A5028256286- Plant Pathogens and Fungal Diseases
- Mycorrhizal Fungi and Plant Interactions
- Environmental DNA in Biodiversity Studies
- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Viral gastroenteritis research and epidemiology
- Enzyme-mediated dye degradation
- Viral Infections and Vectors
- Fungal Biology and Applications
- Animal Virus Infections Studies
- Genetic diversity and population structure
- Turtle Biology and Conservation
- Rabies epidemiology and control
- Microbial infections and disease research
- Epigenetics and DNA Methylation
- Bacteriophages and microbial interactions
- Virus-based gene therapy research
- Genetic Syndromes and Imprinting
- Plant Pathogens and Resistance
- Respiratory viral infections research
- Chromosomal and Genetic Variations
- Amphibian and Reptile Biology
- Protist diversity and phylogeny
- Aquaculture disease management and microbiota
- Cancer-related gene regulation
Federal Institute For Materials Research and Testing
2020-2022
Leibniz Institute for Zoo and Wildlife Research
2013-2021
Berlin Center for Genomics in Biodiversity Research
2013-2021
Leibniz Institute of Freshwater Ecology and Inland Fisheries
2018-2021
Leibniz Association
2015
DNA metabarcoding is widely used to study prokaryotic and eukaryotic microbial diversity. Technological constraints limit most studies marker lengths below 600 base pairs (bp). Longer sequencing reads of several thousand bp are now possible with third-generation sequencing. Increased provide greater taxonomic resolution allow for phylogenetic methods classification, but longer may be subject higher rates error chimera formation. In addition, bioinformatics tools were designed short therefore...
Abstract The internal transcribed spacer (ITS) is used often in DNA metabarcoding of fungi. One disadvantage its high variability may be a failure to classify operational taxonomic units (OTUs) when no similar reference sequence exists. We tested whether the 5.8S region, sequenced with ITS2 but discarded before analysis, could provide OTU classifications fails. silico evaluation compare classification success and from UNITE database sequences same species, genus, or family were removed. then...
ABSTRACT The Desmodus rotundus endogenous betaretrovirus (DrERV) is fixed in the vampire bat D. population and other phyllostomid bats but not present all species from this family. DrERV phylogenetically related to Old World betaretroviruses rodents New primates, suggesting recent cross-species transmission. A integration age estimation of provirus some taxa indicates that an exogenous counterpart might have been circulation.
Aquatic fungi are a largely unexplored group of organisms with still unknown diversity ecological niches. Groundwater biomes comprise vast but poorly explored habitats. In this study, we sampled the Icelandic groundwater, unique system that has been separated and isolated into distinct basins for millions years due to volcanic activity. The aim was explore fungal its connection surface waters. We screened DNA-based 11 groundwater springs their emerging waters by ITS metabarcoding, revealing...
DNA methylation is a heritable mechanism that acts in response to environmental changes, lifestyle and diseases by influencing gene expression eukaryotes. Epigenetic studies of wild organisms are mandatory understand their role e.g. adaptational processes the great variety ecological niches. However, strategies address those questions on methylome scale widely missing. In this study we present such strategy describe whole genome sequence analysis guinea pig. We generated full Wild pig (Cavia...
The Alphacoronavirus-1 species include viruses that infect numerous mammalian species. To better understand the wide host range of these viruses, knowledge on molecular determinants virus-host cell entry mechanisms in wildlife hosts is essential. We investigated infection carnivores using long-term data Serengeti spotted hyenas (Crocuta crocuta) and analyses guided by tertiary structure viral spike (S) attachment protein's interface with receptor aminopeptidase N (APN). sequenced complete...
Abstract Reduced representation libraries (RRS) allow large scale studies on non-model species to be performed without the need for a reference genome, by building pseudo-reference locus catalog directly from data. However, using closely-related high-quality genomes can help maximize nucleotide variation identified RRS libraries. While chromosome-level remain unavailable most species, researchers still invest in and project-specific de novo catalogs. Among methods that use restriction...
Fungi are ecologically outstanding decomposers of lignocellulose. Fungal lignocellulose degradation is prominent in saprotrophic Ascomycota and Basidiomycota the subkingdom Dikarya. Despite ascomycetes dominating Dikarya inventory aquatic environments, genome transcriptome data relating to enzymes involved decay remain limited terrestrial representatives these phyla. We sequenced an exclusively ascomycete (the hyphomycete Clavariopsis aquatica), documented presence genes for modification its...
ABSTRACT DNA metabarcoding is now widely used to study prokaryotic and eukaryotic microbial diversity. Technological constraints have limited most studies marker lengths of ca. 300-600 bp. Longer sequencing reads several 5 thousand bp are possible with third-generation sequencing. The increased provide greater taxonomic resolution enable the use phylogenetic methods classifcation, but longer may be subject higher rates error chimera formation. In addition, well-established bioinformatics...
Plants and microorganisms, besides the climate, drive nitrogen (N) cycling in ecosystems. Our objective was to investigate N losses acquisition strategies along a unique ecosystem-sequence (ecosequence) ranging from arid shrubland through Mediterranean woodland temperate rainforest. These ecosystems differ mean annual precipitation, temperate, vegetation cover, but developed on similar granitoid soil parent material, were addressed using combination of molecular biology biogeochemical tools....
Summary The internal transcribed spacer (ITS) is used in DNA metabarcoding of fungi. One disadvantage its high variability may be a failure to classify OTUs when no similar reference sequence exists. We tested whether the 5.8S region, often sequenced with ITS2 but discarded before analysis, could provide OUT classifications ITS fails. silico evaluation compare classification success and from UNITE database sequences same species, genus, or family were removed. then developed an automated...
Abstract Fungi are ecologically important decomposers of lignocellulose. Basidiomycetes use peroxidases, laccases, and enzymes the cytochrome P450 superfamily for cometabolic lignin degradation in order to access cellulose hemicellulose as carbon sources. Limited modification capabilities have also been reported some terrestrial ascomycetes. Here we newly sequenced genome an exclusively aquatic ascomycete, Clavariopsis aquatica , documented presence genes lignocellulose its constituents,...