The emergence, genomic diversity and global spread of SARS-CoV-2

J Li, S Lai, GF Gao, W Shi - Nature, 2021‏ - nature.com
Since the first cases of COVID-19 were documented in Wuhan, China in 2019, the world has
witnessed a devastating global pandemic, with more than 238 million cases, nearly 5 million …

Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic

SW Attwood, SC Hill, DM Aanensen… - Nature Reviews …, 2022‏ - nature.com
Determining the transmissibility, prevalence and patterns of movement of severe acute
respiratory syndrome coronavirus 2 (SARS-CoV-2) infections is central to our understanding …

Acute SARS-CoV-2 infections harbor limited within-host diversity and transmit via tight transmission bottlenecks

KM Braun, GK Moreno, C Wagner, MA Accola… - PLoS …, 2021‏ - journals.plos.org
The emergence of divergent SARS-CoV-2 lineages has raised concern that novel variants
eliciting immune escape or the ability to displace circulating lineages could emerge within …

The methodologies to assess the effectiveness of non-pharmaceutical interventions during COVID-19: a systematic review

N Banholzer, A Lison, D Özcelik, T Stadler… - European Journal of …, 2022‏ - Springer
Non-pharmaceutical interventions, such as school closures and stay-at-home orders, have
been implemented around the world to control the spread of SARS-CoV-2. Their …

Viral sequencing to investigate sources of SARS-CoV-2 infection in US healthcare personnel

KM Braun, GK Moreno, A Buys… - Clinical Infectious …, 2021‏ - academic.oup.com
Background Healthcare personnel (HCP) are at increased risk of infection with severe acute
respiratory syndrome coronavirus 2 (SARS-CoV-2). We posit that current infection control …

Integrating contact tracing data to enhance outbreak phylodynamic inference: a deep learning approach

R **e, DC Adam, S Hu, BJ Cowling… - Molecular Biology …, 2024‏ - academic.oup.com
Phylodynamics is central to understanding infectious disease dynamics through the
integration of genomic and epidemiological data. Despite advancements, including the …

[HTML][HTML] Dynamics of SARS-CoV-2 Alpha (B. 1.1. 7) variant spread: The wastewater surveillance approach

A Carcereny, D Garcia-Pedemonte… - Environmental …, 2022‏ - Elsevier
Wastewater based epidemiology (WBE) offers an overview of the SARS-CoV-2 variants
circulating among the population thereby serving as a proper surveillance method. The …

Metagenomic sequencing detects human respiratory and enteric viruses in air samples collected from congregate settings

NR Minor, MD Ramuta, MR Stauss, OE Harwood… - Scientific reports, 2023‏ - nature.com
Innovative methods for evaluating virus risk and spread, independent of test-seeking
behavior, are needed to improve routine public health surveillance, outbreak response, and …

SARS-CoV-2 genomic surveillance reveals little spread from a large university campus to the surrounding community

AL Valesano, WJ Fitzsimmons, CN Blair… - Open Forum …, 2021‏ - academic.oup.com
Abstract Background Coronavirus disease 2019 (COVID-19) has had high incidence rates at
institutions of higher education (IHE) in the United States, but the transmission dynamics in …

Influenza viruses and coronaviruses: Knowns, unknowns, and common research challenges

O Terrier, M Si-Tahar, M Ducatez, C Chevalier… - PLoS …, 2021‏ - journals.plos.org
The development of safe and effective vaccines in a record time after the emergence of the
Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) is a remarkable …