Decoding protein networks during virus entry by quantitative proteomics.

Abstract:

:Virus entry into host cells relies on interactions between viral and host structures including lipids, carbohydrates and proteins. Particularly, protein-protein interactions between viral surface proteins and host proteins as well as secondary host protein-protein interactions play a pivotal role in coordinating virus binding and uptake. These interactions are dynamic and frequently involve multiprotein complexes. In the past decade mass spectrometry based proteomics methods have reached sensitivities and high throughput compatibilities of genomics methods and now allow the reliable quantitation of proteins in complex samples from limited material. As proteomics provides essential information on the biologically active entity namely the protein, including its posttranslational modifications and its interactions with other proteins, it is an indispensable method in the virologist's toolbox. Here we review protein interactions during virus entry and compare classical biochemical methods to study entry with novel technically advanced quantitative proteomics techniques. We highlight the value of quantitative proteomics in mapping functional virus entry networks, discuss the benefits and limitations and illustrate how the methodology will help resolve unsettled questions in virus entry research in the future.

journal_name

Virus Res

journal_title

Virus research

authors

Gerold G,Bruening J,Pietschmann T

doi

10.1016/j.virusres.2015.09.006

subject

Has Abstract

pub_date

2016-06-15 00:00:00

pages

25-39

eissn

0168-1702

issn

1872-7492

pii

S0168-1702(15)30061-7

journal_volume

218

pub_type

杂志文章,评审
  • HBx truncation mutants differentially modulate SREBP-1a and -1c transcription and HBV replication.

    abstract::As master transcription factors for lipogenesis, sterol regulatory element-binding protein-1 (SREBP-1) has two isoforms, SREBP-1a and SREBP-1c. Hepatitis B virus X (HBx) can up-regulate the transcription of both SREBP-1a and SREBP-1c. HBx is a small protein consisting of 154 amino acids. Truncated forms of HBx, often ...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2015.07.011

    authors: Wu Q,Liu Q

    更新日期:2015-12-02 00:00:00

  • Infectious bursal disease virus infection induces macrophage activation via p38 MAPK and NF-kappaB pathways.

    abstract::In the present study, we show that infection with infectious bursal disease virus (IBDV) causes activation of macrophages, the key cells involved in inflammatory and immune-regulatory functions. Exposure of cultured spleen macrophages (SM) from SPF chickens to IBDV resulted in the production of nitric oxide (NO). In a...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2005.11.015

    authors: Khatri M,Sharma JM

    更新日期:2006-06-01 00:00:00

  • Tolerance and immune response to the porcine endogenous retrovirus in German landrace pigs immunised with viral proteins.

    abstract::Immunisation of goats, mice, rats, rabbits, guinea pigs, and hamsters with the recombinant ectodomain of the porcine endogenous retrovirus (PERV) transmembrane envelope (TM) protein (p15E) induced binding and neutralising immune antibodies in all animals. In contrast, no antibodies were induced when pigs were immunise...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2015.05.019

    authors: Denner J,Petersen B,Niemann H

    更新日期:2015-10-02 00:00:00

  • Inhibitory role of the Bm8 protein in the propagation of Bombyx mori nucleopolyhedrovirus.

    abstract::Lepidopteran nucleopolyhedroviruses have distinct viral tissue tropisms in host larvae. We previously identified the Bm8 gene of Bombyx mori nucleopolyhedrovirus (BmNPV), the product of which inhibits viral propagation in the middle silk gland (MSG). However, it is unknown whether this inhibitory function of the Bm8 p...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2018.03.011

    authors: Hikida H,Kokusho R,Kobayashi J,Shimada T,Katsuma S

    更新日期:2018-04-02 00:00:00

  • Differential suppression of host cell protein synthesis and mRNA levels in herpes simplex virus-infected endothelial cells.

    abstract::Earlier studies from this laboratory have shown that infection of vascular cells with herpes simplex virus 1 or 2 (HSV-1, HSV-2) results in the differential suppression of extracellular matrix proteins including fibronectin (FN), type IV collagen, thrombospondin (TSP) and Factor VIII von Willebrand protein. The presen...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/0168-1702(91)90047-y

    authors: Brinker JM,Ziaie Z,Kefalides NA

    更新日期:1991-05-01 00:00:00

  • Mutations affecting the cytoplasmic domain of the Moloney murine leukemia virus envelope protein: rapid reversion during replication.

    abstract::Five premature termination mutations and five missense mutations were introduced into the portion of cloned Moloney murine leukemia virus (M-MuLV) DNA encoding the Env cytoplasmic domain. All of the mutant DNAs gave rise to replication-competent virus after transfection of NIH/3T3 cells, but several of the mutant DNAs...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/0168-1702(95)01278-8

    authors: Granowitz C,Berkowitz RD,Goff SP

    更新日期:1996-03-01 00:00:00

  • High detection rate and genetic diversity of picobirnavirus in a sheep flock in Brazil.

    abstract::This study reports the detection by RT-PCR and molecular characterization of partial RdRp gene of picobirnavirus (PBV) dsRNA in fecal samples (n = 100) from a meat sheep flock in southern Brazil. The analysis of the results allowed the identification of two important characteristics of PBV infection. The first was the...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2018.06.016

    authors: Kunz AF,Possatti F,de Freitas JA,Alfieri AA,Takiuchi E

    更新日期:2018-08-15 00:00:00

  • Detection of an animal-derived G4P[6] group A rotavirus strain in a symptomatic child, in Italy.

    abstract::During 2017, a G4P[6] group A rotavirus strain was identified in the feces of an Italian child hospitalized for acute gastroenteritis in Southern Italy. Nucleotide sequencing of the 11 genomic segments, revealed the G4-P[6]-I1-R1-C1-M1-A1-N1-T1-E1-H1 genotype constellation. Phylogenetic analyses of the gene segments i...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2018.11.003

    authors: Ianiro G,Micolano R,Conte M,Labianca M,Vaccari G,Monini M

    更新日期:2019-01-15 00:00:00

  • Genetic characterization of Duck Hepatitis A Viruses isolated in China.

    abstract::In recent years, the spread of Duck Hepatitis A Viruses (DHAVs) has represented a serious threat and significant economic impact in duck industry of China. The sixteen reported DHAV isolates (15 DHAV-1 strains and one DHAV-3) were identified from infected ducks with clinical symptoms in China between 2009 and 2012. In...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2013.10.007

    authors: Li J,Bi Y,Chen C,Yang L,Ding C,Liu W

    更新日期:2013-12-26 00:00:00

  • Conditional gene expression in hepatitis C virus transgenic mice without induction of severe liver injury using a non-inflammatory Cre-expressing adenovirus.

    abstract::We previously established inducible-hepatitis C virus (HCV) transgenic mice, which expressed the HCV gene (nucleotides 294-3435) encoding the core, E1, E2, and NS2 proteins. The expression of these proteins is regulated by the Cre/loxP system and an adenovirus vector (AdV) that expresses Cre DNA recombinase (Cre) cont...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2011.05.019

    authors: Chiyo T,Sekiguchi S,Hayashi M,Tobita Y,Kanegae Y,Saito I,Kohara M

    更新日期:2011-09-01 00:00:00

  • Puumala and Tula hantaviruses in France.

    abstract::The first genome sequences of Tula (TULV) and Puumala (PUUV) hantaviruses undoubtedly originated from France were recovered from tissue samples of European common voles and bank voles captured in Jura region. Genetic analysis of S and M segments of French PUUV strain revealed its highest similarity to strains from nei...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2007.04.023

    authors: Plyusnina A,Deter J,Charbonnel N,Cosson JF,Plyusnin A

    更新日期:2007-10-01 00:00:00

  • The C2 protein of tomato yellow leaf curl Sardinia virus acts as a pathogenicity determinant and a 16-amino acid domain is responsible for inducing a hypersensitive response in plants.

    abstract::The role of the C2 protein in the pathogenicity of tomato yellow leaf curl Sardinia virus (TYLCSV) was investigated. Here we report that Agrobacterium-mediated transient expression of TYLCSV C2 resulted in a strong hypersensitive response (HR) in Nicotiana benthamiana, N. tabacum, and Arabidopsis thaliana, with induct...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2016.01.014

    authors: Matić S,Pegoraro M,Noris E

    更新日期:2016-04-02 00:00:00

  • The evolution of collective infectious units in viruses.

    abstract::Viruses frequently spread among cells or hosts in groups, with multiple viral genomes inside the same infectious unit. These collective infectious units can consist of multiple viral genomes inside the same virion, or multiple virions inside a larger structure such as a vesicle. Collective infectious units deliver mul...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2019.03.013

    authors: Leeks A,Sanjuán R,West SA

    更新日期:2019-05-01 00:00:00

  • Molecular characterisation of Atlantic salmon paramyxovirus (ASPV): a novel paramyxovirus associated with proliferative gill inflammation.

    abstract::Atlantic salmon paramyxovirus (ASPV) was isolated in 1995 from gills of farmed Atlantic salmon suffering from proliferative gill inflammation. The complete genome sequence of ASPV was determined, revealing a genome 16,968 nucleotides in length consisting of six non-overlapping genes coding for the nucleo- (N), phospho...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2008.01.006

    authors: Falk K,Batts WN,Kvellestad A,Kurath G,Wiik-Nielsen J,Winton JR

    更新日期:2008-05-01 00:00:00

  • Generation and characterization of a Cowpox virus mutant lacking host range factor CP77.

    abstract::Cowpox virus (CPXV) host range factor CP77 was identified to be required for virus replication in Chinese hamster ovary (CHO) cells, but the underlying molecular mechanism by which CP77 modulates host range has remained unclear. Therefore, a CPXVΔCP77 deletion mutant was constructed by applying bacterial artificial ch...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2012.06.005

    authors: Schuenadel L,Tischer BK,Nitsche A

    更新日期:2012-09-01 00:00:00

  • Bayesian coalescent analysis of pandemic H1N1 influenza A virus circulating in the South American region.

    abstract::The first influenza pandemic of this century was declared in April of 2009, with the emergence of a novel H1N1 influenza A virus strain (H1N1pdm). Understanding the evolution of H1N1pdm populations within the South American region is essential for studying global diversification, emergence, resistance and vaccine effi...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2012.09.002

    authors: Goñi N,Moratorio G,Coppola L,Ramas V,Comas V,Soñora M,Chiparelli H,Cristina J

    更新日期:2012-12-01 00:00:00

  • Mutations in the coat protein-binding cis-acting RNA motifs debilitate RNA recombination of Brome mosaic virus.

    abstract::We have previously described the efficient homologous recombination system between 5' subgenomic RNA3a (sgRNA3a) and genomic RNA3 of Brome mosaic virus (BMV) in barley protoplasts (Sztuba-Solińska et al., 2011a). Here, we demonstrated that sequence alterations in the coat protein (CP)-binding cis-acting RNA motifs, th...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2012.10.001

    authors: Sztuba-Solińska J,Fanning SW,Horn JR,Bujarski JJ

    更新日期:2012-12-01 00:00:00

  • Pattern of Epstein-Barr virus (EBV)-specific proteins synthesized during primary lytic infection of mouse lymphocytes by EBV.

    abstract::Normal mouse lymphocytes were implanted with EBV receptors and exposed to the virus of P3HR-1 strain. 5% of the cells expressed early (EA) and viral capsid (VCA) antigens as assayed by immunofluorescence 24 h after the infection. Only 0.1% of cells expressed nuclear-like antigen (EBNA) 48 h post-infection. When labell...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/0168-1702(84)90016-9

    authors: Sinangil F,Volsky DJ

    更新日期:1984-01-01 00:00:00

  • Detection of Chronic bee paralysis virus (CBPV) genome and its replicative RNA form in various hosts and possible ways of spread.

    abstract::Detection of Chronic bee paralysis virus (CBPV) is reported for the first time in two species of ants (Camponotus vagus and Formica rufa) and in Varroa destructor. A quantitative real-time PCR (qPCR) method was used to detect and quantify CBPV in infected bees, ants and mites. A minus-strand-specific RT-PCR was used t...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2007.12.011

    authors: Celle O,Blanchard P,Olivier V,Schurr F,Cougoule N,Faucon JP,Ribière M

    更新日期:2008-05-01 00:00:00

  • Use of pseudotyped retroviral vectors to analyze the receptor-binding pocket of hemagglutinin from a pathogenic avian influenza A virus (H7 subtype).

    abstract::The hemagglutinin (HA) protein of influenza virus binds to terminal sialic acid residues present on cell surface glycoproteins and glycolipids. The specific amino acids involved in this interaction have been identified for a H3 subtype HA from the human non-pathogenic virus, A/Aichi/2/68, by both crystallographic and ...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/s0168-1702(01)00407-5

    authors: Lin AH,Cannon PM

    更新日期:2002-02-26 00:00:00

  • Surveillance and diagnostics of the emergent Sri Lankan cassava mosaic virus (Fam. Geminiviridae) in Southeast Asia.

    abstract::Emergent agricultural pathogens cause severe damage worldwide and their invasive potential is significantly increased by global trade, crop intensification and climate change. Standard surveillance and diagnostic protocols need to be evaluated and implemented, particularly with diseases caused by a wide range of patho...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2020.197959

    authors: Siriwan W,Jimenez J,Hemniam N,Saokham K,Lopez-Alvarez D,Leiva AM,Martinez A,Mwanzia L,Becerra Lopez-Lavalle LA,Cuellar WJ

    更新日期:2020-08-01 00:00:00

  • Differences in membrane association and sub-cellular distribution between NS2-3 and NS3 of bovine viral diarrhoea virus.

    abstract::The sub-cellular location and mechanism of membrane association of NS3 and NS2-3 polypeptides of bovine viral diarrhoea virus (BVDV) have been examined. Both NS3 and NS2-3 proteins were detected in post-nuclear membrane fractions but not in cytosolic fractions of BVDV infected cells; a proportion of NS3, but not NS2-3...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/s0168-1702(03)00223-5

    authors: Zhang G,Flick-Smith H,McCauley JW

    更新日期:2003-11-01 00:00:00

  • Assessment of phylogenetic sensitivity for reconstructing HIV-1 epidemiological relationships.

    abstract::Phylogenetic analysis has been extensively used as a tool for the reconstruction of epidemiological relations for research or for forensic purposes. It was our objective to assess the sensitivity of different phylogenetic methods and various phylogenetic programs to reconstruct epidemiological links among HIV-1 infect...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2012.03.002

    authors: Beloukas A,Magiorkinis E,Magiorkinis G,Zavitsanou A,Karamitros T,Hatzakis A,Paraskevis D

    更新日期:2012-06-01 00:00:00

  • The novel hemagglutinin-esterase genes of human torovirus and Breda virus.

    abstract::Human torovirus (HTV) and Breda virus (BRV), members of the genus torovirus in the family Coronaviridae, are established infectious agents of humans and cattle, respectively. The hemagglutinin-esterase (HE) gene of Breda virus serotype 2 (BRV-2) has been identified and the nucleotide sequence for BRV serotype 1 (BRV-1...

    journal_title:Virus research

    pub_type: 杂志文章,收录出版

    doi:10.1016/s0168-1702(99)00088-x

    authors: Duckmanton L,Tellier R,Richardson C,Petric M

    更新日期:1999-11-01 00:00:00

  • Beta-actin interacts with the E2 protein and is involved in the early replication of classical swine fever virus.

    abstract::The E2 glycoprotein of classical swine fever virus (CSFV) is involved in viral infection and induction of neutralizing antibodies. Little is known about how E2 interacts with host cells. To understand the cellular factors involved in viral replication cycle, E2 was used as bait in yeast two-hybrid screens, resulting i...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2013.10.016

    authors: He F,Ling L,Liao Y,Li S,Han W,Zhao B,Sun Y,Qiu HJ

    更新日期:2014-01-22 00:00:00

  • Genotype-specific in vitro amplification of sequences of the wild type 3 polioviruses from Mexico and Guatemala.

    abstract::The extensive nucleotide sequence heterogeneity among independent genotypes of wild polioviruses permits the systematic design of genotype-specific molecular reagents. We have prepared two sets of polymerase chain reaction (PCR) primer pairs specific for the genotype of wild poliovirus type 3 recently endemic to Mexic...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/0168-1702(92)90124-r

    authors: Yang CF,De L,Yang SJ,Ruiz Gómez J,Cruz JR,Holloway BP,Pallansch MA,Kew OM

    更新日期:1992-08-01 00:00:00

  • Detection of RNA in purified cytomegalovirus virions.

    abstract::Five viral RNA transcripts have recently been detected in purified virions of human cytomegalovirus (HCMV) strain AD169, a well-characterized member of the family Herpesviridae [Science 288 (2000) 2373]. While the function of these transcripts and/or the proteins they encode remains to be elucidated, it is not known w...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2004.03.008

    authors: Sarcinella E,Brown M,Tellier R,Petric M,Mazzulli T

    更新日期:2004-09-01 00:00:00

  • Expression cloning and antigenic analysis of the nucleocapsid protein of equine arteritis virus.

    abstract::A series of recombinant fusion proteins derived from equine arteritis virus (EAV) open reading frame (ORF) 7 have been used to define the immunoreactive region of the viral nucleocapsid (N) protein. Reactivities of recombinant N fusion proteins with post-infection equine sera in immunoblots and ELISAs indicate that th...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/0168-1702(95)00098-4

    authors: Chirnside ED,Francis PM,Mumford JA

    更新日期:1995-12-01 00:00:00

  • Escape mutants of pandemic influenza A/H1N1 2009 virus: variations in antigenic specificity and receptor affinity of the hemagglutinin.

    abstract::A panel of 6 neutralizing monoclonal antibodies (MAbs) raised against A/Moscow/IIV01/2009 (H1N1) virus isolated during the 2009 pandemic was used for the selection of 26 escape mutants. The mutants were characterized in immune cross-reactions with the panel of MAbs. The sequencing of the mutant HA genes revealed 5 ami...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2012.03.003

    authors: Rudneva I,Ignatieva A,Timofeeva T,Shilov A,Kushch A,Masalova O,Klimova R,Bovin N,Mochalova L,Kaverin N

    更新日期:2012-06-01 00:00:00

  • Antigenic and genetic analyses of foot-and-mouth disease virus type A isolates for selection of candidate vaccine strain reveals emergence of a variant virus that is responsible for most recent outbreaks in India.

    abstract::Recent reports indicated presence of two antigenic and genetic groups (genotypes VI and VII) of foot-and-mouth disease virus (FMDV) type A in India and are divergent from the vaccine strains. In order to choose suitable field isolate as candidate vaccine strain, anti-sera against representative isolates from both the ...

    journal_title:Virus research

    pub_type: 杂志文章

    doi:10.1016/j.virusres.2005.03.021

    authors: Jangra RK,Tosh C,Sanyal A,Hemadri D,Bandyopadhyay SK

    更新日期:2005-09-01 00:00:00