Viral and host heterogeneity and their effects on the viral life cycle

Receptor recognition by novel coronavirus from Wuhan: An analysis based on decade-long structural studies of SARS

(2020) Yushun Wan et al.   JOURNAL OF VIROLOGY

Structural basis for the recognition of the SARS-CoV-2 by full-length human ACE2

(2020) Renhong Yan et al.   SCIENCE

Return of the Coronavirus: 2019-nCoV

(2020) Lisa E. Gralinski et al.   Viruses-Basel

Cell-to-Cell Variation in Defective Virus Expression and Effects on Host Responses during Influenza Virus Infection

(2020) Chang Wang et al.   mBio

Quantitative live cell imaging reveals influenza virus manipulation of Rab11A transport through reduced dynein association

(2020) Amar R. Bhagwat et al.   Nature Communications

Fifty Years of Influenza A(H3N2) Following the Pandemic of 1968

(2020) Barbara J. Jester et al.   AMERICAN JOURNAL OF PUBLIC HEALTH

Chloroquine does not inhibit infection of human lung cells with SARS-CoV-2

(2020) Markus Hoffmann et al.   NATURE

West Nile virus-inclusive single-cell RNA sequencing reveals heterogeneity in the type I interferon response within single cells

(2019) Justin T. O’Neal et al.   JOURNAL OF VIROLOGY

Viruses in bats and potential spillover to animals and humans

(2019) Lin-Fa Wang et al.   Current Opinion in Virology

Tuberculosis Exacerbates HIV-1 Infection through IL-10/STAT3-Dependent Tunneling Nanotube Formation in Macrophages

(2019) Shanti Souriant et al.   Cell Reports

Single-cell virus sequencing of influenza infections that trigger innate immunity

(2019) Alistair B. Russell et al.   JOURNAL OF VIROLOGY

Immunocapture of virions with virus-specific antibodies prior to high-throughput sequencing effectively enriches for virus-specific sequences

(2019) Dennis Knierim et al.   PLoS One

Stronger together: Multi-genome transmission of measles virus

(2019) Roberto Cattaneo et al.   VIRUS RESEARCH

A specific sequence in the genome of respiratory syncytial virus regulates the generation of copy-back defective viral genomes

(2019) Yan Sun et al.   PLoS Pathogens

Influenza A virus surface proteins are organized to help penetrate host mucus

(2019) Michael D Vahey et al.   eLife

Trans-endocytosis elicited by nectins transfers cytoplasmic cargo including infectious material between cells

(2019) Alex R. Generous et al.   JOURNAL OF CELL SCIENCE

Comparison of intra- and inter-host genetic diversity in rabies virus during experimental cross-species transmission

(2019) Emilie M. Bonnaud et al.   PLoS Pathogens

Defective viral genomes are key drivers of the virus–host interaction

(2019) Marco Vignuzzi et al.   Nature Microbiology

Remodeling of the Actin Network Associated with the Non-Structural Protein 1 (NS1) of West Nile Virus and Formation of NS1-Containing Tunneling Nanotubes

(2019) Wilhelm Furnon et al.   Viruses-Basel

SR-BI Interactome Analysis Reveals a Proviral Role for UGGT1 in Hepatitis C Virus Entry

(2019) Jiazhao Huang et al.   Frontiers in Microbiology

Measles Virus Ribonucleoprotein Complexes Rapidly Spread across Well-Differentiated Primary Human Airway Epithelial Cells along F-Actin Rings

(2019) Brajesh K. Singh et al.   mBio

Incomplete influenza A virus genomes occur frequently but are readily complemented during localized viral spread

(2019) Nathan T. Jacobs et al.   Nature Communications

Membrane-Associated Enteroviruses Undergo Intercellular Transmission as Pools of Sibling Viral Genomes

(2019) Juan-Vicente Bou et al.   Cell Reports

Tunneling Nanotubes as a Novel Route of Cell-to-Cell Spread of Herpesviruses

(2018) Mirosława Panasiuk et al.   JOURNAL OF VIROLOGY

Promotion of virus assembly and organization by the measles virus matrix protein

(2018) Zunlong Ke et al.   Nature Communications

Single-cell transcriptional dynamics of flavivirus infection

(2018) Fabio Zanini et al.   eLife

Extreme heterogeneity of influenza virus infection in single cells

(2018) Alistair B Russell et al.   eLife

Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing

(2018) Yael Steuerman et al.   Cell Systems

Vesicle-Cloaked Virus Clusters Are Optimal Units for Inter-organismal Viral Transmission

(2018) Marianita Santiana et al.   Cell Host & Microbe

Distinct antiviral signatures revealed by the magnitude and round of influenza virus replication in vivo

(2018) Louisa E. Sjaastad et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Morphology and Assembly of Respiratory Syncytial Virus Revealed by Cryo-Electron Tomography

(2018) Zunlong Ke et al.   Viruses-Basel

Single-cell analysis reveals that stochasticity and paracrine signaling control interferon-alpha production by plasmacytoid dendritic cells

(2018) Florian Wimmers et al.   Nature Communications

Low-Fidelity Assembly of Influenza A Virus Promotes Escape from Host Cells

(2018) Michael D. Vahey et al.   CELL

High resolution evolutionary analysis of within-host hepatitis C virus infection

(2018) Jayna Raghwani et al.   JOURNAL OF INFECTIOUS DISEASES

Defective viral genomes alter how Sendai virus interacts with cellular trafficking machinery leading to heterogeneity in the production of viral particles among infected cells

(2018) Emmanuelle Genoyer et al.   JOURNAL OF VIROLOGY

Chikungunya virus: epidemiology, replication, disease mechanisms, and prospective intervention strategies

(2017) Laurie A. Silva et al.   JOURNAL OF CLINICAL INVESTIGATION

Single-cell studies of IFN-β promoter activation by wild-type and NS1-defective influenza A viruses

(2017) M. J Killip et al.   JOURNAL OF GENERAL VIROLOGY

Scavenger receptor class B member 1 ( SCARB1 ) variants modulate hepatitis C virus replication cycle and viral load

(2017) Sandra Westhaus et al.   JOURNAL OF HEPATOLOGY

Zika Virus Structure, Maturation, and Receptors

(2017) Devika Sirohi et al.   JOURNAL OF INFECTIOUS DISEASES

Interferon-Stimulated Genes as Enhancers of Antiviral Innate Immune Signaling

(2017) Keaton M. Crosse et al.   Journal of Innate Immunity

Unique Directional Motility of Influenza C Virus Controlled by Its Filamentous Morphology and Short-Range Motions

(2017) Tatsuya Sakai et al.   JOURNAL OF VIROLOGY

Permissivity of Dipeptidyl Peptidase 4 Orthologs to Middle East Respiratory Syndrome Coronavirus Is Governed by Glycosylation and Other Complex Determinants

(2017) Kayla M. Peck et al.   JOURNAL OF VIROLOGY

Axl Can Serve as Entry Factor for Lassa Virus Depending on the Functional Glycosylation of Dystroglycan

(2017) Chiara Fedeli et al.   JOURNAL OF VIROLOGY

Protein composition of the hepatitis A virus quasi-envelope

(2017) Kevin L. McKnight et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural basis for antibody-mediated neutralization of Lassa virus

(2017) Kathryn M. Hastie et al.   SCIENCE

Single-virus genomics reveals hidden cosmopolitan and abundant viruses

(2017) Francisco Martinez-Hernandez et al.   Nature Communications

Replication defective viral genomes exploit a cellular pro-survival mechanism to establish paramyxovirus persistence

(2017) Jie Xu et al.   Nature Communications

Influenza virus exploits tunneling nanotubes for cell-to-cell spread

(2017) Amrita Kumar et al.   Scientific Reports

Analysis of IAV Replication and Co-infection Dynamics by a Versatile RNA Viral Genome Labeling Method

(2017) Dan Dou et al.   Cell Reports

Structure and organization of paramyxovirus particles

(2017) Robert M Cox et al.   Current Opinion in Virology

Comparative analysis estimates the relative frequencies of co-divergence and cross-species transmission within viral families

(2017) Jemma L. Geoghegan et al.   PLoS Pathogens

Assembly, maturation and three-dimensional helical structure of the teratogenic rubella virus

(2017) Vidya Mangala Prasad et al.   PLoS Pathogens

Multi-virion infectious units arise from free viral particles in an enveloped virus

(2017) José M. Cuevas et al.   Nature Microbiology

Influenza A virus hemagglutinin and neuraminidase act as novel motile machinery

(2017) Tatsuya Sakai et al.   Scientific Reports

Mechanisms of viral mutation

(2016) Rafael Sanjuán et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

(+) RNA virus replication compartments: a safe home for (most) viral replication

(2016) Ana Shulla et al.   CURRENT OPINION IN MICROBIOLOGY

Glycan–protein interactions in viral pathogenesis

(2016) Rahul Raman et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Filamentous influenza viruses

(2016) Bernadeta Dadonaite et al.   JOURNAL OF GENERAL VIROLOGY

Potential Role of the Formation of Tunneling Nanotubes in HIV-1 Spread in Macrophages

(2016) Michihiro Hashimoto et al.   JOURNAL OF IMMUNOLOGY

Complete and Incomplete Genome Packaging of Influenza A and B Viruses

(2016) Sumiho Nakatsu et al.   mBio

Exceptional Heterogeneity in Viral Evolutionary Dynamics Characterises Chronic Hepatitis C Virus Infection

(2016) Jayna Raghwani et al.   PLoS Pathogens

Single-Molecule FISH Reveals Non-selective Packaging of Rift Valley Fever Virus Genome Segments

(2016) Paul J. Wichgers Schreur et al.   PLoS Pathogens

Human metapneumovirus Induces Reorganization of the Actin Cytoskeleton for Direct Cell-to-Cell Spread

(2016) Farah El Najjar et al.   PLoS Pathogens

Moving On Out: Transport and Packaging of Influenza Viral RNA into Virions

(2016) Seema S. Lakdawala et al.   Annual Review of Virology

Phosphatidylserine Vesicles Enable Efficient En Bloc Transmission of Enteroviruses

(2015) Ying-Han Chen et al.   CELL

Matriglycan: a novel polysaccharide that links dystroglycan to the basement membrane

(2015) T. Yoshida-Moriguchi et al.   GLYCOBIOLOGY

Glycosylation of Mouse DPP4 Plays a Role in Inhibiting Middle East Respiratory Syndrome Coronavirus Infection

(2015) Kayla M. Peck et al.   JOURNAL OF VIROLOGY

Single-cell analysis shows that paracrine signaling by first responder cells shapes the interferon-β response to viral infection

(2015) Sonali Patil et al.   Science Signaling

Shake, rattle, and roll: Impact of the dynamics of flavivirus particles on their interactions with the host

(2015) Richard J. Kuhn et al.   VIROLOGY

Single-cell analysis and stochastic modelling unveil large cell-to-cell variability in influenza A virus infection

(2015) Frank S. Heldt et al.   Nature Communications

Group Selection and Contribution of Minority Variants during Virus Adaptation Determines Virus Fitness and Phenotype

(2015) Antonio V. Bordería et al.   PLoS Pathogens

Single-cell analysis shows that paracrine signaling by first responder cells shapes the interferon-β response to viral infection

(2015) Sonali Patil et al.   Science Signaling

Compartmentalization, Viral Evolution, and Viral Latency of HIV in the CNS

(2015) Maria M. Bednar et al.   Current HIV/AIDS Reports

The Impact of Hepatitis C Virus Entry on Viral Tropism

(2014) Qiang Ding et al.   Cell Host & Microbe

Role of receptor binding specificity in influenza A virus transmission and pathogenesis

(2014) M. de Graaf et al.   EMBO JOURNAL

Influenza A Virus Uses Intercellular Connections To Spread to Neighboring Cells

(2014) Kari L. Roberts et al.   JOURNAL OF VIROLOGY

Single-Cell Analysis Uncovers Extensive Biological Noise in Poliovirus Replication

(2014) M. B. Schulte et al.   JOURNAL OF VIROLOGY

Influenza Virus Reservoirs and Intermediate Hosts: Dogs, Horses, and New Possibilities for Influenza Virus Exposure of Humans

(2014) Colin R. Parrish et al.   JOURNAL OF VIROLOGY

The M Segment of the 2009 Pandemic Influenza Virus Confers Increased Neuraminidase Activity, Filamentous Morphology, and Efficient Contact Transmissibility to A/Puerto Rico/8/1934-Based Reassortant Viruses

(2014) P. J. Campbell et al.   JOURNAL OF VIROLOGY

Single-cell RNA-seq reveals dynamic paracrine control of cellular variation

(2014) Alex K. Shalek et al.   NATURE

Nonlytic viral spread enhanced by autophagy components

(2014) S. W. Bird et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multi-peaked adaptive landscape for chikungunya virus evolution predicts continued fitness optimization in Aedes albopictus mosquitoes

(2014) Konstantin A. Tsetsarkin et al.   Nature Communications

Conserved and host-specific features of influenza virion architecture

(2014) Edward C. Hutchinson et al.   Nature Communications

Coxsackievirus B Exits the Host Cell in Shed Microvesicles Displaying Autophagosomal Markers

(2014) Scott M. Robinson et al.   PLoS Pathogens

Receptor recognition and cross-species infections of SARS coronavirus

(2013) Fang Li   ANTIVIRAL RESEARCH

Visualizing the Beta Interferon Response in Mice during Infection with Influenza A Viruses Expressing or Lacking Nonstructural Protein 1

(2013) C. Kallfass et al.   JOURNAL OF VIROLOGY

Spherical Influenza Viruses Have a Fitness Advantage in Embryonated Eggs, while Filament-Producing Strains Are Selected In Vivo

(2013) J. Seladi-Schulman et al.   JOURNAL OF VIROLOGY

Most Influenza A Virions Fail To Express at Least One Essential Viral Protein

(2013) C. B. Brooke et al.   JOURNAL OF VIROLOGY

A pathogenic picornavirus acquires an envelope by hijacking cellular membranes

(2013) Zongdi Feng et al.   NATURE

Dipeptidyl peptidase 4 is a functional receptor for the emerging human coronavirus-EMC

(2013) V. Stalin Raj et al.   NATURE

The role of mutational robustness in RNA virus evolution

(2013) Adam S. Lauring et al.   NATURE REVIEWS MICROBIOLOGY

Glycomic Analysis of Human Respiratory Tract Tissues and Correlation with Influenza Virus Infection

(2013) Trevenan Walther et al.   PLoS Pathogens

Influenza Virus Reassortment Occurs with High Frequency in the Absence of Segment Mismatch

(2013) Nicolle Marshall et al.   PLoS Pathogens

Unexpected Maintenance of Hepatitis C Viral Diversity following Liver Transplantation

(2012) Rebecca R. Gray et al.   JOURNAL OF VIROLOGY

Functional Characterization of Newly-Discovered Mutations in Human SR-BI

(2012) Alexandra C. Chadwick et al.   PLoS One

Identification of Cell Surface Molecules Involved in Dystroglycan-Independent Lassa Virus Cell Entry

(2011) M. Shimojima et al.   JOURNAL OF VIROLOGY

Eurasian-Origin Gene Segments Contribute to the Transmissibility, Aerosol Release, and Morphology of the 2009 Pandemic H1N1 Influenza Virus

(2011) Seema S. Lakdawala et al.   PLoS Pathogens

Viral Mutation Rates

(2010) R. Sanjuan et al.   JOURNAL OF VIROLOGY

Molecular Architectures of Trimeric SIV and HIV-1 Envelope Glycoproteins on Intact Viruses: Strain-Dependent Variation in Quaternary Structure

(2010) Tommi A. White et al.   PLoS Pathogens

HIV-1 Populations in Semen Arise through Multiple Mechanisms

(2010) Jeffrey A. Anderson et al.   PLoS Pathogens

Cross-sectional characterization of HIV-1 env compartmentalization in cerebrospinal fluid over the full disease course

(2009) Patrick R Harrington et al.   AIDS

Compartmentalization and Clonal Amplification of HIV-1 Variants in the Cerebrospinal Fluid during Primary Infection

(2009) G. Schnell et al.   JOURNAL OF VIROLOGY

Quantitating the Multiplicity of Infection with Human Immunodeficiency Virus Type 1 Subtype C Reveals a Non-Poisson Distribution of Transmitted Variants

(2009) M.-R. Abrahams et al.   JOURNAL OF VIROLOGY

Hemagglutinin Receptor Binding Avidity Drives Influenza A Virus Antigenic Drift

(2009) S. E. Hensley et al.   SCIENCE

Tunneling nanotubes (TNT) are induced by HIV-infection of macrophages: A potential mechanism for intercellular HIV trafficking

(2008) E.A. Eugenin et al.   CELLULAR IMMUNOLOGY

Intercellular transfer mediated by tunneling nanotubes

(2008) Hans-Hermann Gerdes et al.   CURRENT OPINION IN CELL BIOLOGY

Molecular architecture of native HIV-1 gp120 trimers

(2008) Jun Liu et al.   NATURE

Membrane nanotubes physically connect T cells over long distances presenting a novel route for HIV-1 transmission

(2008) Stefanie Sowinski et al.   NATURE CELL BIOLOGY