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Parental legacy, demography, and introgression influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae)
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline
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Simultaneous Inference in General Parametric Models
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What we still don't know about polyploidy
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Polyploidy and Genome Evolution
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Evolutionary Significance of Whole-Genome Duplication
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Rapid, Repeated, and Clustered Loss of Duplicate Genes in Allopolyploid Plant Populations of Independent Origin
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Genetic surfing in human populations: from genes to genomes
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Polyploidy and genome evolution in plants
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The Evolutionary Interplay between Adaptation and Self-Fertilization
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Adaptive evolution in invasive species
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Polyploidy: recurrent formation and genome evolution
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The Neutral Theory of Molecular Evolution
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Species diversity and ecological range in relation to ploidy level in the flora of the Pyrenees
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Natural hybridisation in birch: triploid hybrids between Betula nana and B. pubescens
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Genetic differentiation and admixture between sibling allopolyploids in the Dactylorhiza majalis complex
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Inference of human population history from individual whole-genome sequences
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The Capsella rubella genome and the genomic consequences of rapid mating system evolution
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The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection
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Robust and scalable inference of population history from hundreds of unphased whole genomes
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SIFT missense predictions for genomes
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The advantages and disadvantages of being polyploid
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Effective population size and patterns of molecular evolution and variation
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The Neutral Theory of Molecular Evolution
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Plant polyploidy: gene expression and genetic redundancy
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Polyploidy and ecological adaptation in wild yarrow
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Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss
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Origin, inheritance, and gene regulatory consequences of genome dominance in polyploids
inferredcites →https://doi.org/10.1073/pnas.1412277112openalex-snapshot
Hybrid origins and the earliest stages of diploidization in the highly successful recent polyploid Capsella bursa-pastoris
inferredcites →https://doi.org/10.1073/pnas.97.13.7051openalex-snapshot
The role of genetic and genomic attributes in the success of polyploids
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Molecular Data and the Dynamic Nature of Polyploidy
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Local Adaptation Interacts with Expansion Load during Range Expansion: Maladaptation Reduces Expansion Load
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The more the better? The role of polyploidy in facilitating plant invasions
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PAML: a program package for phylogenetic analysis by maximum likelihood
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APE: Analyses of Phylogenetics and Evolution in R language
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HapCUT: an efficient and accurate algorithm for the haplotype assembly problem
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The Newick utilities: high-throughput phylogenetic tree processing in the U nix shell
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RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
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S weep F inder 2: increased sensitivity, robustness and flexibility
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RNA-Seq Analysis of Allele-Specific Expression, Hybrid Effects, and Regulatory Divergence in Hybrids Compared with Their Parents from Natural Populations
inferredcites →https://doi.org/10.1093/molbev/msn092openalex-snapshot
Polyploid Speciation Did Not Confer Instant Reproductive Isolation in Capsella (Brassicaceae)
inferredcites →https://doi.org/10.1093/molbev/msr048openalex-snapshot
Testing for Ancient Admixture between Closely Related Populations
inferredcites →https://doi.org/10.1093/molbev/mss146openalex-snapshot
Genome-wide Analysis of Cis-regulatory Divergence between Species in the Arabidopsis Genus
inferredcites →https://doi.org/10.1093/molbev/msu269openalex-snapshot
Evaluating the Use of ABBA–BABA Statistics to Locate Introgressed Loci
inferredcites →https://doi.org/10.1093/molbev/msx088openalex-snapshot
Genetic Diversity and the Efficacy of Purifying Selection across Plant and Animal Species
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The Role of Chromosomal Change in Plant Evolution
inferredcites →https://doi.org/10.1098/rstb.2013.0354openalex-snapshot
The legacy of diploid progenitors in allopolyploid gene expression patterns
inferredcites →https://doi.org/10.1098/rstb.2013.0459openalex-snapshot
Pericentriolar material structure and dynamics
inferredcites →https://doi.org/10.1101/044016openalex-snapshot
The role of transposable elements for gene expression in Capsella hybrids and allopolyploids
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The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
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Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads
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A powerful and flexible statistical framework for testing hypotheses of allele-specific gene expression from RNA-seq data
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Genome-wide evidence for speciation with gene flow in Heliconius butterflies
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mRNA and Small RNA Transcriptomes Reveal Insights into Dynamic Homoeolog Regulation of Allopolyploid Heterosis in Nascent Hexaploid Wheat
inferredcites →https://doi.org/10.1111/j.1095-8312.2004.00337.xopenalex-snapshot
Polyploidy in arctic plants
inferredcites →https://doi.org/10.1111/j.1095-8339.2006.00515.xopenalex-snapshot
Polyploidy in invasive plant species of Singapore
inferredcites →https://doi.org/10.1111/j.1365-2745.2011.01838.xopenalex-snapshot
Ploidy influences rarity and invasiveness in plants
inferredcites →https://doi.org/10.1111/j.1365-294x.2012.05460.xopenalex-snapshot
‘Missing link’ speciesCapsella orientalisandCapsella thracicaelucidate evolution of model plant genusCapsella(Brassicaceae)
inferredcites →https://doi.org/10.1111/j.1558-5646.2010.01099.xopenalex-snapshot
COMPARATIVE EVIDENCE FOR THE CORRELATED EVOLUTION OF POLYPLOIDY AND SELF-COMPATIBILITY IN SOLANACEAE
inferredcites →https://doi.org/10.1111/mec.13351openalex-snapshot
Detecting recent selective sweeps while controlling for mutation rate and background selection
inferredcites →https://doi.org/10.1111/mec.13491openalex-snapshot
Genomic signature of successful colonization of Eurasia by the allopolyploid shepherd's purse ( Capsella bursa‐pastoris )
inferredcites →https://doi.org/10.1111/mec.13537openalex-snapshot
The influence of population structure on gene expression and flowering time variation in the ubiquitous weed C apsella bursa‐pastoris(Brassicaceae)
inferredcites →https://doi.org/10.1111/nph.13499openalex-snapshot
Meiosis evolves: adaptation to external and internal environments
inferredcites →https://doi.org/10.1126/science.1180677openalex-snapshot
The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana
inferredcites →https://doi.org/10.1126/science.1188021openalex-snapshot
A Draft Sequence of the Neandertal Genome
inferredcites →https://doi.org/10.1146/annurev.genet.34.1.401openalex-snapshot
POLYPLOID INCIDENCE AND EVOLUTION
inferredcites →https://doi.org/10.1146/annurev.genet.42.110807.091524openalex-snapshot
Evolutionary Genetics of Genome Merger and Doubling in Plants
inferredcites →https://doi.org/10.1159/000351727openalex-snapshot
Evolutionary Consequences, Constraints and Potential of Polyploidy in Plants
inferredcites →https://doi.org/10.1186/1471-2156-13-27openalex-snapshot
EggLib: processing, analysis and simulation tools for population genetics and genomics
inferredcites →https://doi.org/10.1186/1741-7007-6-16openalex-snapshot
Duplicate gene expression in allopolyploid Gossypiumreveals two temporally distinct phases of expression evolution
inferredcites →https://doi.org/10.1186/s13059-015-0762-6openalex-snapshot
Tools and best practices for data processing in allelic expression analysis
inferredcites →https://doi.org/10.1371/journal.pgen.1000519openalex-snapshot
Sensitive Detection of Chromosomal Segments of Distinct Ancestry in Admixed Populations
inferredcites →https://doi.org/10.1371/journal.pgen.1002487openalex-snapshot
Sequencing of Pooled DNA Samples (Pool-Seq) Uncovers Complex Dynamics of Transposable Element Insertions in Drosophila melanogaster
inferredcites →https://doi.org/10.1371/journal.pgen.1003090openalex-snapshot
Genome-Wide Fine-Scale Recombination Rate Variation in Drosophila melanogaster
inferredcites →https://doi.org/10.1371/journal.pgen.1003905openalex-snapshot
Robust Demographic Inference from Genomic and SNP Data
inferredcites →https://doi.org/10.1371/journal.pgen.1004745openalex-snapshot
The Role of cis Regulatory Evolution in Maize Domestication
inferredcites →https://doi.org/10.1534/genetics.115.178137openalex-snapshot
Compensatory Drift and the Evolutionary Dynamics of Dosage-Sensitive Duplicate Genes
inferredcites →https://doi.org/10.1534/genetics.116.194720openalex-snapshot
Exploring Evolutionary Relationships Across the Genome Using Topology Weighting
inferredcites →https://doi.org/10.1890/08-0420.1openalex-snapshot
Shift in cytotype frequency and niche space in the invasive plantCentaurea maculosa
inferredcites →https://doi.org/10.3732/ajb.1400178openalex-snapshot
The polyploidy revolution then…and now: Stebbins revisited
inferredcites →https://doi.org/10.3732/ajb.94.9.1527openalex-snapshot
Polyploidy and self‐fertilization in flowering plants
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1101/214866openalex-snapshot
Variation in competitive ability with mating system, ploidy and range expansion in four Capsella species
inferred← citeshttps://doi.org/10.1101/308619openalex-snapshot
Local adaptation and maladaptation during the worldwide range expansion of a selffertilizing plant
inferred← citeshttps://doi.org/10.1371/journal.pgen.1008131openalex-snapshot
Towards the new normal: Transcriptomic convergence and genomic legacy of the two subgenomes of an allopolyploid weed (Capsella bursa-pastoris)
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