Dynamic evolutionary history and gene content of sex chromosomes across diverse songbirds

Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise

(2019) Stefan Prost et al.   GigaScience

Sex chromosomes and speciation in birds and other ZW systems

(2018) Darren E. Irwin   MOLECULAR ECOLOGY

MUMmer4: A fast and versatile genome alignment system

(2018) Guillaume Marçais et al.   PLoS Computational Biology

Evolution of correlated complexity in the radically different courtship signals of birds-of-paradise

(2018) Russell A. Ligon et al.   PLOS BIOLOGY

Avian W and mammalian Y chromosomes convergently retained dosage-sensitive regulators

(2017) Daniel W Bellott et al.   NATURE GENETICS

Evolution of recombination rates between sex chromosomes

(2017) Deborah Charlesworth   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Coevolution between transposable elements and recombination

(2017) Tyler V. Kent et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Repeated divergent selection on pigmentation genes in a rapid finch radiation

(2017) Leonardo Campagna et al.   Science Advances

Chromosomal inversion differences correlate with range overlap in passerine birds

(2017) Daniel M. Hooper et al.   Nature Ecology & Evolution

Evolution of the functionally conserved DCC gene in birds

(2017) Cedric Patthey et al.   Scientific Reports

Recurrent DCC gene losses during bird evolution

(2017) François Friocourt et al.   Scientific Reports

Abrupt shortening of bird W chromosomes in ancestral Neognathae

(2016) Root Gorelick et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Divergence and Functional Degradation of a Sex Chromosome-like Supergene

(2016) Elaina M. Tuttle et al.   CURRENT BIOLOGY

The Eutherian Pseudoautosomal Region

(2016) Terje Raudsepp et al.   CYTOGENETIC AND GENOME RESEARCH

Direct estimate of the rate of germline mutation in a bird

(2016) Linnéa Smeds et al.   GENOME RESEARCH

Evolutionary signals of selection on cognition from the great tit genome and methylome

(2016) Veronika N. Laine et al.   Nature Communications

How to make a sex chromosome

(2016) Alison E. Wright et al.   Nature Communications

Rates of karyotypic evolution in Estrildid finches differ between island and continental clades

(2015) Daniel M. Hooper et al.   EVOLUTION

DNA methylation restrains transposons from adopting a chromatin signature permissive for meiotic recombination

(2015) Natasha Zamudio et al.   GENES & DEVELOPMENT

The Specific Requirements for CR1 Retrotransposition Explain the Scarcity of Retrogenes in Birds

(2015) Alexander Suh   JOURNAL OF MOLECULAR EVOLUTION

Variation in promiscuity and sexual selection drives avian rate of Faster-Z evolution

(2015) Alison E. Wright et al.   MOLECULAR ECOLOGY

Stable recombination hotspots in birds

(2015) S. Singhal et al.   SCIENCE

Evolutionary analysis of the female-specific avian W chromosome

(2015) Linnéa Smeds et al.   Nature Communications

A new time tree reveals Earth historys imprint on the evolution of modern birds

(2015) S. Claramunt et al.   Science Advances

Temporal genomic evolution of bird sex chromosomes

(2014) Zongji Wang et al.   BMC EVOLUTIONARY BIOLOGY

Sequencing the Mouse Y Chromosome Reveals Convergent Gene Acquisition and Amplification on Both Sex Chromosomes

(2014) Y.Q. Shirleen Soh et al.   CELL

INDEPENDENT STRATUM FORMATION ON THE AVIAN SEX CHROMOSOMES REVEALS INTER-CHROMOSOMAL GENE CONVERSION AND PREDOMINANCE OF PURIFYING SELECTION ON THE W CHROMOSOME

(2014) Alison E. Wright et al.   EVOLUTION

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mammalian Y chromosomes retain widely expressed dosage-sensitive regulators

(2014) Daniel W. Bellott et al.   NATURE

Origins and functional evolution of Y chromosomes across mammals

(2014) Diego Cortez et al.   NATURE

Complex evolutionary trajectories of sex chromosomes across bird taxa

(2014) Q. Zhou et al.   SCIENCE

Comparative genomics reveals insights into avian genome evolution and adaptation

(2014) G. Zhang et al.   SCIENCE

The genomic landscape underlying phenotypic integrity in the face of gene flow in crows

(2014) J. W. Poelstra et al.   SCIENCE

Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes

(2014) Linnéa Smeds et al.   Nature Communications

Y-chromosome evolution: emerging insights into processes of Y-chromosome degeneration

(2013) Doris Bachtrog   NATURE REVIEWS GENETICS

Comparative Sex Chromosome Genomics in Snakes: Differentiation, Evolutionary Strata, and Lack of Global Dosage Compensation

(2013) Beatriz Vicoso et al.   PLOS BIOLOGY

DAVID-WS: a stateful web service to facilitate gene/protein list analysis

(2012) X. Jiao et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

The genomic landscape of species divergence in Ficedula flycatchers

(2012) Hans Ellegren et al.   NATURE

The global diversity of birds in space and time

(2012) W. Jetz et al.   NATURE

W chromosome expression responds to female-specific selection

(2012) H. K. Moghadam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sex-Specific Adaptation Drives Early Sex Chromosome Evolution in Drosophila

(2012) Q. Zhou et al.   SCIENCE

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Proteinortho: Detection of (Co-)orthologs in large-scale analysis

(2011) Marcus Lechner et al.   BMC BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Evidence of a neo-sex chromosome in birds

(2011) I Pala et al.   HEREDITY

Hybrid speciation in sparrows II: a role for sex chromosomes?

(2011) TORE O. ELGVIN et al.   MOLECULAR ECOLOGY

Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds

(2011) Alexander Suh et al.   Nature Communications

Ever-Young Sex Chromosomes in European Tree Frogs

(2011) Matthias Stöck et al.   PLOS BIOLOGY

A HIGH-DENSITY SCAN OF THE Z CHROMOSOME IN FICEDULA FLYCATCHERS REVEALS CANDIDATE LOCI FOR DIVERSIFYING SELECTION

(2010) Niclas Backström et al.   EVOLUTION

High-quality draft assemblies of mammalian genomes from massively parallel sequence data

(2010) S. Gnerre et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterising and Predicting Haploinsufficiency in the Human Genome

(2010) Ni Huang 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

An unexpectedly long history of sexual selection in birds-of-paradise

(2009) Martin Irestedt et al.   BMC EVOLUTIONARY BIOLOGY

EFFECTIVE POPULATION SIZE AND THE FASTER-X EFFECT: AN EXTENDED MODEL

(2009) Beatriz Vicoso et al.   EVOLUTION

FEMALE HETEROGAMETY AND SPECIATION: REDUCED INTROGRESSION OF THE Z CHROMOSOME BETWEEN TWO SPECIES OF NIGHTINGALES

(2009) Radka Storchová et al.   EVOLUTION

Footprints of Inversions at Present and Past Pseudoautosomal Boundaries in Human Sex Chromosomes

(2009) Claire Lemaitre et al.   Genome Biology and Evolution

Faster-Z Evolution Is Predominantly Due to Genetic Drift

(2009) J. E. Mank et al.   MOLECULAR BIOLOGY AND EVOLUTION

Sex Chromosomes and the Evolution of Sexual Dimorphism: Lessons from the Genome

(2008) Judith E. Mank   AMERICAN NATURALIST

The Temporal Dynamics of Processes Underlying Y Chromosome Degeneration

(2008) D. Bachtrog   GENETICS

Low conservation of gene content in the Drosophila Y chromosome

(2008) Leonardo B. Koerich et al.   NATURE