A combined proteomics/genomics approach links hepatitis C virus infection with nonsense-mediated mRNA decay.

PubWeight™: 0.95‹?› | Rank: Top 15%

🔗 View Article (PMID 25616068)

Published in Mol Cell on January 22, 2015

Authors

Holly R Ramage1,2, G Renuka Kumar1,2, Erik Verschueren2,3, Jeffrey R Johnson1,2, John Von Dollen2,3, Tasha Johnson2,3, Billy Newton2,3, Priya Shah2,3, Julie Horner4, Nevan J Krogan1,2,3, Melanie Ott1,2,5

Author Affiliations

1: Gladstone Institutes, 1650 Owens Street, San Francisco, CA 94158, USA.
2: University of California, San Francisco, San Francisco, CA 94158, USA.
3: QB3, California Institute for Quantitative Biosciences, San Francisco, CA 94158, USA.
4: Thermo Fisher Scientific, 355 River Oaks Pkwy, San Jose, CA 95134, USA.
5: Liver Center, University of California, San Francisco, CA 94143, USA.

Articles citing this

Pharmacological dimerization and activation of the exchange factor eIF2B antagonizes the integrated stress response. Elife (2015) 1.61

RNA degradation in antiviral immunity and autoimmunity. Trends Immunol (2015) 1.01

The cancer cell map initiative: defining the hallmark networks of cancer. Mol Cell (2015) 0.94

Genetic dissection of Flaviviridae host factors through genome-scale CRISPR screens. Nature (2016) 0.92

Global Mapping of the Inc-Human Interactome Reveals that Retromer Restricts Chlamydia Infection. Cell Host Microbe (2015) 0.91

Exaptive origins of regulated mRNA decay in eukaryotes. Bioessays (2016) 0.90

Lineage-Specific Viral Hijacking of Non-canonical E3 Ubiquitin Ligase Cofactors in the Evolution of Vif Anti-APOBEC3 Activity. Cell Rep (2015) 0.82

Physiological and pathophysiological role of nonsense-mediated mRNA decay. Pflugers Arch (2016) 0.80

Comparative mapping of host-pathogen protein-protein interactions. Curr Opin Microbiol (2015) 0.77

Viral Evasion and Manipulation of Host RNA Quality Control Pathways. J Virol (2016) 0.77

Dengue virus induces mitochondrial elongation through impairment of Drp1-triggered mitochondrial fission. Virology (2016) 0.76

Control of gene expression through the nonsense-mediated RNA decay pathway. Cell Biosci (2017) 0.75

Comparative Proteomics Reveals Important Viral-Host Interactions in HCV-Infected Human Liver Cells. PLoS One (2016) 0.75

Attacked from All Sides: RNA Decay in Antiviral Defense. Viruses (2017) 0.75

Virus Escape and Manipulation of Cellular Nonsense-Mediated mRNA Decay. Viruses (2017) 0.75

Relevance Rank Platform (RRP) for Functional Filtering of High Content Protein-Protein Interaction Data. Mol Cell Proteomics (2015) 0.75

Comparative Proteomics Reveals Strain-Specific β-TrCP Degradation via Rotavirus NSP1 Hijacking a Host Cullin-3-Rbx1 Complex. PLoS Pathog (2016) 0.75

Proteomic approaches to analyzing hepatitis C virus biology. Proteomics (2015) 0.75

HTLV-1 Rex Tunes the Cellular Environment Favorable for Viral Replication. Viruses (2016) 0.75

Hepatitis C virus NS3 protein enhances hepatocellular carcinoma cell invasion by promoting PPM1A ubiquitination and degradation. J Exp Clin Cancer Res (2017) 0.75

The RNA Surveillance Factor UPF1 Represses Myogenesis via Its E3 Ubiquitin Ligase Activity. Mol Cell (2017) 0.75

Hepatitis C virus NS5A targets the nucleosome assembly protein NAP1L1 to control the innate cellular response. J Virol (2017) 0.75

Articles cited by this

Highly permissive cell lines for subgenomic and genomic hepatitis C virus RNA replication. J Virol (2002) 11.99

Defining the human deubiquitinating enzyme interaction landscape. Cell (2009) 11.39

One step at a time: endoplasmic reticulum-associated degradation. Nat Rev Mol Cell Biol (2008) 8.68

Replication of hepatitis C virus. Nat Rev Microbiol (2007) 8.31

Expression of hepatitis C virus proteins induces distinct membrane alterations including a candidate viral replication complex. J Virol (2002) 6.69

Nonsense surveillance regulates expression of diverse classes of mammalian transcripts and mutes genomic noise. Nat Genet (2004) 6.14

CORUM: the comprehensive resource of mammalian protein complexes--2009. Nucleic Acids Res (2009) 4.71

Mitochondrial injury, oxidative stress, and antioxidant gene expression are induced by hepatitis C virus core protein. Gastroenterology (2002) 4.34

A functional genomic screen identifies cellular cofactors of hepatitis C virus replication. Cell Host Microbe (2009) 4.24

Crystal structure of the hepatitis C virus NS3 protease domain complexed with a synthetic NS4A cofactor peptide. Cell (1996) 4.12

Global landscape of HIV-human protein complexes. Nature (2011) 3.70

SC35 autoregulates its expression by promoting splicing events that destabilize its mRNAs. EMBO J (2001) 3.55

A genome-wide genetic screen for host factors required for hepatitis C virus propagation. Proc Natl Acad Sci U S A (2009) 3.37

Intramembrane proteolysis promotes trafficking of hepatitis C virus core protein to lipid droplets. EMBO J (2002) 3.33

Efficient hepatitis C virus particle formation requires diacylglycerol acyltransferase-1. Nat Med (2010) 3.27

Hepatitis C virus p7 protein is crucial for assembly and release of infectious virions. PLoS Pathog (2007) 2.98

Hepatitis C virus infection protein network. Mol Syst Biol (2008) 2.91

The ever-increasing complexities of the exon junction complex. Curr Opin Cell Biol (2004) 2.85

Nonsense-mediated mRNA decay in human cells: mechanistic insights, functions beyond quality control and the double-life of NMD factors. Cell Mol Life Sci (2009) 2.79

Phosphorylation of hepatitis C virus nonstructural protein 5A modulates its protein interactions and viral RNA replication. Proc Natl Acad Sci U S A (2004) 2.77

Activation of the unfolded protein response and autophagy after hepatitis C virus infection suppresses innate antiviral immunity in vitro. J Clin Invest (2010) 2.68

Hepatitis C virus RNA polymerase and NS5A complex with a SNARE-like protein. Virology (1999) 2.33

Complex formation between the NS3 serine-type proteinase of the hepatitis C virus and NS4A and its importance for polyprotein maturation. J Virol (1995) 2.29

Hepatitis C virus suppresses the IRE1-XBP1 pathway of the unfolded protein response. J Biol Chem (2004) 2.29

Class III phosphatidylinositol 4-kinase alpha and beta are novel host factor regulators of hepatitis C virus replication. J Virol (2009) 2.26

Cyclophilin A is an essential cofactor for hepatitis C virus infection and the principal mediator of cyclosporine resistance in vitro. J Virol (2008) 2.22

Subcellular localization and topology of the p7 polypeptide of hepatitis C virus. J Virol (2002) 1.89

Viral immune modulators perturb the human molecular network by common and unique strategies. Nature (2012) 1.86

Human VAP-B is involved in hepatitis C virus replication through interaction with NS5A and NS5B. J Virol (2005) 1.86

Genomic analysis reveals a potential role for cell cycle perturbation in HCV-mediated apoptosis of cultured hepatocytes. PLoS Pathog (2009) 1.73

Nonsense-mediated mRNA decay affects nonsense transcript levels and governs response of cystic fibrosis patients to gentamicin. J Clin Invest (2007) 1.73

An efficient protein complex purification method for functional proteomics in higher eukaryotes. Nat Biotechnol (2002) 1.71

Interaction of hepatitis C virus proteins with host cell membranes and lipids. Trends Cell Biol (2002) 1.71

Disassembly of exon junction complexes by PYM. Cell (2009) 1.69

Targeting of hepatitis C virus core protein to mitochondria through a novel C-terminal localization motif. J Virol (2004) 1.67

Interaction of hepatitis C virus core protein with viral sense RNA and suppression of its translation. J Virol (1999) 1.63

Hepatitis C virus core protein binds to a DEAD box RNA helicase. J Biol Chem (1999) 1.61

Hepatitis C virus infection induces apoptosis through a Bax-triggered, mitochondrion-mediated, caspase 3-dependent pathway. J Virol (2008) 1.60

Viroporins: structure and biological functions. Nat Rev Microbiol (2012) 1.56

PYM binds the cytoplasmic exon-junction complex and ribosomes to enhance translation of spliced mRNAs. Nat Struct Mol Biol (2007) 1.45

The ER-resident ubiquitin-specific protease 19 participates in the UPR and rescues ERAD substrates. EMBO Rep (2009) 1.42

Unusual architecture of the p7 channel from hepatitis C virus. Nature (2013) 1.39

Sofosbuvir for previously untreated chronic hepatitis C infection. N Engl J Med (2013) 1.33

Nonsense-mediated decay serves as a general viral restriction mechanism in plants. Cell Host Microbe (2014) 1.31

Molecular determinants for subcellular localization of hepatitis C virus core protein. J Virol (2005) 1.31

ER-mitochondria associations are regulated by the VAPB-PTPIP51 interaction and are disrupted by ALS/FTD-associated TDP-43. Nat Commun (2014) 1.24

Lipid droplet-binding protein TIP47 regulates hepatitis C Virus RNA replication through interaction with the viral NS5A protein. PLoS Pathog (2013) 1.23

The host nonsense-mediated mRNA decay pathway restricts Mammalian RNA virus replication. Cell Host Microbe (2014) 1.17

Kaposi's sarcoma-associated herpesvirus ORF57 protein interacts with PYM to enhance translation of viral intronless mRNAs. EMBO J (2010) 1.16

Hepatitis C virus: virology and life cycle. Clin Mol Hepatol (2013) 1.15

Turning hepatitis C into a real virus. Annu Rev Microbiol (2011) 1.14

Nonsense-mediated mRNA decay modulates immune receptor levels to regulate plant antibacterial defense. Cell Host Microbe (2014) 1.13

Molecular insights into the interaction of PYM with the Mago-Y14 core of the exon junction complex. EMBO Rep (2004) 1.09

Activation and evasion of antiviral innate immunity by hepatitis C virus. J Mol Biol (2013) 0.96

The Golgi puppet master: COG complex at center stage of membrane trafficking interactions. Histochem Cell Biol (2013) 0.96

TIP47 plays a crucial role in the life cycle of hepatitis C virus. J Hepatol (2013) 0.95

RNA-sequencing analysis of 5' capped RNAs identifies many new differentially expressed genes in acute hepatitis C virus infection. Viruses (2012) 0.93

Hepatitis C virus p7-a viroporin crucial for virus assembly and an emerging target for antiviral therapy. Viruses (2010) 0.93

Two mammalian MAGOH genes contribute to exon junction complex composition and nonsense-mediated decay. RNA Biol (2013) 0.92

Elucidating novel hepatitis C virus-host interactions using combined mass spectrometry and functional genomics approaches. Mol Cell Proteomics (2013) 0.92

Hepatitis C virus NS4B carboxy terminal domain is a membrane binding domain. Virol J (2009) 0.89

Viral interference with host mRNA surveillance, the nonsense-mediated mRNA decay (NMD) pathway, through a new function of HTLV-1 Rex: implications for retroviral replication. Microbes Infect (2013) 0.86

HCV core protein localizes in the nuclei of nonparenchymal liver cells from chronically HCV-infected patients. Biochem Biophys Res Commun (2005) 0.85

Cell-cell contact-mediated hepatitis C virus (HCV) transfer, productive infection, and replication and their requirement for HCV receptors. J Virol (2013) 0.85

Evasion of superinfection exclusion and elimination of primary viral RNA by an adapted strain of hepatitis C virus. J Virol (2013) 0.84

Identification and comparative analysis of hepatitis C virus-host cell protein interactions. Mol Biosyst (2013) 0.83

Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images. Bioinformatics (2010) 0.82

Modulation of programmed cell death pathways by the hepatitis C virus. Front Biosci (Landmark Ed) (2011) 0.79