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References from The demographic history of the wild crop relative Brachypodium distachyon is shaped by distinct past and present ecological niches. Local targets link to admitted publications; unresolved targets remain external evidence.
Dating genomic variants and shared ancestry in population-scale sequencing data
10.1371/journal.pbio.3000586 · 2020 · External reference
10.1007/b97636
10.1007/b97636 · 2004 · External reference
QTLs for resistance to the false brome rust Puccinia brachypodii in the model grass Brachypodium distachyon L.
10.1139/g2012-001 · 2012 · External reference
Opening the climate envelope reveals no macroscale associations with climate in European birds
10.1073/pnas.0803506105 · 2008 · External reference
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
10.1111/j.2517-6161.1995.tb02031.x · 1995 · External reference
Vegetation of Eurasia from the last glacial maximum to present: Key biogeographic patterns
10.1016/j.quascirev.2016.11.022 · 2017 · External reference
EARLY FLOWERING 3 and Photoperiod Sensing in Brachypodium distachyon
10.3389/fpls.2021.769194 · 2022 · External reference
Genome‐wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon
10.1111/tpj.14042 · 2018 · External reference
Natural variation and adaptation in Brachypodium distachyon
10.24072/pci.genomics.100251 · 2023 · External reference
Phylogeny and genetic structure of Erophaca (Leguminosae), a East–West Mediterranean disjunct genus from the Tertiary
10.1016/j.ympev.2010.02.025 · 2010 · External reference
Updated taxonomic descriptions, iconography, and habitat preferences of Brachypodium distachyon, B. stacei, and B. hybridum (Poaceae)
10.3989/ajbm.2428 · 2016 · External reference
Grass secondary cell walls, Brachypodium distachyon as a model for discovery
10.1111/nph.16603 · 2020 · External reference
A TILLING Platform for Functional Genomics in Brachypodium distachyon
10.1371/journal.pone.0065503 · 2013 · External reference
The variant call format and VCFtools
10.1093/bioinformatics/btr330 · 2011 · External reference
The climate and vegetation of Europe, North Africa and the Middle East during the Last Glacial Maximum (21,000 years BP) based on pollen data
10.5194/cp-2022-59 · 2022 · External reference
Targeting environmental adaptation in the monocot model Brachypodium distachyon: a multi-faceted approach
10.1186/1471-2164-15-801 · 2014 · External reference
Interactive effects of water limitation and elevated temperature on the physiology, development and fitness of diverse accessions of Brachypodium distachyon
10.1111/nph.14316 · 2017 · External reference
African genomes illuminate the early history and transition to selfing in Arabidopsis thaliana
10.1073/pnas.1616736114 · 2017 · External reference
Novel methods improve prediction of species’ distributions from occurrence data
10.1111/j.2006.0906-7590.04596.x · 2006 · External reference
A statistical explanation of MaxEnt for ecologists
10.1111/j.1472-4642.2010.00725.x · 2011 · External reference
Detecting the number of clusters of individuals using the software structure: a simulation study
10.1111/j.1365-294x.2005.02553.x · 2005 · External reference
Seasonal timing adaptation across the geographic range of Arabidopsis thaliana
10.1073/pnas.1921798117 · 2020 · External reference
Natural selection on the Arabidopsis thaliana genome in present and future climates
10.1038/s41586-019-1520-9 · 2019 · External reference
Southern European glacial refugia: A tale of tales
10.1002/tax.602007 · 2011 · External reference
Patterns and processes in plant phylogeography in the Mediterranean Basin. A review
10.1016/j.ppees.2014.07.002 · 2014 · External reference
WorldClim 2: new 1‐km spatial resolution climate surfaces for global land areas
10.1002/joc.5086 · 2017 · External reference
Species Tree Inference with BPP Using Genomic Sequences and the Multispecies Coalescent
10.1093/molbev/msy147 · 2018 · External reference
LEA: An R package for landscape and ecological association studies
10.1111/2041-210x.12382 · 2015 · External reference
Madeiran Arabidopsis thaliana Reveals Ancient Long-Range Colonization and Clarifies Demography in Eurasia
10.1093/molbev/msx300 · 2018 · External reference
The genomics and physiology of abiotic stressors associated with global elevation gradients in Arabidopsis thaliana
10.1101/2022.03.22.485410 · External reference
Genome-Wide Scan for Adaptive Divergence and Association with Population-Specific Covariates
10.1534/genetics.115.181453 · 2015 · External reference
rehh : an R package to detect footprints of selection in genome-wide SNP data from haplotype structure
10.1093/bioinformatics/bts115 · 2012 · External reference
The Community Climate System Model Version 4
10.1175/2011jcli4083.1 · 2011 · External reference
Validation of microsatellite markers for cytotype discrimination in the model grass Brachypodium distachyon
10.1139/g2012-039 · 2012 · External reference
Genome-wide association mapping within a local Arabidopsis thaliana population more fully reveals the genetic architecture for defensive metabolite diversity
10.1098/rstb.2020.0512 · 2022 · External reference
Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors
10.1038/s41467-020-17302-5 · 2020 · External reference
Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure
10.1038/s41467-017-02292-8 · 2017 · External reference
Temperate grasslands of the southern hemisphere
2000 · External reference
Robust Identification of Local Adaptation from Allele Frequencies
10.1534/genetics.113.152462 · 2013 · External reference
European maize genomes highlight intraspecies variation in repeat and gene content
10.1038/s41588-020-0671-9 · 2020 · External reference
Adaptation to Climate Across the Arabidopsis thaliana Genome
10.1126/science.1209244 · 2011 · External reference
Brachypodium: 20 years as a grass biology model system; the way forward?
10.1016/j.tplants.2022.04.008 · 2022 · External reference
Soft Sweeps
10.1534/genetics.104.036947 · 2005 · External reference
Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
10.1038/ng.1042 · 2012 · External reference
Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon
10.1007/s00122-011-1598-4 · 2011 · External reference
A CRISPR/Cas9-Based Mutagenesis Protocol for Brachypodium distachyon and Its Allopolyploid Relative, Brachypodium hybridum
10.3389/fpls.2020.00614 · 2020 · External reference
Genome sequencing and analysis of the model grass Brachypodium distachyon
10.1038/nature08747 · 2010 · External reference
The barley pan-genome reveals the hidden legacy of mutation breeding
10.1038/s41586-020-2947-8 · 2020 · External reference
The greening of Arabia: Multiple opportunities for human occupation of the Arabian Peninsula during the Late Pleistocene inferred from an ensemble of climate model simulations
10.1016/j.quaint.2015.01.006 · 2015 · External reference
Quantitative Trait Loci Associated with Drought Tolerance in Brachypodium distachyon
10.3389/fpls.2017.00811 · 2017 · External reference
Replicate altitudinal clines reveal that evolutionary flexibility underlies adaptation to drought stress in annual M imulus guttatus
10.1111/nph.13153 · 2014 · External reference
pixy : Unbiased estimation of nucleotide diversity and divergence in the presence of missing data
10.1111/1755-0998.13326 · 2021 · External reference
Genotype–environment associations to reveal the molecular basis of environmental adaptation
10.1093/plcell/koac267 · 2023 · External reference
On the post-glacial spread of human commensal Arabidopsis thaliana
10.1038/ncomms14458 · 2017 · External reference
Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM
10.48550/arxiv.1303.3997 · 2013 · External reference
The Sequence Alignment/Map format and SAMtools
10.1093/bioinformatics/btp352 · 2009 · External reference
Environmental niche variation and evolutionary diversification of the Brachypodium distachyon grass complex species in their native circum-Mediterranean range
10.3732/ajb.1500128 · 2015 · External reference
Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass
10.1038/s41586-020-03127-1 · 2021 · External reference
Genetic drift, selection and the evolution of the mutation rate
10.1038/nrg.2016.104 · 2016 · External reference
A DNA Barcoding Method to Discriminate between the Model Plant Brachypodium distachyon and Its Close Relatives B. stacei and B. hybridum (Poaceae)
10.1371/journal.pone.0051058 · 2012 · External reference
A tutorial on conducting genome-wide association studies: Quality control and statistical analysis
10.1002/mpr.1608 · 2018 · External reference
A critical analysis of plant science literature reveals ongoing inequities
10.1073/pnas.2217564120 · 2023 · External reference
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
10.1101/gr.107524.110 · 2010 · External reference
Stomatal development in the grasses: lessons from models and crops (and crop models)
10.1111/nph.16450 · 2020 · External reference
HDInterval. HDInterval: Highest (Posterior) Density Intervals
2022 · External reference
Polygenic adaptation and negative selection across traits, years and environments in a long‐lived plant species (Pinus pinaster Ait., Pinaceae)
10.1111/mec.16367 · 2022 · External reference
Scripts for "The demographic history of the wild crop relative Brachypodium distachyon is shaped by distinct past and present ecological niches" (v1.0.0)
10.5281/zenodo.8354318 · 2023 · External reference
Supplementary data for: "The demographic history of the wild crop relative Brachypodium distachyon is shaped by distinct past and present ecological niches" [Data set]
10.5281/zenodo.8358831 · External reference
Polygenic architecture of flowering time and its relationship with local environments in the grass Brachypodium distachyon
10.1101/2023.07.11.548268 · 2022 · External reference
Reactive oxygen species signalling in plant stress responses
10.1038/s41580-022-00499-2 · 2022 · External reference
Global patterns in plant height
10.1111/j.1365-2745.2009.01526.x · 2009 · External reference
The pangenome of hexaploid bread wheat
10.1111/tpj.13515 · 2017 · External reference
Genomic scans for selective sweeps using SNP data
10.1101/gr.4252305 · 2005 · External reference
Form, development and function of grass stomata
10.1111/tpj.14552 · 2020 · External reference
Regulation of hair cell and stomatal size by a hair cell-specific peroxidase in the grass Brachypodium distachyon
10.1016/j.cub.2023.03.089 · 2023 · External reference
Population structure of Hypochaeris salzmanniana DC. (Asteraceae), an endemic species to the Atlantic coast on both sides of the Strait of Gibraltar, in relation to Quaternary sea level changes
10.1111/j.1365-294x.2006.03157.x · 2007 · External reference
Maximum entropy modeling of species geographic distributions
10.1016/j.ecolmodel.2005.03.026 · 2006 · External reference
50 years of Arabidopsis research: highlights and future directions
10.1111/nph.13687 · 2016 · External reference
BEDTools: a flexible suite of utilities for comparing genomic features
10.1093/bioinformatics/btq033 · 2010 · External reference
The wild grass Brachypodium distachyon as a developmental model system
10.1016/bs.ctdb.2021.12.012 · 2022 · External reference
Bayes Estimation of Species Divergence Times and Ancestral Population Sizes Using DNA Sequences From Multiple Loci
10.1093/genetics/164.4.1645 · 2003 · External reference
Interaction of Photoperiod and Vernalization Determines Flowering Time of Brachypodium distachyon
10.1104/pp.113.232678 · 2014 · External reference
A practical guide to environmental association analysis in landscape genomics
10.1111/mec.13322 · 2015 · External reference
A Flowering Locus C Homolog Is a Vernalization-Regulated Repressor in Brachypodium and Is Cold Regulated in Wheat
10.1104/pp.16.01161 · 2017 · External reference
Genetic and Methylome Variation in Turkish Brachypodium Distachyon Accessions Differentiate Two Geographically Distinct Subpopulations
10.3390/ijms21186700 · 2020 · External reference
A method for genome-wide genealogy estimation for thousands of samples
10.1038/s41588-019-0484-x · 2019 · External reference
Migration without interbreeding: Evolutionary history of a highly selfing Mediterranean grass inferred from whole genomes
10.1111/mec.16207 · 2022 · External reference
Recent Activity in Expanding Populations and Purifying Selection Have Shaped Transposable Element Landscapes across Natural Accessions of the Mediterranean Grass Brachypodium distachyon
10.1093/gbe/evx276 · 2018 · External reference
Linking genes with ecological strategies in Arabidopsis thaliana
10.1093/jxb/ery447 · 2019 · External reference
A New Approach for Using Genome Scans to Detect Recent Positive Selection in the Human Genome
10.1371/journal.pbio.0050171 · 2007 · External reference
Altitudinal and climatic associations of seed dormancy and flowering traits evidence adaptation of annual life cycle timing in Arabidopsis thaliana
10.1111/pce.12734 · 2016 · External reference
Phenological responses to multiple environmental drivers under climate change: insights from a long‐term observational study and a manipulative field experiment
10.1111/nph.15029 · 2018 · External reference
Multiple wheat genomes reveal global variation in modern breeding
10.1038/s41586-020-2961-x · 2020 · External reference
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
10.1038/s41586-018-0063-9 · 2018 · External reference
ENMTools: a toolbox for comparative studies of environmental niche models
10.1111/j.1600-0587.2009.06142.x · 2010 · External reference
ENMTools 1.0: an R package for comparative ecological biogeography
10.1111/ecog.05485 · 2021 · External reference
R package ‘corrplot’: Visualization of a Correlation Matrix. (Version 0.92)
2021 · External reference
Polygenic adaptation of rosette growth in Arabidopsis thaliana
10.1371/journal.pgen.1008748 · 2021 · External reference
Climate suitability for European ticks: assessing species distribution models against null models and projection under AR5 climate
10.1186/s13071-015-1046-4 · 2015 · External reference
Global Diversity of the Brachypodium Species Complex as a Resource for Genome-Wide Association Studies Demonstrated for Agronomic Traits in Response to Climate
10.1534/genetics.118.301589 · 2019 · External reference
PHYTOCHROME C Is an Essential Light Receptor for Photoperiodic Flowering in the Temperate Grass, Brachypodium distachyon
10.1534/genetics.114.166785 · 2014 · External reference
Genetic Architecture of Flowering-Time Variation in Brachypodium distachyon
10.1104/pp.16.01178 · 2017 · External reference
Mutations in the predicted DNA polymerase subunit POLD3 result in more rapid flowering of Brachypodium distachyon
10.1111/nph.16546 · 2020 · External reference
Biology in Bloom: A Primer on the Arabidopsis thaliana Model System
10.1534/genetics.118.300755 · 2018 · External reference
Long-term balancing selection contributes to adaptation in Arabidopsis and its relatives
10.1186/s13059-017-1342-8 · 2017 · External reference
Impact of Transposable Elements on Methylation and Gene Expression across Natural Accessions of Brachypodium distachyon
10.1093/gbe/evaa180 · 2020 · External reference
Genetic architecture and adaptation of flowering time among environments
10.1111/nph.17229 · 2021 · External reference
Evolution of polygenic traits under global vs local adaptation
10.1093/genetics/iyab134 · 2022 · External reference
Erratum: correction: Timing of the Last Glacial Maximum from observed sea-level minima
10.1038/35083629 · 2001 · External reference
Opposite polarity programs regulate asymmetric subsidiary cell divisions in grasses
10.7554/elife.79913 · 2022 · External reference
Clinal variation in freezing tolerance among natural accessions of Arabidopsis thaliana
10.1111/j.1469-8137.2007.02262.x · 2007 · External reference
A high-performance computing toolset for relatedness and principal component analysis of SNP data
10.1093/bioinformatics/bts606 · 2012 · External reference
Genome-wide efficient mixed-model analysis for association studies
10.1038/ng.2310 · 2012 · External reference
