Science Enabled by Specimen Data

Zhang, L., I. van Riemsdijk, M. Liu, Z. Liao, A. Cavé‐Radet, J. Bi, S. Wang, et al. 2024. Biogeography of a Global Plant Invader: From the Evolutionary History to Future Distributions. Global Change Biology 30. https://doi.org/10.1111/gcb.17622

Biological invasions pose a global challenge, affecting ecosystems worldwide and human societies. Knowledge of the evolutionary history of invasive species is critical to understanding their current invasion success and projecting their future spread. However, to date, few studies have addressed the evolutionary history and potential future spread of invaders simultaneously. In this study, we explored both evolutionary history and spatiotemporal dynamic patterns of the distribution of Reynoutria japonica, known as one of the world's worst plant invaders. We analysed 265 R. japonica samples from its current geographical ranges across three continents, using seven chloroplast DNA (cpDNA) markers to establish the phylogenetic relationships among extant populations. We combined these with ecological niche modelling to infer historical and more recent migration patterns and predict potential future distribution changes under climate change. Our results indicate that climate fluctuations and sea level changes likely facilitated the expansion of R. japonica from southern Japan to continental East Asia in the Pliocene, followed by a contraction in East Asian populations. In the recent Holocene, human activities have then enabled a linage of this species to spread from Japan to Europe and North America, resulting in three major global clades. Future climate scenarios suggest a northward expansion of R. japonica in Europe and North America, but shrinking habitat in China. Our study, thus, demonstrates the complex influences of historical climate‐driven migrations, human activities and future climate changes on the global distribution of an invasive species.

Wenk, E., T. Mesaglio, D. Keith, and W. Cornwell. 2024. Curating protected area-level species lists in an era of diverse and dynamic data sources. Ecological Informatics 84: 102921. https://doi.org/10.1016/j.ecoinf.2024.102921

Dynamic yet accurate species lists for protected areas are essential for conservation and biodiversity research. Even when such lists exist, changing taxonomy, ongoing species migrations and invasions, and new discoveries of historically overlooked species mean static lists can become rapidly outdated. Biodiversity databases such as the Global Biodiversity Information Facility, and citizen science platforms such as iNaturalist, offer rapidly accessible, georeferenced data, but their accuracy is rarely tested. Here we compare species lists generated for two of the world's oldest, more famous protected areas – Yosemite National Park in California, United States and Royal National Park in New South Wales, Australia – using both automated data extraction techniques and extensive manual curation steps. We show that automated list creation without manual curation offers inflated measures of species diversity. Lists generated from herbarium vouchers required more curation than lists generated from iNaturalist, with both incorrect coordinates attached to vouchers and long-outdated names inflating voucher-based species lists. In comparison, iNaturalist data had relatively few errors, in part due to continual curation by a large community, including many botanical experts, and the frequent and automatic implementation of taxonomic updates. As such, iNaturalist will become an increasingly accurate supplementary source for automated biodiversity lists over time, but currently offers poor coverage of graminoid species and introduced species relative to showier, native taxa, and relies on continued expert contributions to identifications. At this point, researchers must manually curate lists extracted from herbarium vouchers or static park lists, and integrate these data with records from iNaturalist, to produce the most robust and taxonomically up-to-date species lists for protected areas.

Buckner, M. A., S. T. Hoge, and B. N. Danforth. 2024. Forecasting the Effects of Global Change on a Bee Biodiversity Hotspot. Ecology and Evolution 14. https://doi.org/10.1002/ece3.70638

The Mojave and Sonoran Deserts, recognized as a global hotspot for bee biodiversity, are experiencing habitat degradation from urbanization, utility‐scale solar energy (USSE) development, and climate change. In this study, we evaluated the current and future distribution of bee diversity, assessed how protected areas safeguard bee species richness, and predicted how global change may affect bees across the region. Using Joint Species Distribution Models (JSDMs) of 148 bee species, we project changes in species distributions, occurrence area, and richness under four global change scenarios between 1971 and 2050. We evaluated the threat posed by USSE development and predicted how climate change will affect the suitability of protected areas for conservation. Our findings indicate that changes in temperature and precipitation do not uniformly affect bee richness. Lower elevation protected areas are projected to experience mean losses of up to 5.8 species, whereas protected areas at higher elevations and transition zones may gain up to 7.8 species. Areas prioritized for future USSE development have an average species richness of 4.2 species higher than the study area average, and lower priority “variance” areas have 8.2 more species. USSE zones are expected to experience declines of up to 8.0 species by 2050 due to climate change alone. Despite the importance of solitary bees for pollination, their diversity is often overlooked in land management decisions. Our results show the utility of JSDMs for leveraging existing collection records to ease the inclusion of data‐limited insect species in land management decision‐making.

Xu, L., Z. Song, T. Li, Z. Jin, B. Zhang, S. Du, S. Liao, et al. 2024. New insights into the phylogeny and infrageneric taxonomy of Saussurea based on hybrid capture phylogenomics (Hyb-Seq). Plant Diversity. https://doi.org/10.1016/j.pld.2024.10.003

Saussurea is one of the largest and most rapidly evolving genera within the Asteraceae, comprising approximately 520 species from the Northern Hemisphere. A comprehensive infrageneric classification, supported by robust phylogenetic trees and corroborated by morphological and other data, has not yet been published. For the first time, we recovered a well-resolved nuclear phylogeny of Saussurea consisting of four main clades, which was also supported by morphological data. Our analyses show that ancient hybridization is the most likely source of deep cytoplasmic-nuclear conflict in Saussurea, and a phylogeny based on nuclear data is more suitable than one based on chloroplast data for exploring the infrageneric classification of Saussurea. Based on the nuclear phylogeny obtained and morphological characters, we proposed a revised infrageneric taxonomy of Saussurea, which includes four subgenera and 13 sections. Specifically, 1) S. sect. Cincta, S. sect. Gymnocline, S. sect. Lagurostemon, and S. sect. Strictae were moved from S. subg. Saussurea to S. subg. Amphilaena, 2) S. sect. Pseudoeriocoryne was moved from S. subg. Eriocoryne to S. subg. Amphilaena, and 3) S. sect. Laguranthera was moved from S. subg. Saussurea to S. subg. Theodorea.

Prevéy, J. S., I. S. Pearse, D. M. Blumenthal, A. J. Howell, J. A. Kray, S. C. Reed, M. B. Stephenson, and C. S. Jarnevich. 2024. Phenology forecasting models for detection and management of invasive annual grasses. Ecosphere 15. https://doi.org/10.1002/ecs2.70023

Non‐native annual grasses can dramatically alter fire frequency and reduce forage quality and biodiversity in the ecosystems they invade. Effective management techniques are needed to reduce these undesirable invasive species and maintain ecosystem services. Well‐timed management strategies, such as grazing, that are applied when invasive grasses are active prior to native plants can control invasive species spread and reduce their impact; however, anticipating the timing of key phenological stages that are susceptible to management over vast landscapes is difficult, as the phenology of these species can vary greatly over time and space. To address this challenge, we created range‐wide phenology forecasts for two problematic invasive annual grasses: cheatgrass (Bromus tectorum), and red brome (Bromus rubens). We tested a suite of 18 mechanistic phenology models using observations from monitoring experiments, volunteer science, herbarium records, timelapse camera imagery, and downscaled gridded climate data to identify the models that best predicted the dates of flowering and senescence of the two invasive grass species. We found that the timing of flowering and senescence of cheatgrass and red brome were best predicted by photothermal time models that had been adjusted for topography using gridded continuous heat‐insolation load index values. Phenology forecasts based on these models can help managers make decisions about when to schedule management actions such as grazing to reduce undesirable invasive grasses and promote forage production, quality, and biodiversity in grasslands; to predict the timing of greatest fire risk after annual grasses dry out; and to select remote sensing imagery to accurately map invasive grasses across topographic and latitudinal gradients. These phenology models also have the potential to be operationalized for within‐season or within‐year decision support.

Singhal, S., C. DiVittorio, C. Jones, I. Ixta, A. Widmann, I. Giffard‐Mena, F. Zapata, and A. Roddy. 2024. Population structure and natural selection across a flower color polymorphism in the desert plant Encelia farinosa. American Journal of Botany 111. https://doi.org/10.1002/ajb2.16413

AbstractPremiseClines—or the geographic sorting of phenotypes across continual space—provide an opportunity to understand the interaction of dispersal, selection, and history in structuring polymorphisms.MethodsIn this study, we combine field‐sampling, genetics, climatic analyses, and machine learning to understand a flower color polymorphism in the wide‐ranging desert annual Encelia farinosa.ResultsWe find evidence for replicated transitions in disk floret color from brown to yellow across spatial scales, with the most prominent cline stretching ~100 km from southwestern United States into México. Because population structure across the cline is minimal, selection is more likely than drift to have an important role in determining cline width.ConclusionsGiven that the cline aligns with a climatic transition but there is no evidence for pollinator preference for flower color, we hypothesize that floret color likely varies as a function of climatic conditions.

Schmidt, R. J., J. M. Johnston, and L. Struwe. 2024. Waif to Invasive: the Transatlantic Migration and Establishment of Grasses Introduced to North America with Pre-Twentieth-Century Ship Ballast. International Journal of Plant Sciences 185: 441–452. https://doi.org/10.1086/730539

Premise of research. Little is known about the establishment success of grasses after their introduction into new areas. Using herbarium data, we investigated temporospatial patterns in the survival, establishment, and spread of grasses introduced to eastern North America through solid ballast deposition from the pre-twentieth-century shipping trade. Methodology. We identified 95 grass species introduced to New Jersey via ballast deposition and used 2729 digitized and georeferenced plant specimens from 63 herbaria to quantify their establishment and dispersion. Anselin Local Moran’s I measure of local spatial autocorrelation revealed the earliest and most recent areas of invasion by ballast grasses irrespective of collection intensity. Species’ native ranges were used to evaluate the differential establishment and dispersion of species from different biogeographic realms. Pivotal results. Of all the species (95), 51% did not survive after ballast deposition ended (waifs), 8% died out shortly thereafter (short-term), and 41% became established in New Jersey. Of the established species, 41% are widespread (established-widespread), and 59% are still primarily found near shipping ports and railroads (established–limited spread). These species are mostly native to the Palearctic (77%; 44% to the Mediterranean and 33% to northern Europe), followed by the Neotropics (11%), the Afrotropics (10%), and the southeastern United States (4%). The establishment proportion for species native to more than one biogeographic region (72%) was four times greater than that for species native to a single region (18%). Additionally, 95% of established species, including all established-widespread species, are native to the Eastern Hemisphere. Conclusions. We present the first analysis of the establishment proportion for a large set of grasses introduced through a single vector to a single area. We show the impact of biogeographic origin on the establishment proportion of introduced grasses and highlight the utility of herbarium collections for studying nonnative species’ history.

Saunders, T. C., I. Larridon, W. J. Baker, R. L. Barrett, F. Forest, E. Françoso, O. Maurin, et al. 2024. Tangled webs and spider‐flowers: Phylogenomics, biogeography, and seed morphology inform the evolutionary history of Cleomaceae. American Journal of Botany 111. https://doi.org/10.1002/ajb2.16399

Premise Cleomaceae is an important model clade for studies of evolutionary processes including genome evolution, floral form diversification, and photosynthetic pathway evolution. Diversification and divergence patterns in Cleomaceae remain tangled as research has been restricted by its worldwide distribution, limited genetic sampling and species coverage, and a lack of definitive fossil calibration points.MethodsWe used target sequence capture and the Angiosperms353 probe set to perform a phylogenetic study of Cleomaceae. We estimated divergence times and biogeographic analyses to explore the origin and diversification of the family. Seed morphology across extant taxa was documented with multifocal image‐stacking techniques and morphological characters were extracted, analyzed, and compared to fossil records.ResultsWe recovered a well‐supported and resolved phylogenetic tree of Cleomaceae generic relationships that includes 236 (~86%) species. We identified 11 principal clades and confidently placed Cleomella as sister to the rest of the family. Our analyses suggested that Cleomaceae and Brassicaceae diverged ~56 mya, and Cleomaceae began to diversify ~53 mya in the Palearctic and Africa. Multiple transatlantic disjunct distributions were identified. Seeds were imaged from 218 (~80%) species in the family and compared to all known fossil species.ConclusionsOur results represent the most comprehensive phylogenetic study of Cleomaceae to date. We identified transatlantic disjunctions and proposed explanations for these patterns, most likely either long‐distance dispersals or contractions in latitudinal distributions caused by climate change over geological timescales. We found that seed morphology varied considerably but mostly mirrored generic relationships.

Marchuk, E. A., A. K. Kvitchenko, L. A. Kameneva, A. A. Yuferova, and D. E. Kislov. 2024. East Asian forest-steppe outpost in the Khanka Lowland (Russia) and its conservation. Journal of Plant Research 137: 997–1018. https://doi.org/10.1007/s10265-024-01570-z

The Khanka Lowland forest-steppe is the most eastern outpost of the Eurasian steppe biome. It includes unique grassland plant communities with rare steppe species. These coenosis have changed under the influence of anthropogenic activity, especially during the last 100 years and included both typical steppe species and nemoral mesophytic species. To distinguish these ecological groups of plants the random forest method with three datasets of environmental variables was applied. Specifically, a model of classification with the most important bioindices to predict a mesophytic ecological group of plants with a sensitivity greater than 80% was constructed. The data demonstrated the presence of steppe species that arrived at different times in the Primorye Territory. Most of these species are associated with the Mongolian-Daurian relict steppe complex and habit in the Khanka Lowland. Other species occur only in mountains in Primorye Territory and do not persist in the Khanka Lowland. These findings emphasize the presence of relict steppe communities with a complex of true steppe species in the Khanka Lowland. Steppe communities exhibit features of anthropogenic influence definitely through the long land use period but are not anthropogenic in origin. The most steppe species are located at the eastern border of distribution in the Khanka Lowlands and are valuable in terms of conservation and sources of information about steppe species origin and the emergence of the steppe biome as a whole.

Vélez, D., and F. Vivallo. 2024. Key areas for conserving and sustainably using oil-collecting bees (Apidae: Centridini, Tapinotaspidini, Tetrapediini) in the Americas. Journal of Insect Conservation. https://doi.org/10.1007/s10841-024-00620-0

The solitary oil-collecting bees of the tribes Centridini, Tapinotaspidini, and Tetrapediini inhabit areas from the southern part of the Nearctic Region through the Patagonian in southern South America, including the Caribbean. These bees are morphologically and behaviorally specialized in collecting oils as a reward from specialized floral glandular structures present in oil-producer plants. Oil-producer plants and oil-collecting bees have a mutualistic relationship in which the latter potentially pollinate the formers while collecting oils from their flowers. The main objective of this work is to infer the species richness and the key areas for conservation, research, and sustainable use of oil-collecting bees of the tribes Centridini, Tapinotaspidini, and Tetrapediini in the Americas. We collected occurrence records for 528 species of oil-collecting bees and estimated the species richness for each tribe and genus. In total, we estimated 664 species across the three mentioned tribes. With that baseline information, we created models of the richness and rarity patterns of the entire group of species and each tribe as a criterion to highlight key areas, along with richness and rarity centers for the American oil-collecting bees. We identified several critical areas that can be prioritized for conservation and research projects, including territories in Panama, Costa Rica, the Central and Northern Andes, the Amazon basin, and the biogeographic provinces of Cerrado, Atlantic Forest, Pampean, and Chacoan. Here we provide crucial information on key diversity areas for oil-collecting bees across the Americas. This information can be used for the conservation, research, and sustainable use of this important group of insect pollinators.