1. Phylodynamic Study of the Conserved RNA Structure Encompassing the Hemagglutinin Cleavage Site Encoding Region of H5 and H7 Low Pathogenic Avian Influenza Viruses
- Author
-
Romain Volmer, Claire Hoede, Gabriel Dupré, Pierre Bessière, Thomas Figueroa, Stéphane Bertagnoli, Christine Gaspin, Mariette F. Ducatez, Interactions hôtes-agents pathogènes [Toulouse] (IHAP), Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Ecole Nationale Vétérinaire de Toulouse (ENVT), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), This work was funded by a grant from the Agence Nationale de la Recherche (ANR-16-CE35-0005) to Romain Volmer. Pierre Bessière was supported by a Ph.D. scholarship funded by the Region Occitanie (France) and by the 'Chaire de Biosécurité' at the 'École Nationale Vétérinaire de Toulouse' (French Ministry of Agriculture). Gabriel Dupré is supported by Ph.D. scholarship fundedby the French Ministry of Research and Education., ANR-16-CE35-0005,RuleOfThree,Emergence de virus Influenza aviaires hautement pathogènes dans le contexte de la triade hôte-microbiote-virus(2016), Hoede, Claire, Emergence de virus Influenza aviaires hautement pathogènes dans le contexte de la triade hôte-microbiote-virus - - RuleOfThree2016 - ANR-16-CE35-0005 - AAPG2016 - VALID, Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRAE), and Université Toulouse III - Paul Sabatier (UT3)
- Subjects
Hemagglutinin (influenza) ,Cleavage (embryo) ,medicine.disease_cause ,Microbiology ,03 medical and health sciences ,Virology ,evolution ,medicine ,[SDV.BID.EVO] Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE] ,Nucleic acid structure ,RNA structure ,030304 developmental biology ,[SDV.MP.VIR] Life Sciences [q-bio]/Microbiology and Parasitology/Virology ,0303 health sciences ,biology ,030306 microbiology ,[SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE] ,highly pathogenic avian influenza virus ,virus diseases ,Low pathogenic ,Influenza A virus subtype H5N1 ,3. Good health ,[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology ,biology.protein ,influenza - Abstract
Highly pathogenic avian influenza viruses (HPAIVs) evolve from low pathogenic avian influenza viruses (LPAIVs) of the H5 and H7 subtypes. This evolution is characterized by the acquisition of a multi-basic cleavage site (MBCS) motif in the hemagglutinin (HA) that leads to an extended viral tropism and severe disease in poultry. One key unanswered question is whether the risk of transition to HPAIVs is similar for all LPAIVs H5 or H7 strains, or whether specific determinants in the HA sequence of some H5 or H7 LPAIV strains correlate with a higher risk of transition to HPAIVs. Here, we determined if specific features of the conserved RNA stem-loop located at the HA cleavage site-encoding region could be detected along the LPAIV to HPAIV evolutionary pathway. Analysis of the thermodynamic stability of the predicted RNA structures showed no specific patterns common to HA sequences leading to HPAIVs and distinct from those remaining LPAIVs. However, RNA structure clustering analysis revealed that most of the American lineage ancestors leading to H7 emergences via recombination shared the same viral RNA (vRNA) structure topology at the HA1/HA2 boundary region. Our study thus identified predicted secondary RNA structures present in the HA of H7 viruses, which could promote genetic recombination and acquisition of a multibasic cleavage site motif (MBCS).
- Published
- 2021
- Full Text
- View/download PDF