Influenza passaging annotations: what they tell us and why we should listen

Influenza passaging annotations: what they tell us and why we should listen
Title:
Influenza passaging annotations: what they tell us and why we should listen
Other Titles:
Virus Evolution
DOI:
10.1093/ve/vez016
Publication Date:
30 June 2019
Citation:
Cory D DuPai, Claire D McWhite, Catherine B Smith, Rebecca Garten, Sebastian Maurer-Stroh, Claus O Wilke, Influenza passaging annotations: what they tell us and why we should listen, Virus Evolution, Volume 5, Issue 1, January 2019, vez016, https://doi.org/10.1093/ve/vez016
Abstract:
Influenza databases now contain over 100,000 worldwide sequence records for strains influenza A(H3N2) and A(H1N1). Although these data facilitate global research efforts and vaccine development practices, they also represent a stumbling block for researchers because of their confusing and heterogeneous annotation. Unclear passaging annotations are particularly concerning given the recent work highlighting the presence and risk of false adaptation signals introduced by cell passaging of viral isolates. With this in mind, we aim to provide a concise outline of why viruses are passaged, a clear overview of passaging annotation nomenclature currently in use, and suggestions for a standardized nomenclature going forward. Our hope is that this summary will empower researchers and clinicians alike to more easily understand a virus sample’s passage history when analyzing influenza sequences.
License type:
http://creativecommons.org/licenses/by-nc/4.0/
Funding Info:
Supported by NIH (grant R01 GM088344) to C.O.W. and S.M.S. was supported by the A*STAR HEIDI program (grant number H1699f0013).
Description:
The findings and conclusions in this report are those of the authors and do not necessarily represent the views of the Centers for Disease Control and Prevention or the Agency for Toxic Substances and Disease Registry.
ISSN:
2057-1577
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