The Transcription and Translation Landscapes during Human Cytomegalovirus Infection Reveal Novel Host-Pathogen Interactions

PLoS Pathog. 2015 Nov 24;11(11):e1005288. doi: 10.1371/journal.ppat.1005288. eCollection 2015.

Abstract

Viruses are by definition fully dependent on the cellular translation machinery, and develop diverse mechanisms to co-opt this machinery for their own benefit. Unlike many viruses, human cytomegalovirus (HCMV) does suppress the host translation machinery, and the extent to which translation machinery contributes to the overall pattern of viral replication and pathogenesis remains elusive. Here, we combine RNA sequencing and ribosomal profiling analyses to systematically address this question. By simultaneously examining the changes in transcription and translation along HCMV infection, we uncover extensive transcriptional control that dominates the response to infection, but also diverse and dynamic translational regulation for subsets of host genes. We were also able to show that, at late time points in infection, translation of viral mRNAs is higher than that of cellular mRNAs. Lastly, integration of our translation measurements with recent measurements of protein abundance enabled comprehensive identification of dozens of host proteins that are targeted for degradation during HCMV infection. Since targeted degradation indicates a strong biological importance, this approach should be applicable for discovering central host functions during viral infection. Our work provides a framework for studying the contribution of transcription, translation and degradation during infection with any virus.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Cell Line
  • Cytomegalovirus / genetics*
  • Cytomegalovirus Infections / genetics
  • Cytomegalovirus Infections / immunology*
  • Host-Pathogen Interactions*
  • Humans
  • Protein Biosynthesis*
  • RNA, Messenger / genetics
  • Transcription, Genetic*
  • Virus Replication / genetics*

Substances

  • RNA, Messenger

Grants and funding

This research was supported by a research grant from Mr. Ilan Gluzman, the Human Frontiers Science Program Career Development Award, the EU-FP7-PEOPLE Career integration grant, the ICORE (Chromatin and RNA Gene Regulation) and the Israeli Science Foundation (1073/14). GF is the incumbent of the David and Stacey Cynamon Research fellow Chair in Genetics and Personalized Medicine. MT and VTKLT received funding from the Deutsche Forschungsgemeinschaft (DFG) through TRR60 (project A7N) and GRK1949/1. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.