Alliance for Pandemic Preparedness

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Tag: genomics

January 14, 2021

Emergence and Evolution of a Prevalent New SARS-CoV-2 Variant in the United States

[pre-print, not peer reviewed] Genomic virus surveillance has identified one of the most prevalent SARS-CoV-2 variants in the US, referred to as 20C-US. Earliest 20C-US genomes have been traced in the southern US as early as late May. 20C-US has acquired up to 7 non-synonymous mutations with implications for efficient and accurate virus production, including…

January 6, 2021

Genomic Evidence of In-Flight Transmission of SARS-CoV-2 Despite Predeparture Testing

Genomic analysis of viral SARS-CoV-2 isolates obtained during a mandatory quarantine period after a Dubai-to-New Zealand flight demonstrate clear evidence of in-flight transmission. Among 86 passengers on a flight that arrived on September 29, 7 individuals in managed isolation and quarantine (MIQ) had positive test results during the quarantine period. Passengers originated from 5 different…

November 12, 2020

Large Scale Genomic Analysis of 3067 SARS-CoV-2 Genomes Reveals a Clonal Geo-Distribution and a Rich Genetic Variations of Hotspots Mutations

A large-scale analysis of 3067 SARS-CoV-2 genomes from 55 countries tracked mutations within the virus genome and identified three major clades in various geographic regions. The analysis also revealed geographic mutation hotspots – in particular, China, the US, France, and Malaysia – contained a high number of specific mutations. The authors note the high number…

October 8, 2020

Analysis of Genomic Characteristics and Transmission Routes of Patients With Confirmed SARS-CoV-2 in Southern California During the Early Stage of the US COVID-19 Pandemic

In a case series of 192 patients from Los Angeles, a genomic analysis found that 82% of SARS-CoV-2 isolates were most similar to isolates from Europe, while 15% were most similar to isolates from Asia. Genetic characterization of isolates identified community transmission in 13 patients, including 10 related to skilled nursing facilities, while person-to-person transmission…