The 2022 RSV surge was driven by multiple viral lineages.

Journal

medRxiv : the preprint server for health sciences
Titre abrégé: medRxiv
Pays: United States
ID NLM: 101767986

Informations de publication

Date de publication:
05 Jan 2023
Historique:
entrez: 19 1 2023
pubmed: 20 1 2023
medline: 20 1 2023
Statut: epublish

Résumé

The US experienced an early and severe respiratory syncytial virus (RSV) surge in autumn 2022. Despite the pressure this has put on hospitals and care centers, the factors promoting the surge in cases are unknown. To investigate whether viral characteristics contributed to the extent or severity of the surge, we sequenced 105 RSV-positive specimens from symptomatic patients diagnosed with RSV who presented to the Massachusetts General Hospital (MGH) and its outpatient practices in the Greater Boston Area. Genomic analysis of the resulting 77 genomes (54 with >80% coverage, and 23 with >5% coverage) demonstrated that the surge was driven by multiple lineages of RSV-A (91%; 70/77) and RSV-B (9%; 7/77). Phylogenetic analysis of all US RSV-A revealed 12 clades, 4 of which contained Massachusetts and Washington genomes. These clades individually had times to most recent common ancestor (tMRCA) between 2014 and 2017, and together had a tMRCA of 2009, suggesting that they emerged well before the COVID-19 pandemic. Similarly, the RSV-B genomes had a tMRCA between 2016 and 2019. We found that the RSV-A and RSV-B genomes in our sample did not differ statistically from the estimated clock rate of the larger phylogenetic tree (10.6 and 12.4 substitutions per year, respectively). In summary, the polyphyletic nature of viral genomes sequenced in the US during the autumn 2022 surge is inconsistent with the emergence of a single, highly transmissible causal RSV lineage.

Identifiants

DOI: 10.1101/2023.01.04.23284195 PMID: 36656774 PMC: PMC9844019
pubmed: 36656774
doi: 10.1101/2023.01.04.23284195
pmc: PMC9844019
pii:
doi:

Types de publication

Preprint

Langues

eng

Commentaires et corrections

Type : UpdateIn

Références

Nature. 2021 Nov;599(7883):114-119
pubmed: 34488225
Nature. 2021 Dec;600(7889):506-511
pubmed: 34649268
Nature. 2022 Mar;603(7902):679-686
pubmed: 35042229

Auteurs

Gordon Adams (G)

Massachusetts General Hospital, Boston, MA, 02142.
Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Gage K Moreno (GK)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Brittany A Petros (BA)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Division of Health Sciences and Technology, Harvard Medical School and Massachusetts Institute of Technology, Cambridge, MA, USA.
Harvard/Massachusetts Institute of Technology, MD-PhD Program, Boston, MA, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA, USA.

Rockib Uddin (R)

Massachusetts General Hospital, Boston, MA, 02142.
Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Zoe Levine (Z)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Harvard/Massachusetts Institute of Technology, MD-PhD Program, Boston, MA, USA.
Harvard Program in Biological and Biomedical Sciences, Harvard Medical School, Boston, MA 02115, USA.

Ben Kotzen (B)

Massachusetts General Hospital, Boston, MA, 02142.
Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Katelyn Messer (K)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Sabrina T Dobbins (ST)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Katherine C DeRuff (KC)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Christine Loreth (C)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Taylor Brock-Fisher (T)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Stephen F Schaffner (SF)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Harvard T.H. Chan School of Public Health, Boston, MA, 02115, USA.
Brigham and Women's Hospital, Boston, MA, 02115.

Sushma Chaluvadi (S)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Sanjat Kanjilal (S)

Brigham and Women's Hospital, Boston, MA, 02115.

Jeremy Luban (J)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Program in Molecular Medicine, University of Massachusetts Chan Medical School, Worcester, MA 01655, USA.
Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139, USA.

Al Ozonoff (A)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Harvard Medical School, Boston, MA, 02115, USA.

Daniel Park (D)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Sarah Turbett (S)

Massachusetts General Hospital, Boston, MA, 02142.
Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Katherine J Siddle (KJ)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Bronwyn L MacInnis (BL)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Pardis Sabeti (P)

Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
Harvard T.H. Chan School of Public Health, Boston, MA, 02115, USA.
Brigham and Women's Hospital, Boston, MA, 02115.
Howard Hughes Medical Institute, Chevy Chase, MD, 20815, USA.

Jacob Lemieux (J)

Massachusetts General Hospital, Boston, MA, 02142.
Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.

Classifications MeSH