Evidence map›Paper›PMID 37640694›Full record

ArticleNature communications2023

Accelerated evolution of SARS-CoV-2 in free-ranging white-tailed deer.

Dillon S McBride, Sofya K Garushyants, John Franks, Andrew F Magee, Steven H Overend, Devra Huey, Amanda M Williams, Seth A Faith, Ahmed Kandeil, Sanja Trifkovic and 19 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
57citing papers in PubMed, 1 pooled it
13.2field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

57 citing papers in PubMed, 1 synthesis or guideline pooled it, 68 citations in OpenAlex.

  1. Pooled it
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  9. Distinct evolutionary patterns of endemic and emerging parvoviruses and the origin of a new pandemic virus.Proceedings of the National Academy of Sciences of the United States of America · 2026
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

29 authors at 7 institutions in 3 countries.

Dillon S McBride *Department of Veterinary Preventive Medicine, The Ohio State University College of Veterinary Medicine, Columbus, OH, USA.ORCID http://orcid.org/0000-0002-7408-3959
Sofya K Garushyants *Division of Intramural Research, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.
John Franks *Department of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA.
Andrew F MageeDepartment of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA.
Steven H OverendDepartment of Veterinary Preventive Medicine, The Ohio State University College of Veterinary Medicine, Columbus, OH, USA.
Devra HueyDepartment of Veterinary Preventive Medicine, The Ohio State University College of Veterinary Medicine, Columbus, OH, USA.
Amanda M WilliamsInfectious Diseases Institute, The Ohio State University, Columbus, OH, USA.
Seth A FaithInfectious Diseases Institute, The Ohio State University, Columbus, OH, USA.
Ahmed KandeilDepartment of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA.ORCID http://orcid.org/0000-0003-3253-6961
Sanja TrifkovicDepartment of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA.ORCID http://orcid.org/0000-0002-0710-9514
Lance MillerDepartment of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA.
Trushar JeevanDepartment of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA.
Anami PatelPathAI Diagnostics, Memphis, TN, USA.
Jacqueline M NoltingDepartment of Veterinary Preventive Medicine, The Ohio State University College of Veterinary Medicine, Columbus, OH, USA.ORCID http://orcid.org/0000-0002-2705-4805
Michael J TonkovichOhio Department of Natural Resources, Division of Wildlife, Athens, OH, USA.
J Tyler GendersU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, Columbus, OH, USA.
Andrew J MontoneyU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, Columbus, OH, USA.
Kevin KasnyikColumbus and Franklin County Metro Parks, Westerville, OH, USA.
Timothy J LinderU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, National Wildlife Disease Program, Fort Collins, CO, USA.ORCID http://orcid.org/0000-0003-3440-0574
Sarah N BevinsU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, National Wildlife Disease Program, Fort Collins, CO, USA.ORCID http://orcid.org/0000-0002-4999-6836
Julianna B LenochU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, National Wildlife Disease Program, Fort Collins, CO, USA.
Jeffrey C ChandlerU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, Wildlife Disease Diagnostic Laboratory, Fort Collins, CO, USA.
Thomas J DeLibertoU.S. Department of Agriculture, Animal and Plant Health Inspection Service, Wildlife Services, Fort Collins, CO, USA.ORCID http://orcid.org/0000-0003-1115-1472
Eugene V KooninDivision of Intramural Research, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.ORCID http://orcid.org/0000-0003-3943-8299
Marc A SuchardDepartment of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0001-9818-479X
Philippe LemeyDepartment of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium.ORCID http://orcid.org/0000-0003-2826-5353
Richard J WebbyDepartment of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA.ORCID http://orcid.org/0000-0002-4397-7132
Martha I NelsonDivision of Intramural Research, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA. nelsonma@mail.nih.gov.ORCID http://orcid.org/0000-0003-4814-0179
Andrew S BowmanDepartment of Veterinary Preventive Medicine, The Ohio State University College of Veterinary Medicine, Columbus, OH, USA. bowman.214@osu.edu.ORCID http://orcid.org/0000-0002-0738-8453
Animal and Plant Health Inspection Service · USThe Ohio State University · USSt. Jude Children's Research Hospital · USNational Institutes of Health · USUniversity of California, Los Angeles · USOhio Department of Natural Resources · USRega Institute for Medical Research · BE

Funding

NIAID Centers of Excellence for Influenza Research and Response: Universal Influenza Vaccine Research Activities75N93021C00016 · NIAID · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI WEBBY, RICHARD · 2021 to 2025
$91.4M
NIAID Centers of Excellence for Influenza Research and Response: Universal Influenza Vaccine Research Activities75N93021C00014 · NIAID · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI GARCIA-SASTRE, ADOLFO · 2021 to 2025
$62.6M
Fast and flexible Bayesian phylogenetics via modern machine learningR01AI162611 · NIAID · FRED HUTCHINSON CANCER RESEARCH CENTER · PI MATSEN, FREDERICK ALBERT · 2021 to 2025
$3.8M
Statistical Innovation to Integrate Sequences and Phenotypes for Scalable Phylodynamic InferenceR01AI153044 · NIAID · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Marc A. Suchard · 2021 to 2026
$2.4M
NIAID NIH HHS 75N93021C00014NIAID NIH HHS 75N93021C00016NIAID NIH HHS R01 AI153044NIAID NIH HHS R01 AI162611
6 · The paper itself

Abstract

The zoonotic origin of the COVID-19 pandemic virus highlights the need to fill the vast gaps in our knowledge of SARS-CoV-2 ecology and evolution in non-human hosts. Here, we detected that SARS-CoV-2 was introduced from humans into white-tailed deer more than 30 times in Ohio, USA during November 2021-March 2022. Subsequently, deer-to-deer transmission persisted for 2-8 months, disseminating across hundreds of kilometers. Newly developed Bayesian phylogenetic methods quantified how SARS-CoV-2 evolution is not only three-times faster in white-tailed deer compared to the rate observed in humans but also driven by different mutational biases and selection pressures. The long-term effect of this accelerated evolutionary rate remains to be seen as no critical phenotypic changes were observed in our animal models using white-tailed deer origin viruses. Still, SARS-CoV-2 has transmitted in white-tailed deer populations for a relatively short duration, and the risk of future changes may have serious consequences for humans and livestock.

Indexed as

COVID-19DeerAnimalsBayes TheoremHumansPandemicsPhylogenySARS-CoV-2

Identifiers

PMID37640694
PMCPMC10462754
OpenAlexW4386223763

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.