Adaptive Protein Evolution in Animals and the Effective Population Size Hypothesis

Natural Selection Constrains Neutral Diversity across A Wide Range of Species

(2015) Russell B. Corbett-Detig et al.   PLOS BIOLOGY

Purifying Selection, Drift, and Reversible Mutation with Arbitrarily High Mutation Rates

(2014) Brian Charlesworth et al.   GENETICS

Biased Gene Conversion and GC-Content Evolution in the Coding Sequences of Reptiles and Vertebrates

(2014) Emeric Figuet et al.   Genome Biology and Evolution

Genome-wide signals of positive selection in human evolution

(2014) D. Enard et al.   GENOME RESEARCH

Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA

(2014) Emilia Huerta-Sánchez et al.   NATURE

Comparative population genomics in animals uncovers the determinants of genetic diversity

(2014) J. Romiguier et al.   NATURE

Thinking too positive? Revisiting current methods of population genetic selection inference

(2014) Claudia Bank et al.   TRENDS IN GENETICS

Bio++: Efficient Extensible Libraries and Tools for Computational Molecular Evolution

(2013) Laurent Guéguen et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Rate of Molecular Adaptation in a Changing Environment

(2013) João M. Lourenço et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evidence for Polygenic Adaptation to Pathogens in the Human Genome

(2013) Josephine T. Daub et al.   MOLECULAR BIOLOGY AND EVOLUTION

Frequent adaptation and the McDonald-Kreitman test

(2013) P. W. Messer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Population size and the rate of evolution

(2013) Robert Lanfear et al.   TRENDS IN ECOLOGY & EVOLUTION

Reference-Free Population Genomics from Next-Generation Transcriptome Data and the Vertebrate–Invertebrate Gap

(2013) Philippe Gayral et al.   PLoS Genetics

Population genomics of the endangered giant Galápagos tortoise

(2013) Etienne Loire et al.   GENOME BIOLOGY

THE RELATION BETWEEN THE NEUTRALITY INDEX FOR MITOCHONDRIAL GENES AND THE DISTRIBUTION OF MUTATIONAL EFFECTS ON FITNESS

(2012) Andrea J. Betancourt et al.   EVOLUTION

The Nearly Neutral and Selection Theories of Molecular Evolution Under the Fisher Geometrical Framework: Substitution Rate, Population Size, and Complexity

(2012) P. Razeto-Barry et al.   GENETICS

A Resolution of the Mutation Load Paradox in Humans

(2012) Y. Lesecque et al.   GENETICS

Weak Selection and Protein Evolution

(2012) H. Akashi et al.   GENETICS

The Population Genomics of a Fast Evolver: High Levels of Diversity, Functional Constraint, and Molecular Adaptation in the Tunicate Ciona intestinalis

(2012) Georgia Tsagkogeorga et al.   Genome Biology and Evolution

The Effect of Variation in the Effective Population Size on the Rate of Adaptive Molecular Evolution in Eukaryotes

(2012) Toni I. Gossmann et al.   Genome Biology and Evolution

Evidence for Widespread GC-biased Gene Conversion in Eukaryotes

(2012) Eugénie Pessia et al.   Genome Biology and Evolution

Adaptive Evolution and Effective Population Size in Wild House Mice

(2012) M. Phifer-Rixey et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evidence for Widespread Positive and Purifying Selection Across the European Rabbit (Oryctolagus cuniculus) Genome

(2012) M. Carneiro et al.   MOLECULAR BIOLOGY AND EVOLUTION

Reference-free transcriptome assembly in non-model animals from next-generation sequencing data

(2012) V. CAHAIS et al.   Molecular Ecology Resources

Extensive X-linked adaptive evolution in central chimpanzees

(2012) C. Hvilsom et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

COMPLEXITY, PLEIOTROPY, AND THE FITNESS EFFECT OF MUTATIONS

(2011) João Lourenço et al.   EVOLUTION

A Method for Inferring the Rate of Occurrence and Fitness Effects of Advantageous Mutations

(2011) Adrian Schneider et al.   GENETICS

Characterizing the Influence of Effective Population Size on the Rate of Adaptation: Gillespie’s Darwin Domain

(2011) Jeffrey D. Jensen et al.   Genome Biology and Evolution

Comparative RNA sequencing reveals substantial genetic variation in endangered primates

(2011) G. H. Perry et al.   GENOME RESEARCH

Next-generation sequencing of transcriptomes: a guide to RNA isolation in nonmodel animals

(2011) PHILIPPE GAYRAL et al.   Molecular Ecology Resources

MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons

(2011) Vincent Ranwez et al.   PLoS One

Weighing the evidence for adaptation at the molecular level

(2011) Justin C. Fay   TRENDS IN GENETICS

Convergent sequence evolution between echolocating bats and dolphins

(2010) Yang Liu et al.   CURRENT BIOLOGY

Effective Population Size Is Positively Correlated with Levels of Adaptive Divergence among Annual Sunflowers

(2010) J. L. Strasburg et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome Wide Analyses Reveal Little Evidence for Adaptive Evolution in Many Plant Species

(2010) T. I. Gossmann et al.   MOLECULAR BIOLOGY AND EVOLUTION

Detecting positive selection within genomes: the problem of biased gene conversion

(2010) A. Ratnakumar et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evidence for Pervasive Adaptive Protein Evolution in Wild Mice

(2010) Daniel L. Halligan et al.   PLoS Genetics

Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

(2009) Laurent Duret et al.   Annual Review of Genomics and Human Genetics

Estimating the Rate of Adaptive Molecular Evolution in the Presence of Slightly Deleterious Mutations and Population Size Change

(2009) A. Eyre-Walker et al.   MOLECULAR BIOLOGY AND EVOLUTION

Population genomics of domestic and wild yeasts

(2009) Gianni Liti et al.   NATURE

Quantifying Adaptive Evolution in the Drosophila Immune System

(2009) Darren J. Obbard et al.   PLoS Genetics

Mistranslation-Induced Protein Misfolding as a Dominant Constraint on Coding-Sequence Evolution

(2008) D. Allan Drummond et al.   CELL

Divergence and Polymorphism Under the Nearly Neutral Theory of Molecular Evolution

(2008) John J. Welch et al.   JOURNAL OF MOLECULAR EVOLUTION

The McDonald-Kreitman Test and Slightly Deleterious Mutations

(2008) J. Charlesworth et al.   MOLECULAR BIOLOGY AND EVOLUTION

Assessing the Evolutionary Impact of Amino Acid Mutations in the Human Genome

(2008) Adam R. Boyko et al.   PLoS Genetics