Parallel gene expression evolution in natural and laboratory evolved populations

Heat knockdown resistance and chill‐coma recovery as correlated responses to selection on mating success at high temperature in Drosophila buzzatii

(2020) Leonel Stazione et al.   Ecology and Evolution

Rapid sex-specific adaptation to high temperature in Drosophila

(2020) Sheng-Kai Hsu et al.   eLife

Genetic redundancy fuels polygenic adaptation in Drosophila

(2019) Neda Barghi et al.   PLOS BIOLOGY

Divergence in Transcriptional and Regulatory Responses to Mating in Male and Female Fruitflies

(2019) Emily K. Fowler et al.   Scientific Reports

Genomic processes underlying rapid adaptation of a natural Chironomus riparius population to unintendedly applied experimental selection pressures

(2019) Markus Pfenninger et al.   MOLECULAR ECOLOGY

Constitutive up-regulation of Turandot genes rather than changes in acclimation ability is associated with the evolutionary adaptation to temperature fluctuations in Drosophila simulans

(2018) Tommaso Manenti et al.   JOURNAL OF INSECT PHYSIOLOGY

Competition for mates and the improvement of nonsexual fitness

(2018) Li Yun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Host genetic selection for cold tolerance shapes microbiome composition and modulates its response to temperature

(2018) Fotini Kokou et al.   eLife

ReadTools : A universal toolkit for handling sequence data from different sequencing platforms

(2017) Daniel Gómez-Sánchez et al.   Molecular Ecology Resources

A study of allelic diversity underlying flowering-time adaptation in maize landraces

(2017) J Alberto Romero Navarro et al.   NATURE GENETICS

Gene expression clines reveal local adaptation and associated trade-offs at a continental scale

(2016) Damiano Porcelli et al.   Scientific Reports

Ancestral population reconstitution from isofemale lines as a tool for experimental evolution

(2016) Pierre Nouhaud et al.   Ecology and Evolution

Experimental Evolution under Fluctuating Thermal Conditions Does Not Reproduce Patterns of Adaptive Clinal Differentiation in Drosophila melanogaster

(2015) Vanessa Kellermann et al.   AMERICAN NATURALIST

Parallel trait adaptation across opposing thermal environments in experimentalDrosophila melanogasterpopulations

(2015) Ray Tobler et al.   EVOLUTION

The Release 6 reference sequence of theDrosophila melanogastergenome

(2015) Roger A. Hoskins et al.   GENOME RESEARCH

Elucidating the molecular architecture of adaptation via evolve and resequence experiments

(2015) Anthony Long et al.   NATURE REVIEWS GENETICS

Parallel Gene Expression Differences between Low and High Latitude Populations of Drosophila melanogaster and D. simulans

(2015) Li Zhao et al.   PLoS Genetics

Combining experimental evolution with next-generation sequencing: a powerful tool to study adaptation from standing genetic variation

(2014) C Schlötterer et al.   HEREDITY

Host adaptation to viruses relies on few genes with different cross-resistance properties

(2014) N. E. Martins et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Massive Habitat-Specific Genomic Response in D. melanogaster Populations during Experimental Evolution in Hot and Cold Environments

(2013) Ray Tobler et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

RSeQC: quality control of RNA-seq experiments

(2012) Liguo Wang et al.   BIOINFORMATICS

Adaptation ofDrosophilato a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles

(2012) PABLO OROZCO-terWENGEL et al.   MOLECULAR ECOLOGY

Population-scale sequencing reveals genetic differentiation due to local adaptation in Atlantic herring

(2012) S. Lamichhaney et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fast and SNP-tolerant detection of complex variants and splicing in short reads

(2010) T. D. Wu et al.   BIOINFORMATICS

Mating alters gene expression patterns in Drosophila melanogaster male heads

(2010) Lisa L Ellis et al.   BMC GENOMICS

Population resequencing reveals local adaptation of Arabidopsis lyrata to serpentine soils

(2010) Thomas L Turner et al.   NATURE GENETICS

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

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

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Gene expression variation in African and European populations of Drosophila melanogaster

(2008) Stephan Hutter et al.   GENOME BIOLOGY