Time course profiling of host cell response to herpesvirus infection using nanopore and synthetic long-read transcriptome sequencing

Abstract Third-generation sequencing is able to read full-length transcripts and thus efficiently identify RNA molecules transcript isoforms, including length splice isoforms. In this study, we report the time-course profiling of effect bovine alphaherpesvirus type 1 on gene expression epithelial cells using direct cDNA carried out MinION device Oxford Nanopore Technologies. These investigations revealed a substantial up- down-regulatory virus several networks host cells, those that are associated with antiviral response, as well viral transcription translation. Additionally, large number novel isoforms identified by nanopore synthetic long-read sequencing. This study demonstrates infection causes differential We could not detect an increased rate transcriptional readthroughs described in another alphaherpesvirus. According our knowledge, first use LoopSeq for analysis eukaryotic transcriptomes. also application kinetic characterization cellular utility dynamic transcriptomes any organisms.