A5080075437- Environmental DNA in Biodiversity Studies
- Microbial Community Ecology and Physiology
- Identification and Quantification in Food
- Genetic diversity and population structure
- Invertebrate Taxonomy and Ecology
- Research, Science, and Academia
- Protist diversity and phylogeny
- Marine Biology and Ecology Research
- Genomics and Phylogenetic Studies
- Species Distribution and Climate Change
- Fish Ecology and Management Studies
- Research Data Management Practices
- Mollusks and Parasites Studies
- Fish Biology and Ecology Studies
- Science, Research, and Medicine
- Coastal wetland ecosystem dynamics
- Parasite Biology and Host Interactions
University of California, Davis
2018-2024
San Francisco State University
2022
Genomic data are being produced and archived at a prodigious rate, current studies could become historical baselines for future global genetic diversity analyses monitoring programs. However, when we evaluated the potential utility of genomic from wild domesticated eukaryote species in world's largest repository, found that most datasets (86%) lacked spatiotemporal metadata necessary biodiversity surveillance. Labor-intensive scouring subset published papers yielded geospatial coordinates...
Abstract Environmental DNA (eDNA) detection methods can complement traditional biomonitoring to yield new ecological insights in aquatic systems. However, the conceptual and methodological frameworks for eDNA interpretation were developed primarily freshwater environments have not been well established estuaries marine that are by nature dynamic, turbid, hydrologically complex. context species life history critical successful application of methods, challenges associated with subject a...
Abstract Genetic diversity within species represents a fundamental yet underappreciated level of biodiversity. Because genetic can indicate resilience to changing climate, its measurement is relevant many national and global conservation policy targets. Many studies produce large amounts genome‐scale data for wild populations, but most (87%) do not include the associated spatial temporal metadata necessary them be reused in monitoring programs or acknowledging sovereignty nations Indigenous...
Detection sensitivity of aquatic species using environmental DNA (eDNA) generally decreases in turbid water but is poorly characterized. In this study, eDNA detection targeted delta smelt ( Hypomesus transpacificus ), a critically endangered estuarine fish associated with water. sampling the field was first paired trawl survey. Species-specific Taqman qPCR assay showed concordance between methods, weak signal. Informed by results sampling, an experiment designed to assess how turbidity and...
We studied abundance and dynamics of zooplankton in the tidal freshwater Cache Slough Complex (CSC) northern Delta San Francisco Estuary during June, July, October 2015. asked whether CSC was an area high production that could act as a source region for open waters estuary. Abundance copepod Pseudodiaptomus forbesi similar to reaches central eastern higher than adjacent Sacramento River. Growth rate P. previously measured large estuarine channels because temperature phytoplankton biomass...
Abstract Plankton trophic interactions play a crucial role in ecosystem processes. Diet analysis using high-throughput sequencing methods such as metabarcoding can provide new insight where traditional have been limited. We used 16S ribosomal RNA gene to identify phytoplankton from the guts of copepod Pseudodiaptomus forbesi and seston Cache Slough Complex, tidal freshwater reach San Francisco Estuary, California, USA. Cyanobacteria, assumed low nutritional value for copepods, were detected...
Abstract Environmental DNA (eDNA) approaches enable sensitive detection of rare aquatic species. However, water conditions like turbidity can limit sensitivity, resulting in false negative detections. The dynamics eDNA turbid are poorly understood, but be better characterized through experimental work. In this study, 1-L field-collected samples were spiked with tank-sourced from a rare, endangered estuarine fish at concentrations similar to collected the natural environment. Samples using...
Abstract Genetic diversity within species represents a fundamental yet underappreciated level of biodiversity. Because genetic can indicate and population resilience to changing climate, its measurement is relevant many national global conservation policy targets. Many studies evolutionary biology, molecular ecology genetics produce large amounts genome-scale data for wild populations. While open policies have ensured an abundance freely available genomic stored in the databases...