Evidence for the Selective Basis of Transition-to-Transversion Substitution Bias in Two RNA Viruses

A novel twelve class fluctuation test reveals higher than expected mutation rates for influenza A viruses

(2017) Matthew D Pauly et al.   eLife

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

(2016) Michael Doud et al.   Viruses-Basel

The Mutational Robustness of Influenza A Virus

(2016) Elisa Visher et al.   PLoS Pathogens

Experimental Estimation of the Effects of All Amino-Acid Mutations to HIV’s Envelope Protein on Viral Replication in Cell Culture

(2016) Hugh K. Haddox et al.   PLoS Pathogens

Declining transition/transversion ratios through time reveal limitations to the accuracy of nucleotide substitution models

(2015) Sebastián Duchêne et al.   BMC EVOLUTIONARY BIOLOGY

Effective Lethal Mutagenesis of Influenza Virus by Three Nucleoside Analogs

(2015) Matthew D. Pauly et al.   JOURNAL OF VIROLOGY

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

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

On the Causes of Evolutionary Transition:Transversion Bias

(2015) Arlin Stoltzfus et al.   MOLECULAR BIOLOGY AND EVOLUTION

Uneven Genetic Robustness of HIV-1 Integrase

(2014) Suzannah J. Rihn et al.   JOURNAL OF VIROLOGY

An Experimentally Determined Evolutionary Model Dramatically Improves Phylogenetic Fit

(2014) Jesse D. Bloom   MOLECULAR BIOLOGY AND EVOLUTION

The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin

(2014) Bargavi Thyagarajan et al.   eLife

Capturing the mutational landscape of the beta-lactamase TEM-1

(2013) H. Jacquier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Extreme Genetic Fragility of the HIV-1 Capsid

(2013) Suzannah J. Rihn et al.   PLoS Pathogens

Codon Usage Determines the Mutational Robustness, Evolutionary Capacity, and Virulence of an RNA Virus

(2012) Adam S. Lauring et al.   Cell Host & Microbe

The Fitness Effects of Synonymous Mutations in DNA and RNA Viruses

(2011) José M. Cuevas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Reduced Selective Constraint in Endosymbionts: Elevation in Radical Amino Acid Replacements Occurs Genome-Wide

(2011) Jennifer J. Wernegreen   PLoS One

Distribution of Fitness Effects Caused by Single-Nucleotide Substitutions in Bacteriophage f1

(2010) J. B. Peris et al.   GENETICS

Mutational fitness effects in RNA and single-stranded DNA viruses: common patterns revealed by site-directed mutagenesis studies

(2010) R. Sanjuan   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Rate, molecular spectrum, and consequences of human mutation

(2010) M. Lynch   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Relaxation of selective constraints on avian mitochondrial DNA following the degeneration of flight ability

(2009) Y.-Y. Shen et al.   GENOME RESEARCH

5-Azacytidine Can Induce Lethal Mutagenesis in Human Immunodeficiency Virus Type 1

(2009) M. J. Dapp et al.   JOURNAL OF VIROLOGY

Architecture and secondary structure of an entire HIV-1 RNA genome

(2009) Joseph M. Watts et al.   NATURE

Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm

(2009) Prateek Kumar et al.   Nature Protocols

RNA structure prediction from evolutionary patterns of nucleotide composition

(2009) S. Smit et al.   NUCLEIC ACIDS RESEARCH

Therapeutically targeting RNA viruses via lethal mutagenesis

(2008) Jason D Graci et al.   Future Virology