SARS-CoV-2 entry into and evolution within a skilled nursing facility

[1]  T. Lam,et al.  Within-host genetic diversity of SARS-CoV-2 lineages in unvaccinated and vaccinated individuals , 2023, Nature Communications.

[2]  Lily A. Chylek,et al.  Multimodal surveillance of SARS-CoV-2 at a university enables development of a robust outbreak response framework , 2022, Med.

[3]  M. Kochańczyk,et al.  The Spread of SARS-CoV-2 Variant Omicron with a Doubling Time of 2.0–3.3 Days Can Be Explained by Immune Evasion , 2022, Viruses.

[4]  G. Ebel,et al.  Early Adoption of Longitudinal Surveillance for SARS-CoV-2 among Staff in Long-Term Care Facilities: Prevalence, Virologic and Sequence Analysis , 2021, Microbiology spectrum.

[5]  A. Galvani,et al.  Asymptomatic SARS-CoV-2 infection: A systematic review and meta-analysis , 2021, Proceedings of the National Academy of Sciences.

[6]  S. Bhatt,et al.  Purifying Selection Determines the Short-Term Time Dependency of Evolutionary Rates in SARS-CoV-2 and pH1N1 Influenza , 2021, medRxiv.

[7]  R. Romero-Ortuño,et al.  Nursing homes during the COVID-19 pandemic: a scoping review of challenges and responses , 2021, European Geriatric Medicine.

[8]  J. Castilla,et al.  Risk Factors of Infection, Hospitalization and Death from SARS-CoV-2: A Population-Based Cohort Study , 2021, Journal of clinical medicine.

[9]  Roger E. Thomas Reducing Morbidity and Mortality Rates from COVID-19, Influenza and Pneumococcal Illness in Nursing Homes and Long-Term Care Facilities by Vaccination and Comprehensive Infection Control Interventions , 2021, Geriatrics.

[10]  G. Ebel,et al.  Durable Antibody Responses in Staff at Two Long-Term Care Facilities, during and Post SARS-CoV-2 Outbreaks , 2021, bioRxiv.

[11]  J. Todd,et al.  SARS-CoV-2 within-host diversity and transmission , 2021, Science.

[12]  M. Biggerstaff,et al.  SARS-CoV-2 Transmission From People Without COVID-19 Symptoms , 2021, JAMA network open.

[13]  P. Webster COVID-19 highlights Canada's care home crisis , 2021, The Lancet.

[14]  William L. Hamilton,et al.  Patterns of within-host genetic diversity in SARS-CoV-2 , 2020, bioRxiv.

[15]  David Manheim,et al.  Exploring Risks of Human Challenge Trials For COVID‐19 , 2020, medRxiv.

[16]  Michael T. Wolfinger,et al.  Genomic epidemiology of superspreading events in Austria reveals mutational dynamics and transmission properties of SARS-CoV-2 , 2020, Science Translational Medicine.

[17]  A. Pain,et al.  Host-directed editing of the SARS-CoV-2 genome , 2020, Biochemical and Biophysical Research Communications.

[18]  C. Kelleher,et al.  A rapid systematic review of measures to protect older people in long-term care facilities from COVID-19 , 2020, BMJ Open.

[19]  L. Martinsson,et al.  Dying From COVID-19: Loneliness, End-of-Life Discussions, and Support for Patients and Their Families in Nursing Homes and Hospitals. A National Register Study , 2020, Journal of Pain and Symptom Management.

[20]  Charlene H. Chu,et al.  Competing crises: COVID‐19 countermeasures and social isolation among older adults in long‐term care , 2020, Journal of advanced nursing.

[21]  Junhua Li,et al.  Population Bottlenecks and Intra-host Evolution During Human-to-Human Transmission of SARS-CoV-2 , 2020, bioRxiv.

[22]  D. Sinclair,et al.  Why does COVID-19 disproportionately affect older people? , 2020, Aging.

[23]  Y. Fofanov,et al.  Measuring Alphavirus Fidelity Using Non-Infectious Virus Particles , 2020, Viruses.

[24]  Sebastian Funk,et al.  Extended data: Estimating the overdispersion in COVID-19 transmission using outbreak sizes outside China , 2020 .

[25]  Kevin W Graepel,et al.  Fitness Barriers Limit Reversion of a Proofreading-Deficient Coronavirus , 2019, Journal of Virology.

[26]  Xiaoyan Lu,et al.  Severe Respiratory Illness Outbreak Associated with Human Coronavirus NL63 in a Long-Term Care Facility , 2018, Emerging infectious diseases.

[27]  E. Mendelson,et al.  Human Coronavirus Infections in Israel: Epidemiology, Clinical Symptoms and Summer Seasonality of HCoV-HKU1 , 2018, Viruses.

[28]  Karthik Gangavarapu,et al.  An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar , 2018, Genome Biology.

[29]  A. Gorbalenya,et al.  A planarian nidovirus expands the limits of RNA genome size , 2018, bioRxiv.

[30]  Kevin W Graepel,et al.  Proofreading-Deficient Coronaviruses Adapt for Increased Fitness over Long-Term Passage without Reversion of Exoribonuclease-Inactivating Mutations , 2017, mBio.

[31]  M. Delgado-Rodríguez,et al.  Systematic review and meta-analysis. , 2017, Medicina intensiva.

[32]  Richard A Neher,et al.  TreeTime: Maximum-likelihood phylodynamic analysis , 2017, bioRxiv.

[33]  J. Jensen,et al.  On the importance of skewed offspring distributions and background selection in virus population genetics , 2016, Heredity.

[34]  M. Vignuzzi,et al.  Homology-Based Identification of a Mutation in the Coronavirus RNA-Dependent RNA Polymerase That Confers Resistance to Multiple Mutagens , 2016, Journal of Virology.

[35]  C. López-Causapé,et al.  [Clinico-epidemiological characteristics of acute respiratory infections caused by coronavirus OC43, NL63 and 229E]. , 2014, Revista clinica espanola.

[36]  M. Denison,et al.  Thinking Outside the Triangle: Replication Fidelity of the Largest RNA Viruses. , 2014, Annual review of virology.

[37]  J. Derisi,et al.  Ball Python Nidovirus: a Candidate Etiologic Agent for Severe Respiratory Disease in Python regius , 2014, mBio.

[38]  M. Vignuzzi,et al.  Coronaviruses Lacking Exoribonuclease Activity Are Susceptible to Lethal Mutagenesis: Evidence for Proofreading and Potential Therapeutics , 2013, PLoS pathogens.

[39]  T. Hertz,et al.  Constrained evolution drives limited influenza diversity , 2012, BMC Biology.

[40]  T. Nabeshima,et al.  Discovery of the First Insect Nidovirus, a Missing Evolutionary Link in the Emergence of the Largest RNA Virus Genomes , 2011, PLoS pathogens.

[41]  H. Ellerbrok,et al.  An Insect Nidovirus Emerging from a Primary Tropical Rainforest , 2011, mBio.

[42]  R. Sanjuán,et al.  Viral Mutation Rates , 2010, Journal of Virology.

[43]  Timothy B. Stockwell,et al.  Infidelity of SARS-CoV Nsp14-Exonuclease Mutant Virus Replication Is Revealed by Complete Genome Sequencing , 2010, PLoS pathogens.

[44]  Richard Durbin,et al.  Fast and accurate long-read alignment with Burrows–Wheeler transform , 2010, Bioinform..

[45]  F. Rovida,et al.  Genetic variability of human coronavirus OC43‐, 229E‐, and NL63‐like strains and their association with lower respiratory tract infections of hospitalized infants and immunocompromised patients , 2006, Journal of medical virology.

[46]  J. Ziebuhr,et al.  Nidovirales: Evolving the largest RNA virus genome , 2006, Virus Research.

[47]  P. Sagulenko Maximum likelihood phylodynamic analysis , 2017 .

[48]  J. Wardle,et al.  Sleep and nighttime energy consumption in early childhood: a population‐based cohort study , 2015, Pediatric obesity.