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/cellular-reproduction-number-generation-time","title":"Cellular reproduction number, generation time and growth rate differ between human- and avian-adapted influenza strains","arxiv_id":"1903.08054","date":"2019-03-19","proceeding":null,"authors":[],"abstract":"When analysing in vitro data, growth kinetics of influenza strains are often\ncompared by computing their growth rates, which are sometimes used as proxies\nfor fitness. However, analogous to mechanistic epidemic models, the growth rate\ncan be defined as a function of two parameters: the basic reproduction number\n(the average number of cells each infected cell infects) and the mean\ngeneration time (the average length of a replication cycle). Using a\nmechanistic model, previously published data from experiments in human lung\ncells, and newly generated data, we compared estimates of all three parameters\nfor six influenza A strains. Using previously published data, we found that the\ntwo human-adapted strains (pre-2009 seasonal H1N1, and pandemic H1N1) had a\nlower basic reproduction number, shorter mean generation time and slower growth\nrate than the two avian-adapted strains (H5N1 and H7N9). These same differences\nwere then observed in data from new experiments where two strains were\nengineered to have different internal proteins (pandemic H1N1 and H5N1), but\nthe same surface proteins (PR8), confirming our initial findings and implying\nthat differences between strains were driven by internal genes. Also, the model\npredicted that the human-adapted strains underwent more replication cycles than\nthe avian-adapted strains by the time of peak viral load, potentially\naccumulating mutations more quickly. These results suggest that the in vitro\nreproduction number, generation time and growth rate differ between\nhuman-adapted and avian-adapted influenza strains, and thus could be used to\nassess host adaptation of internal proteins to inform pandemic risk assessment.","url_abs":"http://arxiv.org/abs/1903.08054v1","url_pdf":"http://arxiv.org/pdf/1903.08054v1.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"cellular-reproduction-number-generation-time","repo_url":"https://github.com/ada-w-yan/cellularfluparams","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}