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Integrative functional genomics decodes herpes simplex virus 1.

Published version
Peer-reviewed

Type

Article

Change log

Authors

Jürges, Christopher S  ORCID logo  https://orcid.org/0000-0001-5617-6601
Hennig, Thomas 

Abstract

The predicted 80 open reading frames (ORFs) of herpes simplex virus 1 (HSV-1) have been intensively studied for decades. Here, we unravel the complete viral transcriptome and translatome during lytic infection with base-pair resolution by computational integration of multi-omics data. We identify a total of 201 transcripts and 284 ORFs including all known and 46 novel large ORFs. This includes a so far unknown ORF in the locus deleted in the FDA-approved oncolytic virus Imlygic. Multiple transcript isoforms expressed from individual gene loci explain translation of the vast majority of ORFs as well as N-terminal extensions (NTEs) and truncations. We show that NTEs with non-canonical start codons govern the subcellular protein localization and packaging of key viral regulators and structural proteins. We extend the current nomenclature to include all viral gene products and provide a genome browser that visualizes all the obtained data from whole genome to single-nucleotide resolution.

Description

Keywords

Animals, Biological Products, Chlorocebus aethiops, Computational Biology, Cricetinae, Fibroblasts, Gene Expression Regulation, Viral, Genes, Viral, Genome, Viral, Genomics, Herpesvirus 1, Human, Humans, Open Reading Frames, Protein Domains, Protein Isoforms, Ribosomes, Transcriptome, Vero Cells

Journal Title

Nat Commun

Conference Name

Journal ISSN

2041-1723
2041-1723

Volume Title

11

Publisher

Springer Science and Business Media LLC
Sponsorship
Medical Research Council (G1002523)
Medical Research Council (MR/P008801/1)
Wellcome Trust (210688/Z/18/Z)
MRC (MR/V011561/1)