Whole-genome duplication in teleost fishes and its evolutionary consequences

A well-constrained estimate for the timing of the salmonid whole genome duplication reveals major decoupling from species diversification

(2014) D. J. Macqueen et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Phylogeny and expression of canonical transient receptor potential (TRPC) genes in developing zebrafish

(2013) Valentin Von Niederhäusern et al.   DEVELOPMENTAL DYNAMICS

Phylogenetic analysis and expression of zebrafish transient receptor potential melastatin family genes

(2013) Edda Kastenhuber et al.   DEVELOPMENTAL DYNAMICS

Genome duplication and multiple evolutionary origins of complex migratory behavior in Salmonidae

(2013) Markos A. Alexandrou et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The zebrafish reference genome sequence and its relationship to the human genome

(2013) Kerstin Howe et al.   NATURE

The genome of the platyfish, Xiphophorus maculatus, provides insights into evolutionary adaptation and several complex traits

(2013) Manfred Schartl et al.   NATURE GENETICS

Characterization of the Calcium Binding Protein Family in Zebrafish

(2013) Vincenzo Di Donato et al.   PLoS One

Impact of gene gains, losses and duplication modes on the origin and diversification of vertebrates

(2013) Cristian Cañestro et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Complex patterns of divergence among green-sensitive (RH2a) African cichlid opsins revealed by Clade model analyses

(2012) Cameron J Weadick et al.   BMC EVOLUTIONARY BIOLOGY

Transcriptome analysis reveals the time of the fourth round of genome duplication in common carp (Cyprinus carpio)

(2012) Jin-Tu Wang et al.   BMC GENOMICS

Ancient whole genome duplications, novelty and diversification: the WGD Radiation Lag-Time Model

(2012) M Eric Schranz et al.   CURRENT OPINION IN PLANT BIOLOGY

Phylogeny and expression divergence of metabotropic glutamate receptor genes in the brain of zebrafish (Danio rerio)

(2012) Marion F. Haug et al.   JOURNAL OF COMPARATIVE NEUROLOGY

A Consensus Linkage Map Provides Insights on Genome Character and Evolution in Common Carp (Cyprinus carpio L.)

(2012) Xiaofeng Zhang et al.   MARINE BIOTECHNOLOGY

Pervasive Indels and Their Evolutionary Dynamics after the Fish-Specific Genome Duplication

(2012) Baocheng Guo et al.   MOLECULAR BIOLOGY AND EVOLUTION

Primitive Duplicate Hox Clusters in the European Eel's Genome

(2012) Christiaan V. Henkel et al.   PLoS One

Escape from Adaptive Conflict follows from weak functional trade-offs and mutational robustness

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

Enzyme functional evolution through improved catalysis of ancestrally nonpreferred substrates

(2012) R. Huang 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

Understanding angiosperm diversification using small and large phylogenetic trees

(2011) S. A. Smith et al.   AMERICAN JOURNAL OF BOTANY

The odds of duplicate gene persistence after polyploidization

(2011) Frédéric JJ Chain et al.   BMC GENOMICS

Expansion of the Ago gene family in the teleost clade

(2011) Lindsey McFarlane et al.   DEVELOPMENT GENES AND EVOLUTION

Cone arrestin confers cone vision of high temporal resolution in zebrafish larvae

(2011) Sabine L. Renninger et al.   EUROPEAN JOURNAL OF NEUROSCIENCE

Extensive changes to alternative splicing patterns following allopolyploidy in natural and resynthesized polyploids

(2011) R. Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic analysis of the vertebrate Excitatory/Neutral Amino Acid Transporter (SLC1/EAAT) family reveals lineage specific subfamilies

(2010) Matthias Gesemann et al.   BMC EVOLUTIONARY BIOLOGY

The evolution of gene duplications: classifying and distinguishing between models

(2010) Hideki Innan et al.   NATURE REVIEWS GENETICS

Old gene duplication facilitates origin and diversification of an innovative communication system--twice

(2010) M. E. Arnegard et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of an antifreeze protein by neofunctionalization under escape from adaptive conflict

(2010) C. Deng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Parallel visual cycles in the zebrafish retina

(2010) Valerie C. Fleisch et al.   PROGRESS IN RETINAL AND EYE RESEARCH

The Relationship among Gene Expression, the Evolution of Gene Dosage, and the Rate of Protein Evolution

(2010) Jean-François Gout et al.   PLoS Genetics

Polyploidy and angiosperm diversification

(2009) Douglas E. Soltis et al.   AMERICAN JOURNAL OF BOTANY

Bias in Plant Gene Content Following Different Sorts of Duplication: Tandem, Whole-Genome, Segmental, or by Transposition

(2009) Michael Freeling   Annual Review of Plant Biology

Temporal pattern of loss/persistence of duplicate genes involved in signal transduction and metabolic pathways after teleost-specific genome duplication

(2009) Yukuto Sato et al.   BMC EVOLUTIONARY BIOLOGY

Did genome duplication drive the origin of teleosts? A comparative study of diversification in ray-finned fishes

(2009) Francesco Santini et al.   BMC EVOLUTIONARY BIOLOGY

Assignment of Atlantic salmon (Salmo salar) linkage groups to specific chromosomes: Conservation of large syntenic blocks corresponding to whole chromosome arms in rainbow trout (Oncorhynchus mykiss)

(2009) Ruth B Phillips et al.   BMC GENETICS

Comparative genome mapping reveals evidence of gene conversion between Sox9 paralogs of rainbow trout (Oncorhynchus mykiss)

(2009) Mahmoud A. Alfaqih et al.   Comparative Biochemistry and Physiology D-Genomics & Proteomics

Population genetic models of duplicated genes

(2009) Hideki Innan   GENETICA

The Power of the Methods for Detecting Interlocus Gene Conversion

(2009) S. P. Mansai et al.   GENETICS

Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention

(2009) A. L. Hufton et al.   GENOME RESEARCH

Evolution of gene function and regulatory control after whole-genome duplication: Comparative analyses in vertebrates

(2009) K. S. Kassahn et al.   GENOME RESEARCH

Variation in the Ratio of Nucleotide Substitution and Indel Rates across Genomes in Mammals and Bacteria

(2009) J.-Q. Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evidence for escape from adaptive conflict?

(2009) Todd Barkman et al.   NATURE

The evolutionary significance of ancient genome duplications

(2009) Yves Van de Peer et al.   NATURE REVIEWS GENETICS

Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event

(2009) J. A. Fawcett et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hox cluster duplication in the basal teleost Hiodon alosoides (Osteoglossomorpha)

(2009) Karen E. Chambers et al.   THEORY IN BIOSCIENCES

The fate of the duplicated androgen receptor in fishes: a late neofunctionalization event?

(2008) Véronique Douard et al.   BMC EVOLUTIONARY BIOLOGY

RESURRECTING THE ROLE OF TRANSCRIPTION FACTOR CHANGE IN DEVELOPMENTAL EVOLUTION

(2008) Vincent J. Lynch et al.   EVOLUTION

Neofunctionalization of Duplicated Genes Under the Pressure of Gene Conversion

(2008) K. M. Teshima et al.   GENETICS

Subfunctionalization of a Retinoid-Binding Protein Provides Evidence for Two Parallel Visual Cycles in the Cone-Dominant Zebrafish Retina

(2008) V. C. Fleisch et al.   JOURNAL OF NEUROSCIENCE

Timing of Genome Duplications Relative to the Origin of the Vertebrates: Did Cyclostomes Diverge before or after?

(2008) S. Kuraku et al.   MOLECULAR BIOLOGY AND EVOLUTION

The amphioxus genome and the evolution of the chordate karyotype

(2008) Nicholas H. Putnam et al.   NATURE

Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes

(2008) Dacheng Tian et al.   NATURE

Turning a hobby into a job: How duplicated genes find new functions

(2008) Gavin C. Conant et al.   NATURE REVIEWS GENETICS

Preferential subfunctionalization of slow-evolving genes after allopolyploidization in Xenopus laevis

(2008) M. Semon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synteny and Collinearity in Plant Genomes

(2008) H. Tang et al.   SCIENCE