Comprehensive profiling of retroviral integration sites using target enrichment methods from historical koala samples without an assembled reference genome.

ABSTRACT: Background. Retroviral integration into the host germline results in permanent viral colonization of vertebrate genomes. The koala retrovirus (KoRV) is currently invading the germline of the koala (Phascolarctos cinereus) and provides a unique opportunity for studying retroviral endogenization. Previous analysis of KoRV integration patterns in modern koalas demonstrate that they share integration sites primarily if they are related, indicating that the process is currently driven by vertical transmission rather than infection. However, due to methodological challenges, KoRV integrations have not been comprehensively characterized. Results. To overcome these challenges, we applied and compared three target enrichment techniques coupled with next generation sequencing (NGS) and a newly custo

SUBMITTER: Cui P 

PROVIDER: S-EPMC4824918 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature