Plant Diversity and Evolution

Traits and hidden states: is self-fertilization associated with rates of diversification across mating and sexual systems?

The paper examines how mating and sexual systems affect diversification rates across 18 plant families, finding that sexual systems better explain diversification than mating systems.

Solving Paleobotany's 200-year problem with fluorescence and artificial intelligence

This paper uses fluorescence and AI to solve paleobotany's 200-year problem by revealing detailed leaf venation in fossils.

Comprehensive Phylogenomic Inference of Eucalypts Reveals Taxonomic Limits through Gene Tree Concordance

This study evaluates the accuracy of eucalypt taxonomy by comparing gene tree topologies to a concatenated species tree, revealing inconsistencies in taxonomic groupings.

Towards an understanding of the taxonomy of the Eurasian montane riparian genus Myricaria (Tamaricaceae) through Angiosperms353 herbariomics

This study uses phylogenomic analysis to clarify the taxonomy of the genus Myricaria, identifying two infrageneric sections and synonymizing several species.

Bayesian inference of global land plant diversification dynamics across the Phanerozoic

This study uses Bayesian methods to analyze land plant diversification dynamics across the Phanerozoic, identifying key patterns and drivers of diversification and extinction.

Panic at the Discordance: the Asparagaceae Phylogenetic Backbone

This study investigates phylogenetic discordance in the Asparagaceae family using nuclear gene data, identifying sources like incomplete lineage sorting and ancient hybridization.

Reticulate Evolution and Plastome Restructuring Shape Asian Passiflora Diversification

This study investigates the evolutionary relationships and plastome evolution of Asian Passiflora species, revealing reticulate evolution, incomplete lineage sorting, and population differentiation.

The diversity, evolution, and conservation of African plants

The paper evaluates diversification rates and phylogenetic diversity across African plant genera, revealing mismatches between diversification hotspots and conservation priorities.

Phylogenomics reveals distinct evolutionary lineages of Japanese Cinnamomum species in the Nansei Islands

The paper uses genomic data to identify distinct evolutionary lineages of Japanese Cinnamomum species in the Nansei Islands, revealing genomic differentiation shaped by deep-sea barriers and isolation.

Disentangling enabler and adaptive traits across habitat shifts in a large neotropical plant clade

The paper investigates how vegetative and reproductive traits contribute to habitat shifts in Neotropical Myrtaceae, finding vegetative traits act as enablers while reproductive traits show both enabler and adaptive patterns.

An explicit birth-death-reticulation model for studying the diversification of phylogenetic networks

The paper develops a birth-death-reticulation model to analyze phylogenetic networks and applies it to study diversification in ferns, finding evidence that polyploids have lower diversification rates than diploids.

Comparative phylogenetic analyses of limestone and non-limestone Begonias in Peninsular Malaysia

This study uses molecular phylogenetics to analyze Begonia species in Peninsular Malaysia, finding that speciation into limestone habitats occurred three times and climate, not substrate, was more important for diversification.

Reticulate History of Southern South American Wild Potatoes: Recurrent Hybridization, Cytonuclear Discordance, and Phylogenetic Placement of Solanum malmeanum

This study investigates the evolutionary history of wild potatoes in the Petota clade, revealing recurrent hybridization, cytonuclear discordance, and chloroplast capture affecting species boundaries.

Painting the evolutionary history of a multicompartmentalized syngameon in North American Castilleja (Orobanchaceae)

This study uses phylogenomic data to show that Castilleja forms a multicompartmentalized syngameon with ongoing gene flow and hybridization across geographically structured compartments.

Why woodiness repeatedly evolves--and disappears

The paper investigates the evolution and reversal of woodiness in flowering plants, finding that drought supports persistence while reduced frost drives gains and increased frost leads to loss.

Madagascar as an evolutionary source for the Paleotropical flora: New insights from the biogeography of Grewia (Malvaceae)

This study reconstructs the evolutionary history of Grewia, showing a Malagasy origin and dispersal to Africa, Arabia, and Asia via fleshy fruits.

Phylogeny and Species Delimitation in Isoxylosteum, a Lonicera Clade Endemic to the Himalayan-Tibetan-Hengduan Region

This study resolves the phylogeny and species boundaries of the Isoxylosteum clade using RADseq and morphology, identifying five species and reclassifying one as sister to L. spinosa.

Synchronizing speciation, extinction, and dispersal to island paleodynamics through Bayesian phylogenetics in a Hawaiian plant radiation

The paper introduces a Bayesian phylogenetic framework to infer divergence times, ancestral ranges, and diversification rates in Hawaiian plants without fossil calibration.

Phylogenomics supports the reinstatement of Sinia (Ochnaceae)

The paper uses phylogenomic data to reinstate Sinia as a distinct genus within Ochnaceae, resolving taxonomic uncertainty by showing its close relationship to Indosinia and distant relationship to Sauvagesia.

From distyly to stigma-height dimorphism: phylogenetic insights into the evolutionary breakdown of distyly in Jasminum

This study investigates the evolution of distyly and stigma-height dimorphism in Jasminum using phylogenetic analysis and morphology, finding that distyly originated in the common ancestor and SHD arose multiple times through reversion.

Hierarchical constraints and trade-offs in the evolution of reproductive traits in neotropical myrtles

The paper examines evolutionary correlations among reproductive traits in neotropical myrtles, finding hierarchical constraints and trade-offs between flowers, fruits, and seeds.

A tribal-scale phylogenomic perspective on ancestry and major lineages of the allotetraploid Hawaiian silversword alliance (Madieae, Compositae)

The paper uses phylogenomic analysis to resolve the ancestry and subgenome origins of the allotetraploid Hawaiian silversword alliance, identifying its allopolyploid origin and relationships to diploid relatives.

Rapid floral syndrome convergence in Penstemon through independent genetic variation

This study identifies four independent origins of hummingbird syndrome in Penstemon and finds rapid floral trait convergence without stepwise modification or adaptive introgression.

Plastome phylogenomics of the tribe Spermacoceae (Rubiaceae): taxonomic implications and a key to the genera

This study presents the first plastome-scale phylogenomic analysis of the tribe Spermacoceae, clarifying generic boundaries and supporting taxonomic revisions.

Making the most out of it: shallow genome-skimming possibilities for the systematics of prickly lineages of Solanum (Solanaceae)

This study evaluates shallow genome-skimming for phylogenetic inference in Solanum, finding it effective for SNP datasets but limited in recovering complete mitochondrial genomes and low-copy nuclear genes.

Nuclear phylogenomics clarifies the family-level backbone and gene-tree conflict in Zingiberales

This study uses nuclear phylogenomics to resolve the family-level backbone of Zingiberales, finding that deep node instability is due to rapid divergence and incomplete lineage sorting, not hybridization.

Multiple evidence supporting a novel species amid complex phylogenomic discordance: a case of Indian Ledebouria based on Angiosperms353 target capture sequencing

The paper uses Angiosperms353 target capture sequencing to clarify phylogenetic relationships among Indian Ledebouria species, identifying L. hyderabadensis as a distinct species and other accessions as incipient species.

Reticulate evolution and climate driven diversification shaped the origin and geographic structure of Linum bienne

This study investigates how hybridization, incomplete lineage sorting, and climate change shaped the evolutionary history and geographic structure of Linum bienne.

Tracing Sticky Trails: The Historical Biogeography of Australia's Glandular Goose-foots (Dysphania, Chenopodioideae, Amaranthaceae)

This study reconstructs the evolutionary history of Australian Dysphania, finding that diversification was driven by ecological factors rather than polyploidy or geographic isolation.

Resolving the oak tree of life: comparing RADseq and whole genome resequencing methods for oak phylogenetics

The paper compares RADseq and whole genome resequencing methods to resolve oak phylogeny and address uncertainties in divergence times and gene tree discordance.