Purifying Selection Maintains Dosage-Sensitive Genes during Degeneration of the Threespine Stickleback Y Chromosome

Spatial Dynamics of Evolving Dosage Compensation in a Young Sex Chromosome System

(2015) Roland Schultheiß et al.   Genome Biology and Evolution

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

The role of sex chromosomes in sexual dimorphism: discordance between molecular and phenotypic data

(2014) R. Dean et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

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

Sex Determination: Why So Many Ways of Doing It?

(2014) Doris Bachtrog et al.   PLOS BIOLOGY

Sex Chromosome Turnover Contributes to Genomic Divergence between Incipient Stickleback Species

(2014) Kohta Yoshida et al.   PLoS Genetics

Expansion of the Pseudo-autosomal Region and Ongoing Recombination Suppression in the Silene latifolia Sex Chromosomes

(2013) R. Bergero et al.   GENETICS

Intrachromosomal homologous recombination between inverted amplicons on opposing Y-chromosome arms

(2013) Julian Lange et al.   GENOMICS

Speciation in ninespine stickleback: reproductive isolation and phenotypic divergence among cryptic species of Japanese ninespine stickleback

(2013) A. Ishikawa et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Recombination in the threespine stickleback genome-patterns and consequences

(2013) Marius Roesti et al.   MOLECULAR ECOLOGY

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

(2013) Doris Bachtrog   NATURE REVIEWS GENETICS

Sex-biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution

(2013) B. Vicoso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The faster-X effect: integrating theory and data

(2013) Richard P. Meisel et al.   TRENDS IN GENETICS

Sex chromosome dosage compensation: definitely not for everyone

(2013) Judith E. Mank   TRENDS IN GENETICS

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

(2013) Beatriz Vicoso et al.   PLOS BIOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Identification of dosage-sensitive genes in Saccharomyces cerevisiae using the genetic tug-of-war method

(2012) K. Makanae et al.   GENOME RESEARCH

Molecular evolutionary and population genomic analysis of the nine-spined stickleback using a modified restriction-site-associated DNA tag approach

(2012) Matthieu Bruneaux et al.   MOLECULAR ECOLOGY

Strict evolutionary conservation followed rapid gene loss on human and rhesus Y chromosomes

(2012) Jennifer F. Hughes et al.   NATURE

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Expression reduction in mammalian X chromosome evolution refutes Ohno's hypothesis of dosage compensation

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

Sequencing papaya X and Yh chromosomes reveals molecular basis of incipient sex chromosome evolution

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

Mammalian X chromosome inactivation evolved as a dosage-compensation mechanism for dosage-sensitive genes on the X chromosome

(2012) E. Pessia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid De Novo Evolution of X Chromosome Dosage Compensation in Silene latifolia, a Plant with Young Sex Chromosomes

(2012) Aline Muyle et al.   PLOS BIOLOGY

Mechanisms and Evolutionary Patterns of Mammalian and Avian Dosage Compensation

(2012) Philippe Julien et al.   PLOS BIOLOGY

Genome analyses substantiate male mutation bias in many species

(2011) Melissa A. Wilson Sayres et al.   BIOESSAYS

Identification of novel transcripts in annotated genomes using RNA-Seq

(2011) A. Roberts et al.   BIOINFORMATICS

Plant Y Chromosome Degeneration Is Retarded by Haploid Purifying Selection

(2011) Margarita V. Chibalina et al.   CURRENT BIOLOGY

Karyotype Differentiation between Two Stickleback Species (Gasterosteidae)

(2011) J.R. Urton et al.   CYTOGENETIC AND GENOME RESEARCH

Heterogeneity of Pericentric Inversions of the Human Y Chromosome

(2011) S. Knebel et al.   CYTOGENETIC AND GENOME RESEARCH

X chromosome dosage compensation via enhanced transcriptional elongation in Drosophila

(2011) Erica Larschan et al.   NATURE

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Sex-chromosome evolution: recent progress and the influence of male and female heterogamety

(2011) Hans Ellegren   NATURE REVIEWS GENETICS

About PAR: The distinct evolutionary dynamics of the pseudoautosomal region

(2011) Sarah P. Otto et al.   TRENDS IN GENETICS

Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments

(2010) James H Bullard et al.   BMC BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Female-Biased Expression on the X Chromosome as a Key Step in Sex Chromosome Evolution in Threespine Sticklebacks

(2010) Erica H. Leder et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogeography of ninespine sticklebacks (Pungitius pungitius) in North America: glacial refugia and the origins of adaptive traits

(2010) JACLYN T. ALDENHOVEN et al.   MOLECULAR ECOLOGY

Geographic and phylogenetic patterns in Silene section Melandrium (Caryophyllaceae) as inferred from chloroplast and nuclear DNA sequences

(2010) Anja Rautenberg et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Chimpanzee and human Y chromosomes are remarkably divergent in structure and gene content

(2010) Jennifer F. Hughes et al.   NATURE

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

The World's Oldest Fossil Threespine Stickleback Fish

(2009) Michael A. Bell et al.   COPEIA

The Genetic Architecture of Skeletal Convergence and Sex Determination in Ninespine Sticklebacks

(2009) Michael D. Shapiro et al.   CURRENT BIOLOGY

Drosophila dosage compensation: a complex voyage to the X chromosome

(2009) M. E. Gelbart et al.   DEVELOPMENT

EFFECTIVE POPULATION SIZE AND THE FASTER-X EFFECT: EMPIRICAL RESULTS AND THEIR INTERPRETATION

(2009) Judith E. Mank 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

Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions

(2009) E. M. Kvikstad et al.   GENOME RESEARCH

A role for a neo-sex chromosome in stickleback speciation

(2009) Jun Kitano et al.   NATURE

Why does dosage compensation differ between XY and ZW taxa?

(2009) Sara Naurin et al.   TRENDS IN GENETICS

Turnover of Sex Chromosomes in the Stickleback Fishes (Gasterosteidae)

(2009) Joseph A. Ross et al.   PLoS Genetics

Molecular Cytogenetic Evidence of Rearrangements on the Y Chromosome of the Threespine Stickleback Fish

(2008) J. A. Ross et al.   GENETICS

Defining Regions and Rearrangements of the Silene latifolia Y Chromosome

(2008) R. Bergero et al.   GENETICS

All dosage compensation is local: Gene-by-gene regulation of sex-biased expression on the chicken Z chromosome

(2008) J E Mank et al.   HEREDITY

Effects of X-Linkage and Sex-Biased Gene Expression on the Rate of Adaptive Protein Evolution in Drosophila

(2008) J. F. Baines et al.   MOLECULAR BIOLOGY AND EVOLUTION

Stickleback phylogenies resolved: Evidence from mitochondrial genomes and 11 nuclear genes

(2008) Ryouka Kawahara et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH