Adaptive genome duplication affects patterns of molecular evolution in Saccharomyces cerevisiae

Hidden Complexity of Yeast Adaptation under Simple Evolutionary Conditions

(2018) Yuping Li et al.   CURRENT BIOLOGY

Spontaneous Changes in Ploidy Are Common in Yeast

(2018) Yaniv Harari et al.   CURRENT BIOLOGY

Ploidy tug-of-war: Evolutionary and genetic environments influence the rate of ploidy drive in a human fungal pathogen

(2017) Aleeza C. Gerstein et al.   EVOLUTION

Genomics of Adaptation Depends on the Rate of Environmental Change in Experimental Yeast Populations

(2017) Florien A. Gorter et al.   MOLECULAR BIOLOGY AND EVOLUTION

Loss of Heterozygosity Drives Adaptation in Hybrid Yeast

(2017) Caiti S. Smukowski Heil et al.   MOLECULAR BIOLOGY AND EVOLUTION

Hitchhiking and epistasis give rise to cohort dynamics in adapting populations

(2017) Sean W. Buskirk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Development of a Comprehensive Genotype-to-Fitness Map of Adaptation-Driving Mutations in Yeast

(2016) Sandeep Venkataram et al.   CELL

Polyploidy can drive rapid adaptation in yeast

(2015) Anna M. Selmecki et al.   NATURE

Polyploid Titan Cells Produce Haploid and Aneuploid Progeny To Promote Stress Adaptation

(2015) Aleeza C. Gerstein et al.   mBio

Beyond the Whole-Genome Duplication: Phylogenetic Evidence for an Ancient Interspecies Hybridization in the Baker's Yeast Lineage

(2015) Marina Marcet-Houben et al.   PLOS BIOLOGY

Origin of the Yeast Whole-Genome Duplication

(2015) Kenneth H. Wolfe   PLOS BIOLOGY

The Fitness Consequences of Aneuploidy Are Driven by Condition-Dependent Gene Effects

(2015) Anna B. Sunshine et al.   PLOS BIOLOGY

Adaptation to High Ethanol Reveals Complex Evolutionary Pathways

(2015) Karin Voordeckers et al.   PLoS Genetics

The fascinating and secret wild life of the budding yeast S. cerevisiae

(2015) Gianni Liti   eLife

The Fates of Mutant Lineages and the Distribution of Fitness Effects of Beneficial Mutations in Laboratory Budding Yeast Populations

(2014) Evgeni M. Frenkel et al.   GENETICS

Loss-of-heterozygosity facilitates passage through Haldane’s sieve for Saccharomyces cerevisiae undergoing adaptation

(2014) A. C. Gerstein et al.   Nature Communications

Molecular Specificity, Convergence and Constraint Shape Adaptive Evolution in Nutrient-Poor Environments

(2014) Jungeui Hong et al.   PLoS Genetics

Gene Copy-Number Variation in Haploid and Diploid Strains of the Yeast Saccharomyces cerevisiae

(2013) H. Zhang et al.   GENETICS

Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations

(2013) Gregory I. Lang et al.   NATURE

The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple Saccharomyces cerevisiae strains at the Saccharomyces Genome Database

(2013) Stacia R. Engel et al.   Database-The Journal of Biological Databases and Curation

Ancient Evolutionary Trade-Offs between Yeast Ploidy States

(2013) Enikö Zörgö et al.   PLoS Genetics

Whole Genome, Whole Population Sequencing Reveals That Loss of Signaling Networks Is the Major Adaptive Strategy in a Constant Environment

(2013) Daniel J. Kvitek et al.   PLoS Genetics

Dynamic Large-Scale Chromosomal Rearrangements Fuel Rapid Adaptation in Yeast Populations

(2013) Shang-Lin Chang et al.   PLoS Genetics

Mutational effects depend on ploidy level: all else is not equal

(2012) A. C. Gerstein   Biology Letters

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Endoreplication and polyploidy: insights into development and disease

(2012) D. T. Fox et al.   DEVELOPMENT

Polyploidy and its effect on evolutionary success: old questions revisited with new tools

(2012) A Madlung   HEREDITY

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Cryptic Fitness Advantage: Diploids Invade Haploid Populations Despite Lacking Any Apparent Advantage as Measured by Standard Fitness Assays

(2011) Aleeza C. Gerstein et al.   PLoS One

Heterozygote advantage as a natural consequence of adaptation in diploids

(2011) D. Sellis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Outcrossing, mitotic recombination, and life-history trade-offs shape genome evolution inSaccharomyces cerevisiae

(2011) Paul M. Magwene et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Haploids adapt faster than diploids across a range of environments

(2010) A. C. GERSTEIN et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Evolutionary consequences of autopolyploidy

(2010) Christian Parisod et al.   NEW PHYTOLOGIST

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

The evolutionary significance of ancient genome duplications

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

The cost of gene expression underlies a fitness trade-off in yeast

(2009) G. I. Lang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

(2008) Lyris M. F. de Godoy et al.   NATURE

Genome size is a strong predictor of cell size and stomatal density in angiosperms

(2008) Jeremy M. Beaulieu et al.   NEW PHYTOLOGIST

A genome-wide view of the spectrum of spontaneous mutations in yeast

(2008) M. Lynch 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

The Repertoire and Dynamics of Evolutionary Adaptations to Controlled Nutrient-Limited Environments in Yeast

(2008) David Gresham et al.   PLoS Genetics