A5059841618- Mycorrhizal Fungi and Plant Interactions
- Environmental DNA in Biodiversity Studies
- Forest Ecology and Biodiversity Studies
- Fungal Biology and Applications
- Plant Pathogens and Fungal Diseases
- Species Distribution and Climate Change
- Microbial Community Ecology and Physiology
- Plant and animal studies
- Genomics and Phylogenetic Studies
- Ecology and Vegetation Dynamics Studies
- Lichen and fungal ecology
- Plant and Fungal Species Descriptions
- Phytochemistry and Bioactivity Studies
- Identification and Quantification in Food
- Insect and Arachnid Ecology and Behavior
- Forensic and Genetic Research
- Yeasts and Rust Fungi Studies
- Silymarin and Mushroom Poisoning
- Peatlands and Wetlands Ecology
- Molecular Biology Techniques and Applications
- Protist diversity and phylogeny
- Soil Carbon and Nitrogen Dynamics
- Plant Parasitism and Resistance
- Invertebrate Taxonomy and Ecology
- Ecology and Conservation Studies
University of Copenhagen
2016-2025
Global Biodiversity Information Facility
2021-2025
University of Tartu
2024
Natural History Museum of Denmark
2014-2023
Natural History Museum Aarhus
2002-2023
University of Gothenburg
2016
Göteborgs Stads
2016
American Museum of Natural History
2015
Filadelfia
2011
DNA metabarcoding is promising for cost-effective biodiversity monitoring, but reliable diversity estimates are difficult to achieve and validate. Here we present validate a method, called LULU, removing erroneous molecular operational taxonomic units (OTUs) from community data derived by high-throughput sequencing of amplified marker genes. LULU identifies errors combining sequence similarity co-occurrence patterns. To the use unique set high quality survey vascular plants paired with plant...
We have estimated phylogenies of fungus-growing termites and their associated mutualistic fungi the genus Termitomyces using Bayesian analyses DNA sequences. Our study shows that symbiosis has a single African origin secondary domestication other or reversal to free-living state not occurred. Host switching been frequent, especially at lower taxonomic levels, nests termite species can different symbionts. Data are consistent with horizontal transmission fungal symbionts in both ancestral...
Abstract UNITE (https://unite.ut.ee) is a web-based database and sequence management environment for molecular identification of eukaryotes. It targets the nuclear ribosomal internal transcribed spacer (ITS) region offers nearly 10 million such sequences reference. These are clustered into ∼2.4M species hypotheses (SHs), each assigned unique digital object identifier (DOI) to promote unambiguous referencing across studies. users have contributed over 600 000 third-party annotations, which...
Here, we describe the taxon hypothesis (TH) paradigm, which covers construction, identification, and communication of taxa as datasets. Defining datasets individuals their traits will make identification most importantly precise reproducible. This allow with standardized atomized to be used digitally in pipelines communicated through persistent identifiers. Such are particularly useful context formally undescribed or even physically undiscovered species if data such sequences from samples...
Biodiversity monitoring at the community scale is a critical element of assessing and studying species distributions, ecology, diversity, movements, it key to understanding tracking environmental anthropogenic effects on natural ecosystems.1Navarro L.M. Fernández N. Guerra C. Guralnick R. Kissling W.D. Londoño M.C. Muller-Karger F. Turak E. Balvanera P. Costello M.J. et al.Monitoring biodiversity change through effective global coordination.Curr. Opin. Environ. Sustain. 2017; 29:...
Different distance-based threshold selection approaches were used to assess and compare use of the internal transcribed spacer (ITS) region distinguish among 901 Cortinarius species represented by >3000 collections. Sources error associated with genetic markers explored evaluated using MOTUs from genus lineage based-alignments. Our study indicates that 1%–2% more can be distinguished full-length ITS barcode as compared either ITS1 or ITS2 regions alone. Optimal values for different picking...
Abstract Conservation and management of marine biodiversity depends on biomonitoring habitats, but current approaches are resource‐intensive require different for organisms. Environmental DNA (eDNA) extracted from water samples is an efficient versatile approach to detecting aquatic animals. In the ocean, eDNA composition reflects local fauna at fine spatial scales, little known about effectiveness eDNA‐based monitoring communities larger scales. We investigated potential characterize...
Cortinarius is a species-rich and morphologically challenging genus with cosmopolitan distribution. Many names have not been used consistently in some instances the same species has described two or more times under separate names. This study focuses on subg. Phlegmacium as traditionally defined includes from boreal temperate areas of northern hemisphere. Our goals for this project were to: i) type material to determine which already described; ii) stabilize use Friesian other older by...
Abstract Plants regulate soils and microclimate, provide substrate for heterotrophic taxa, are easy to observe identify have a stable taxonomy, which strongly justifies their use as indicators in monitoring conservation. However, there is no consensus whether plants strong predictors of total multi‐taxon species richness. In this study, we investigate if general terrestrial richness can be predicted by vascular plant bioindication. To answer question, collected an extensive dataset on...
Soils harbor a vast diversity of soil microbiota, which play crucial role in key ecosystem processes such as litter transformation and mineralization, but how complex plant-soil interactions shape the composition microbiota remains elusive. We performed amplicon sequencing DNA isolated from mineral topsoil six common European trees planted multi-site garden monoculture stands broadleaved maple ash associated with arbuscular mycorrhiza (AM), beech, lime oak ectomycorrhizal fungi (ECM)...
Woody plants host diverse communities of associated organisms, including wood-inhabiting fungi. In this group, effects on species richness and interaction network structure are not well understood, especially at large geographical scales. We investigated ecological, historical evolutionary determinants fungal modularity, that is, subcommunity structure, across woody hosts in Denmark, using a citizen science data set comprising > 80 000 records 1000 91 genera plants. Fungal was positively...
Abstract Background In light of the biodiversity crisis and our limited ability to explain variation in biodiversity, tools quantify spatial temporal its underlying drivers are critically needed. Inspired by recently published ecospace framework, we developed tested a sampling design for environmental biotic mapping. We selected 130 study sites (40 × 40 m) across Denmark using stratified random along major gradients variation. Using standardized methods, collected site species data on...
We introduce a novel fine-grained dataset and bench-mark, the Danish Fungi 2020 (DF20). The dataset, constructed from observations submitted to Atlas of Fungi, is unique in its taxonomy-accurate class labels, small number errors, highly unbalanced long-tailed distribution, rich observation metadata, well-defined hierarchy. DF20 has zero overlap with ImageNet, al-lowing unbiased comparison models fine-tuned publicly available ImageNet checkpoints. proposed evaluation protocol enables testing...
Environmental DNA (eDNA) is increasingly applied in ecological studies, including studies with the primary purpose of criminal investigation, which eDNA from soil can be used to pair samples or reveal sample provenance. We collected as part a large national biodiversity research project across 130 sites Denmark. investigated potential for metabarcoding predicting provenance terms environmental conditions, habitat type and geographic regions. linear regression gradients light, moisture, pH...
Bolivia is one of the most biologically diverse countries on planet. Between Andes and Amazon drainage basin spans Yungas, a vast forested region shown to be extremely species rich in macro-organisms. However, it remains unclear whether this high diversity also reflected microbial diversity. Here we assess genetic, taxonomic functional root-associated fungi surrounding Cinchona calisaya trees, typical element intermediate altitudes Bolivian Yungas. We determine relative effects edaphic...