Alteration of protein levels during influenza virus H1N1 infection in host cells: a proteomic survey of host and virus reveals differential dynamics

PLoS One. 2014 Apr 9;9(4):e94257. doi: 10.1371/journal.pone.0094257. eCollection 2014.

Abstract

We studied the dynamics of the proteome of influenza virus A/PR/8/34 (H1N1) infected Madin-Darby canine kidney cells up to 12 hours post infection by mass spectrometry based quantitative proteomics using the approach of stable isotope labeling by amino acids in cell culture (SILAC). We identified 1311 cell proteins and, apart from the proton channel M2, all major virus proteins. Based on their abundance two groups of virus proteins could be distinguished being in line with the function of the proteins in genesis and formation of new virions. Further, the data indicate a correlation between the amount of proteins synthesized and their previously determined copy number inside the viral particle. We employed bioinformatic approaches such as functional clustering, gene ontology, and pathway (KEGG) enrichment tests to uncover co-regulated cellular protein sets, assigned the individual subsets to their biological function, and determined their interrelation within the progression of viral infection. For the first time we are able to describe dynamic changes of the cellular and, of note, the viral proteome in a time dependent manner simultaneously. Through cluster analysis, time dependent patterns of protein abundances revealed highly dynamic up- and/or down-regulation processes. Taken together our study provides strong evidence that virus infection has a major impact on the cell status at the protein level.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Chromatography, High Pressure Liquid
  • Dogs
  • Gene Expression Regulation, Viral*
  • Host-Pathogen Interactions* / genetics
  • Influenza A Virus, H1N1 Subtype / physiology*
  • Madin Darby Canine Kidney Cells / metabolism
  • Madin Darby Canine Kidney Cells / virology
  • Protein Biosynthesis*
  • Proteomics* / methods
  • Tandem Mass Spectrometry
  • Time Factors
  • Viral Proteins / biosynthesis
  • Viral Proteins / genetics

Substances

  • Viral Proteins

Grant support

The project was supported by the Federal Ministry of Education and Research (to M.S., E.K., A.H.; ViroSign; http://www.bmbf.de/en/index.php) and the Deutsche Forschungsgemeinschaft (to M.V. and A.H., SFB 740; http://www.dfg.de/en/index.jsp). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.