Surveillance strategies for the detection of new pathogen variants across epidemiological contexts.

ABSTRACT: Surveillance systems that monitor pathogen genome sequences are critical for rapidly detecting the introduction and emergence of pathogen variants. To evaluate how interactions between surveillance capacity, variant properties, and the epidemiological context influence the timeliness of pathogen variant detection, we developed a geographically explicit stochastic compartmental model to simulate the transmission of a novel SARS-CoV-2 variant in New York City. We measured the impact of (1) testing and sequencing volume, (2) geographic targeting of testing, (3) the timing and location of variant emergence, and (4) the relative variant transmissibility on detection speed and on the undetected disease burden. Improvements in detection times and reduction of undetected infections were driven pri

SUBMITTER: Oliveira Roster KI 

PROVIDER: S-EPMC11407617 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature