Coming to America: Genomic surveillance and how B.1.1.7 arrived in the US

Qiu, Xueting; Hanage, William P.; Taylor, Bradford P.

doi:10.1016/j.cell.2021.04.031

Cited by 2 publications

(2 citation statements)

References 8 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Thus, for some time 20C appeared well on its way to becoming the dominant variant in North America, and may have been at a competitive advantage compared to other early descendants of A1, but has since lost ground to the well-documented Greek-letter variants (Alpha, Beta, Delta, etc.) since then [34][35][36] (S4 Fig) . Because the Colorado A1 and A2 descendants (other than the Colorado Springs variant) are not highly clustered, the higher frequency of A2 in both CU and USAFA samples may indicate that the A2 variant was even more successful in Colorado than in the rest of North America.…”

Section: Plos Onementioning

confidence: 96%

Phylodynamics of a regional SARS-CoV-2 rapid spreading event in Colorado in late 2020

et al. 2022

View full text Add to dashboard Cite

Since the initial reported discovery of SARS-CoV-2 in late 2019, genomic surveillance has been an important tool to understand its transmission and evolution. Here, we sought to describe the underlying regional phylodynamics before and during a rapid spreading event that was documented by surveillance protocols of the United States Air Force Academy (USAFA) in late October-November of 2020. We used replicate long-read sequencing on Colorado SARS-CoV-2 genomes collected July through November 2020 at the University of Colorado Anschutz Medical campus in Aurora and the United States Air Force Academy in Colorado Springs. Replicate sequencing allowed rigorous validation of variation and placement in a phylogenetic relatedness network. We focus on describing the phylodynamics of a lineage that likely originated in the local Colorado Springs community and expanded rapidly over the course of two months in an outbreak within the well-controlled environment of the United States Air Force Academy. Divergence estimates from sampling dates indicate that the SARS-CoV-2 lineage associated with this rapid expansion event originated in late October 2020. These results are in agreement with transmission pathways inferred by the United States Air Force Academy, and provide a window into the evolutionary process and transmission dynamics of a potentially dangerous but ultimately contained variant.

show abstract

Section: Plos Onementioning

confidence: 96%

Phylodynamics of a regional SARS-CoV-2 rapid spreading event in Colorado in late 2020

et al. 2022

View full text Add to dashboard Cite

show abstract

“…Thus, 20C for some time appeared well on its way to becoming the dominant variant in North America, and may have been at a competitive advantage compared to other early descendants of A1, but it has been losing ground to the well-documented Greek-letter variants (Alpha, Beta, Delta, etc.) since then (Figure 1) (Qiu et al 2021;Washington et al 2021;Weber et al 2021). Because the Colorado A1 and A2 descendants (other than the Colorado Springs variant) are not highly clustered, the higher frequency of A2 in both CU and USAFA samples may indicate that the A2 variant was even more successful in Colorado than in the rest of North America.…”

Section: Broad Phylogenetic Structure Of the Cu And Usafa Genomesmentioning

confidence: 99%

Phylodynamics Of A Regional, Sars-Cov-2 Rapid Spreading Event In Colorado

Wade

Tisa

Barrington

et al. 2021

Preprint

View full text Add to dashboard Cite

Since the initial reported discovery of SARS-CoV-2 in late 2019, genomic surveillance has been an important tool to understand its transmission and evolution. Here, we describe a case study of genomic sequencing of Colorado SARS-CoV-2 samples collected August through November 2020 at the University of Colorado Anschutz Medical campus in Aurora and the United States Air Force Academy in Colorado Springs. We obtained nearly complete sequences for 44 genomes, inferred ancestral sequences shared among these local samples, and used NextStrain variant and clade frequency monitoring in North America to place the Colorado sequences into their continental context. Furthermore, we describe genomic monitoring of a lineage that likely originated in the local Colorado Springs community and expanded rapidly over the course of two months in an outbreak within the well-controlled environment of the United States Air Force Academy. This variant contained a number of amino acid-altering mutations that may have contributed to its spread, but it appears to have been controlled using extensive contact tracing and strict quarantine protocols. The genome sequencing allowed validation of the transmission pathways inferred by the United States Air Force Academy and provides a window into the evolutionary process and transmission dynamics of a potentially dangerous but ultimately contained variant.

show abstract

Coming to America: Genomic surveillance and how B.1.1.7 arrived in the US

Cited by 2 publications

References 8 publications

Phylodynamics of a regional SARS-CoV-2 rapid spreading event in Colorado in late 2020

Phylodynamics of a regional SARS-CoV-2 rapid spreading event in Colorado in late 2020

Phylodynamics Of A Regional, Sars-Cov-2 Rapid Spreading Event In Colorado

Contact Info

Product

Resources

About