A5068878720- Environmental DNA in Biodiversity Studies
- Microbial Community Ecology and Physiology
- Identification and Quantification in Food
- Protist diversity and phylogeny
- Ocean Acidification Effects and Responses
- International Maritime Law Issues
- Marine and coastal plant biology
- Coastal and Marine Management
- Species Distribution and Climate Change
- X-ray Diffraction in Crystallography
- Genomics and Phylogenetic Studies
- Coral and Marine Ecosystems Studies
- Crystallization and Solubility Studies
- Marine and fisheries research
- Isotope Analysis in Ecology
- Marine and coastal ecosystems
- Fish Ecology and Management Studies
- Land Use and Ecosystem Services
- Marine Biology and Ecology Research
- Marine Ecology and Invasive Species
- Marine Bivalve and Aquaculture Studies
- Climate Change Communication and Perception
- Genetic and phenotypic traits in livestock
- Bayesian Methods and Mixture Models
- Ecosystem dynamics and resilience
University of Washington
2015-2024
University of Vermont
2024
Space Solutions (South Korea)
2024
NOAA Pacific Marine Environmental Laboratory
2022-2023
Monterey Bay Aquarium Research Institute
2017
Tufts University
2017
Stanford University
2008-2016
University of Oxford
2015
Harvard University
2015
Boston Children's Hospital
2015
The ocean is a soup of its resident species' genetic material, cast off in the forms metabolic waste, shed skin cells, or damaged tissue. Sampling this environmental DNA (eDNA) potentially powerful means assessing whole biological communities, significant advance over manual methods sampling that have historically dominated marine ecology and related fields. Here, we estimate vertebrate fauna 4.5-million-liter mesocosm aquarium tank at Monterey Bay Aquarium known species composition by...
Abstract Preserving biodiversity is a global challenge requiring data on species’ distribution and abundance over large geographic temporal scales. However, traditional methods to survey mobile in marine environments are often inefficient, environmentally destructive, or resource‐intensive. Metabarcoding of environmental DNA ( eDNA ) offers new means assess much larger scales, but adoption this approach for surveying whole animal communities large, dynamic aquatic systems has been slowed by...
Comparing many species' population genetic patterns across the same seascape can identify species with different levels of structure, and suggest hypotheses about processes that cause such variation for in ecosystem. This comparative approach helps focus on geographic barriers selective or demographic define connectivity an ecosystem scale, understanding which is particularly important large-scale management efforts. Moreover, a multispecies dataset has great statistical advantages over...
Genetic monitoring can help public agencies implement environmental laws
Abstract As environmental DNA (eDNA) studies have grown in popularity for use ecological applications, it has become clear that their results differ significant ways from those of traditional, non-PCR-based surveys. In general, eDNA rely on amplicon sequencing may detect hundreds species present a sampled environment, but the resulting composition can be idiosyncratic, reflecting species’ true biomass abundances poorly or not at all. Here, we set simulations to develop mechanistic...
Abstract Environmental DNA (eDNA) analysis allows the simultaneous examination of organisms across multiple trophic levels and domains life, providing critical information about complex biotic interactions related to ecosystem change. Here we used multilocus amplicon sequencing eDNA survey biodiversity from an eighteen-month (2015–2016) time-series seawater samples Monterey Bay, California. The resulting dataset encompasses 663 taxonomic groups (at Family or higher rank) ranging...
Abstract As climatic changes and human uses intensify, resource managers other decision makers are taking actions to either avoid or respond ecosystem tipping points, dramatic shifts in structure function that often costly hard reverse. Evidence indicates explicitly addressing points leads improved management outcomes. Drawing on theory examples from marine systems, we distill a set of seven principles guide effective ecosystems with derived the best available science. These based...
Amplicon-sequence data from environmental DNA (eDNA) and microbiome studies provide important information for ecology, conservation, management, health. At present, amplicon-sequencing studies-known also as metabarcoding studies, in which the primary consist of targeted, amplified fragments sequenced many taxa a mixture-struggle to link genetic observations underlying biology quantitative way, but applications require about or systems under scrutiny. As proliferate it becomes more develop...
In the face of increasing threats to biodiversity, advancement methods for surveying biological communities is a major priority ecologists. Recent advances in molecular technologies have made it possible detect and sequence DNA from environmental samples (environmental or eDNA); however, eDNA techniques not yet seen widespread adoption as routine method surveillance primarily due gaps our understanding dynamics space time. order identify effective spatial scale this approach dynamic marine...
Massively parallel sequencing is rapidly emerging as an efficient way to quantify biodiversity at all levels, from genetic variation and expression ecological community assemblage. However, the number of reads produced per run far exceeds required sample for many applications, compelling researchers sequence multiple samples in order maximize efficiency. For studies that include a PCR step, this can be accomplished using primers index allowing origin determined after sequencing. The use...
Given the rapid rise of environmental DNA (eDNA) surveys in ecology and science, it is important to be able compare results these traditional methods measuring biodiversity. Here we samples from a method (a manual tow-net) companion eDNA sequenced at three different genetic loci. We find only partial taxonomic overlap among resulting datasets, with each reflecting portion larger suite taxa present sampled nearshore marine environment. In context sequencing surveys, our suggest that primer...
Even as global and national efforts struggle to mitigate CO 2 emissions, local state governments have policy tools address “hot spots” of ocean acidification.
We can recover genetic information from organisms of all kinds using environmental sampling. In recent years, sequencing this DNA (eDNA) has become a tractable means surveying many species water, air, or soil samples. The technique is beginning to core tool for ecologists, scientists, and biologists kinds, but the temporal resolution eDNA sampling often unclear, limiting ecological interpretations resulting datasets. Here, in temporally spatially replicated field study ca. 313 bp eukaryotic...
Predators are critical components of ecosystems. Globally, conservation efforts have targeted depleted populations top predators for legal protection, and in many cases, this protection has helped their recoveries. Where the recovery individual species is goal, these can be seen as largely successful. From an ecosystem perspective, however, predator introduce significant new challenges. We highlight three types conflicts created by a single-species focus: (1) recovering that increase...
Three decades of study have revealed dozens examples in which natural systems crossed biophysical thresholds (‘tipping points’)—nonlinear changes ecosystem structure and function—as a result human-induced stressors, dramatically altering function services. Environmental management that avoids such could prevent severe social, economic environmental impacts. Here, we review measures implemented ecological thresholds. Using Ostrom's social–ecological framework, analysed key institutional...
Despite decades of work in environmental science and ecology, estimating human influences on ecosystems remains challenging. This is partly due to complex chains causation among ecosystem elements, exacerbated by the difficulty collecting biological data at sufficient spatial, temporal, taxonomic scales. Here, we demonstrate utility DNA (eDNA) for quantifying associations between land use changes an adjacent ecosystem. We analyze metazoan eDNA sequences from water sampled nearshore marine...
All species inevitably leave genetic traces in their environments, and the resulting environmental DNA (eDNA) reflects present a given habitat. It remains unclear whether eDNA signals can provide quantitative metrics of abundance on which human livelihoods or conservation successes depend. Here, we report results large ocean survey (spanning 86 000 km 2 to depths 500 m) understand distribution Pacific hake ( Merluccius productus ), target largest finfish fishery along west coast USA. We...
Abstract Calls to address social equity in ocean governance are expanding. Yet ‘equity’ is seldom clearly defined. Here we present a framework support contextually-informed assessment of governance. Guiding questions include: (1) Where and (2) Why being examined? (3) Equity for or amongst Whom ? (4) What distributed? (5) When considered? And (6) How do structures impact equity? The supports consistent operationalization equity, challenges oversimplification, allows evaluation progress. It...
Abstract Environmental DNA (eDNA) data make it possible to measure and monitor biodiversity at unprecedented resolution scale. As use‐cases multiply scientific consensus grows regarding the value of eDNA analysis, public agencies have an opportunity decide how where fit into their mandates. Within United States, many federal state are individually using in various applications developing relevant expertise. A national strategy for implementation would capitalize on recent developments,...
Environmental DNA (eDNA), genetic material recovered from an environmental medium such as soil, water, or feces, reflects the membership of ecological community present in sampled environment. As such, eDNA is a potentially rich source data for basic ecology, conservation, and management, because it offers prospect quantitatively reconstructing whole communities easily obtained samples. However, like all sampling methods, sequencing subject to methodological limitations that can generate...
Ocean acidification (OA) is rapidly emerging as a significant problem for organisms, ecosystems, and human societies. Globally, addressing OA its impacts requires international agreements to reduce rising atmospheric carbon dioxide concentrations. However, the complex suite of drivers changing carbonate chemistry in coastal environments also regional policy analysis, mitigation, adaptation responses. In order fundamentally address threat OA, environmental managers need know where, when, by...