Elisabeth Machteld Biersma

How climate change impacts pathogens in the natural environment is a critical ecological question. Yet, little is known of how rapid ongoing climate change in Antarctica and Patagonia will influence the fungal pathogens in the barren soils typical of these regions. Here, using DNA metabarcoding and LASSO regression, we identify climatic factors—and notably mean annual air temperature—as the best predictors for the taxonomic richness and relative abundance of fungal pathogens of plants and animals in barren soils sampled from along a 1900‐km transect through sub‐ and Maritime Antarctica and Patagonia. Projected changes to climate under three shared socioeconomic pathway scenarios (SSP1‐2.6, SSP3‐7.0, and SSP5‐8.5) were used to predict how soilborne pathogenic fungal communities will alter by 2071–2100. The SSP3‐7.0 and SSP5‐8.5 scenarios were projected to cause approximate doublings to the richness and abundance of phytopathogenic fungi in southern Maritime Antarctic soils. Weaker effects of these two scenarios were found on phytopathogens elsewhere on the transect and on animal pathogenic fungi. Changes to climate under the SSP1‐2.6 scenario had negligible impacts on both guilds. Edaphic factors explained lower amounts of variance in soil pathogenic fungal diversity and relative abundance than climatic factors. Our findings indicate higher frequencies of fungi causing grey molds, stem necroses, blights, scabs and leaf spots in warmer soils. They foreshadow end‐of‐century increases in the richness and abundance of phytopathogenic fungi inhabiting the barren soils of southern Maritime Antarctica, posing a threat to the region's flora as it colonizes these soils.

Soil eukaryotes, including fungi, protists, plants, and animals, are central to biosphere functioning and resilience. The Global Standardised Soil Eukaryome Dataset (GloSED) is the first dataset encompassing the entire spectrum of soil eukaryotes, covering 4,063 sampling sites in 121 countries on all continents, revealing nearly one million operational taxonomic units. All samples were collected and analysed using a standardised protocol minimizing technical biases. Long-read sequencing of full-length ITS and 18S-V9 regions provide broad taxonomic coverage and high-resolution identification supported by specialist curation of “dark taxa”. A rigorous bioinformatic processing ensures against homopolymer errors, PCR-mediated chimeras, and index switching providing high data quality. The dataset is supported by raw sequences and an open-source containerised workflow for reproducible analyses. The samples are accompanied by land-cover description and directly measured soil pH, δ ¹³ C, δ ¹⁵ N, as well as P, K, Ca, Mg, and total C and N contents. GloSED is the first database that enables ecological and biogeographic studies of entire soil eukaryotic communities from local to global scales.

Societal Impact Statement: Herbaria worldwide hold centuries of plant data that are key to understanding and protecting biodiversity; however, even with increased digital access, differences in plant naming systems make it difficult to compare records. We developed a semi‐automated workflow that standardises species names and organises herbaria records from multiple institutions into a single, curated digital collection. Applying our workflow to the digitised flora of Greenland, we improved the accuracy of diversity estimates and highlighted tentative species previously unrecognised in Greenland. Our resulting open‐access resource opens new doors for large‐scale studies on Arctic plant diversity over space and time. Summary: International efforts in digitisation and online data sharing of herbarium specimens are revolutionising our ability to obtain big data from herbarium collections. The herbaria of the future will be global, digitally interlinked, open‐access resources that will stimulate large‐scale and novel science to directly address our current biodiversity and climate crises. However, taxonomic changes and errors can result in inconsistencies when amalgamating specimen metadata, that compromise the assignment of occurrence records to correct species and the subsequent interpretation of patterns in biodiversity. We present a novel workflow to mass‐curate digital specimens. By employing existing digital taxonomic backbones, we aggregate specimen names by their accepted name and flag remaining cases for manual review. We then validate names using site‐specific floras, balancing automation with taxonomic expert‐based curation. Applying our workflow to the vascular plants of Greenland, we harmonised 177,138 digitised herbarium specimens and observations from 88 data providers from the Global Biodiversity Information Facility (GBIF). The harmonised metacollection of the Greenland flora contains 753 plant species. Our workflow increases the number of species known from Greenland compared to other currently available species checklists and increases the mean number of occurrences per accepted name by 48. Our workflow illustrates the nomenclature data integration required to create a global, universally accessible digital herbarium and shows how previous obstacles to database curation can be overcome through a combination of automation and expert curation. For the Greenland flora, our approach provides a new species list and a curated metacollection of occurrence data.

Antarctica harbors many distinctive features of life, yet much about the diversity and functioning of Antarctica’s life remains unknown. Evolutionary histories and functional ecology are well understood only for vertebrates, whereas research on invertebrates is largely limited to species descriptions and some studies on environmental tolerances. Knowledge on Antarctic vegetation cover showcases the challenges of characterizing population trends for most groups. Recent community-level microbial studies have provided insights into the functioning of life at its limits. Overall, biotic interactions remain largely unknown across all groups, restricted to basic information on trophic level placement. Insufficient knowledge of many groups limits the understanding of ecological processes on the continent. Remedies for the current situation rely on identifying the caveats of each ecological discipline and finding targeted solutions. Such precise delimitation of knowledge gaps will enable a more aware, representative, and strategic systematic conservation planning of Antarctica.

Summary: International efforts to digitise herbarium specimens provide the building blocks for a global digital herbarium. However, taxonomic changes and errors can result in inconsistencies when amalgamating specimen metadata, that compromise the assignment of occurrence records to correct taxa, and the subsequent interpretation of patterns in biodiversity. We present a novel workflow to mass-curate digital specimens. By employing existing digital taxonomic backbones, we aggregate specimen names by their accepted name and flag remaining cases for manual review. We then validate names using site-specific floras, balancing automation with taxonomic expert-based curation. Applying our workflow to the vascular plants of Greenland, we harmonised 175,266 digitised herbarium specimens and observations from 92 data providers from the Global Biodiversity Information Facility (GBIF). The harmonised metacollection for the Greenland flora contains 780 plant species. Our workflow increases the number of species known from Greenland compared to other currently available species checklists and increases the mean number of occurrences per species by 42.6. Our workflow illustrates the integration required in order to create a global, universally accessible digital herbarium, and shows how previous obstacles to database curation can be overcome through a combination of automation and expert curation. From the specific perspective of the Greenland flora, our approach arrives at a new checklist of taxa, a new curated metacollection of occurrence data, and revised estimates of plant richness. The list of taxa and their prevalence allow a new basis for biodiversity assessment and conservation planning. Societal Impact Statement: Digitising plant collections has allowed for data to be aggregated across multiple collections, forming a single harmonised resource of unprecedented scale. This resource is only accurate once the database names are assigned to one accepted name per species. We established a semi-automated workflow for processing plant name data, leveraging taxonomic backbones and employing taxonomic expertise at key stages. Applying our workflow to the flora of Greenland, we developed a curated checklist of 780 species, capturing greater species richness than previously published, while also curating 175,266 plant records. Our findings redefine our knowledge of Greenlandic plant diversity, while harmonising a vast digital collection for further research.

Incomplete species inventories for Antarctica represent a key challenge for comprehensive ecological research and conservation in the region. Additionally, data required to understand population dynamics, rates of evolution, spatial ranges, functional traits, physiological tolerances and species interactions, all of which are fundamental to disentangle the different functional elements of Antarctic biodiversity, are mostly missing. However, much of the fauna, flora and microbiota in the emerged ice-free land of the continent have an uncertain presence and/or unresolved status, with entire biodiversity compendia of prokaryotic groups (e.g. bacteria) being missing. All the available biodiversity information requires consolidation, cross-validation, re-assessment and steady systematic inclusion in order to create a robust catalogue of biodiversity for the continent. We compiled, completed and revised eukaryotic species inventories present in terrestrial and freshwater ecosystems in Antarctica in a new living database: terrANTALife (version 1.0). The database includes the first integration in a compendium for many groups of eukaryotic microorganisms. We also introduce a first catalogue of amplicon sequence variants (ASVs) of prokaryotic biodiversity. Available compendia and literature to date were searched for Antarctic terrestrial and freshwater species, integrated, taxonomically harmonised and curated by experts to create comprehensive checklists of Antarctic organisms. The final inventories comprises 470 animal species (including vertebrates, free-living invertebrates and parasites), 306 plants (including all Viridiplantae: embryophytes and green algae), 997 fungal species and 434 protists (sensu lato). We also provide a first account for many groups of microorganisms, including non-lichenised fungi and multiple groups of eukaryotic unicellular species (Stramenophila, Alveolata and Rhizaria (SAR), Chromists and Amoeba), jointly referred to as "protists". In addition, we identify 1753 bacterial (obtained from 348117 ASVs) and 34 archaeal genera (from 1848 ASVs), as well as, at least, 14 virus families. We formulate a basic tree of life in Antarctica with the main lineages listed in the region and their “known-accepted-species” numbers.

How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on local fungal species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). We integrate fungi into the principles of global biodiversity distribution and present detailed maps for biodiversity conservation and modeling of global ecological processes.

Antarctic terrestrial biodiversity faces multiple threats, from invasive species to climate change. Yet no large-scale assessments of threat management strategies exist. Applying a structured participatory approach, we demonstrate that existing conservation efforts are insufficient in a changing world, estimating that 65% (at best 37%, at worst 97%) of native terrestrial taxa and land-associated seabirds are likely to decline by 2100 under current trajectories. Emperor penguins are identified as the most vulnerable taxon, followed by other seabirds and dry soil nematodes. We find that implementing 10 key threat management strategies in parallel, at an estimated present-day equivalent annual cost of US$23 million, could benefit up to 84% of Antarctic taxa. Climate change is identified as the most pervasive threat to Antarctic biodiversity and influencing global policy to effectively limit climate change is the most beneficial conservation strategy. However, minimising impacts of human activities and improved planning and management of new infrastructure projects are cost-effective and will help to minimise regional threats. Simultaneous global and regional efforts are critical to secure Antarctic biodiversity for future generations.

The influence of climate change on microbial communities inhabiting the sparsely vegetated patterned ground soils that are widespread across the High Arctic is poorly understood. Here, in a four-year experiment on Svalbard, we warmed patterned ground soil with open top chambers and biannually irrigated the soil to predict the responses of its microbial community to rising temperatures and precipitation. A 1 °C rise in summertime soil temperature caused 44% and 78% increases in CO₂ efflux and CH₄ consumption, respectively, and a 32% increase in the frequency of bacterial 16S ribosomal RNA genes. Bacterial alpha diversity was unaffected by the treatments, but, of the 40 most frequent bacterial taxa, warming caused 44–45% reductions in the relative abundances of a Sphingomonas sp. and Ferruginibacter sp. and 33–91% increases in those of a Phenylobacterium sp. and a member of the Acetobacteraceae. Warming did not influence the frequency of fungal internal transcribed spacer 2 copies, and irrigation had no effects on the measured variables. Our study suggests rapid changes to the activities and abundances of microbes, and particularly bacteria, in High Arctic patterned ground soils as they warm. At current rates of soil warming on Svalbard (0.8 °C per decade), we anticipate that similar effects to those reported here will manifest themselves in the natural environment by approximately the mid 2030s.