A5009964865- Environmental DNA in Biodiversity Studies
- Microbial Community Ecology and Physiology
- Protist diversity and phylogeny
- Genomics and Phylogenetic Studies
- Research Data Management Practices
- Peatlands and Wetlands Ecology
- Forest Ecology and Biodiversity Studies
- Gut microbiota and health
- Antibiotic Resistance in Bacteria
- Diabetes Treatment and Management
- Bacterial biofilms and quorum sensing
- Microbial Natural Products and Biosynthesis
- Radiomics and Machine Learning in Medical Imaging
- Clostridium difficile and Clostridium perfringens research
- Genetic and phenotypic traits in livestock
- Medical Imaging Techniques and Applications
- AI in cancer detection
- Digital Imaging for Blood Diseases
- Isotope Analysis in Ecology
- Forensic and Genetic Research
- Plant Pathogenic Bacteria Studies
- Microbial Metabolic Engineering and Bioproduction
Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. - Hans-Knöll-Institut (HKI)
2022-2024
University of Edinburgh
2020-2023
University of Konstanz
2020-2022
The use of lake sedimentary DNA to track the long-term changes in both terrestrial and aquatic biota is a rapidly advancing field paleoecological research. Although largely applied nowadays, knowledge gaps remain this there therefore still research be conducted ensure reliability signal. Building on most recent literature seven original case studies, we synthesize state-of-the-art analytical procedures for effective sampling, extraction, amplification, quantification and/or generation...
Major advances over the past decade in field of ancient DNA are providing access to paleogenomic diversity, but diverse functions and biosynthetic capabilities this growing paleome remain largely elusive. We investigated dental calculus 12 Neanderthals 52 anatomically modern humans ranging from 100,000 years ago present reconstructed 459 bacterial metagenome-assembled genomes. identified a gene cluster shared by seven Middle Upper Paleolithic individuals that allows for heterologous...
Abstract Analyses of sedimentary DNA ( sed DNA) have increased exponentially over the last decade and hold great potential to study effects anthropogenic stressors on lake biota time. Herein, we synthesise literature that has applied a approach track historical changes in biodiversity response impacts, with an emphasis past c. 200 years. We identified following research themes are particular relevance: (1) eutrophication climate change as key drivers limnetic communities; (2) increasing...
Abstract During the 20th century, many lakes in Northern Hemisphere were affected by increasing human population and urbanization along their shorelines catchment, resulting aquatic eutrophication. Ecosystem monitoring commenced only after changes became apparent, precluding any examination of timing dynamics initial community change past comparison pre‐ postimpact communities. Peri‐Alpine Lake Constance (Germany) underwent a mid‐century period eutrophication followed re‐oligotrophication...
<ns3:p>Background Access to sample-level metadata is important when selecting public metagenomic sequencing datasets for reuse in new biological analyses. The Standards, Precautions, and Advances Ancient Metagenomics community (SPAAM, https://spaam-community.org) has previously published AncientMetagenomeDir, a collection of curated standardised sample tables microbial genome generated from ancient samples. However, while information useful identifying relevant samples inclusion projects,...
The rhizosphere is a highly competitive environment forcing bacteria to evolve strategies oppose their enemies. production of toxic secondary metabolites allows counteract predators. In this study, we describe the anti-predator armamentarium soil-derived bacterium
ABSTRACT Next-generation sequencing (NGS) and metabarcoding approaches are increasingly applied to wild animal populations, but there is a disconnect between the widely generalized linear mixed model (GLMM) commonly used study phenotypic variation statistical toolkit from community ecology typically data. Here, we describe suitability of novel GLMM-based approach for analyzing taxon-specific sequence read counts derived standard This allows decomposition contribution different drivers in...
Abstract Many European lake ecosystems, including their respective catchment areas, underwent anthropogenic environmental changes over the last centuries. This has resulted in aquatic and terrestrial vegetation, but historical records on composition of past vegetation centennial scale are scarce. In this study, we examined plant communities around Lower Lake Constance using metabarcoding sedimentary DNA (sedDNA) three cores from different sub‐basins covering past, up to 300 years. We...
Abstract Next-generation sequencing (NGS) and meta-barcoding approaches have revolutionized understanding of within-host communities, such as the gut microbiome, in humans laboratory animals. The application wild animal populations is growing, but there a disconnect between widely-applied generalised linear mixed model (GLMM) commonly used to study phenotypic variation statistical toolkit from community ecology which typically applied data. Here, we describe illustrate novel GLMM-based...
<ns4:p><ns4:bold>Background</ns4:bold>: Access to sample-level metadata is important when selecting public metagenomic sequencing datasets for reuse in new biological analyses. The Standards, Precautions, and Advances Ancient Metagenomics community (SPAAM, https://spaam-community.github.io) has previously published AncientMetagenomeDir, a collection of curated standardised sample tables microbial genome generated from ancient samples. However, while information useful identifying relevant...
Abstract Characterizing biological communities and knowledge on the distribution of biodiversity allows assessment ecological quality. This provides valuable information for conservation biology monitoring purposes. While obtaining such data has been challenging in past, environmental DNA (eDNA) sampling represents a promising tool to describe broad taxonomic scale. In this study, we provide first broad‐scale ten Neotropical water bodies Nicaragua (a major river, two great lakes, seven...
&lt;p&gt;Sedimentary ancient DNA has by now become a recognized source of information on past biodiversity change, but our understanding its dynamics and taphonomy is still limited. While for environmental in water, dedicated investigations provenance degradation are being increasingly carried out, we know very little about sedimentary DNA, particular with respect to aquatic organisms. We therefore conducting the distribution surface sediments short sediment core, focus communities...
&lt;p&gt;Algae and macrophytes are two of the main primary producers that interact with higher trophic levels by providing food habitat.&amp;#160; Their distribution thereby affect physical chemical characteristics ecosystem hence act as its bioindicators. The use multiple molecular markers to capture DNA signals in sediments allow for reconstruction their historical communities. We here metabarcoding different primers illustrate history interactions between diatoms, microbial...