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Whole‐genome analyses disentangle reticulate evolution of primroses in a biodiversity hotspot

https://doi.org/10.1111/nph.18525
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Outgoing claims: the papers this work cites, builds on, or argues with.

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Both morph‐ and species‐dependent asymmetries affect reproductive barriers between heterostylous species
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Homoploid hybridization of plants in the Hengduan mountains region
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Characterization of the complete chloroplast genome sequence of Primula veris (Ericales: Primulaceae)
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Interpreting the genomic landscape of introgression
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Hybrid speciation via inheritance of alternate alleles of parental isolating genes
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Phylogenetic relationships and evolution of high mountain buttercups (Ranunculus) in North America and Central Asia
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The evolution of restricted recombination in sex chromosomes
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Reticulate evolution and incomplete lineage sorting among the ponderosa pines
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Phylogenetic analysis of Primula section Primula reveals rampant non-monophyly among morphologically distinct species
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A hybrid phylogenetic–phylogenomic approach for species tree estimation in African Agama lizards with applications to biogeography, character evolution, and diversification
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Presumable incipient hybrid speciation of door snails in previously glaciated areas in the Caucasus
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Multi-allele species reconstruction using ASTRAL
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The effect of Quaternary climatic changes on plant distribution and evolution
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The genetic legacy of the Quaternary ice ages
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Phylogenomic analyses highlight innovation and introgression in the continental radiations of Fagaceae across the Northern Hemisphere
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Genomic architecture of adaptive radiation and hybridization in Alpine whitefish
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Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow
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Geological and climatic influences on mountain biodiversity
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Primula vulgaris (primrose) genome assembly, annotation and gene expression, with comparative genomics on the heterostyly supergene
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Reconstructing hotspots of genetic diversity from glacial refugia and subsequent dispersal in Italian common toads (Bufo bufo)
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Ancient introgression drives adaptation to cooler and drier mountain habitats in a cypress species complex
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The role of hybridization in evolution
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Horizontal transfer of chloroplast genomes between plant species
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Multispecies coalescent delimits structure, not species
inferredcites →https://doi.org/10.1073/pnas.1817999116openalex-snapshot
Rates of niche and phenotype evolution lag behind diversification in a temperate radiation
inferredcites →https://doi.org/10.1078/0367-2530-00149openalex-snapshot
Pattern of the floral variation in the hybrid zone of two distylous Primula species
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The biology of heterostyly
inferredcites →https://doi.org/10.1080/13594864709441412openalex-snapshot
The Genus Primula: Section Vernales Pax
inferredcites →https://doi.org/10.1086/380747openalex-snapshot
The Temporal Course of Quaternary Diversification in the European High Mountain EndemicPrimulasect.Auricula(Primulaceae)
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Climatic and topographical correlates of plant palaeo- and neoendemism in a Mediterranean biodiversity hotspot
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adegenet : a R package for the multivariate analysis of genetic markers
inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot
Fast and accurate short read alignment with Burrows–Wheeler transform
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The variant call format and VCFtools
inferredcites →https://doi.org/10.1093/bioinformatics/btr509openalex-snapshot
A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
inferredcites →https://doi.org/10.1093/bioinformatics/btr521openalex-snapshot
adegenet 1.3-1 : new tools for the analysis of genome-wide SNP data
inferredcites →https://doi.org/10.1093/genetics/156.2.879openalex-snapshot
Consequences of Recombination on Traditional Phylogenetic Analysis
inferredcites →https://doi.org/10.1093/genetics/28.2.114openalex-snapshot
ISOLATION BY DISTANCE
inferredcites →https://doi.org/10.1093/genetics/iyab173openalex-snapshot
Phylogenomic approaches to detecting and characterizing introgression
inferredcites →https://doi.org/10.1093/gigascience/giab008openalex-snapshot
Twelve years of SAMtools and BCFtools
inferredcites →https://doi.org/10.1093/molbev/msaa106openalex-snapshot
New Methods to Calculate Concordance Factors for Phylogenomic Datasets
inferredcites →https://doi.org/10.1093/molbev/msab063openalex-snapshot
Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus
inferredcites →https://doi.org/10.1093/molbev/msac035openalex-snapshot
Comparative Genomics Elucidates the Origin of a Supergene Controlling Floral Heteromorphism
inferredcites →https://doi.org/10.1093/molbev/msj030openalex-snapshot
Application of Phylogenetic Networks in Evolutionary Studies
inferredcites →https://doi.org/10.1093/molbev/msr048openalex-snapshot
Testing for Ancient Admixture between Closely Related Populations
inferredcites →https://doi.org/10.1093/molbev/mst024openalex-snapshot
Ultrafast Approximation for Phylogenetic Bootstrap
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/msw079openalex-snapshot
Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies
inferredcites →https://doi.org/10.1093/molbev/msz139openalex-snapshot
Recombination-Aware Phylogenomics Reveals the Structured Genomic Landscape of Hybridizing Cat Species
inferredcites →https://doi.org/10.1093/sysbio/syaa049openalex-snapshot
Out of Sight, Out of Mind: Widespread Nuclear and Plastid-Nuclear Discordance in the Flowering Plant GenusPolemonium(Polemoniaceae) Suggests Widespread Historical Gene Flow Despite Limited Nuclear Signal
inferredcites →https://doi.org/10.1093/sysbio/syaa066openalex-snapshot
Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l
inferredcites →https://doi.org/10.1093/sysbio/syaa083openalex-snapshot
The Perfect Storm: Gene Tree Estimation Error, Incomplete Lineage Sorting, and Ancient Gene Flow Explain the Most Recalcitrant Ancient Angiosperm Clade, Malpighiales
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Most Genomic Loci Misrepresent the Phylogeny of an Avian Radiation Because of Ancient Gene Flow
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Gene Flow Increases Phylogenetic Structure and Inflates Cryptic Species Estimations: A Case Study on Widespread Philippine Puddle Frogs ( Occidozyga laevis )
inferredcites →https://doi.org/10.1093/sysbio/syab058openalex-snapshot
Rapid Radiation and Rampant Reticulation: Phylogenomics of South AmericanLiolaemusLizards
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Disentangling Reticulate Evolution in an Arctic–Alpine Polyploid Complex
inferredcites →https://doi.org/10.1093/sysbio/syr124openalex-snapshot
Effects of Phylogenetic Signal on Ancestral State Reconstruction
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Detection and Polarization of Introgression in a Five-Taxon Phylogeny
inferredcites →https://doi.org/10.1093/sysbio/syw037openalex-snapshot
Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices
inferredcites →https://doi.org/10.1093/sysbio/syw083openalex-snapshot
Ancestral Gene Flow and Parallel Organellar Genome Capture Result in Extreme Phylogenomic Discord in a Lineage of Angiosperms
inferredcites →https://doi.org/10.1098/rspb.2014.0075openalex-snapshot
Heterostyly accelerates diversification via reduced extinction in primroses
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The strength and genetic basis of reproductive isolating barriers in flowering plants
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The perils of intralocus recombination for inferences of molecular convergence
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Convergent evolution in the genomics era: new insights and directions
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Incomplete lineage sorting patterns among human, chimpanzee, and orangutan suggest recent orangutan speciation and widespread selection
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Breaking RAD: an evaluation of the utility of restriction site‐associated DNA sequencing for genome scans of adaptation
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Dsuite ‐ Fast D ‐statistics and related admixture evidence from VCF files
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Chronogram or phylogram for ancestral state estimation? Model‐fit statistics indicate the branch lengths underlying a binary character's evolution
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Final countdown for biodiversity hotspots
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Forecasting range shifts of a cold‐adapted species under climate change: are genomic and ecological diversity within species crucial for future resilience?
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MORE ACCURATE PHYLOGENIES INFERRED FROM LOW-RECOMBINATION REGIONS IN THE PRESENCE OF INCOMPLETE LINEAGE SORTING
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SMALL AND UGLY? PHYLOGENETIC ANALYSES OF THE “SELFING SYNDROME” REVEAL COMPLEX EVOLUTIONARY FATES OF MONOMORPHIC PRIMROSE FLOWERS
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Historical introgression among the American live oaks and the comparative nature of tests for introgression
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ENVIRONMENTAL CORRELATES OF POPULATION DIFFERENTIATION IN ATLANTIC HERRING
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On the Two Forms, or Dimorphic Condition, in the Species of Primula, and on their remarkable Sexual Relations.
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On the Specific Difference between Primula veris, Brit. Fl. (var. officinalis of Linn.), P. vulgaris, Brit. Fl. (var. acaulis, Linn.), and P. elatior, Jacq.; and on the Hybrid Nature of the common Oxlip. With Supplementary Remarks on naturally-produced Hy
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STUDIES IN BRITISH PRIMULAS
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STUDIES IN BRITISH PRIMULAS
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CORRELATION OF PAIRWISE GENETIC AND GEOGRAPHIC DISTANCE MEASURES: INFERRING THE RELATIVE INFLUENCES OF GENE FLOW AND DRIFT ON THE DISTRIBUTION OF GENETIC VARIABILITY
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phytools: an R package for phylogenetic comparative biology (and other things)
inferredcites →https://doi.org/10.1111/jbi.12085openalex-snapshot
Divergent and narrower climatic niches characterize polyploid species of European primroses inPrimulasect.Aleuritia
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Replicated radiations of the alpine genus A ndrosace (Primulaceae) driven by range expansion and convergent key innovations
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Why mountains matter for biodiversity
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Patterns of genomic divergence and introgression between Japanese stickleback species with overlapping breeding habitats
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Gene flow, divergent selection and resistance to introgression in two species of morning glories (Ipomoea)
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Different molecular changes underlie the same phenotypic transition: Origins and consequences of independent shifts to homostyly within species
inferredcites →https://doi.org/10.1111/njb.01778openalex-snapshot
Recurrent hybridisation events between Primula vulgaris , P . veris and P . elatior (Primulaceae, Ericales) challenge the species boundaries: using molecular markers to re‐evaluate morphological identifications
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The origins of reproductive isolation in plants
inferredcites →https://doi.org/10.1111/nph.15386openalex-snapshot
An evaluation of alternative explanations for widespread cytonuclear discordance in annual sunflowers ( Helianthus )
inferredcites →https://doi.org/10.1111/nph.16293openalex-snapshot
Cradles and museums of generic plant diversity across tropical Africa
inferredcites →https://doi.org/10.1111/nph.16849openalex-snapshot
Asymmetries of reproductive isolation are reflected in directionalities of hybridization: integrative evidence on the complexity of species boundaries
inferredcites →https://doi.org/10.1126/science.aar3684openalex-snapshot
Natural selection interacts with recombination to shape the evolution of hybrid genomes
inferredcites →https://doi.org/10.1126/science.aax0149openalex-snapshot
Humboldt’s enigma: What causes global patterns of mountain biodiversity?
inferredcites →https://doi.org/10.1126/science.aax0151openalex-snapshot
Building mountain biodiversity: Geological and evolutionary processes
inferredcites →https://doi.org/10.1146/annurev.arplant.043008.092039openalex-snapshot
The Role of Hybridization in Plant Speciation
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/s13015-019-0159-2openalex-snapshot
NANUQ: a method for inferring species networks from gene trees under the coalescent model
inferredcites →https://doi.org/10.1186/s13059-014-0567-zopenalex-snapshot
The draft genome of Primula veris yields insights into the molecular basis of heterostyly
inferredcites →https://doi.org/10.12705/634.14openalex-snapshot
Ultrametric trees or phylograms for ancestral state reconstruction: Does it matter?
inferredcites →https://doi.org/10.1371/journal.pgen.1004410openalex-snapshot
Speciation and Introgression between Mimulus nasutus and Mimulus guttatus
inferredcites →https://doi.org/10.1371/journal.pgen.1008404openalex-snapshot
Eukaryote hybrid genomes
inferredcites →https://doi.org/10.1371/journal.pgen.1009892openalex-snapshot
The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes
inferredcites →https://doi.org/10.1534/genetics.112.145037openalex-snapshot
Ancient Admixture in Human History
inferredcites →https://doi.org/10.1534/genetics.116.190173openalex-snapshot
Challenges in Species Tree Estimation Under the Multispecies Coalescent Model
inferredcites →https://doi.org/10.1600/036364420x16033963649282openalex-snapshot
Diversification in the Arctic: Biogeography and Systematics of the North AmericanMicranthes(Saxifragaceae)
inferredcites →https://doi.org/10.2307/2399220openalex-snapshot
Phylogenetic Patterns and Hybridization
inferredcites →https://doi.org/10.2307/3647382openalex-snapshot
Spatial and Temporal Patterns in the Evolution of the Flora of the European Alpine System
inferredcites →https://doi.org/10.2478/s11756-019-00398-6openalex-snapshot
Faunal biodiversity research in the Republic of Georgia: a short review of trends, gaps, and needs in the Caucasus biodiversity hotspot
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A Phylogenomic Perspective on Evolution and Discordance in the Alpine-Arctic Plant Clade Micranthes (Saxifragaceae)
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The Colchic region as refuge for relict tree lineages: cryptic speciation in field maples
inferredcites →https://doi.org/10.5586/asbp.89313openalex-snapshot
Out of Colchis: The Colonization of Europe by Primula vulgaris Huds. (Primulaceae)
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Presence versus absence of CYP734A50 underlies the style-length dimorphism in primroses

What points at this work

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

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The role of ancient and recent reticulate evolution as a major driver of Narcissus diversity
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Over the hills and far away: phylogeography and demographic migration history of a dispersal-restricted primrose (Primula vulgaris)
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