A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina

1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

(2016) Carlos Alonso-Blanco et al.   CELL

Temporal patterns of damage and decay kinetics of DNA retrieved from plant herbarium specimens

(2016) Clemens L. Weiß et al.   Royal Society Open Science

The transcriptional regulator BBX24 impairs DELLA activity to promote shade avoidance in Arabidopsis thaliana

(2015) Carlos D. Crocco et al.   Nature Communications

Rapid and Inexpensive Whole-Genome Genotyping-by-Sequencing for Crossover Localization and Fine-Scale Genetic Mapping

(2015) Beth A. Rowan et al.   G3-Genes Genomes Genetics

Century-scale Methylome Stability in a Recently Diverged Arabidopsis thaliana Lineage

(2015) Jörg Hagmann et al.   PLoS Genetics

MultipleFLChaplotypes defined by independentcis-regulatory variation underpin life history diversity inArabidopsis thaliana

(2014) Peijin Li et al.   GENES & DEVELOPMENT

The BBX family of plant transcription factors

(2014) Sreeramaiah N. Gangappa et al.   TRENDS IN PLANT SCIENCE

The receptor-like kinase ERECTA contributes to the shade-avoidance syndrome in a background-dependent manner

(2013) Luciana Kasulin et al.   ANNALS OF BOTANY

mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters

(2013) Hákon Jónsson et al.   BIOINFORMATICS

Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population

(2013) R. J. Schmitz et al.   GENOME RESEARCH

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden

(2013) Quan Long et al.   NATURE GENETICS

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

(2012) Pablo Cingolani et al.   FLY

Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel

(2012) Matthew W Horton et al.   NATURE GENETICS

Natural variation in the temperature range permissive for vernalization in accessions ofArabidopsis thaliana

(2012) AMANDA C. WOLLENBERG et al.   PLANT CELL AND ENVIRONMENT

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

(2011) Thibaut Jombart et al.   BIOINFORMATICS

Whole-genome sequencing of multiple Arabidopsis thaliana populations

(2011) Jun Cao et al.   NATURE GENETICS

Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform

(2011) Martin Kircher et al.   NUCLEIC ACIDS RESEARCH

The FRIGIDA Complex Activates Transcription ofFLC, a Strong Flowering Repressor inArabidopsis, by Recruiting Chromatin Modification Factors

(2011) Kyuha Choi et al.   PLANT CELL

Natural Variation in Arabidopsis: From Molecular Genetics to Ecological Genomics

(2011) D. Weigel   PLANT PHYSIOLOGY

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

(2010) A. McKenna et al.   GENOME RESEARCH

Towards identifying genes underlying ecologically relevant traits in Arabidopsis thaliana

(2010) Joy Bergelson et al.   NATURE REVIEWS GENETICS

Identification and Testing of Superior Reference Genes for a Starting Pool of Transcript Normalization in Arabidopsis

(2010) Sung Myun Hong et al.   PLANT AND CELL PHYSIOLOGY

AtBBX21 and COP1 genetically interact in the regulation of shade avoidance

(2010) Carlos D. Crocco et al.   PLANT JOURNAL

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

Local-Scale Patterns of Genetic Variability, Outcrossing, and Spatial Structure in Natural Stands of Arabidopsis thaliana

(2010) Kirsten Bomblies et al.   PLoS Genetics

The Scale of Population Structure in Arabidopsis thaliana

(2010) Alexander Platt et al.   PLoS Genetics

Fast model-based estimation of ancestry in unrelated individuals

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

SHOREmap: simultaneous mapping and mutation identification by deep sequencing

(2009) Korbinian Schneeberger et al.   NATURE METHODS

Sequencing of natural strains of Arabidopsis thaliana with short reads

(2008) S. Ossowski et al.   GENOME RESEARCH

Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light

(2008) D. L. Filiault et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA