Continental-level population differentiation and environmental adaptation in the mushroom Suillus brevipes

Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum

(2016) Martina Peter et al.   Nature Communications

Adaptive Horizontal Gene Transfers between Multiple Cheese-Associated Fungi

(2015) Jeanne Ropars et al.   CURRENT BIOLOGY

Genomic sequencing reveals historical, demographic and selective factors associated with the diversification of the fire-associated fungusNeurospora discreta

(2015) Pierre Gladieux et al.   MOLECULAR ECOLOGY

The population biology of fungal invasions

(2015) P. Gladieux et al.   MOLECULAR ECOLOGY

The population genomics of rapid adaptation: disentangling signatures of selection and demography in white sands lizards

(2015) Stefan Laurent et al.   MOLECULAR ECOLOGY

Genetic subdivision and candidate genes under selection in North American grey wolves

(2015) Rena M. Schweizer et al.   MOLECULAR ECOLOGY

Genetic isolation between two recently diverged populations of a symbiotic fungus

(2015) Sara Branco et al.   MOLECULAR ECOLOGY

LEA: AnRpackage for landscape and ecological association studies

(2015) Eric Frichot et al.   Methods in Ecology and Evolution

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

The plasma membrane transport systems and adaptation to salinity

(2014) Mohamed Magdy F. Mansour   JOURNAL OF PLANT PHYSIOLOGY

Identities and distributions of the co-invading ectomycorrhizal fungal symbionts of exotic pines in the Hawaiian Islands

(2013) Nicole A. Hynson et al.   BIOLOGICAL INVASIONS

Quantifying Population Genetic Differentiation from Next-Generation Sequencing Data

(2013) Matteo Fumagalli et al.   GENETICS

Estimating Individual Admixture Proportions from Next Generation Sequencing Data

(2013) Line Skotte et al.   GENETICS

Bacterial adaptation to cold

(2013) C. Barria et al.   MICROBIOLOGY-SGM

SweeD: Likelihood-Based Detection of Selective Sweeps in Thousands of Genomes

(2013) Pavlos Pavlidis et al.   MOLECULAR BIOLOGY AND EVOLUTION

Testing for Associations between Loci and Environmental Gradients Using Latent Factor Mixed Models

(2013) Eric Frichot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fungal evolutionary genomics provides insight into the mechanisms of adaptive divergence in eukaryotes

(2013) Pierre Gladieux et al.   MOLECULAR ECOLOGY

Protein cold adaptation strategy via a unique seven-amino acid domain in the icefish (Chionodraco hamatus) PEPT1 transporter

(2013) A. Rizzello et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Measuring ectomycorrhizal fungal dispersal: macroecological patterns driven by microscopic propagules

(2012) KABIR G. PEAY et al.   MOLECULAR ECOLOGY

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

How metal-tolerant ecotypes of ectomycorrhizal fungi protect plants from heavy metal pollution

(2011) Jan V. Colpaert et al.   ANNALS OF FOREST SCIENCE

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Genetic structure and local adaptation of European wheat yellow rust populations: the role of temperature-specific adaptation

(2011) Mamadou Mboup et al.   Evolutionary Applications

The making of a new pathogen: Insights from comparative population genomics of the domesticated wheat pathogen Mycosphaerella graminicola and its wild sister species

(2011) E. H. Stukenbrock et al.   GENOME RESEARCH

Molecular aspects of bacterial pH sensing and homeostasis

(2011) Terry A. Krulwich et al.   NATURE REVIEWS MICROBIOLOGY

The aquaporin gene family of the ectomycorrhizal fungus Laccaria bicolor: lessons for symbiotic functions

(2011) Sandra Dietz et al.   NEW PHYTOLOGIST

Red and Green Algal Origin of Diatom Membrane Transporters: Insights into Environmental Adaptation and Cell Evolution

(2011) Cheong Xin Chan et al.   PLoS One

Population genomics and local adaptation in wild isolates of a model microbial eukaryote

(2011) C. E. Ellison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogeographic structure of jack pine (Pinus banksiana ; Pinaceae) supports the existence of a coastal glacial refugium in northeastern North America

(2010) Julie Godbout et al.   AMERICAN JOURNAL OF BOTANY

Differential Involvement of the Five RNA Helicases in Adaptation of Bacillus cereus ATCC 14579 to Low Growth Temperatures

(2010) F. Pandiani et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Not every fungus is everywhere: scaling to the biogeography of fungal-plant interactions across roots, shoots and ecosystems

(2010) Kabir G. Peay et al.   NEW PHYTOLOGIST

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

(2010) Jeremy Goecks et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Spatial patterns of variation due to natural selection in humans

(2009) John Novembre et al.   NATURE REVIEWS GENETICS

Genetic diversity in natural populations: a fundamental component of plant–microbe interactions

(2008) Lucie Salvaudon et al.   CURRENT OPINION IN PLANT BIOLOGY

“REVERSE ECOLOGY” AND THE POWER OF POPULATION GENOMICS

(2008) Yong Fuga Li et al.   EVOLUTION

On the Origin and Spread of the Scab Disease of Apple: Out of Central Asia

(2008) Pierre Gladieux et al.   PLoS One