Analysis of genetic diversity and sites of recombination in human rhinovirus species C.

Abstract:

:Human rhinoviruses (HRVs) are a highly prevalent and diverse group of respiratory viruses. Although HRV-A and HRV-B are traditionally detected by virus isolation, a series of unculturable HRV variants have recently been described and assigned as a new species (HRV-C) within the picornavirus Enterovirus genus. To investigate their genetic diversity and occurrence of recombination, we have performed comprehensive phylogenetic analysis of sequences from the 5' untranslated region (5' UTR), VP4/VP2, VP1, and 3Dpol regions amplified from 89 HRV-C-positive respiratory samples and available published sequences. Branching orders of VP4/VP2, VP1, and 3Dpol trees were identical, consistent with the absence of intraspecies recombination in the coding regions. However, numerous tree topology changes were apparent in the 5' UTR, where >60% of analyzed HRV-C variants showed recombination with species A sequences. Two recombination hot spots in stem-loop 5 and the polypyrimidine tract in the 5' UTR were mapped using the program GroupingScan. Available HRV-C sequences showed evidence for additional interspecies recombination with HRV-A in the 2A gene, with breakpoints mapping precisely to the boundaries of the C-terminal domain of the encoded proteinase. Pairwise distances between HRV-C variants in VP1 and VP4/VP2 regions fell into two separate distributions, resembling inter- and intraserotype distances of species A and B. These observations suggest that, without serological cross-neutralization data, HRV-C genetic groups may be equivalently classified into types using divergence thresholds derived from distance distributions. The extensive sequence data from multiple genome regions of HRV-C and analyses of recombination in the current study will assist future formulation of consensus criteria for HRV-C type assignment and identification.

journal_name

J Virol

journal_title

Journal of virology

authors

McIntyre CL,McWilliam Leitch EC,Savolainen-Kopra C,Hovi T,Simmonds P

doi

10.1128/JVI.00962-10

subject

Has Abstract

pub_date

2010-10-01 00:00:00

pages

10297-310

issue

19

eissn

0022-538X

issn

1098-5514

pii

JVI.00962-10

journal_volume

84

pub_type

杂志文章
  • Hantavirus-specific CD8(+)-T-cell responses in newborn mice persistently infected with Hantaan virus.

    abstract::The relationship between virus-specific CD8(+)-T-cell responses and viral persistence was studied in mice by using Hantaan virus (HTNV). We first established a simple method for measuring levels of virus-specific CD8(+) T cells by flow cytometry. Next, to produce a mouse model of persistent HTNV infection, newborn mic...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/jvi.77.15.8408-8417.2003

    authors: Araki K,Yoshimatsu K,Lee BH,Kariwa H,Takashima I,Arikawa J

    更新日期:2003-08-01 00:00:00

  • The N-terminal region of an entomopoxvirus fusolin is essential for the enhancement of peroral infection, whereas the C-terminal region is eliminated in digestive juice.

    abstract::The spindles of Anomala cuprea entomopoxvirus (AncuEPV), which are composed of glycoprotein fusolin, are known to enhance the peroral infectivity of AncuEPV itself and of nucleopolyhedroviruses. This has been demonstrated to involve the disruption of intestinal peritrophic membrane (PM), composed of chitin matrix, gly...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.01605-08

    authors: Takemoto Y,Mitsuhashi W,Murakami R,Konishi H,Miyamoto K

    更新日期:2008-12-01 00:00:00

  • The human papillomavirus type 8 E2 protein suppresses beta4-integrin expression in primary human keratinocytes.

    abstract::Human papillomaviruses (HPVs) infect keratinocytes of skin and mucosa. Homeostasis of these constantly renewing, stratified epithelia is maintained by balanced keratinocyte proliferation and terminal differentiation. Instructions from the extracellular matrix engaging integrins strongly regulate these keratinocyte fun...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.78.19.10738-10746.2004

    authors: Oldak M,Smola H,Aumailley M,Rivero F,Pfister H,Smola-Hess S

    更新日期:2004-10-01 00:00:00

  • Dengue virus- and hepatitis C virus-induced replication and assembly compartments: the enemy inside--caught in the web.

    abstract::Dengue virus (DENV) and hepatitis C virus (HCV), members of the family Flaviviridae, are global human health concerns. As positive-strand RNA viruses, they each replicate in the cytoplasm of infected cells and induce distinct membranous replication compartments where most, if not all, steps of the viral life cycle occ...

    journal_title:Journal of virology

    pub_type: 杂志文章,评审

    doi:10.1128/JVI.03404-13

    authors: Chatel-Chaix L,Bartenschlager R

    更新日期:2014-06-01 00:00:00

  • Conserved neutralizing epitope at globular head of hemagglutinin in H3N2 influenza viruses.

    abstract:UNLABELLED:Neutralizing antibodies that target the hemagglutinin of influenza virus either inhibit binding of hemagglutinin to cellular receptors or prevent the low-pH-induced conformational change in hemagglutinin required for membrane fusion. In general, the former type of antibody binds to the globular head formed b...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.00420-14

    authors: Iba Y,Fujii Y,Ohshima N,Sumida T,Kubota-Koketsu R,Ikeda M,Wakiyama M,Shirouzu M,Okada J,Okuno Y,Kurosawa Y,Yokoyama S

    更新日期:2014-07-01 00:00:00

  • Phenotypic and genetic analysis of Lymantria dispar nucleopolyhedrovirus few polyhedra mutants: mutations in the 25K FP gene may be caused by DNA replication errors.

    abstract::We previously demonstrated that polyhedron formation (PF) mutants arise at a high frequency during serial passage of the Lymantria dispar nucleopolyhedrovirus (LdMNPV) in the L. dispar 652Y cell line (J. M. Slavicek, N. Hayes-Plazolles, and M. E. Kelly, Biol. Control 5:251-261, 1995). Most of these PF mutants exhibite...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.71.2.1097-1106.1997

    authors: Bischoff DS,Slavicek JM

    更新日期:1997-02-01 00:00:00

  • Ev 2, a genetic locus containing structural genes for endogenous virus, codes for Rous-associated virus type 0 produced by line 72 chickens.

    abstract::ev 2 is one of seven recently described genetic loci of chickens which contain structural genes for endogenous virus. ev 2 is present exclusively in line 72 chickens, an inbred strain of white Leghorns which is homozygous for the capacity to produce Rous-associated virus type 0 (RAV-0), a subgroup E virus. This phenot...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.33.1.250-255.1980

    authors: Astrin SM,Crittenden LB,Buss EG

    更新日期:1980-01-01 00:00:00

  • Interplay between alpha/beta and gamma interferons with B, T, and natural killer cells in the defense against herpes simplex virus type 1.

    abstract::The essential components of the immune system that control primary and chronic infection with herpes simplex virus type 1 (HSV-1) in mice were investigated. Infection within the first few days can be controlled by alpha/beta interferon (IFN-alpha/beta) alone without significant contribution of B, T, or NK cells. IFN-a...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/jvi.78.8.3846-3850.2004

    authors: Vollstedt S,Arnold S,Schwerdel C,Franchini M,Alber G,Di Santo JP,Ackermann M,Suter M

    更新日期:2004-04-01 00:00:00

  • Functional genomics reveals the induction of inflammatory response and metalloproteinase gene expression during lethal Ebola virus infection.

    abstract::Ebola virus is the etiologic agent of a lethal hemorrhagic fever in humans and nonhuman primates with mortality rates of up to 90%. Previous studies with Zaire Ebola virus (ZEBOV), mouse-adapted virus (MA-ZEBOV), and mutant viruses (ZEBOV-NP(ma), ZEBOV-VP24(ma), and ZEBOV-NP/VP24(ma)) allowed us to identify the mutati...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.00659-11

    authors: Cilloniz C,Ebihara H,Ni C,Neumann G,Korth MJ,Kelly SM,Kawaoka Y,Feldmann H,Katze MG

    更新日期:2011-09-01 00:00:00

  • The influenza virus NS1 protein is a poly(A)-binding protein that inhibits nuclear export of mRNAs containing poly(A).

    abstract::The influenza virus NS1 protein inhibits the nuclear export of a spliced viral mRNA, NS2 mRNA (F. V. Alonso-Caplen, M. E. Nemeroff, Y. Qiu, and R. M. Krug, Genes Dev. 6:255-267, 1992). To identify the sequence in NS2 mRNA that is recognized by the NS1 protein, we developed a gel shift assay for the formation of specif...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.68.4.2425-2432.1994

    authors: Qiu Y,Krug RM

    更新日期:1994-04-01 00:00:00

  • A molecularly cloned Schwarz strain of measles virus vaccine induces strong immune responses in macaques and transgenic mice.

    abstract::Live attenuated RNA viruses make highly efficient vaccines. Among them, measles virus (MV) vaccine has been given to a very large number of children and has been shown to be highly efficacious and safe. Therefore, this vaccine might be a very promising vector to immunize children against both measles and other infecti...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/jvi.77.21.11546-11554.2003

    authors: Combredet C,Labrousse V,Mollet L,Lorin C,Delebecque F,Hurtrel B,McClure H,Feinberg MB,Brahic M,Tangy F

    更新日期:2003-11-01 00:00:00

  • Evidence for ACE2-utilizing coronaviruses (CoVs) related to severe acute respiratory syndrome CoV in bats.

    abstract::In 2002, severe acute respiratory syndrome (SARS)-coronavirus (CoV) appeared as a novel human virus with high similarity to bat coronaviruses. However, while SARS-CoV uses the human angiotensin-converting enzyme 2 (ACE2) receptor for cellular entry, no coronavirus isolated from bats appears to use ACE2. Here we show t...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.00311-12

    authors: Demogines A,Farzan M,Sawyer SL

    更新日期:2012-06-01 00:00:00

  • Time- and temperature-dependent activation of hepatitis C virus for low-pH-triggered entry.

    abstract::Hepatitis C virus (HCV) is an important human pathogen associated with chronic liver disease. Recently, based on a genotype 2a isolate, tissue culture systems supporting complete replication and infectious virus production have been developed. In this study, we used cell culture-produced infectious HCV to analyze the ...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.80.4.1734-1741.2006

    authors: Tscherne DM,Jones CT,Evans MJ,Lindenbach BD,McKeating JA,Rice CM

    更新日期:2006-02-01 00:00:00

  • Identification, characterization, and sequence analysis of a cDNA encoding a phosphoprotein of human herpesvirus 6.

    abstract::Human herpesvirus 6 (HHV-6)-specific monoclonal antibody (Mab) 9A5D12 reacted with the nucleus of HHV-6 strain GS-infected cells and immunoprecipitated a phosphorylated polypeptide with an approximate size of 41 kDa, designated HHV-6 P41. A 110-kDa polypeptide was also immunoprecipitated by the MAb. These polypeptides...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.65.6.2884-2894.1991

    authors: Chang CK,Balachandran N

    更新日期:1991-06-01 00:00:00

  • Anterograde Viral Tracer Herpes Simplex Virus 1 Strain H129 Transports Primarily as Capsids in Cortical Neuron Axons.

    abstract::The features of herpes simplex virus 1 (HSV-1) strain 129 (H129), including natural neurotropism and anterograde transneuronal trafficking, make it a potential tool for anterograde neural circuitry tracing. Recently anterograde polysynaptic and monosynaptic tracers were developed from H129 and have been applied for th...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.01957-19

    authors: Dong X,Zhou J,Qin HB,Xin B,Huang ZL,Li YY,Xu XM,Zhao F,Zhao CJ,Liu JJ,Luo MH,Zeng WB

    更新日期:2020-03-31 00:00:00

  • Activation of ATPase activity of simian virus 40 large T antigen by the covalent affinity analog of ATP, fluorosulfonylbenzoyl 5'-adenosine.

    abstract::Fluorosulfonylbenzoyl 5'-adenosine (FSBA) bound to one site in simian virus 40 large T antigen (T) and covalently modified greater than 95% of the molecules in a complete reaction. This analog for ATP specifically cross-links to the Mg-phosphate pocket in ATP-binding sites. Cyanogen bromide cleavage and tryptic digest...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.64.10.4939-4947.1990

    authors: Bradley MK

    更新日期:1990-10-01 00:00:00

  • Clonal expansion of superantigen-reactive T cells is resistant to FK506 in mice with AIDS.

    abstract::Subcutaneous injection of FK506 (10 mg/kg of body weight) completely blocked the clonal expansion of staphylococcal enterotoxin A (SEA)-reactive T cells in healthy (control) mice after SEA injection but did not disturb it in mice with murine AIDS (MAIDS) caused by infection with LP-BM5 murine leukemia virus. MAIDS mic...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.71.1.746-749.1997

    authors: Yoshikai Y,Kidokoro H,Kimura K,Aoki Y,Makino M,Hiromatsu K

    更新日期:1997-01-01 00:00:00

  • A functional role for TorsinA in herpes simplex virus 1 nuclear egress.

    abstract::Herpes simplex virus 1 (HSV-1) capsids leave the nucleus by a process of envelopment and de-envelopment at the nuclear envelope (NE) that is accompanied by structural alterations of the NE. As capsids translocate across the NE, transient primary enveloped virions form in the perinuclear space. Here, we provide evidenc...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.05314-11

    authors: Maric M,Shao J,Ryan RJ,Wong CS,Gonzalez-Alegre P,Roller RJ

    更新日期:2011-10-01 00:00:00

  • Conformational changes in the capsid of a calicivirus upon interaction with its functional receptor.

    abstract::Nonenveloped viral capsids are metastable structures that undergo conformational changes during virus entry that lead to interactions of the capsid or capsid fragments with the cell membrane. For members of the Caliciviridae, neither the nature of these structural changes in the capsid nor the factor(s) responsible fo...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.02371-09

    authors: Ossiboff RJ,Zhou Y,Lightfoot PJ,Prasad BV,Parker JS

    更新日期:2010-06-01 00:00:00

  • Monoclonal antibody analysis of simian virus 40 small t-antigen expression in infected and transformed cells.

    abstract::The monoclonal antibody PAb280 binds to small t antigen but not to large T antigen. Its binding site within the unique region of small t antigen was localized by studying its reaction with simian virus 40 mutants, other papovaviruses, and bacterial expression vectors coding for fragments of small t antigen. The antibo...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.63.7.3128-3134.1989

    authors: Montano X,Lane DP

    更新日期:1989-07-01 00:00:00

  • Thymic epithelial genotype influences the production of recombinant leukemogenic retroviruses in mice.

    abstract::By using T1 oligonucleotide fingerprinting and mapping techniques, we analyzed the genomic structure of retroviruses produced by thymocytes and splenocytes of reciprocal bone marrow-and thymus-grafted chimeras. We found that the genetic factor(s) derived from NZB mice that suppresses the development of thymic leukemia...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.47.1.33-45.1983

    authors: Datta SK,Thomas CY,Nicklas JA,Coffin JM

    更新日期:1983-07-01 00:00:00

  • Identification of a hepatitis B virus genome in wild chimpanzees (Pan troglodytes schweinfurthi) from East Africa indicates a wide geographical dispersion among equatorial African primates.

    abstract::DNAs from four wild chimpanzees (Pan troglodytes schweinfurthi) from eastern Africa were screened for 14 DNA viruses and retroviruses. Between two and three viruses were found in each animal. An entire hepatitis B virus (HBV) genome was amplified and sequenced from samples taken from one animal. This indicates that HB...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/jvi.76.21.11155-11158.2002

    authors: Vartanian JP,Pineau P,Henry M,Hamilton WD,Muller MN,Wrangham RW,Wain-Hobson S

    更新日期:2002-11-01 00:00:00

  • The Y-S-L-I tyrosine-based motif in the cytoplasmic domain of the human T-cell leukemia virus type 1 envelope is essential for cell-to-cell transmission.

    abstract::The human T-cell leukemia virus type 1 (HTLV-1) transmembrane glycoprotein has a 24-amino-acid cytoplasmic domain whose function in the viral life cycle is poorly understood. We introduced premature-stop mutations and 18 single-amino-acid substitutions into this domain and studied their effects on cell-to-cell transmi...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.73.11.9659-9663.1999

    authors: Delamarre L,Pique C,Rosenberg AR,Blot V,Grange MP,Le Blanc I,Dokhélar MC

    更新日期:1999-11-01 00:00:00

  • In vitro mutagenesis of the human T-cell leukemia virus types I and II tax genes.

    abstract::The tax gene of the human T-cell leukemia virus types I and II (HTLV-I and HTLV-II) is essential for viral replication and acts by increasing the level of RNA transcription. The tax genes of HTLV-I and HTLV-II encode proteins of 40 and 37 kilodaltons, respectively. By in vitro mutagenesis of the tax gene, we have inve...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.63.3.1474-1479.1989

    authors: Cann AJ,Rosenblatt JD,Wachsman W,Chen IS

    更新日期:1989-03-01 00:00:00

  • Induction and biological properties of defective interfering particles of rabies virus.

    abstract::A method for obtaining large quantities of defective interfering (DI) rabies virus particles that fulfill all the criteria delineated by Huang and Baltimore (1970) is described. The purified rabies DI virion was found to be much shorter (60 to 80 nm) than the complete virion (180 nm) and to have a viral genome of abou...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.21.2.626-635.1977

    authors: Wiktor TJ,Dietzschold B,Leamnson RN,Koprowski H

    更新日期:1977-02-01 00:00:00

  • The ability of simian virus 40 large T antigen to immortalize primary mouse embryo fibroblasts cosegregates with its ability to bind to p53.

    abstract::The large T antigen encoded by simian virus 40 (SV40) plays essential roles in the infection of permissive cells, leading to production of progeny virions, and in the infection of nonpermissive cells, leading to malignant transformation. Primary mouse embryo fibroblasts (MEFs) are nonpermissive for SV40, and infection...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.65.12.6872-6880.1991

    authors: Zhu JY,Abate M,Rice PW,Cole CN

    更新日期:1991-12-01 00:00:00

  • Modification and reorganization of the cytoprotective cellular chaperone Hsp27 during herpes simplex virus type 1 infection.

    abstract::Chaperone-enriched domains are formed in the nuclei of cells lytically infected with herpes simplex virus type 1 (HSV-1). These domains, called VICE, for virus induced chaperone enriched, contain Hsc70, Hsp70, Hsp40, Hsp90, polyubiquitinated proteins, and components of the proteasome machinery. Accumulating evidence i...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.01826-08

    authors: Mathew SS,Della Selva MP,Burch AD

    更新日期:2009-09-01 00:00:00

  • Careers in Virology: Working at the Centers for Disease Control and Prevention.

    abstract::As nonacademic careers in science have become less and less "alternative," one field that has consistently attracted early-career virologists is public health research. The desire to make tangible contributions to public health needs and better protect the public from infectious disease often motivates the transition....

    journal_title:Journal of virology

    pub_type: 杂志文章,评审

    doi:10.1128/JVI.01416-16

    authors: Konopka-Anstadt JL,Burns CC

    更新日期:2017-04-13 00:00:00

  • Human cytomegalovirus-induced NKG2C(hi) CD57(hi) natural killer cells are effectors dependent on humoral antiviral immunity.

    abstract::Recent studies indicate that expansion of NKG2C-positive natural killer (NK) cells is associated with human cytomegalovirus (HCMV); however, their activity in response to HCMV-infected cells remains unclear. We show that NKG2C(hi) CD57(hi) NK cells gated on CD3(neg) CD56(dim) cells can be phenotypically identified as ...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.01096-13

    authors: Wu Z,Sinzger C,Frascaroli G,Reichel J,Bayer C,Wang L,Schirmbeck R,Mertens T

    更新日期:2013-07-01 00:00:00

  • Critical role of MDA5 in the interferon response induced by human metapneumovirus infection in dendritic cells and in vivo.

    abstract::Human metapneumovirus (hMPV) is a respiratory paramyxovirus of global clinical relevance. Despite the substantial knowledge generated during the last 10 years about hMPV infection, information regarding the activation of the immune response against this virus remains largely unknown. In this study, we demonstrated tha...

    journal_title:Journal of virology

    pub_type: 杂志文章

    doi:10.1128/JVI.01213-12

    authors: Baños-Lara Mdel R,Ghosh A,Guerrero-Plata A

    更新日期:2013-01-01 00:00:00