Preprints
Filtering by Subject: Botany
Decline of the globally rare old-growth specklebelly lichen, Pseudocyphellaria rainierensis, and its implications for temperate rainforest conservation
Published: 2025-04-25
Subjects: Biodiversity, Botany, Environmental Indicators and Impact Assessment, Environmental Monitoring, Environmental Sciences, Forest Biology, Forest Management, Natural Resources and Conservation, Population Biology
Epiphytic lichens are key components of temperate rainforests, where they contribute to forest hydrology, nutrient cycles, food webs, and overall biomass and biodiversity. Despite their ecological importance and sensitivity to environmental change few protections exist for lichen conservation and management. Pseudocyphellaria rainierensis, or old-growth specklebelly lichen, is considered an [...]
Seeing herbaria in a new light: leaf reflectance spectroscopy unlocks predictive trait and classification modeling in plant biodiversity collections
Published: 2025-02-10
Subjects: Biodiversity, Bioinformatics, Botany, Ecology and Evolutionary Biology, Integrative Biology, Life Sciences
Reflectance spectroscopy is a non-destructive, rapid, and robust method for estimating functional traits and distinguishing species. Spectral reflectance libraries generated from herbarium specimens are an untapped and promising resource for generating broad phenomic datasets across space, time, and species. We conducted a proof-of-concept study using functional trait data and spectra from [...]
Identifying the collector practices that shape spatial, temporal, and taxonomic bias in herbaria
Published: 2025-02-05
Subjects: Biodiversity, Biology, Botany, Ecology and Evolutionary Biology
Natural history collections (NHCs) are essential for studying biodiversity. While spatial, temporal, and taxonomic biases in NHCs affect analyses, the influence of collector practices on biases remains largely unexplored. We utilized one million digitized specimens collected in the northeastern United States from 237 herbaria and analyzed contributions from ~10,000 collectors. We investigated (a) [...]
Integrating Phylogeny and Functional Traits into Evaluations of Nestedness in Island Floras
Published: 2025-02-03
Subjects: Botany, Ecology and Evolutionary Biology, Life Sciences
Questions Understanding the composition and structure of island floras is crucial for making informed conservation decisions. Island floras are often nested, i.e. lower species richness assemblages are frequently subsets of those higher in richness. However, the circumstances under which this occurs on islands are often unclear. Moreover, research in island biogeography rarely integrates [...]
Assessing Transparency and Reproducibility in Invasion Science
Published: 2024-12-06
Subjects: Botany, Ecology and Evolutionary Biology, Life Sciences, Plant Sciences
Policymakers and practitioners overseeing invasive species management depend on reliable research for guidance. Transparency and reproducibility are core features of reliable research, and prerequisites for successful study replication, but are evidently lacking in many science disciplines. Whether this shortfall characterizes invasion science remains unknown. We evaluated a sample of invasion [...]
Earlier and increased growth of tundra willows after a decade of growth in a warmer common garden environment
Published: 2024-11-08
Subjects: Biology, Botany, Ecology and Evolutionary Biology, Life Sciences, Plant Biology, Plant Sciences, Terrestrial and Aquatic Ecology
1. The expansion of woody shrubs, known as shrubification, is one of the most widely observed patterns of vegetation change in the tundra. Yet, we do not know the relative importance of plant plasticity and genetic change in determining shrub responses to warming. Plastic responses to the environment can be rapid, while genetic differentiation is much slower. 2. We established a common garden [...]
Beyond single invaders: Disentangling the effects of co-invading alien forbs on sandy old-fields
Published: 2024-10-27
Subjects: Biodiversity, Botany, Ecology and Evolutionary Biology
Aims Invasive alien plants can severely impact ecosystem diversity and function. While individual species’ effects are often studied, the interaction between multiple invasive species is less understood. This study examines how Asclepias syriaca and Solidago spp. (including Solidago gigantea and S. canadensis) influence taxonomic and functional diversity in sandy old-fields. The aims are to: (1) [...]
Collapse and recovery of livestock systems shape fire regimes on the Eurasian steppe: a review of ecosystem and biodiversity implications
Published: 2024-09-04
Subjects: Biodiversity, Botany, Natural Resources and Conservation, Plant Sciences, Sustainability
Shifts in fire regimes can trigger rapid changes in ecosystem functioning and biodiversity. We synthesize evidence for patterns, causes and consequences of recent change in fire regimes across the Eurasian steppes, a neglected global fire hotspot. Political and economic turmoil following the break-up of the Soviet Union in 1991 triggered abrupt land abandonment over millions of hectares and a [...]
The Genomics for Australian Plants (GAP) framework initiative – developing genomic resources for understanding the evolution and conservation of the Australian flora.
Published: 2024-07-08
Subjects: Biodiversity, Botany, Genomics
The generation and analysis of genome-scale data—genomics—is driving a rapid increase in plant biodiversity knowledge. However, the speed and complexity of technological advance in genomics presents challenges for its widescale use in evolutionary and conservation biology. Here, we introduce and describe a national-scale collaboration conceived to build genomic resources and capability for [...]
Navigating phylogenetic conflict and evolutionary inference in plants with target capture data
Published: 2024-05-27
Subjects: Bioinformatics, Biology, Botany, Ecology and Evolutionary Biology, Evolution, Life Sciences, Plant Sciences, Research Methods in Life Sciences
Target capture has quickly become a preferred approach for plant systematic and evolutionary research, marking a step-change in the generation of data for phylogenetic inference. While this advancement has facilitated the resolution of many relationships, phylogenetic conflict continues to be reported, and often attributed to genome duplication, reticulation, incomplete lineage sorting or rapid [...]
Incomplete lineage sorting and hybridization underlie of tree discordance in Petunia and related genera (Petunieae, Solanaceae)
Published: 2024-03-29
Subjects: Biodiversity, Bioinformatics, Botany, Genomics
Despite the overarching history of species divergence, phylogenetic studies often reveal distinct topologies across regions of the genome. The sources of these gene tree discordances are variable, but incomplete lineage sorting (ILS) and hybridization are among those with the most biological importance. Petunia serves as a classic system for studying hybridization in the wild. While field studies [...]
Sexual system variation in legumes (Leguminosae): underpinning genomic study with new tools to describe inflorescence morphology
Published: 2024-02-01
Subjects: Biology, Botany, Plant Biology, Plant Breeding and Genetics Life Sciences, Plant Sciences
Although the great majority of legume species are cosexual with hermaphrodite flowers, a variety of sexual systems are observed in the family, including monoecy, andromonoecy, androdioecy and dioecy. Such broad terms conceal much variation, details that may be of importance in understanding the evolutionary and ecological basis of reproductive systems. This variation is often inadequately [...]
Extinction drives recent thermophilization but does not trigger homogenization in forest understory
Published: 2023-07-05
Subjects: Botany, Forest Sciences, Life Sciences, Terrestrial and Aquatic Ecology
The ongoing climate change is triggering plant community thermophilization. This selection process is ought to shift community composition toward species adapted to warmer climates but may also lead to biotic homogenization. The link between thermophilization and homogenization, and the community dynamics that drive them (colonization and extinction) remain unknow, but is critical for [...]
Evolutionary origins of the Mesoamerican-eastern United States floristic disjunction: current status and future prospects
Published: 2022-11-07
Subjects: Biodiversity, Biology, Botany, Ecology and Evolutionary Biology, Evolution, Life Sciences, Plant Sciences
Biogeographic disjunction patterns, where multiple taxonomic groups are shared between isolated geographic areas, represent excellent systems for investigating the historical assembly of modern biotas as well as fundamental biological processes such as speciation, diversification, niche evolution, and evolutionary responses to climate change. Studies on plant genera disjunct across the Northern [...]
Deep reticulation: the long legacy of hybridization in vascular plant evolution
Published: 2022-10-26
Subjects: Biodiversity, Botany, Ecology and Evolutionary Biology, Evolution, Life Sciences, Plant Biology, Plant Sciences
Hybridization has long been recognized as a fundamental evolutionary process in plants, but our understanding of its phylogenetic distribution and biological significance across deep evolutionary scales has been largely obscure—until recently. Over the past decade, genomic and phylogenomic datasets have revealed, perhaps not surprisingly, that hybridization, often associated with polyploidy, has [...]