Genome-wide identification and gene expression profiling of ubiquitin ligases for endoplasmic reticulum protein degradation

Sci Rep. 2016 Aug 3;6:30955. doi: 10.1038/srep30955.

Abstract

Endoplasmic reticulum (ER)-associated degradation (ERAD) is a mechanism by which unfolded proteins that accumulate in the ER are transported to the cytosol for ubiquitin-proteasome-mediated degradation. Ubiquitin ligases (E3s) are a group of enzymes responsible for substrate selectivity and ubiquitin chain formation. The purpose of this study was to identify novel E3s involved in ERAD. Thirty-seven candidate genes were selected by searches for proteins with RING-finger motifs and transmembrane regions, which are the major features of ERAD E3s. We performed gene expression profiling for the identified E3s in human and mouse tissues. Several genes were specifically or selectively expressed in both tissues; the expression of four genes (RNFT1, RNF185, CGRRF1 and RNF19B) was significantly upregulated by ER stress. To determine the involvement of the ER stress-responsive genes in ERAD, we investigated their ER localisation, in vitro autoubiquitination activity and ER stress resistance. All were partially localised to the ER, whereas CGRRF1 did not possess E3 activity. RNFT1 and RNF185, but not CGRRF1 and RNF19B, exhibited significant resistance to ER stressor in an E3 activity-dependent manner. Thus, these genes are possible candidates for ERAD E3s.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • COS Cells
  • Chlorocebus aethiops
  • Endoplasmic Reticulum Stress / genetics*
  • Endoplasmic Reticulum* / genetics
  • Endoplasmic Reticulum* / metabolism
  • Gene Expression Profiling*
  • Genome-Wide Association Study*
  • HeLa Cells
  • Humans
  • Mice
  • Proteolysis*
  • Ubiquitin-Protein Ligases* / biosynthesis
  • Ubiquitin-Protein Ligases* / genetics

Substances

  • Ubiquitin-Protein Ligases