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

A phylogeny and revised classification of Squamata, including 4161 species of lizards and snakes

(2013) R Pyron et al.   BMC EVOLUTIONARY BIOLOGY

Molecular cytogenetic map of the central bearded dragon, Pogona vitticeps (Squamata: Agamidae)

(2013) M. J. Young et al.   CHROMOSOME RESEARCH

The First Chameleon Transcriptome: Comparative Genomic Analysis of the OXPHOS System Reveals Loss of COX8 in Iguanian Lizards

(2013) Dan Bar-Yaacov et al.   Genome Biology and Evolution

A fine-scale recombination map of the human-chimpanzee ancestor reveals faster change in humans than in chimpanzees and a strong impact of GC-biased gene conversion

(2013) K. Munch et al.   GENOME RESEARCH

Homoeologous chromosomes of Xenopus laevis are highly conserved after whole-genome duplication

(2013) Y Uno et al.   HEREDITY

Twisted Signatures of GC-Biased Gene Conversion Embedded in an Evolutionary Stable Karyotype

(2013) Carina F. Mugal et al.   MOLECULAR BIOLOGY AND EVOLUTION

Inference of the Protokaryotypes of Amniotes and Tetrapods and the Evolutionary Processes of Microchromosomes from Comparative Gene Mapping

(2013) Yoshinobu Uno et al.   PLoS One

A Phylogeny of Birds Based on Over 1,500 Loci Collected by Target Enrichment and High-Throughput Sequencing

(2013) John E. McCormack et al.   PLoS One

The Burmese python genome reveals the molecular basis for extreme adaptation in snakes

(2013) T. A. Castoe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Model-Based Analysis of GC-Biased Gene Conversion in the Human and Chimpanzee Genomes

(2013) John A. Capra et al.   PLoS Genetics

The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage

(2013) H Bradley Shaffer et al.   GENOME BIOLOGY

Phylogenomic analyses support the position of turtles as the sister group of birds and crocodiles (Archosauria)

(2012) Ylenia Chiari et al.   BMC BIOLOGY

De novo sequence assembly and characterisation of a partial transcriptome for an evolutionarily distinct reptile, the tuatara (Sphenodon punctatus)

(2012) Hilary C Miller et al.   BMC GENOMICS

Intra-genomic GC heterogeneity in sauropsids: evolutionary insights from cDNA mapping and GC3 profiling in snake

(2012) Kazumi Matsubara et al.   BMC GENOMICS

Evidence for Widespread GC-biased Gene Conversion in Eukaryotes

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

Interaction between Selection and Biased Gene Conversion in Mammalian Protein-Coding Sequence Evolution Revealed by a Phylogenetic Covariance Analysis

(2012) N. Lartillot   MOLECULAR BIOLOGY AND EVOLUTION

Genomic Evidence for Large, Long-Lived Ancestors to Placental Mammals

(2012) J. Romiguier et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogenetic Patterns of GC-Biased Gene Conversion in Placental Mammals and the Evolutionary Dynamics of Recombination Landscapes

(2012) Nicolas Lartillot   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

Patterns and Evolution of Nucleotide Landscapes in Seed Plants

(2012) Laurana Serres-Giardi et al.   PLANT CELL

Recombination is associated with the evolution of genome structure and worker behavior in honey bees

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

Resolution of ray-finned fish phylogeny and timing of diversification

(2012) T. J. Near et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Second-Generation Genetic Linkage Map of Catfish and Its Integration with the BAC-Based Physical Map

(2012) Parichart Ninwichian et al.   G3-Genes Genomes Genetics

A dense SNP-based linkage map for Atlantic salmon (Salmo salar) reveals extended chromosome homeologies and striking differences in sex-specific recombination patterns

(2011) Sigbjørn Lien et al.   BMC GENOMICS

Integration of the Genetic Map and Genome Assembly of Fugu Facilitates Insights into Distinct Features of Genome Evolution in Teleosts and Mammals

(2011) Wataru Kai et al.   Genome Biology and Evolution

The Anolis Lizard Genome: An Amniote Genome without Isochores

(2011) Matthew K. Fujita et al.   Genome Biology and Evolution

Ongoing GC-Biased Evolution Is Widespread in the Human Genome and Enriched Near Recombination Hot Spots

(2011) Sol Katzman et al.   Genome Biology and Evolution

Comparative RNA sequencing reveals substantial genetic variation in endangered primates

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

Death of PRDM9 coincides with stabilization of the recombination landscape in the dog genome

(2011) E. Axelsson et al.   GENOME RESEARCH

Dynamic Evolution of Base Composition: Causes and Consequences in Avian Phylogenomics

(2011) B. Nabholz et al.   MOLECULAR BIOLOGY AND EVOLUTION

GC-Biased Gene Conversion Impacts Ribosomal DNA Evolution in Vertebrates, Angiosperms, and Other Eukaryotes

(2011) Juan S. Escobar et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

(2011) PHILIPPE GAYRAL et al.   Molecular Ecology Resources

Crocodilian phylogeny inferred from twelve mitochondrial protein-coding genes, with new complete mitochondrial genomic sequences for Crocodylus acutus and Crocodylus novaeguineae

(2011) Zhang Man et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The genome of the green anole lizard and a comparative analysis with birds and mammals

(2011) Jessica Alföldi et al.   NATURE

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

(2011) Vincent Ranwez et al.   PLoS One

Impacts of the Cretaceous Terrestrial Revolution and KPg Extinction on Mammal Diversification

(2011) R. W. Meredith et al.   SCIENCE

Reptilian-transcriptome v1.0, a glimpse in the brain transcriptome of five divergent Sauropsida lineages and the phylogenetic position of turtles

(2011) Athanasia C Tzika et al.   EvoDevo

RNA extraction from sauropsids blood: evaluation and improvement of methods

(2010) Ylenia Chiari et al.   AMPHIBIA-REPTILIA

Genome Evolution in Reptilia, the Sister Group of Mammals

(2010) Daniel E. Janes et al.   Annual Review of Genomics and Human Genetics

A garter snake transcriptome: pyrosequencing, de novo assembly, and sex-specific differences

(2010) Tonia S Schwartz et al.   BMC GENOMICS

Surprising Fitness Consequences of GC-Biased Gene Conversion: I. Mutation Load and Inbreeding Depression

(2010) S. Glemin   GENETICS

Contrasting GC-content dynamics across 33 mammalian genomes: Relationship with life-history traits and chromosome sizes

(2010) J. Romiguier et al.   GENOME RESEARCH

Meiotic recombination favors the spreading of deleterious mutations in human populations

(2010) Anamaria Necşulea et al.   HUMAN MUTATION

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

Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes

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

The evolution of isochore patterns in vertebrate genomes

(2009) Maria Costantini et al.   BMC GENOMICS

Two-parameter characterization of chromosome-scale recombination rate

(2009) W. Li et al.   GENOME RESEARCH

Can GC Content at Third-Codon Positions Be Used as a Proxy for Isochore Composition?

(2009) E. Elhaik et al.   MOLECULAR BIOLOGY AND EVOLUTION

Hotspots of Biased Nucleotide Substitutions in Human Genes

(2009) Jonas Berglund et al.   PLOS BIOLOGY

Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs

(2008) Julien Dutheil et al.   BMC EVOLUTIONARY BIOLOGY

Three tiers of genome evolution in reptiles

(2008) C. L. Organ et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Turtle isochore structure is intermediate between amphibians and other amniotes

(2008) J. L. Chojnowski et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

High-resolution mapping of meiotic crossovers and non-crossovers in yeast

(2008) Eugenio Mancera et al.   NATURE

GC-biased gene conversion promotes the fixation of deleterious amino acid changes in primates

(2008) Nicolas Galtier et al.   TRENDS IN GENETICS

The Impact of Recombination on Nucleotide Substitutions in the Human Genome

(2008) Laurent Duret et al.   PLoS Genetics