Mapping the temporal transcriptomic signature of a viral pathogen through CAGE and nanopore sequencing.

ABSTRACT:

Introduction

Equid alphaherpesvirus 1 (EHV-1), a veterinary pathogen belonging to the Varicellovirus genus, is responsible for significant economic losses in the global equine sector. This research involved timescale gene expression profiling and transcriptional reannotation of this herpesvirus.

Methods

We employed CAGE sequencing on the Illumina platform to determine transcript start sites, alongside long-read direct cDNA sequencing on Oxford Nanopore Technology platform to detect full-length viral transcripts. Samples were collected in triplicate at nine distinct stages of the viral lifecycle. We also applied protein synthesis inhibition to determine the immediate-early gene expression of the virus. Earlier data on native RNA sequencing was also utilized to validate the re

SUBMITTER: Tombacz D 

PROVIDER: S-EPMC11999163 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature