Deep sampling of Hawaiian Caenorhabditis elegans reveals high genetic diversity and admixture with global populations

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

(2019) Alexey M Kozlov et al.   BIOINFORMATICS

Males, Outcrossing, and Sexual Selection in Caenorhabditis Nematodes

(2019) Asher D. Cutter et al.   GENETICS

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

(2018) Jackson Peter et al.   NATURE

Biology and genome of a newly discovered sibling species of Caenorhabditis elegans

(2018) Natsumi Kanzaki et al.   Nature Communications

Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resistance to benzimidazoles

(2018) Steffen R. Hahnel et al.   PLoS Pathogens

The Local Coexistence Pattern of Selfing Genotypes inCaenorhabditis elegansNatural Metapopulations

(2017) Aurélien Richaud et al.   GENETICS

The Natural Biotic Environment ofCaenorhabditis elegans

(2017) Hinrich Schulenburg et al.   GENETICS

Tracing the peopling of the world through genomics

(2017) Rasmus Nielsen et al.   NATURE

Nextflow enables reproducible computational workflows

(2017) Paolo Di Tommaso et al.   NATURE BIOTECHNOLOGY

WormBase 2017: molting into a new stage

(2017) Raymond Y N Lee et al.   NUCLEIC ACIDS RESEARCH

The Local Coexistence Pattern of Selfing Genotypes inCaenorhabditis elegansNatural Metapopulations

(2017) Aurélien Richaud et al.   GENETICS

The Natural Biotic Environment ofCaenorhabditis elegans

(2017) Hinrich Schulenburg et al.   GENETICS

Ephemeral-habitat colonization and neotropical species richness of Caenorhabditis nematodes

(2017) Céline Ferrari et al.   BMC ECOLOGY

Genotype Imputation with Millions of Reference Samples

(2016) Brian L. Browning et al.   AMERICAN JOURNAL OF HUMAN GENETICS

The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length

(2016) Daniel E. Cook et al.   GENETICS

pophelper: an R package and web app to analyse and visualize population structure

(2016) R. M. Francis   Molecular Ecology Resources

CeNDR, theCaenorhabditis elegansnatural diversity resource

(2016) Daniel E. Cook et al.   NUCLEIC ACIDS RESEARCH

ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data

(2016) Guangchuang Yu et al.   Methods in Ecology and Evolution

Correlations of Genotype with Climate Parameters Suggest Caenorhabditis elegans Niche Adaptations

(2016) Kathryn S. Evans et al.   G3-Genes Genomes Genetics

The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length

(2016) Daniel E. Cook et al.   GENETICS

Evolutionarily divergent thermal sensitivity of germline development and fertility in hermaphroditicCaenorhabditisnematodes

(2015) Nausicaa Poullet et al.   EVOLUTION & DEVELOPMENT

Remarkably Divergent Regions Punctuate the Genome Assembly of the Caenorhabditis elegans Hawaiian Strain CB4856

(2015) Owen A. Thompson et al.   GENETICS

Genetics on the Fly: A Primer on the Drosophila Model System

(2015) K. G. Hales et al.   GENETICS

Full-genome evolutionary histories of selfing, splitting, and selection inCaenorhabditis

(2015) Cristel G. Thomas et al.   GENOME RESEARCH

Ten years of life in compost: temporal and spatial variation of North GermanCaenorhabditis eleganspopulations

(2015) Carola Petersen et al.   Ecology and Evolution

C. elegans outside the Petri dish

(2015) Lise Frézal et al.   eLife

Remarkably Divergent Regions Punctuate the Genome Assembly of the Caenorhabditis elegans Hawaiian Strain CB4856

(2015) Owen A. Thompson et al.   GENETICS

Second-generation PLINK: rising to the challenge of larger and richer datasets

(2015) Christopher C Chang et al.   GigaScience

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Streamlined System for Species Diagnosis in Caenorhabditis (Nematoda: Rhabditidae) with Name Designations for 15 Distinct Biological Species

(2014) Marie-Anne Félix et al.   PLoS One

Description of Caenorhabditis sinica sp. n. (Nematoda: Rhabditidae), a Nematode Species Used in Comparative Biology for C. elegans

(2014) Ren-E Huang et al.   PLoS One

Specialist versus generalist life histories and nucleotide diversity in Caenorhabditis nematodes

(2014) S. Li et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A Variant in the Neuropeptide Receptor npr-1 is a Major Determinant of Caenorhabditis elegans Growth and Physiology

(2014) Erik C. Andersen et al.   PLoS Genetics

The prevalence of Caenorhabditis elegans across 1.5 years in selected North German locations: the importance of substrate type, abiotic parameters, and Caenorhabditis competitors

(2014) Carola Petersen et al.   BMC ECOLOGY

Detecting Identity by Descent and Estimating Genotype Error Rates in Sequence Data

(2013) Brian L. Browning et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Species richness, distribution and genetic diversity of Caenorhabditis nematodes in a remote tropical rainforest

(2013) Marie-Anne Félix et al.   BMC EVOLUTIONARY BIOLOGY

Estimating and interpreting FST: The impact of rare variants

(2013) G. Bhatia et al.   GENOME RESEARCH

Molecular hyperdiversity defines populations of the nematode Caenorhabditis brenneri

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

Population dynamics and habitat sharing of natural populations of Caenorhabditis elegans and C. briggsae

(2012) Marie-Anne Félix et al.   BMC BIOLOGY

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity

(2012) Erik C Andersen et al.   NATURE GENETICS

Genome-wide efficient mixed-model analysis for association studies

(2012) Xiang Zhou et al.   NATURE GENETICS

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

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

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

A phylogeny and molecular barcodes for Caenorhabditis, with numerous new species from rotting fruits

(2011) Karin C Kiontke et al.   BMC EVOLUTIONARY BIOLOGY

Selection at Linked Sites Shapes Heritable Phenotypic Variation in C. elegans

(2010) M. V. Rockman et al.   SCIENCE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

Quantitative Mapping of a Digenic Behavioral Trait Implicates Globin Variation in C. elegans Sensory Behaviors

(2009) Patrick T. McGrath et al.   NEURON

Recombinational Landscape and Population Genomics of Caenorhabditis elegans

(2009) Matthew V. Rockman et al.   PLoS Genetics

Patterns of Molecular Evolution in Caenorhabditis Preclude Ancient Origins of Selfing

(2008) A. D. Cutter et al.   GENETICS

The age and origin of the Pacific islands: a geological overview

(2008) V. E Neall et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES