Transmission Bottleneck Size Estimation from De Novo Viral Genetic Variation.

ABSTRACT: Sequencing of viral infections has become increasingly common over the last decade. Deep sequencing data in particular have proven useful in characterizing the roles that genetic drift and natural selection play in shaping within-host viral populations. They have also been used to estimate transmission bottleneck sizes from identified donor-recipient pairs. These bottleneck sizes quantify the number of viral particles that establish genetic lineages in the recipient host and are important to estimate due to their impact on viral evolution. Current approaches for estimating bottleneck sizes exclusively consider the subset of viral sites that are observed as polymorphic in the donor individual. However, these approaches have the potential to substantially underestimate true transmission bott

SUBMITTER: Shi YT 

PROVIDER: S-EPMC10798134 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature