Whole‐genome resequencing confirms reproductive isolation between sympatric demes of brown trout ( Salmo trutta ) detected with allozymes

A parsimony estimator of the number of populations from a STRUCTURE-like analysis

(2019) Jinliang Wang   Molecular Ecology Resources

Anadromy, potamodromy and residency in brown trout Salmo trutta : the role of genes and the environment

(2019) Andrew Ferguson et al.   JOURNAL OF FISH BIOLOGY

Exploring a Pool‐seq‐only approach for gaining population genomic insights in nonmodel species

(2019) Sara Kurland et al.   Ecology and Evolution

Northern European Salmo trutta (L.) populations are genetically divergent across geographical regions and environmental gradients

(2019) Dorte Bekkevold et al.   Evolutionary Applications

Assessing runs of Homozygosity: a comparison of SNP Array and whole genome sequence low coverage data

(2018) Francisco C. Ceballos et al.   BMC GENOMICS

Stable coexistence of genetically divergent Atlantic cod ecotypes at multiple spatial scales

(2018) Halvor Knutsen et al.   Evolutionary Applications

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular evidence for new sympatric cryptic species of Aedes albopictus (Diptera: Culicidae) in China: A new threat from Aedes albopictus subgroup?

(2018) Yuyan Guo et al.   Parasites & Vectors

Genomic consequences of a recent three-way admixture in supplemented wild brown trout populations revealed by local ancestry tracts

(2018) Maeva Leitwein et al.   MOLECULAR ECOLOGY

Are we underestimating the occurrence of sympatric populations?

(2018) Per Erik Jorde et al.   MOLECULAR ECOLOGY

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

(2018) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

Inferring Individual Inbreeding and Demographic History from Segments of Identity by Descent in Ficedula Flycatcher Genome Sequences

(2017) Marty Kardos et al.   GENETICS

Inferring Individual Inbreeding and Demographic History from Segments of Identity by Descent in Ficedula Flycatcher Genome Sequences

(2017) Marty Kardos et al.   GENETICS

Genomic consequences of intensive inbreeding in an isolated wolf population

(2017) Marty Kardos et al.   Nature Ecology & Evolution

MultiQC: summarize analysis results for multiple tools and samples in a single report

(2016) Philip Ewels et al.   BIOINFORMATICS

Towards population-level conservation in the critically endangered Antarctic blue whale: the number and distribution of their populations

(2016) Catherine R. M. Attard et al.   Scientific Reports

Shedding Light on the Grey Zone of Speciation along a Continuum of Genomic Divergence

(2016) Camille Roux et al.   PLOS BIOLOGY

Complete Genomes Reveal Signatures of Demographic and Genetic Declines in the Woolly Mammoth

(2015) Eleftheria Palkopoulou et al.   CURRENT BIOLOGY

The portfolio concept in ecology and evolution

(2015) Daniel E Schindler et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Low but significant genetic differentiation underlies biologically meaningful phenotypic divergence in a large Atlantic salmon population

(2015) Tutku Aykanat et al.   MOLECULAR ECOLOGY

Shared and nonshared genomic divergence in parallel ecotypes ofLittorina saxatilisat a local scale

(2015) Mark Ravinet et al.   MOLECULAR ECOLOGY

H 3 M 2 : detection of runs of homozygosity from whole-exome sequencing data

(2014) Alberto Magi et al.   BIOINFORMATICS

Monitoring reveals two genetically distinct brown trout populations remaining in stable sympatry over 20 years in tiny mountain lakes

(2013) Anna Palmé et al.   CONSERVATION GENETICS

Sequencing quality assessment tools to enable data-driven informatics for high throughput genomics

(2013) Richard M. Leggett et al.   Frontiers in Genetics

Qualimap: evaluating next-generation sequencing alignment data

(2012) Fernando García-Alcalde et al.   BIOINFORMATICS

GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update

(2012) R. Peakall et al.   BIOINFORMATICS

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

Narrow hybrid zone between Moscow and Western Dvina chromosomal races and specific features of population isolation in common shrew Sorex araneus (Mammalia)

(2012) V. N. Orlov et al.   RUSSIAN JOURNAL OF GENETICS

Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data

(2012) Joseph K. Pickrell et al.   PLoS Genetics

PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)

(2011) R. Kofler et al.   BIOINFORMATICS

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals

(2011) Robert Kofler et al.   PLoS One

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method

(2011) Dent A. Earl et al.   Conservation Genetics Resources

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

(2010) A. McKenna et al.   GENOME RESEARCH

Population diversity and the portfolio effect in an exploited species

(2010) Daniel E. Schindler et al.   NATURE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Genetic variation in Scandinavian brown trout (Salmo trutta L.): evidence of distinct sympatric populations

(2009) F. ALLENDORF et al.   HEREDITAS

Space, sympatry and speciation

(2009) J. MALLET et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

POPTREE2: Software for Constructing Population Trees from Allele Frequency Data and Computing Other Population Statistics with Windows Interface

(2009) N. Takezaki et al.   MOLECULAR BIOLOGY AND EVOLUTION

Parallel divergence of sympatric genetic and body size forms of Arctic charr, Salvelinus alpinus, from two Scottish lakes

(2008) COLIN E. ADAMS et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

genepop’007: a complete re-implementation of the genepop software for Windows and Linux

(2007) FRANÇOIS ROUSSET   Molecular Ecology Resources