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At least 1,405 records · Page 78Linked to original sources
USGS2015

Why are freshwater fish so threatened?

The huge diversity of freshwater fishes is concentrated into an area of habitat that covers only about 1% of the Earth's surface, and much of this limited area has already been extensively impacted and intensively managed to meet human needs (Dudgeon et al ., 2006). As outlined in Chapter 1, the number and proportions of threatened species tend to rise wherever fish diversity coincides with dense human populations, intensive resource use and development pressure. Of particular concern is the substantial proportion of the global diversity of freshwater fishes concentrated within the Mekong and Amazon Basins and west-central Africa (Berra, 2001; Abell et al ., 2008; Dudgeon, 2011; Chapter 1) with extensive exploitation of water resources planned to accelerate in future years (Dudgeon, 2011; Chapter 1). If current trends continue, and the social, political and economic models that have been used to develop industrialised regions of the world over the past two centuries prevail, then the future of a significant proportion of global diversity of freshwater fish species is clearly uncertain. Understanding why so many freshwater fish species are threatened requires some understanding of their biology, diversity, distribution, biogeography and ecology, but also some appreciation of the social, economic and political forces that are causing humans to destroy the natural ecosystems upon which we all ultimately depend. To begin to understand the diversity of freshwater fishes, we first need to consider the processes that generated and continue to sustain the diversity of species we see today. Based on an understanding of how freshwater fish diversity is generated and sustained, we consider how vulnerable or resilient various freshwater fishes are to the range of anthropogenic impacts that impinge on freshwater ecosystems. Finally, we discuss how social, political and economic drivers influence human impacts on natural systems, and the changes needed to current models of development that can lead to a sustainable future for humans and the diverse range of freshwater fish species with which we share our planet. The aim of this chapter is to provide an overview of the key issues and threats driving the declines in freshwater fish diversity identified in Chapter 1; subsequent chapters provide more detail on the key issues and address our options for developing a sustainable future for freshwater fishes.

Book chapter↗
USGS2011

Effects of flow regulation on shallow-water habitat dynamics and floodplain connectivity

Our study examined the effects of flow regulation on the spatiotemporal availability of shallow habitat patches with slow current velocity (SSCV patches) and floodplain inundation in the unregulated Yellowstone River and the regulated Missouri River in Montana and North Dakota. We mapped representative sites and used hydraulic models and hydrograph data to describe the frequency and extent of floodplain inundation and the availability of SSCV habitat over time during different water years. In the Yellowstone River the distribution, location, and size of SSCV patches varied but followed an annual pattern that was tied to the snowmelt runoff hydrograph. There was less variation in patch distribution in the Missouri River, and the pattern of habitat availability was influenced by flow regulation. Regulated flows and their effects on channel morphology and patterns of vegetation establishment resulted in 3.0–3.5 times less area of inundated woody vegetation during normal and dry years in the Missouri River compared with the Yellowstone River. The differences we observed in SSCV patch dynamics between rivers may have implications for fish populations and community structure through affecting the survival of early life stages. At a larger scale, the smaller area of vegetation inundated in the Missouri River suggests that nutrient cycling and the ecological benefits associated with a moving littoral zone are reduced by the altered flow and sediment regime in that river. Accurate assessments of the effects of flow alteration and successful efforts to restore riverine ecosystems will require consideration of physical and biotic processes that operate at multiple spatial and temporal scales.

Transactions of the American Fisheries Society↗
USGS2020

Spatially referenced models of streamflow and nitrogen, phosphorus, and suspended-sediment loads in streams of the northeastern United States

SPAtially Referenced Regression On Watershed attributes (SPARROW) models were developed to quantify and improve the understanding of the sources, fate, and transport of nitrogen, phosphorus, and suspended sediment in the northeastern United States. Excessive nutrients and suspended sediment from upland watersheds and tributary streams have contributed to ecological and economic degradation of northeastern surface waters. Recent efforts to reduce the flux of nutrients and suspended sediment in northeastern streams and to downstream estuaries have met with mixed results, and expected ecological improvements have been observed in some areas but not in others. Effective watershed management and restoration to improve surface-water quality are complicated by the multitude of nutrient sources in the Northeast and the multitude of natural and human landscape processes affecting the delivery of nutrients and suspended sediment from upland areas to and within surface waters. Individual models were constructed representing streamflow and the loads of total nitrogen, total phosphorus, and suspended sediment from watersheds draining to the Atlantic Ocean from southern Virginia through Maine. Northeastern streams contribute 303,000 metric tons (t) of nitrogen, 25,300 t of phosphorus, and 14,700,000 t of suspended sediment, annually (on average), to waters along the Atlantic Coast of North America. Although atmospheric deposition and natural mineral erosion contribute to nitrogen and phosphorus loads, respectively, in northeastern streams, most of the contributions are attributable to urban or agricultural sources. Within the Northeast, average yields of nutrients are therefore generally greater from densely populated or intensively cultivated areas of the mid-Atlantic region, the Hudson, Mohawk, and Connecticut River valleys, and the coastal areas of southern New England than in predominantly forested areas such as northern New England. Average upland sediment yields are similarly greater from agricultural areas than from urban or forested areas and are therefore generally greatest in areas yielding the greatest nutrients. Landscape conditions that are significant to nitrogen delivery from uplands to streams likely reflect the importance of groundwater transport in carbonate settings and of denitrification for removing nitrogen from uplands. Nitrogen losses to streams in agricultural areas are apparently mitigated by the use of cover crops but are exacerbated by the use of conservation tillage or no-till practices. The transport of phosphorus and suspended sediment from uplands to streams is greater in areas of more erodible soils but mitigated in agricultural areas with greater use of conservation tillage or no-till practices. Loads of nutrients and suspended sediment are significantly reduced within the stream network in impounded reaches, and nitrogen load is also significantly reduced in small flowing reaches.

Scientific Investigations Report↗
USGS2024

Synthesizing professional opinion of Lake Whitefish and Cisco recruitment drivers across the Great Lakes

Disentangling the suite of ecological drivers that explain recruitment variability for Lake Whitefish Coregonus clupeaformis and Cisco C. artedi is of critical importance for their conservation, management, and stewardship in the Laurentian Great Lakes. However, recruitment is inherently variable and can be regulated by many interacting processes, the relative importance of which can vary spatially, temporally, and ontogenetically. Given this complexity, comparisons across lakes and species that identify overarching hypotheses could efficiently guide future research. Using facilitated deliberations among fishery professionals (n = 57) with expertise in Great Lakes Coregonus spp., we synthesized current knowledge regarding (1) which biophysical processes are most important for driving contemporary recruitment between species, among lakes, and across life stages and (2) mechanisms by which those drivers regulate recruitment at key life stages. Participants affirmed the hypothesis that many drivers interact in complex ways to regulate Lake Whitefish and Cisco recruitment. Large-scale climatic processes affecting early life-stage growth and survival were consistently considered important. Other drivers were only deemed influential in certain lakes, highlighting perceived context-dependent recruitment dynamics. Notably, recruitment in Lakes Superior, Michigan, and Huron was considered limited during larval and early juvenile life stages by low productivity, whereas spawning-habitat degradation and reduced metapopulation diversity were hypothesized to limit recruitment during embryonic and larval stages in Lakes Erie and Ontario. Several drivers were hypothesized to similarly impact Lake Whitefish and Cisco during early life stages, while drivers acting on post-larval life stages were typically distinct between species. The hypotheses synthesized herein can guide future research on Lake Whitefish and Cisco recruitment dynamics in the Great Lakes.

Great Lakes↗
USGS2010

Development of an Environmental Flow Framework for the McKenzie River Basin, Oregon

The McKenzie River is a tributary to the Willamette River in northwestern Oregon. The McKenzie River is approximately 90 miles in length and has a drainage area of approximately 1,300 square miles. Two major flood control dams, a hydropower dam complex, and two hydropower canals significantly alter streamflows in the river. The structures reduce the magnitude and frequency of large and small floods while increasing the annual 7-day minimum streamflows. Stream temperatures also have been altered by the dams and other anthropogenic factors, such as the removal of riparian vegetation and channel simplification. Flow releases from one of the flood control dams are cooler in the summer and warmer in the fall in comparison to unregulated flow conditions before the dam was constructed. In 2006, the Oregon Department of Environmental Quality listed a total of 112.4, 6.3, and 55.7 miles of the McKenzie River basin mainstem and tributary stream reaches as thermally impaired for salmonid rearing, salmonid spawning, and bull trout, respectively. The analyses in this report, along with previous studies, indicate that dams have altered downstream channel morphology and ecologic communities. In addition to reducing the magnitude and frequency of floods, dams have diminished sediment transport by trapping bed material. Other anthropogenic factors, such as bank stabilization, highway construction, and reductions of in-channel wood, also have contributed to the loss of riparian habitat. A comparison of aerial photography taken in 1939 and 2005 showed substantial decreases in secondary channels, gravel bars, and channel sinuosity, particularly along the lower alluvial reaches of the McKenzie River. In addition, bed armoring and incision may contribute to habitat degradation, although further study is needed to determine the extent of these processes. Peak streamflow reduction has led to vegetation colonization and stabilization of formerly active bar surfaces. The large flood control dams on Blue River and South Fork McKenzie River likely have had the greatest effect on downstream habitats because these sediment and flood-rich tributaries historically contributed a disproportionate volume of bed material, wood, and peak flows in comparison with the spring-fed tributaries of the upper McKenzie River basin. The ecological effects of the dams were examined by focusing on nine exemplar aquatic and terrestrial species, including spring Chinook salmon, bull trout, Oregon chub, Pacific and western brook lamprey, red-legged frog, western pond turtle, alder, and cottonwood. The changes caused by the dams to streamflow hydrograph affect all these and other species in complex ways, although a few commonalities are apparent. A loss of channel complexity in the McKenzie River basin, which is associated with the reduction in flood events and widespread channel stabilization, is the primary factor related to the observed population declines for all nine exemplar species. The dams also have caused direct ecological effects by blocking access to habitat, changing the amount and timing of available critical habitat, and changing water temperature during important seasons for different life stages.

Scientific Investigations Report↗
USGS2023

Ecological effects of pinyon-juniper removal in the Western United States—A synthesis of scientific research, January 2014–March 2021

Executive Summary Increasing density of pinyon ( Pinus spp. ) and juniper ( Juniperus spp. ) woodlands (hereinafter “pinyon-juniper”), as well as expansion of these woodlands into adjacent shrublands and grasslands, has altered ecosystem function and wildlife habitat across large areas of the interior western United States. Although there are many natural and human-caused drivers of woodland infilling and expansion, restoration of sagebrush ( Artemisia spp. ) habitat through removal of pinyon-juniper is considered an urgent management objective in many locations, particularly in support of sagebrush-dependent wildlife species of conservation concern. In December 2020, the Bureau of Land Management (BLM) established the Pinyon-Juniper Management Categorical Exclusion (PJCX) to expedite the regulatory process for pinyon-juniper removal projects on public lands, largely intended to benefit mule deer ( Odocoileus hemionus ) and greater sage-grouse ( Centrocercus urophasianus ) habitats. During final preparation of this report, the BLM discontinued use of the PJCX (as of November, 2022), but the pinyon-juniper tree removal techniques assessed in this report are commonly used and understanding their effects remains relevant to land use planning. To address areas of uncertainty relative to potential ecological effects of the PJCX, we conducted a review of the peer-reviewed science literature to better understand the likely responses of vegetation, environmental (for example, soils), and wildlife variables to specific tree removal techniques permitted by the PJCX. In brief, the PJCX permitted removal of trees by either manual cutting, mechanical cutting, or mastication; allowed certain methods to redistribute or remove resulting tree biomass after treatment; and prohibited broadcast burning, roadbuilding, removal of old-growth, and seeding of non-native species. Specifically, we conducted our review to address the following questions: How will PJCX removal techniques affect plant communities, soils, and abiotic resources? How do these pinyon-juniper removal techniques affect wildlife communities, including both woodland- and sagebrush-dependent species? What are the potential ecological implications of different pinyon-juniper removal treatment types and implementation strategies (for example, treatment sizes) over time? What are the most important gaps in our scientific understanding of how treatments might affect targeted ecosystems over space and time (for example, potential effects of climate change)? To answer these questions, we considered studies related to pinyon-juniper ecosystems, focusing on research that occurred over a large portion of the interior western United States that is the primary focus of the PJCX. We also focused on papers published from 2014 onward, to avoid excessive overlap with other recent reviews on pinyon-juniper management effects. Using strict criteria, including only considering research that tested responses for statistical significance, we identified 48 papers that primarily examined treatment effects on vegetation and other environmental variables (1,709 responses), and 11 papers that addressed effects on wildlife (132 responses). Responses to the PJCX-permitted treatments were summarized as either positive (that is, a significant increase), negative (that is, a significant decrease), or non-significant (that is, no significant difference). Responses were assigned to categories (for example, Native Annual Grass/Forb Abundance) and hierarchical treatment levels. We found that there were large proportions of non-significant responses among all categories combined, with roughly half or more of all responses non-significant (48 percent for wildlife, 60 percent for vegetation-environmental), comparable to other recent systematic reviews of pinyon-juniper treatment effects. However, we also found that when there were significant responses, some important trends potentially emerged. Important undesirable outcomes included far more positive than negative responses of exotic grass and forb abundance among nearly all treatment types. Cutting treatments were also more likely to decrease biocrust cover and microbial activity. Potentially beneficial outcomes included mostly positive responses among sagebrush obligate species, including more positive than negative responses for mule deer and sage-grouse. Some treatment types (for example, mastication) also resulted in more positive than negative responses for native grasses and forbs (although, non-significant responses were the majority). We also highlighted many limitations of this review, including how responses often come from few studies, and how some response-treatment category combinations lack adequate response data. Moreover, the existing research is often insufficient to address many key questions about treatment effects, largely owing to short time-scales and limited spatial extents of observations, which do not match the size of treatments being implemented by land managers, nor capture long-term, post-treatment ecological dynamics. We also identify a lack of research that addresses key interactions that could undermine restoration objectives, including potential effects of climate change and grazing on post-treatment environments. Thus, we emphasize the importance of integrating these factors into future pinyon-juniper treatment research, and we stress the need for use of monitoring programs and research studies that partake in data collection and analysis over long durations and broad spatial scales.

Open-File Report↗
USGS2024

A comparative framework to develop transferable species distribution models for animal telemetry data

Species distribution models (SDMs) have become increasingly popular for making ecological inferences, as well as predictions to inform conservation and management. In predictive modeling, practitioners often use correlative SDMs that only evaluate a single spatial scale and do not account for differences in life stages. These modeling decisions may limit the performance of SDMs beyond the study region or sampling period. Given the increasing desire to develop transferable SDMs, a robust framework is necessary that can account for known challenges of model transferability. Here, we propose a comparative framework to develop transferable SDMs, which was tested using satellite telemetry data from green turtles ( Chelonia mydas ). This framework is characterized by a set of steps comparing among different models based on (1) model algorithm (e.g., generalized linear model vs. Gaussian process regression) and formulation (e.g., correlative model vs. hybrid model), (2) spatial scale, and (3) accounting for life stage. SDMs were fitted as resource selection functions and trained on data from the Gulf of Mexico with bathymetric depth, net primary productivity, and sea surface temperature as covariates. Independent validation datasets from Brazil and Qatar were used to assess model transferability. A correlative SDM using a hierarchical Gaussian process regression (HGPR) algorithm exhibited greater transferability than a hybrid SDM using HGPR, as well as correlative and hybrid forms of hierarchical generalized linear models. Additionally, models that evaluated habitat selection at the finest spatial scale and that did not account for life stage proved to be the most transferable in this study. The comparative framework presented here may be applied to a variety of species, ecological datasets (e.g., presence-only, presence-absence, mark-recapture), and modeling frameworks (e.g., resource selection functions, step selection functions, occupancy models) to generate transferable predictions of species–habitat associations. We expect that SDM predictions resulting from this comparative framework will be more informative management tools and may be used to more accurately assess climate change impacts on a wide array of taxa.

Ecosphere↗
USGS2022

What is a biocrust? A refined, contemporary definition for a broadening research community

Studies of biological soil crusts (biocrusts) have proliferated over the last few decades. The biocrust literature has broadened, with more studies assessing and describing the function of a variety of biocrust communities in a broad range of biomes and habitats and across a large spectrum of disciplines, and also by the incorporation of biocrusts into global perspectives and biogeochemical models. As the number of biocrust researchers increases, along with the scope of soil communities defined as ‘biocrust’, it is worth asking whether we all share a clear, universal, and fully articulated definition of what constitutes a biocrust. In this review, we synthesize the literature with the views of new and experienced biocrust researchers, to provide a refined and fully elaborated definition of biocrusts. In doing so, we illustrate the ecological relevance and ecosystem services provided by them. We demonstrate that biocrusts are defined by four distinct elements: physical structure, functional characteristics, habitat, and taxonomic composition. We describe outgroups, which have some, but not all, of the characteristics necessary to be fully consistent with our definition and thus would not be considered biocrusts. We also summarize the wide variety of different types of communities that fall under our definition of biocrusts, in the process of highlighting their global distribution. Finally, we suggest the universal use of the Belnap, Büdel & Lange definition, with minor modifications: Biological soil crusts (biocrusts) result from an intimate association between soil particles and differing proportions of photoautotrophic (e.g. cyanobacteria , algae , lichens , bryophytes) and heterotrophic (e.g. bacteria , fungi , archaea) organisms , which live within , or immediately on top of , the uppermost millimetres of soil. Soil particles are aggregated through the presence and activity of these often extremotolerant biota that desiccate regularly , and the resultant living crust covers the surface of the ground as a coherent layer. With this detailed definition of biocrusts, illustrating their ecological functions and widespread distribution, we hope to stimulate interest in biocrust research and inform various stakeholders (e.g. land managers, land users) on their overall importance to ecosystem and Earth system functioning.

Biological Reviews↗
USGS2004

Two-dimensional hydrodynamic simulation of surface-water flow and transport to Florida Bay through the Southern Inland and Coastal Systems (SICS)

Successful restoration of the southern Florida ecosystem requires extensive knowledge of the physical characteristics and hydrologic processes controlling water flow and transport of constituents through extremely low-gradient freshwater marshes, shallow mangrove-fringed coastal creeks and tidal embayments, and near-shore marine waters. A sound, physically based numerical model can provide simulations of the differing hydrologic conditions that might result from various ecosystem restoration scenarios. Because hydrology and ecology are closely linked in southern Florida, hydrologic model results also can be used by ecologists to evaluate the degree of ecosystem restoration that could be achieved for various hydrologic conditions. A robust proven model, SWIFT2D, (Surface-Water Integrated Flow and Transport in Two Dimensions), was modified to simulate Southern Inland and Coastal Systems (SICS) hydrodynamics and transport conditions. Modifications include improvements to evapotranspiration and rainfall calculation and to the algorithms that describe flow through coastal creeks. Techniques used in this model should be applicable to other similar low-gradient marsh settings in southern Florida and elsewhere. Numerous investigations were conducted within the SICS area of southeastern Everglades National Park and northeastern Florida Bay to provide data and parameter values for model development and testing. The U.S. Geological Survey and the National Park Service supported investigations for quantification of evapotranspiration, vegetative resistance to flow, wind-induced flow, land elevations, vegetation classifications, salinity conditions, exchange of ground and surface waters, and flow and transport in coastal creeks and embayments. The good agreement that was achieved between measured and simulated water levels, flows, and salinities through minimal adjustment of empirical coefficients indicates that hydrologic processes within the SICS area are represented properly in the SWIFT2D model, and that the spatial and temporal resolution of these processes in the model is adequate. Sensitivity analyses were conducted to determine the effect of changes in boundary conditions and parameter values on simulation results, which aided in identifying areas of greatest uncertainty in the model. The parameter having the most uncertainty (most in need of further field study) was the flow coefficient for coastal creeks. Smaller uncertainties existed for wetlands frictional resistance and wind. Evapotranspiration and boundary inflows indicated the least uncertainty as determined by varying parameters used in their formulation and definition. Model results indicated that wind was important in reversing coastal creek flows. At Trout Creek (the major tributary connecting Taylor Slough wetlands with Florida Bay), flow in the landward direction was not simulated properly unless wind forcing was included in the simulation. Simulations also provided insight into the major influence that wind has on salinity mixing along the coast, the varying distribution of wetland flows at differing water levels, and the importance of topography in controlling flows to the coast. Slight topographic variations were shown to highly influence the routing of water. A multiple regression analysis was performed to relate inflows at the northern boundary of Taylor Slough bridge to a major pump station (S-332) north of the SICS model area. This analysis allows Taylor Slough bridge boundary conditions to be defined for the model from operating scenarios at S-332, which should facilitate use of the SICS model as an operational tool.

Florida↗
USGS2025

Manipulation of the Symbiodiniaceae microbiome confers multigenerational impacts on symbioses and reproductive ecology of its Exaiptasia diaphana host

Symbiodiniaceae-associated microbiota strongly influence cnidarian symbioses. We systematically reduced the bacterial and fungal communities associated with Symbiodiniaceae to study potential effects on the cnidarian holobiont Exaiptasia diaphana (Aiptasia). Clonal anemones were inoculated with xenic Breviolum minutum (SSB01) and microbiome-manipulated cultures after antibacterial or antifungal treatment. The asexual reproduction of pedal laceration allowed for three generations of clonal aposymbiotic Aiptasia to be utilised in this study, from the initial adult generation (G0), to the first (G1), and second (G2) generation. We inoculated small and large G1 Aiptasia with SSB01 algae and monitored onset of symbiosis, rate of algal proliferation, and holobiont characteristics. Sequencing the 16S and 18S rRNA gene regions identified significant differences in the bacterial and fungal communities of the G0 and G1 generations, alongside differences between the size classes of small and large G1 anemones. The microbiome of larger G1 individuals was distinct to the smaller G1 anemones, suggesting a microbiome maturation process. Control Breviolum minutum cultures exhibited a significantly greater proliferation rate in large G1 anemones when compared to antibacterial or antifungal treated cultures, whereas the opposite trend was documented in the small G1 anemones. Although no differences were observed between algal photochemical parameters, or the growth and polyp activity of G1 juveniles, we observed a significant influence in the production of G2 clones between treatments. Overall, we provide strong ecological implications of manipulating Symbiodiniaceae microbiome, not for the algae themselves, but for the maturation of the host Aiptasia, as well as for the cnidarian holobiont over multiple generations.

The ISME Journal↗
USGS2017

Rapid response for invasive waterweeds at the arctic invasion front: Assessment of collateral impacts from herbicide treatments

The remoteness of subarctic and arctic ecosystems no longer protects against invasive species introductions. Rather, the mix of urban hubs surrounded by undeveloped expanses creates a ratchet process whereby anthropogenic activity is sufficient to introduce and spread invaders, but for which the costs of monitoring and managing remote ecosystems is prohibitive. Elodea spp. is the first aquatic invasive plant to become established in Alaska and has potential for widespread deleterious ecological and economic impacts. A rapid eradication response with herbicides has been identified as a priority invasion control strategy. We condu cted a multi-lake monitoring effort to assess collateral impacts from herbicide treatment for Elodea in high latitude systems. Variability in data was driven by seasonal dynamics and natural lake-to-lake differences typical of high latitude waterbodies, indicating lack of evidence for systematic impacts to water quality or plankton communities associated with herbicide treatment of Elodea . Impacts on native macrophytes were benign with the exception of some evidence for earlier onset of leaf senescence for lily pads( Nuphar spp.) in treated lakes. We observed a substantial increase in detected native flora richness after Elodea was eradicated from the most heavily infested lake, indicating potential for retention of native macrophyte communities if infestations are addressed quickly. While avoiding introductions through prevention may be the most desirable outcome, these applications indicated low risks of non-target impacts associated with herbicide treatment as a rapid response option for Elodea in high latitude systems.

Alaska↗
USGS2013

Great Lakes rivermouth ecosystems: scientific synthesis and management implications

At the interface of the Great Lakes and their tributary rivers lies the rivermouths, a class of aquatic ecosystem where lake and lotic processes mix and distinct features emerge. Many rivermouths are the focal point of both human interaction with the Great Lakes and human impacts to the lakes; many cities, ports, and beaches are located in rivermouth ecosystems, and these human pressures often degrade key ecological functions that rivermouths provide. Despite their ecological uniqueness and apparent economic importance, there has been relatively little research on these ecosystems as a class relative to studies on upstream rivers or the open-lake waters. Here we present a synthesis of current knowledge about ecosystem structure and function in Great Lakes rivermouths based on studies in both Laurentian rivermouths, coastal wetlands, and marine estuarine systems. A conceptual model is presented that establishes a common semantic framework for discussing the characteristic spatial features of rivermouths. This model then is used to conceptually link ecosystem structure and function to ecological services provided by rivermouths. This synthesis helps identify the critical gaps in understanding rivermouth ecology. Specifically, additional information is needed on how rivermouths collectively influence the Great Lakes ecosystem, how human alterations influence rivermouth functions, and how ecosystem services provided by rivermouths can be managed to benefit the surrounding socioeconomic networks.

Great Lakes↗
USGS2024

Landscape fragmentation overturns classical metapopulation thinking

Habitat loss and isolation caused by landscape fragmentation represent a growing threat to global biodiversity. Existing theory suggests that the process will lead to a decline in metapopulation viability. However, since most metapopulation models are restricted to simple networks of discrete habitat patches, the effects of real landscape fragmentation, particularly in stochastic environments, are not well understood. To close this major gap in ecological theory, we developed a spatially explicit, individual-based model applicable to realistic landscape structures, bridging metapopulation ecology and landscape ecology. This model reproduced classical metapopulation dynamics under conventional model assumptions, but on fragmented landscapes, it uncovered general dynamics that are in stark contradiction to the prevailing views in the ecological and conservation literature. Notably, fragmentation can give rise to a series of dualities: a) positive and negative responses to environmental noise, b) relative slowdown and acceleration in density decline, and c) synchronization and desynchronization of local population dynamics. Furthermore, counter to common intuition, species that interact locally (“residents”) were often more resilient to fragmentation than long-ranging “migrants.” This set of findings signals a need to fundamentally reconsider our approach to ecosystem management in a noisy and fragmented world.

PNAS↗
USGS2016

Primary production in the Delta: Then and now

To evaluate the role of restoration in the recovery of the Delta ecosystem, we need to have clear targets and performance measures that directly assess ecosystem function. Primary production is a crucial ecosystem process, which directly limits the quality and quantity of food available for secondary consumers such as invertebrates and fish. The Delta has a low rate of primary production, but it is unclear whether this was always the case. Recent analyses from the Historical Ecology Team and Delta Landscapes Project provide quantitative comparisons of the areal extent of 14 habitat types in the modern Delta versus the historical Delta (pre-1850). Here we describe an approach for using these metrics of land use change to: (1) produce the first quantitative estimates of how Delta primary production and the relative contributions from five different producer groups have been altered by large-scale drainage and conversion to agriculture; (2) convert these production estimates into a common currency so the contributions of each producer group reflect their food quality and efficiency of transfer to consumers; and (3) use simple models to discover how tidal exchange between marshes and open water influences primary production and its consumption. Application of this approach could inform Delta management in two ways. First, it would provide a quantitative estimate of how large-scale conversion to agriculture has altered the Delta's capacity to produce food for native biota. Second, it would provide restoration practitioners with a new approach—based on ecosystem function—to evaluate the success of restoration projects and gauge the trajectory of ecological recovery in the Delta region.

California↗
USGS2021

Using structured decision making to incorporate ecological and social values into harvest decisions: Case studies of white-tailed deer and walleye

Harvest decisions for fish and wildlife populations often include conflicting ecological, economic, and social values. Using decision analysis, such as structured decision making and adaptive management, as a framework to aid decision makers in multi-objective decision making for setting harvest regulations can lead to a more transparent and resilient decision. The process includes opportunities for inclusion of stakeholders’ concerns, either through multi-party workshops or the use of social science techniques to elicit objectives (i.e., values) and predict consequences of management actions. The authors present two case studies of using decision analysis to determine stakeholders’ objectives, identify alternative harvest strategies, predict the consequences of these alternatives on all objectives, and analyze tradeoffs among objectives. A case study of white-tailed deer ( Odocoileus virginianus ) in New York State provides an example of combining predictive population modeling and implementation of survey instruments statewide to determine optimal region-specific harvest regulations. Harvest management of walleye ( Sander vitreus ) provides an example of the inclusion of commercial and recreational angler groups in a series of workshops to make decisions about harvest quotas for one of the world’s largest freshwater fisheries.

Book chapter↗
USGS2021

Long-term ecosystem and biogeochemical research in Loch Vale watershed, Rocky Mountain National Park, Colorado

Loch Vale watershed was instrumented in 1983 with initial support from the National Acid Precipitation Assessment Program to ask whether ecosystems of Rocky Mountain National Park (RMNP) were affected by acidic atmospheric deposition. Research and monitoring activities were expanded in 1991 by the U.S. Geological Survey Water, Energy, and Biogeochemical Budgets program to understand the processes, and their interactions, controlling water, energy, and biogeochemical fluxes. With help from many collaborators we have characterized trends and patterns in atmospheric deposition, climate, and hydrology, including glaciers and other ice features. Instead of acidic deposition, we documented high atmospheric inputs of reactive nitrogen (Nr), and have studied the ecological consequences in soils, surface water, and vegetation. Using paleolimnology, we documented the onset of human-caused change to lake primary producers ca. 1950 in response to increased Nr deposition and warming. Our results provided the basis for the Colorado Nitrogen Deposition Reduction Plan, a state policy that aims to reduce Nr emissions to protect resources in RMNP by 2032. Carbon cycle research revealed mountain wetlands now release more carbon than they store, and respiration and methane flux occurs even during winter through deep snow packs. Trend analyses found export of Nr to be closely tied to atmospheric inputs, but can lag in response to drought. Current research explores consequences of the combination of warming, changes in precipitation dynamics, and atmospheric deposition of Nr and dust on stream and lake CO 2 dynamics, lake biology and trophic state, and soil carbon composition. Dramatic increases in park visitors have prompted studies on the effects of recreational use on water quality. New tools such as remote sensing and high frequency instream water quality sensors are being applied to lake and stream studies. Monitoring, combined with experiments, models, and spatial comparisons is an essential foundation for science-based resource management.

Colorado↗
USGS2003

An integrated analysis of the effects of past land use on forest herb colonization at the landscape scale

A framework that summarizes the direct and indirect effects of past land use on forest herb recolonization is proposed, and used to analyse the colonization patterns of forest understorey herbaceous species in a 360-ha mixed forest, grassland and arable landscape in the Dijle river valley (central Belgium). Fine-scale distribution maps were constructed for 14 species. The species were mapped in 15 946 forest plots and outside forests (along parcel margins) in 5188 plots. Forest stands varied in age between 1 and more than 224 years. Detailed land-use history data were combined with the species distribution maps to identify species-specific colonization sources and to calculate colonization distances. The six most frequent species were selected for more detailed statistical analysis. Logistic regression models indicated that species frequency in forest parcels was a function of secondary forest age, distance from the nearest colonization source and their interaction. Similar age and distance effects were found within hedgerows. In 199 forest stands, data about soils, canopy structure and the cover of competitive species were collected. The relative importance of habitat quality and spatio-temporal isolation for the colonization of the forest herb species was quantified using structural equation modelling (SEM), within the framework proposed for the effects of past land use. The results of the SEM indicate that, except for the better colonizing species, the measured habitat quality variables are of minor importance in explaining colonization patterns, compared with the combination of secondary forest age and distance from colonization sources. Our results suggest the existence of a two-stage colonization process in which diaspore availability determines the initial pattern, which is affected by environmental sorting at later stages.

Journal of Ecology↗
USGS2011

Decomposition of heterogeneous organic matterand its long-term stabilization in soils

Soil organic matter is a complex mixture of material with heterogeneous biological, physical, and chemical properties. Decomposition models represent this heterogeneity either as a set of discrete pools with different residence times or as a continuum of qualities. It is unclear though, whether these two different approaches yield comparable predictions of organic matter dynamics. Here, we compare predictions from these two different approaches and propose an intermediate approach to study organic matter decomposition based on concepts from continuous models implemented numerically. We found that the disagreement between discrete and continuous approaches can be considerable depending on the degree of nonlinearity of the model and simulation time. The two approaches can diverge substantially for predicting long-term processes in soils. Based on our alternative approach, which is a modification of the continuous quality theory, we explored the temporal patterns that emerge by treating substrate heterogeneity explicitly. The analysis suggests that the pattern of carbon mineralization over time is highly dependent on the degree and form of nonlinearity in the model, mostly expressed as differences in microbial growth and efficiency for different substrates. Moreover, short-term stabilization and destabilization mechanisms operating simultaneously result in long-term accumulation of carbon characterized by low decomposition rates, independent of the characteristics of the incoming litter. We show that representation of heterogeneity in the decomposition process can lead to substantial improvements in our understanding of carbon mineralization and its long-term stability in soils.

Ecological Monographs↗