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A consensus phylogenomic approach highlights paleopolyploid and rapid radiation in the history of Ericales

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Quartet Sampling distinguishes lack of support from conflicting support in the green plant tree of life

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Plastid phylogenomic analysis of green plants: A billion years of evolutionary history

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Impact of whole‐genome duplication events on diversification rates in angiosperms

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From cacti to carnivores: Improved phylotranscriptomic sampling and hierarchical homology inference provide further insight into the evolution of Caryophyllales

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Whole Genome Duplication in Plants: Implications for Evolutionary Analysis

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Phylogeny-aware alignment with PRANK

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The Tea Tree Genome Provides Insights into Tea Flavor and Independent Evolution of Caffeine Biosynthesis

inferredcites →https://doi.org/10.1016/j.ympev.2003.09.014openalex-snapshot

Conflicting phylogenies of balsaminoid families and the polytomy in Ericales: combining data in a Bayesian framework

inferredcites →https://doi.org/10.1016/j.ympev.2017.08.002openalex-snapshot

The development of scientific consensus: Analyzing conflict and concordance among avian phylogenies

inferredcites →https://doi.org/10.1016/j.ympev.2018.01.014openalex-snapshot

Phylogeny, historical biogeography, and diversification of angiosperm order Ericales suggest ancient Neotropical and East Asian connections

inferredcites →https://doi.org/10.1016/j.ympev.2019.05.022openalex-snapshot

Incongruence between gene trees and species trees and phylogenetic signal variation in plastid genes

inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot

Basic Local Alignment Search Tool

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Phylogenetics of asterids based on 3 coding and 3 non-coding chloroplast DNA markers and the utility of non-coding DNA at higher taxonomic levels

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Continental-scale patterns of canopy tree composition and function across Amazonia

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Ancestral polyploidy in seed plants and angiosperms

inferredcites →https://doi.org/10.1038/nbt.1883openalex-snapshot

Full-length transcriptome assembly from RNA-Seq data without a reference genome

inferredcites →https://doi.org/10.1038/nprot.2013.084openalex-snapshot

De novo transcript sequence reconstruction from RNA-Seq: reference generation and analysis with Trinity

inferredcites →https://doi.org/10.1038/s41559-017-0126openalex-snapshot

Contentious relationships in phylogenomic studies can be driven by a handful of genes

inferredcites →https://doi.org/10.1038/s41586-019-1693-2openalex-snapshot

One thousand plant transcriptomes and the phylogenomics of green plants

inferredcites →https://doi.org/10.1073/pnas.1323926111openalex-snapshot

Phylotranscriptomic analysis of the origin and early diversification of land plants

inferredcites →https://doi.org/10.1073/pnas.1719622115openalex-snapshot

Draft genome sequence of Camellia sinensis var. sinensis provides insights into the evolution of the tea genome and tea quality

inferredcites →https://doi.org/10.1086/427198openalex-snapshot

Molecular Phylogenetics and Patterns of Floral Evolution in the Ericales

inferredcites →https://doi.org/10.1086/679662openalex-snapshot

Natural Hybridization between Genera That Diverged from Each Other Approximately 60 Million Years Ago

inferredcites →https://doi.org/10.1093/aob/mcq129openalex-snapshot

Ancient genome duplications during the evolution of kiwifruit (Actinidia) and related Ericales

inferredcites →https://doi.org/10.1093/bioinformatics/bts565openalex-snapshot

CD-HIT: accelerated for clustering the next-generation sequencing data

inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

inferredcites →https://doi.org/10.1093/bioinformatics/btx063openalex-snapshot

Phyx: phylogenetic tools for unix

inferredcites →https://doi.org/10.1093/bioinformatics/btz305openalex-snapshot

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

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Insect Phylogenomics: Exploring the Source of Incongruence Using New Transcriptomic Data

inferredcites →https://doi.org/10.1093/gbe/evz245openalex-snapshot

The Rhododendron Genome and Chromosomal Organization Provide Insight into Shared Whole-Genome Duplications across the Heath Family (Ericaceae)

inferredcites →https://doi.org/10.1093/molbev/mst010openalex-snapshot

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

inferredcites →https://doi.org/10.1093/molbev/msu245openalex-snapshot

Orthology Inference in Nonmodel Organisms Using Transcriptomes and Low-Coverage Genomes: Improving Accuracy and Matrix Occupancy for Phylogenomics

inferredcites →https://doi.org/10.1093/molbev/msu300openalex-snapshot

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

inferredcites →https://doi.org/10.1093/molbev/msv081openalex-snapshot

Dissecting Molecular Evolution in the Highly Diverse Plant Clade Caryophyllales Using Transcriptome Sequencing

inferredcites →https://doi.org/10.1093/molbev/msx302openalex-snapshot

Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets

inferredcites →https://doi.org/10.1093/molbev/msy200openalex-snapshot

Evolution of Portulacineae Marked by Gene Tree Conflict and Gene Family Expansion Associated with Adaptation to Harsh Environments

inferredcites →https://doi.org/10.1093/molbev/msz088openalex-snapshot

Inference of Ancient Whole-Genome Duplications and the Evolution of Gene Duplication and Loss Rates

inferredcites →https://doi.org/10.1093/nar/gkf436openalex-snapshot

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

inferredcites →https://doi.org/10.1093/nar/gkq1019openalex-snapshot

The Sequence Read Archive

inferredcites →https://doi.org/10.1093/sysbio/syw101openalex-snapshot

Bayes factors unmask highly variable information content, bias, and extreme influence in phylogenomic analyses

inferredcites →https://doi.org/10.1093/sysbio/syx041openalex-snapshot

Why Do Phylogenomic Data Sets Yield Conflicting Trees? Data Type Influences the Avian Tree of Life more than Taxon Sampling

inferredcites →https://doi.org/10.1093/sysbio/syy013openalex-snapshot

Variation Across Mitochondrial Gene Trees Provides Evidence for Systematic Error: How Much Gene Tree Variation Is Biological?

inferredcites →https://doi.org/10.1093/sysbio/syy043openalex-snapshot

Analyzing Contentious Relationships and Outlier Genes in Phylogenomics

inferredcites →https://doi.org/10.1101/371930openalex-snapshot

Phylogenetic conflicts, combinability, and deep phylogenomics in plants

inferredcites →https://doi.org/10.1101/gr.8.3.163openalex-snapshot

Phylogenomics: Improving Functional Predictions for Uncharacterized Genes by Evolutionary Analysis

inferredcites →https://doi.org/10.1111/1442-1984.12031openalex-snapshot

Variation of biomass and morphology of the cushion plant Androsace tapete along an elevational gradient in the T ibetan P lateau

inferredcites →https://doi.org/10.1111/boj.12385openalex-snapshot

An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG IV

inferredcites →https://doi.org/10.1111/icad.12201openalex-snapshot

Bumblebees depend on ericaceous species to survive in temperate heathlands

inferredcites →https://doi.org/10.1111/j.1654-1103.2012.01457.xopenalex-snapshot

Changes in the abundance of keystone forest floor species in response to changes of forest structure

inferredcites →https://doi.org/10.1111/nph.13264openalex-snapshot

A metacalibrated time‐tree documents the early rise of flowering plant phylogenetic diversity

inferredcites →https://doi.org/10.1111/nph.14503openalex-snapshot

Resolution of deep eudicot phylogeny and their temporal diversification using nuclear genes from transcriptomic and genomic datasets

inferredcites →https://doi.org/10.1111/nph.14530openalex-snapshot

Conflicting phylogenomic signals reveal a pattern of reticulate evolution in a recent high‐Andean diversification (Asteraceae: Astereae:Diplostephium)

inferredcites →https://doi.org/10.1111/nph.14812openalex-snapshot

Improved transcriptome sampling pinpoints 26 ancient and more recent polyploidy events in Caryophyllales, including two allopolyploidy events

inferredcites →https://doi.org/10.1126/science.1163197openalex-snapshot

Rates of Molecular Evolution Are Linked to Life History in Flowering Plants

inferredcites →https://doi.org/10.1186/2047-217x-3-17openalex-snapshot

Data access for the 1,000 Plants (1KP) project

inferredcites →https://doi.org/10.1186/gb-2008-9-10-235openalex-snapshot

Large-scale assignment of orthology: back to phylogenetics?

inferredcites →https://doi.org/10.1186/gb-2012-13-1-r3openalex-snapshot

A genome triplication associated with early diversification of the core eudicots

inferredcites →https://doi.org/10.1186/s12859-018-2129-yopenalex-snapshot

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees

inferredcites →https://doi.org/10.1186/s12862-015-0423-0openalex-snapshot

Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants

inferredcites →https://doi.org/10.1186/s13059-019-1650-2openalex-snapshot

Gene duplication and evolution in recurring polyploidization–diploidization cycles in plants

inferredcites →https://doi.org/10.1371/journal.pone.0009490openalex-snapshot

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

inferredcites →https://doi.org/10.1371/journal.pone.0126690openalex-snapshot

A Revised Time Tree of the Asterids: Establishing a Temporal Framework For Evolutionary Studies of the Coffee Family (Rubiaceae)

inferredcites →https://doi.org/10.1371/journal.pone.0154988openalex-snapshot

Ecological Importance of Small-Diameter Trees to the Structure, Diversity and Biomass of a Tropical Evergreen Forest at Rabi, Gabon

inferredcites →https://doi.org/10.1371/journal.pone.0155637openalex-snapshot

Large-Scale Gene Relocations following an Ancient Genome Triplication Associated with the Diversification of Core Eudicots

inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot

R: A Language and Environment for Statistical Computing

inferredcites →https://doi.org/10.3732/ajb.1300312openalex-snapshot

Diversification times among Brassica (Brassicaceae) crops suggest hybrid formation after 20 million years of divergence

inferredcites →https://doi.org/10.3732/ajb.1700083openalex-snapshot

Widespread paleopolyploidy, gene tree conflict, and recalcitrant relationships among the carnivorous Caryophyllales

inferredcites →https://doi.org/10.3732/ajb.89.4.677openalex-snapshot

Phylogenetic relationships in the order Ericales s.l.: analyses of molecular data from five genes from the plastid and mitochondrial genomes

inferredcites →https://doi.org/10.7717/peerj.7747openalex-snapshot

Characterizing gene tree conflict in plastome-inferred phylogenies

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/ajb2.1468openalex-snapshot

Nuclear phylogenomic analyses of asterids conflict with plastome trees and support novel relationships among major lineages

inferred← citeshttps://doi.org/10.1101/2021.03.26.437128openalex-snapshot

Transcriptome-based phylogeny and whole-genome duplication in Theaceae

inferred← citeshttps://doi.org/10.1111/jipb.13415openalex-snapshot

Phylogenomics and the flowering plant tree of life

inferred← citeshttps://doi.org/10.1111/jipb.70011openalex-snapshot

Genome duplications, genomic conflict, and rapid phenotypic evolution characterize the Cretaceous radiation of Fagales

inferred← citeshttps://doi.org/10.5114/bta.2021.108723openalex-snapshot

Phylogenetic inference of Ericales based on plastid genomes and implication of cp-SSRs

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