A5020898974- Microbial Community Ecology and Physiology
- Gut microbiota and health
- Environmental DNA in Biodiversity Studies
- Genomics and Phylogenetic Studies
- Soil Carbon and Nitrogen Dynamics
- Methane Hydrates and Related Phenomena
- Protist diversity and phylogeny
- Environmental Impact and Sustainability
- Environmental Toxicology and Ecotoxicology
- Marine and coastal ecosystems
- Agricultural Innovations and Practices
- Soil and Water Nutrient Dynamics
- Marine Bivalve and Aquaculture Studies
- Species Distribution and Climate Change
- Plant and animal studies
- Phosphorus and nutrient management
- Microplastics and Plastic Pollution
- Parasite Biology and Host Interactions
- Plant tissue culture and regeneration
- Insect and Arachnid Ecology and Behavior
- Bacteriophages and microbial interactions
- Molecular Biology Techniques and Applications
- Recycling and Waste Management Techniques
- Agroforestry and silvopastoral systems
Friedrich Schiller University Jena
2021-2024
Auckland University of Technology
2022-2024
Institute of Environmental Science and Research
2024
Institute for Biodiversity
2024
University of Auckland
2016-2022
ABSTRACT Bacterial communities are important for the health and productivity of soil ecosystems have great potential as novel indicators environmental perturbations. To assess how they affected by anthropogenic activity to determine their ability provide alternative metrics health, we sought define which variables bacteria respond across multiple types land uses. We determined, through 16S rRNA gene amplicon sequencing, composition bacterial in samples from 110 natural or human-impacted...
Abstract Background Soil ecosystems consist of complex interactions between biological communities and physico-chemical variables, all which contribute to the overall quality soils. Despite this, changes in bacterial are ignored by most soil monitoring programs, crucial ensure sustainability land management practices. We applied 16S rRNA gene sequencing determine community composition over 3000 samples from 606 sites New Zealand. Sites were classified as indigenous forests, exotic forest...
Advances in the sequencing of DNA extracted from media such as soil and water offer huge opportunities for biodiversity monitoring assessment, particularly where collection or identification whole organisms is impractical.However, there are myriad methods extraction, storage, amplification environmental samples.To help overcome potential biases that may impede effective comparison data collected by different researchers, we propose a standardised set procedures use on taxa sample media,...
Using environmental DNA (eDNA) to assess the distribution of micro- and macroorganisms is becoming increasingly popular. However, comparability reliability these studies not well understood as we lack evidence on how different extraction methods affect detection organisms, this varies among sample types. Our aim was quantify biases associated with six identify one which optimal for eDNA research targeting multiple organisms We assessed each methods' ability simultaneously extract bacterial,...
Time series analyses are a crucial tool for uncovering the patterns and processes shaping microbial communities their functions, especially in aquatic ecosystems. Subsurface environments perceived to be more stable than surface oceans lakes, due lack of sunlight, absence photosysnthetically-driven primary production, low temperature variations, oligotrophic conditions. However, periodic groundwater recharge should affect structure succession microbiomes. To disentangle long-term temporal...
Microbial biodiversity monitoring through the analysis of DNA extracted from environmental samples is increasingly popular because it perceived as being rapid, cost-effective, and flexible concerning sample types studied. can be diverse media before high-throughput sequencing prokaryotic 16S rRNA gene used to characterize taxonomic diversity composition (known metabarcoding). While sources bias in metabarcoding methodologies are widely acknowledged, previous studies have focused mainly on...
Bacterial communities are critical to ecosystem functioning and sensitive their surrounding physiochemical environment. However, the impact of land use change on microbial remains understudied. We used 16S rRNA gene amplicon sequencing shotgun metagenomics assess soil communities' taxonomic functional responses change. compared data from long-term grassland, exotic forest horticulture reference sites that transitioned (i) Grassland or (ii) Exotic grassland.Community profiles transitional...
Summary Terrestrial and aquatic environments are linked through hydrological networks that transport abiotic components from upslope into ecosystems. However, our understanding of how bacteria transported these same is limited. Here, we applied 16S rRNA gene sequencing to over 500 soil, stream water sediment samples collected within a native forest catchment determine the extent which bacterial communities in habitats connected. We provide evidence while each habitat were significantly...
Highlights•Soil condition and distance structure microbial communities more than vegetation type•Fungal may be dispersal limited bacterial communities•Monocultural tree stands have a role in reducing certain energy metabolism pathwaysSummaryReplanting is an important tool for ecological recovery. Management strategies, such as planting areas with monocultures or species mixtures, implications restoration success. We used 16S ITS rRNA gene amplicon sequencing shotgun metagenomics to assess...
Abstract The candidate phyla radiation (CPR) represents a distinct monophyletic clade and constitutes major portion of the tree life. Extensive efforts have focused on deciphering functional diversity its members, primarily using sequencing-based techniques. However, cultivation success remains scarce, presenting significant challenge, particularly in CPR-dominated groundwater microbiomes characterized by low biomass. Here, we employ an advanced high-throughput droplet microfluidics...
ABSTRACT Bacterial communities are crucial to soil ecosystems and known be sensitive environmental changes. However, our understanding of how present-day bacterial remain impacted by historic land uses is limited; implications for their functional potential especially understudied. Through 16S rRNA gene amplicon shotgun metagenomic sequencing, we characterized the structure after use conversion. Sites converted from pine plantations dairy pasture were sampled five- eight-years post The...
Arthropods have long been appreciated as useful and important ecological indicators of beneficial or detrimental changes occurring in their environment, especially those driven by anthropogenic activity. However, morphological identification, key groups such soil arthropods, is laborious requires high-level expertise, limiting the spatiotemporal scales monitoring. Molecular methods based on environmental DNA (eDNA) sampling potential for scaling up arthropod biodiversity monitoring, due to...
Soil bacterial communities have long been recognized as important ecosystem components, and the focus of many local regional studies. However, there is a lack data at large spatial scales, on biodiversity soil microorganisms; national or more extensive studies to date typically consisted low replication haphazardly collected samples. This has led gaps in microbial data. Using pre-existing dataset community composition across 16-km regular sampling grid France, we show that number detected...
Investigating temporal variation in soil bacterial communities advances our fundamental understanding of the causal processes driving biological variation, and how composition these important ecosystem members may change into future. Despite this, bacteria remains understudied, effects spatial heterogeneity on detection changes is largely unknown. Using 16S rRNA gene amplicon sequencing, we evaluated patterns from indigenous forest human-impacted sites sampled repeatedly over a 5-year...
Abstract Background Stream ecosystems comprise complex interactions among biological communities and their physicochemical surroundings, contributing to overall ecological health. Despite this, many monitoring programs ignore changes in the bacterial that are base of food webs streams, often focusing on stream assessments or macroinvertebrate community diversity instead. We used 16S rRNA gene sequencing assess compositions within 600 New Zealand biofilm samples from 204 sites a 6-week period...
Ants represent a highly diverse and ecologically important group of insects found in almost all terrestrial ecosystems. A subset ant species have been widely transported around the globe invade many natural ecosystems, often out-competing native counterparts causing varying impacts on recipient Decisions to control non-native populations require an understanding their interactions related communities. We employed stable isotope analysis metabarcoding techniques identify potential dietary...
Abstract Time series analyses are a crucial tool for uncovering the patterns and processes shaping microbial communities their functions, especially in aquatic ecosystems. Subsurface environments perceived to be more stable than oceans lakes, due lack of sunlight, absence photosysnthetically-driven primary production, low temperature variations, oligotrophic conditions. However, periodic groundwater recharge should affect structure succession microbiomes. To disentangle long-term temporal...
Climate change will have far-reaching negative impacts on all aspects of Earth’s state and functions, including ongoing biodiversity decline threats to agricultural production. These effects be dependent geographic location; for example, parts New Zealand are predicted increased flooding, drought wildfires, depending the local environmental context. Effects climate production both direct, such as crop losses due indirect, invasive pest insect weed pressure horticultural or in water capture...
Soil bacterial communities have long been recognized as important ecosystem components, and the focus of many local regional studies. However, there is a lack data at large spatial scales, on biodiversity soil microorganisms; national or more extensive studies to date typically consisted low replication haphazardly collected samples. This has led gaps in microbial data. Using pre-existing dataset community composition across 16-km regular sampling grid France, we show that number detected...