Geology topics

Henry Lee

Publications and source records attributed to Henry Lee.

10 recordsLinked to original sources

USGS2014

Structure and vulnerability of Pacific Northwest tidal wetlands – A summary of wetland climate change research by the Western Ecology Division, U.S. EPA

Climate change poses a serious threat to the tidal wetlands of the Pacific Northwest (PNW) region of the U.S. In response to this threat, scientists at the Western Ecology Division of the U.S. EPA at and the Western Fisheries Research Center of the U.S. Geological Survey, along with other partners, initiated a series of studies on the structure and vulnerability of tidal wetlands to climate change. One research thrust was to evaluate community structure of PNW marshes, experimentally assess the vulnerability of marsh plants to inundation and salinity stress (as would happen with sea level rise), and evaluate the utility of the National Wetland Inventory (NWI) classification system. Another research thrust was to develop tools that provide insights into possible impacts of climate change. This effort included enhancing the Sea Level Affecting Marshes Model (SLAMM) to predict the effects of sea level rise on submerged aquatic vegetation (Zostera marina) distributions, evaluating changes in river flow into coastal estuaries in response to precipitation changes, and synthesizing Pacific Coast estuary, watershed, and climate data in a downloadable tool. Because the research resulting from these efforts was published in multiple venues, we summarized them in this document. We anticipate that future research efforts by the U.S. EPA will continue with a focus on climate change impacts on a regional scale.

California, Oregon, Washington↗

USGS2013

Geographic range and structure of cryptic genetic diversity among Pacific North American populations of the non-native amphipod Grandidierella japonica

Reconstructing the invasion history of aquatic invasive species can enhance understanding of invasion risks by recognizing areas most susceptible to invasion and forecasting future spread based on past patterns of population expansion. Here we reconstruct the invasion history of the Japanese amphipod Grandidierella japonica Stephensen 1938 combining information from historical collection data with molecular genetic data to better understand post-invasion range expansion and anthropogenic connectivity across the Pacific coast of North America. Compilation of collection data from bays and estuaries of the Pacific North American coast show many new localities have been colonized in the last two decades, moving outward from harbors and bays with high commercial traffic into smaller coastal locations dominated by local recreational traffic. DNA barcode sequence data for G. japonica reveals two distinct clades: one found in San Francisco Bay and sites to the north, and one also found in San Francisco Bay and sites to the south. The two clades differ by an average 7.28 % genetic distance, large enough to consider these invasive amphipods two separate species. Both northern and southern clades exhibit low levels of genetic diversity, suggesting a single introduction event for each. The presence of cryptic diversity within this invasive amphipod highlights the need for more extensive study of the invasive and native populations of aquatic invasive invertebrates to address questions of taxonomy, diversity, and invasion history.

California, Oregon, Washington↗

USGS2013

Per capita invasion probabilities: an empirical model to predict rates of invasion via ballast water

Ballast water discharges are a major source of species introductions into marine and estuarine ecosystems. To mitigate the introduction of new invaders into these ecosystems, many agencies are proposing standards that establish upper concentration limits for organisms in ballast discharge. Ideally, ballast discharge standards will be biologically defensible and adequately protective of the marine environment. We propose a new technique, the per capita invasion probability (PCIP), for managers to quantitatively evaluate the relative risk of different concentration-based ballast water discharge standards. PCIP represents the likelihood that a single discharged organism will become established as a new nonindigenous species. This value is calculated by dividing the total number of ballast water invaders per year by the total number of organisms discharged from ballast. Analysis was done at the coast-wide scale for the Atlantic, Gulf, and Pacific coasts, as well as the Great Lakes, to reduce uncertainty due to secondary invasions between estuaries on a single coast. The PCIP metric is then used to predict the rate of new ballast-associated invasions given various regulatory scenarios. Depending upon the assumptions used in the risk analysis, this approach predicts that approximately one new species will invade every 10–100 years with the International Maritime Organization (IMO) discharge standard of <10 organisms with body size >50 μm per m 3 of ballast. This approach resolves many of the limitations associated with other methods of establishing ecologically sound discharge standards, and it allows policy makers to use risk-based methodologies to establish biologically defensible discharge standards.

Ecological Applications↗

USGS2013

Approaches to setting organism-based ballast water discharge standards

As a vector by which foreign species invade coastal and freshwater waterbodies, ballast water discharge from ships is recognized as a major environmental threat. The International Maritime Organization (IMO) drafted an international treaty establishing ballast water discharge standards based on the number of viable organisms per volume of ballast discharge for different organism size classes. Concerns that the IMO standards are not sufficiently protective have initiated several state and national efforts in the United States to develop more stringent standards. We evaluated seven approaches to establishing discharge standards for the >50-μm size class: (1) expert opinion/management consensus, (2) zero detectable living organisms, (3) natural invasion rates, (4) reaction–diffusion models, (5) population viability analysis (PVA) models, (6) per capita invasion probabilities (PCIP), and (7) experimental studies. Because of the difficulty in synthesizing scientific knowledge in an unbiased and transparent fashion, we recommend the use of quantitative models instead of expert opinion. The actual organism concentration associated with a “zero detectable organisms” standard is defined by the statistical rigor of its monitoring program; thus it is not clear whether such a standard is as stringent as other standards. For several reasons, the natural invasion rate, reaction–diffusion, and experimental approaches are not considered suitable for generating discharge standards. PVA models can be used to predict the likelihood of establishment of introduced species but are limited by a lack of population vital rates for species characteristic of ballast water discharges. Until such rates become available, PVA models are better suited to evaluate relative efficiency of proposed standards rather than predicting probabilities of invasion. The PCIP approach, which is based on historical invasion rates at a regional scale, appears to circumvent many of the indicated problems, although it may underestimate invasions by asexual and parthenogenic species. Further research is needed to better define propagule dose–responses, densities at which Allee effects occur, approaches to predicting the likelihood of invasion from multi-species introductions, and generation of formal comparisons of approaches using standardized scenarios.

Ecological Applications↗

USGS2013

Counting at low concentrations: the statistical challenges of verifying ballast water discharge standards

Discharge from the ballast tanks of ships is one of the primary vectors of nonindigenous species in marine environments. To mitigate this environmental and economic threat, international, national, and state entities are establishing regulations to limit the concentration of living organisms that may be discharged from the ballast tanks of ships. The proposed discharge standards have ranged from zero detectable organisms to <10 organisms/m 3 . If standard sampling methods are used, verifying whether ballast discharge complies with these stringent standards will be challenging due to the inherent stochasticity of sampling. Furthermore, at low concentrations, very large volumes of water must be sampled to find enough organisms to accurately estimate concentration. Despite these challenges, adequate sampling protocols comprise a critical aspect of establishing standards because they help define the actual risk level associated with a standard. A standard that appears very stringent may be effectively lax if it is paired with an inadequate sampling protocol. We describe some of the statistical issues associated with sampling at low concentrations to help regulators understand the uncertainties of sampling as well as to inform the development of sampling protocols that ensure discharge standards are adequately implemented.

Ecological Applications↗

USGS2012

Moderate-resolution sea surface temperature data and seasonal pattern analysis for the Arctic Ocean ecoregions

Sea surface temperature (SST) is an important environmental characteristic in determining the suitability and sustainability of habitats for marine organisms. In particular, the fate of the Arctic Ocean, which provides critical habitat to commercially important fish, is in question. This poses an intriguing problem for future research of Arctic environments - one that will require examination of long-term SST records. This publication describes and provides access to an easy-to-use Arctic SST dataset for ecologists, biogeographers, oceanographers, and other scientists conducting research on habitats and/or processes in the Arctic Ocean. The data cover the Arctic ecoregions as defined by the "Marine Ecoregions of the World" (MEOW) biogeographic schema developed by The Nature Conservancy as well as the region to the north from approximately 46°N to about 88°N (constrained by the season and data coverage). The data span a 29-year period from September 1981 to December 2009. These SST data were derived from Advanced Very High Resolution Radiometer (AVHRR) instrument measurements that had been compiled into monthly means at 4-kilometer grid cell spatial resolution. The processed data files are available in ArcGIS geospatial datasets (raster and point shapefiles) and also are provided in text (.csv) format. All data except the raster files include attributes identifying latitude/longitude coordinates, and realm, province, and ecoregion as defined by the MEOW classification schema. A seasonal analysis of these Arctic ecoregions reveals a wide range of SSTs experienced throughout the Arctic, both over the course of an annual cycle and within each month of that cycle. Sea ice distribution plays a major role in SST regulation in all Arctic ecoregions.

Open-File Report↗

USGS2011

Evolution of natural history information in the 21st century – developing an integrated framework for biological and geographical data

Threats to marine and estuarine species operate over many spatial scales, from nutrient enrichment at the watershed/estuarine scale to invasive species and climate change at regional and global scales. To help address research questions across these scales, we provide here a standardized framework for a biogeographical information system containing queriable biological data that allows extraction of information on multiple species, across a variety of spatial scales based on species distributions, natural history attributes and habitat requirements. As scientists shift from research on localized impacts on individual species to regional and global scale threats, macroecological approaches of studying multiple species over broad geographical areas are becoming increasingly important. The standardized framework described here for capturing and integrating biological and geographical data is a critical first step towards addressing these macroecological questions and we urge organizations capturing biogeoinformatics data to consider adopting this framework.

Journal of Biogeography↗

USGS2011

Moderate-resolution sea surface temperature data for the nearshore North Pacific

Coastal sea surface temperature (SST) is an important environmental characteristic in determining the suitability of habitat for nearshore marine and estuarine organisms. This publication describes and provides access to an easy-to-use coastal SST dataset for ecologists, biogeographers, oceanographers, and other scientists conducting research on nearshore marine habitats or processes. The data cover the Temperate Northern Pacific Ocean as defined by the 'Marine Ecosystems of the World' (MEOW) biogeographic schema developed by The Nature Conservancy. The spatial resolution of the SST data is 4-km grid cells within 20 km of the shore. The data span a 29-year period - from September 1981 to December 2009. These SST data were derived from Advanced Very High Resolution Radiometer (AVHRR) instrument measurements compiled into monthly means as part of the Pathfinder versions 5.0 and 5.1 (PFSST V50 and V51) Project. The processing methods used to transform the data from their native Hierarchical Data Format Scientific Data Set (HDF SDS) to georeferenced, spatial datasets capable of being read into geographic information systems (GIS) software are explained. In addition, links are provided to examples of scripts involved in the data processing steps. The scripts were written in the Python programming language, which is supported by ESRI's ArcGIS version 9 or later. The processed data files are also provided in text (.csv) and Access 2003 Database (.mdb) formats. All data except the raster files include attributes identifying realm, province, and ecoregion as defined by the MEOW classification schema.

Open-File Report↗

USGS2010

Impacts of climate change on Oregon's coasts and estuaries

Earth’s changing climate is expected to have significant physical impacts along the coast and estuarine shorelands of Oregon, ranging from increased erosion and inundation of low lying areas, to wetland loss and increased estuarine salinity. The environmental changes associated with climate change include rising sea levels, increased occurrences of severe storms, rising air and water temperatures, and ocean acidification. The combination of these processes and their climate controls are important to beach and property erosion, flood probabilities, and estuarine water quality, with the expectation of significant changes projected for the 21st century. In the following sections we attempt to summarize the most recent literature documenting historical changes as well as what may be expected to occur in response to climate change. Where little information is available we draw preliminary conclusions about the potential for specific impacts. When possible we highlight what research is needed to bridge knowledge gaps to improve our ability to identify climate change impacts more precisely, ultimately allowing for future projections.

Oregon↗

USGS2008

Integrated monitoring and information systems for managing aquatic invasive species in a changing climate

Changes in temperature, precipitation, and other climatic drivers and sea-level rise will affect populations of existing native and non-native aquatic species and the vulnerability of aquatic environments to new invasions. Monitoring surveys provide the foundation for assessing the combined effects of climate change and invasions by providing baseline biotic and environmental conditions, although the utility of a survey depends on whether the results are quantitative or qualitative, and other design considerations. The results from a variety of monitoring programs in the United States are available in integrated biological information systems, although many include only non-native species, not native species. Besides including natives, we suggest these systems could be improved through the development of standardized methods that capture habitat and physiological requirements and link regional and national biological databases into distributed Web portals that allow drawing information from multiple sources. Combining the outputs from these biological information systems with environmental data would allow the development of ecological-niche models that predict the potential distribution or abundance of native and non-native species on the basis of current environmental conditions. Environmental projections from climate models can be used in these niche models to project changes in species distributions or abundances under altered climatic conditions and to identify potential high-risk invaders. There are, however, a number of challenges, such as uncertainties associated with projections from climate and niche models and difficulty in integrating data with different temporal and spatial granularity. Even with these uncertainties, integration of biological and environmental information systems, niche models, and climate projections would improve management of aquatic ecosystems under the dual threats of biotic invasions and climate change

Conservation Biology↗