Comprehensive mapping of adaptation of the avian influenza polymerase protein PB2 to humans

Nextstrain: real-time tracking of pathogen evolution

(2018) James Hadfield et al.   BIOINFORMATICS

Complexities of Viral Mutation Rates

(2018) Kayla M. Peck et al.   JOURNAL OF VIROLOGY

A Mechanism for the Activation of the Influenza Virus Transcriptase

(2018) Itziar Serna Martin et al.   MOLECULAR CELL

Genome-wide identification of interferon-sensitive mutations enables influenza vaccine design

(2018) Yushen Du et al.   SCIENCE

The fitness landscape of the codon space across environments

(2018) Inês Fragata et al.   HEREDITY

Deep mutational scanning of hemagglutinin helps predict evolutionary fates of human H3N2 influenza variants

(2018) Juhye M. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mini viral RNAs act as innate immune agonists during influenza virus infection

(2018) Aartjan J. W. te Velthuis et al.   Nature Microbiology

Host and viral determinants of influenza A virus species specificity

(2018) Jason S. Long et al.   NATURE REVIEWS MICROBIOLOGY

Tracking virus outbreaks in the twenty-first century

(2018) Nathan D. Grubaugh et al.   Nature Microbiology

Host and viral traits predict zoonotic spillover from mammals

(2017) Kevin J. Olival et al.   NATURE

Epidemiology, Evolution, and Pathogenesis of H7N9 Influenza Viruses in Five Epidemic Waves since 2013 in China

(2017) Shuo Su et al.   TRENDS IN MICROBIOLOGY

PB2 substitutions V598T/I increase the virulence of H7N9 influenza A virus in mammals

(2017) Meng Hu et al.   VIROLOGY

Structural insights into RNA synthesis by the influenza virus transcription-replication machine

(2017) Alexander Pflug et al.   VIRUS RESEARCH

Characterization of influenza A viruses with polymorphism in PB2 residues 701 and 702

(2017) Alex W. H. Chin et al.   Scientific Reports

Predicting virus emergence amid evolutionary noise

(2017) Jemma L. Geoghegan et al.   Open Biology

Complete mapping of viral escape from neutralizing antibodies

(2017) Michael B. Doud et al.   PLoS Pathogens

Deep mutational scanning identifies sites in influenza nucleoprotein that affect viral inhibition by MxA

(2017) Orr Ashenberg et al.   PLoS Pathogens

phydms: software for phylogenetic analyses informed by deep mutational scanning

(2017) Sarah K. Hilton et al.   PeerJ

Selective Bottlenecks Shape Evolutionary Pathways Taken during Mammalian Adaptation of a 1918-like Avian Influenza Virus

(2016) Louise H. Moncla et al.   Cell Host & Microbe

A Balance between Inhibitor Binding and Substrate Processing Confers Influenza Drug Resistance

(2016) Li Jiang et al.   JOURNAL OF MOLECULAR BIOLOGY

Multiple Natural Substitutions in Avian Influenza A Virus PB2 Facilitate Efficient Replication in Human Cells

(2016) Benjamin Mänz et al.   JOURNAL OF VIROLOGY

Species difference in ANP32A underlies influenza A virus polymerase host restriction

(2016) Jason S. Long et al.   NATURE

Influenza virus RNA polymerase: insights into the mechanisms of viral RNA synthesis

(2016) Aartjan J. W. te Velthuis et al.   NATURE REVIEWS MICROBIOLOGY

Pathogen population bottlenecks and adaptive landscapes: overcoming the barriers to disease emergence

(2016) Jemma L. Geoghegan et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza Hemagglutinin

(2016) Michael Doud et al.   Viruses-Basel

Viral factors in influenza pandemic risk assessment

(2016) Marc Lipsitch et al.   eLife

Propagation and Characterization of Influenza Virus Stocks That Lack High Levels of Defective Viral Genomes and Hemagglutinin Mutations

(2016) Jia Xue et al.   Frontiers in Microbiology

Optimized Sleeping Beauty transposons rapidly generate stable transgenic cell lines

(2015) Eric Kowarz et al.   Biotechnology Journal

Software for the analysis and visualization of deep mutational scanning data

(2015) Jesse D Bloom   BMC BIOINFORMATICS

Site-Specific Amino Acid Preferences Are Mostly Conserved in Two Closely Related Protein Homologs

(2015) Michael B. Doud et al.   MOLECULAR BIOLOGY AND EVOLUTION

Crystal structure of the RNA-dependent RNA polymerase from influenza C virus

(2015) Narin Hengrung et al.   NATURE

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

Molecular Determinants for Nuclear Import of Influenza A PB2 by Importin α Isoforms 3 and 7

(2015) Ruth A. Pumroy et al.   STRUCTURE

Identification of mammalian-adapting mutations in the polymerase complex of an avian H5N1 influenza virus

(2015) Andrew S. Taft et al.   Nature Communications

Optimized Sleeping Beauty transposons rapidly generate stable transgenic cell lines

(2015) Eric Kowarz et al.   Biotechnology Journal

Influenza A Virus Transmission Bottlenecks Are Defined by Infection Route and Recipient Host

(2014) Andrew Varble et al.   Cell Host & Microbe

Viewing Protein Fitness Landscapes Through a Next-Gen Lens

(2014) J. I. Boucher et al.   GENETICS

Viral determinants of influenza A virus host range

(2014) A. V. Cauldwell et al.   JOURNAL OF GENERAL VIROLOGY

High-Throughput Identification of Loss-of-Function Mutations for Anti-Interferon Activity in the Influenza A Virus NS Segment

(2014) N. C. Wu et al.   JOURNAL OF VIROLOGY

An Experimentally Determined Evolutionary Model Dramatically Improves Phylogenetic Fit

(2014) Jesse D. Bloom   MOLECULAR BIOLOGY AND EVOLUTION

Structural insight into cap-snatching and RNA synthesis by influenza polymerase

(2014) Stefan Reich et al.   NATURE

Deep mutational scanning: a new style of protein science

(2014) Douglas M Fowler et al.   NATURE METHODS

At the centre: influenza A virus ribonucleoproteins

(2014) Amie J. Eisfeld et al.   NATURE REVIEWS MICROBIOLOGY

Identification and Chronological Analysis of Genomic Signatures in Influenza A Viruses

(2014) Yuh-Jyh Hu et al.   PLoS One

Influenza A viruses with different amino acid residues at PB2-627 display distinct replication properties in vitro and in vivo : Revealing the sequence plasticity of PB2-627 position

(2014) Alex W.H. Chin et al.   VIROLOGY

High-throughput profiling of influenza A virus hemagglutinin gene at single-nucleotide resolution

(2014) Nicholas C. Wu et al.   Scientific Reports

Improving pandemic influenza risk assessment

(2014) Colin A Russell et al.   eLife

The Effect of the PB2 Mutation 627K on Highly Pathogenic H5N1 Avian Influenza Virus Is Dependent on the Virus Lineage

(2013) J. S. Long et al.   JOURNAL OF VIROLOGY

New World Bats Harbor Diverse Influenza A Viruses

(2013) Suxiang Tong et al.   PLoS Pathogens

The nuclear import machinery is a determinant of influenza virus host adaptation

(2012) Patricia Resa-Infante et al.   BIOESSAYS

Unstable Polymerase-Nucleoprotein Interaction Is Not Responsible for Avian Influenza Virus Polymerase Restriction in Human Cells

(2012) A. V. Cauldwell et al.   JOURNAL OF VIROLOGY

A distinct lineage of influenza A virus from bats

(2012) S. Tong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Adaptive pathways of zoonotic influenza viruses: From exposure to establishment in humans

(2012) Leslie A. Reperant et al.   VACCINE

Adaptive mutations in NEP compensate for defective H5N1 RNA replication in cultured human cells

(2012) Benjamin Mänz et al.   Nature Communications

Amino Acid Residues 253 and 591 of the PB2 Protein of Avian Influenza Virus A H9N2 Contribute to Mammalian Pathogenesis

(2011) C. K. P. Mok et al.   JOURNAL OF VIROLOGY

Differential use of importin-α isoforms governs cell tropism and host adaptation of influenza virus

(2011) Gülsah Gabriel et al.   Nature Communications

Influenza Virus Evolution, Host Adaptation, and Pandemic Formation

(2010) Jeffery K. Taubenberger et al.   Cell Host & Microbe

PB2 Residue 271 Plays a Key Role in Enhanced Polymerase Activity of Influenza A Viruses in Mammalian Host Cells

(2010) K. A. Bussey et al.   JOURNAL OF VIROLOGY

PB2 Residue 158 Is a Pathogenic Determinant of Pandemic H1N1 and H5 Influenza A Viruses in Mice

(2010) B. Zhou et al.   JOURNAL OF VIROLOGY

The PB2 Subunit of the Influenza Virus RNA Polymerase Affects Virulence by Interacting with the Mitochondrial Antiviral Signaling Protein and Inhibiting Expression of Beta Interferon

(2010) K. M. Graef et al.   JOURNAL OF VIROLOGY

Charting the Host Adaptation of Influenza Viruses

(2010) M. dos Reis et al.   MOLECULAR BIOLOGY AND EVOLUTION

Association of RIG-I with innate immunity of ducks to influenza

(2010) M. R. W. Barber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Permissive Secondary Mutations Enable the Evolution of Influenza Oseltamivir Resistance

(2010) J. D. Bloom et al.   SCIENCE

The PB2-E627K Mutation Attenuates Viruses Containing the 2009 H1N1 Influenza Pandemic Polymerase

(2010) B. W. Jagger et al.   mBio

Biological and Structural Characterization of a Host-Adapting Amino Acid in Influenza Virus

(2010) Shinya Yamada et al.   PLoS Pathogens

Role of host-specific amino acids in the pathogenicity of avian H5N1 influenza viruses in mice

(2009) J. H. Kim et al.   JOURNAL OF GENERAL VIROLOGY

Adaptive strategies of the influenza virus polymerase for replication in humans

(2009) Andrew Mehle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying Changes in Selective Constraints: Host Shifts in Influenza

(2009) Asif U. Tamuri et al.   PLoS Computational Biology

Identification of human-to-human transmissibility factors in PB2 proteins of influenza A by large-scale mutual information analysis

(2008) Olivo Miotto et al.   BMC BIOINFORMATICS

An Inhibitory Activity in Human Cells Restricts the Function of an Avian-like Influenza Virus Polymerase

(2008) Andrew Mehle et al.   Cell Host & Microbe

Immunomic Analysis of the Repertoire of T-Cell Specificities for Influenza A Virus in Humans

(2008) E. Assarsson et al.   JOURNAL OF VIROLOGY

Cross-Species Virus Transmission and the Emergence of New Epidemic Diseases

(2008) C. R. Parrish et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

The structural basis for cap binding by influenza virus polymerase subunit PB2

(2008) Delphine Guilligay et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Host-Dependent Interaction of α-Importins with Influenza PB2 Polymerase Subunit Is Required for Virus RNA Replication

(2008) Patricia Resa-Infante et al.   PLoS One

Interaction of Polymerase Subunit PB2 and NP with Importin α1 Is a Determinant of Host Range of Influenza A Virus

(2008) Gülsah Gabriel et al.   PLoS Pathogens