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USGS2024

Physics to fish—Understanding the factors that create and sustain native fish habitat in the San Francisco Estuary

Executive Summary The Bureau of Reclamation (Reclamation) operates the Central Valley Project (CVP), one of the nation’s largest water projects. Reclamation has an ongoing need to improve the scientific basis for adaptive management of the CVP and, by extension, joint operations with California’s State Water Project. The U.S. Geological Survey (USGS) works cooperatively with the Bureau of Reclamation to provide scientific support for the management of Reclamation’s CVP project. Major habitat restoration efforts and a new water-diversion point are planned to benefit delta smelt ( Hypomesus transpacificus ) and other species of concern while ensuring the reliability of water supply. In addition, various flow actions and management activities have been identified as possible methods to increase populations of delta smelt and salmonid ( Oncorhynchus spp.) runs of concern. The overarching goal of this cooperative project was to provide Reclamation with the scientific information needed to evaluate the efficacy of ongoing and future adaptive management actions and to improve the scientific basis for more flexible CVP operations that would achieve water-supply reliability and fish protection. The research and monitoring described in this report comprises the period 2015–19 and focuses on management issues related to native fish species of concern, especially delta smelt. Conserving the delta smelt population while providing a reliable water supply is a primary management and policy issue in California. Our approach for this cooperative project is based on the “physics to fish” concept, the idea that high-quality habitat is generated and sustained by the interaction between physical processes and the landscape. These interactions create a template for chemical and biological processes that can change across a variety of spatial and temporal scales. Following this concept, this project (hereafter referred to as “the physics to fish project”) included monitoring and studies of water flows, sediments, water quality, and invertebrate and fish dynamics across a range of spatial and temporal scales and in regions relevant to resource managers tasked with managing water supplies and ecosystem health in the San Francisco Estuary. The intent of this approach was to document the habitat conditions, important processes, and interactions among them that create high-quality habitat for native fishes so that the likely effects of future management actions (for example, habitat restoration) can be objectively assessed at the local (site-specific), regional (within subregions of the estuary), and landscape (across the entire estuary and beyond) scales. Hydrodynamically, the upper estuary (landward of Carquinez Strait) is characterized by a fixed volume of tidally exchanged water (for example, tidal prism) that interacts with the existing channel network and bathymetry to create regions with differing hydrodynamics. Our results indicate that careful study of construction or reoperation of existing infrastructure to perform management actions can help (1) improve the accuracy of hydrodynamic models; (2) further understanding of ecological effects; and (3) enhance abilities to predict ecological outcomes. At the local scale, we developed a new concept called the Lagrangian to Eulerian (LE) ratio that can be used as a tool for understanding the importance of various hydrodynamic processes in specific channels or channel networks and for forecasting transport dynamics. Channels with LE ratios<1 in a channel network or in a dead-end slough are hydrodynamically able to develop an exchange zone between two parcels of water that may have different chemical and physical properties. In a dead-end channel, there is a landward region with long residence time (no-exchange zone) and a seaward region with short residence time (high-exchange zone) that are well mixed with seaward waters. At the transition (exchange zone) between the high and no-exchange regions, a gradient will form in water-quality constituents that differ in concentration between the landward and seaward waters. Turbidity affects fish habitat and has declined through time in the San Francisco Estuary. Average turbidity across the Sacramento–San Joaquin Delta (hereafter referred to as “the Delta”) is dependent on annual hydrology. In dry years, the region around Cache Slough (known regionally as the “Cache Slough Complex”) in the northern Delta is generally more turbid than Suisun Bay and the lower Sacramento River. When the Yolo By-Pass (known regionally as “Yolo Bypass”), a large flood bypass that runs parallel to the Sacramento River in the northern Delta, is not flooding and river flows are lower, sediment is usually transported into the Cache Slough Complex because flood tides dominate ebb tides, resulting in transport of suspended sediment from seaward areas of the upper estuary into the Cache Slough Complex. These hydrodynamic conditions also favor the formation of turbidity maximums (TMs) in the Cache Slough Complex. The TMs are areas of higher suspended-sediment concentration, providing higher-turbidity habitat favored by some fishes, including delta smelt, and they can also concentrate other constituents, including phytoplankton and organic carbon that can be important in food webs. Pelagic primary production by phytoplankton is the basis for Delta food webs supporting pelagic fishes such as delta smelt; however, phytoplankton abundance in the Delta has declined during recent decades. We examined how nutrients, hydrodynamics, and other factors affect phytoplankton blooms. Based on our results, we developed three new concepts of phytoplankton bloom formation in the Delta, each associated with a distinct set of hydrologic conditions. First, productivity cascades highlighted how local processes can contribute to phytoplankton blooms observed at the regional scale. Second, we observed phytoplankton blooms in the upper San Francisco Estuary that were associated with transport out of Yolo By-Pass (transport blooms). Third, we also documented a series of phytoplankton blooms that were in the confluence area at the landward edge of Suisun Bay. The conditions leading to creation of confluence phytoplankton blooms are not yet understood, but the confluence region connects the Cache Slough Complex with Suisun Marsh. Therefore, blooms in this area have the potential to spread to large areas of the Delta. At the landscape scale, the distribution of the invasive clams ( Potamocorbula amurensis and Corbicula fluminea , hereafter referred to as “ Corbicula ”) is driven by salinity. At smaller spatial scales, the distribution of either species is sensitive to multiple factors affecting survival and reproduction, complicating efforts to predict distribution and abundance without considering local-scale conditions across the area of interest. In the Cache Slough Complex, the area landward of the exchange zone in regions with LE ratio<1 were characterized by low abundances of Corbicula probably because recruits from seaward areas are not transported past the exchange zone and because there are no landward tributaries with adult Corbicula to provide an upstream source of recruits. Corbicula biomass was highest near or downstream from the exchange zone consistent with Corbicula grazing on phytoplankton produced in the exchange zone or transported from the no-exchange zone. The severity of Corbicula grazing could be reduced by manipulating the hydrodynamic characteristics of waterways; however, the beneficial and harmful effects on the organisms meant to benefit from increased phytoplankton production, including zooplankton and fish species of concern, should be thoroughly examined before manipulating hydrodynamic characteristics. The distribution of fishes at the landscape scale is generally driven by the position of the salinity field in the estuary. The physics to fish project compared distributions of fishes at Ryer Island, a tidal wetland in Suisun Bay and a region of variable salinity, with fish distributions at the Cache Slough Complex, a freshwater region. At Ryer Island, there was an absence of freshwater invasive species and an abundance of native species, such as Sacramento splittail ( Pogonichthys macrolepidotus ), tule perch ( Hysterocarpus traskii ), and Sacramento pikeminnow ( Ptychocheilus grandis ). The native species were almost exclusively captured in wetland and nearshore shallow-water habitat regardless of water-quality conditions. In the Cache Slough Complex, our regional scale objective was to elucidate how hydrodynamic-physical habitat interactions drive fish-community structure. Our studies showed that dendritic channel systems were better able to support native species, while intertidal habitats supported those species best able to exploit the transient character of the habitat. Habitats upstream from the exchange zone were especially important in supporting high numbers of native fishes relative to within or downstream from the exchange zone. Many of the native species were associated with tidal marsh in the no-exchange zone. More pelagic-oriented, mobile species, such as Striped Bass ( Morone saxatilis ), threadfin shad ( Dorosoma petenense ), and Sacramento pikeminnow, were more affected by water-quality conditions, such as turbidity. The physics to fish concept developed in this project provides a framework for designing individual projects and for considering the cumulative effects of multiple projects in a region, using the LE ratio as a guiding metric. The physics to fish concept may also provide a suitable framework for coordinating management actions. Tidal wetlands can function in several ways in the hydrodynamic framework. Relatively small tidal wetlands with short channel networks and with LE ratios>1 are not able to maintain a landward no-exchange zone or an exchange zone. This likely means that any contributions to pelagic food webs would be limited to resources derived from wetland vegetation, which can include dissolved and particulate organic matter (detritus) and populations of consumers that can increase in abundance based on those resources. The fate of the contributed production from these channels depends on the characteristics of the receiving waters seaward of the tidal wetland. If these channels join a large system such as Suisun Bay, then any contribution is likely to be rapidly dispersed in the larger volume; however, the channel junction might provide a focal point for consumers, such as fishes, to congregate and feed on material leaving the wetland on ebb tides before it is dispersed in the larger volume. Fishes might also access these resources by entering the wetland. The physics to fish project has established a foundation and several new concepts for understanding how habitat restoration can benefit native fish populations at the local and regional levels. Many of the ideas regarding habitat restoration and channel modifications outlined in this report could help guide management actions that could improve conditions for native fishes at little or no water cost beyond water already dedicated to other management actions. A complete list of products originating from this work is provided in appendix 1.

California↗
USGS1970

Chemical and biological conditions in Bald Eagle Creek and prognosis of trophic characteristics of Foster Joseph Sayers Reservoir, Centre County, Pennsylvania

Foster Joseph Sayers. Reservoir will b.e impounded on moderately fertile soils; however, its water source, Bald Eagle Creek, is a bicarbonate-water stream that is over~y-enriched with nutrients. About 650 of the 1,730 acres to be inundated in summer are subject to infestation with aquatic weeds. Nuisance algal "blooms" are expected to occur in summer. The reservoir will stratify in early summer and water · releas·ed for conservation purposes and acid neutralization will consist mostly of hypolimnetic water. This water will be nearly depleted in. dissolved oxygen and will, at times, contain relatively high concentrations of heavy metallic ions and hydrogen:!sulfide.

Pennsylvania↗
USGS2005

Evaluation of ecological risk to populations of a threatened plant from an invasive biocontrol insect

Controversy exists over estimation of ecological risk in biological control. At present, the risk to the rare, federally listed Pitcher's thistle ( Cirsium pitcheri ) in North America from Rhinocyllus conicus , a biological control weevil now feeding on many native thistles, is unknown. We hypothesized that quantification of host specificity and potential phenological overlap between insect and plant would improve assessment of the magnitude of risk. In laboratory host specificity tests, we found no significant difference in R. conicus feeding or oviposition preference between the rare C. pitcheri and the targeted exotic weed ( Carduus nutans ) or between C. pitcheri and Platte thistle ( C. canescens ), a closely related native North American species known to be affected by R. conicus . In a garden environment, R. conicus spontaneously found, oviposited, and developed completely on C. pitcheri . Taller plants with more flower heads were significantly more vulnerable, suggesting that the greatest impact is likely to be on individuals that generally contribute the most to recruitment and population persistence. For eight sites in two national parks over three years, the calculated period of expected R. conicus activity overlapped 99% and 78% of the flower heads initiated by C. pitcheri in the southern and the northern park, respectively. A demographic model suggests that population growth rate (λ) of C. pitcheri will decrease from 0.9897 to 0.8686, while time to halve the population will decrease from 66.9 to 4.9 years, under the conservative assumption that oviposition by R. conicus on C. pitcheri will occur at the same rate as on the related C. canescens . Calculated decreases in λ and t 0.5 are larger if the rate of oviposition actually observed in the laboratory tests is used. These results indicate that the weevil poses a serious quantitative, demographic risk to the threatened C. pitcheri . The study supports the suggestion that ecological data can be used to improve the quantification of risk to native nontarget plant populations within the potential physiological host range of a biological control insect.

Ecological Applications↗
USGS2025

Dusky grouse seasonal resource selection in the Great Basin isolated mountain ranges of Nevada, USA

Dusky grouse Dendragapus obscurus are a montane forest grouse species with a paucity of information regarding their temporal and spatial resource use during critical times of high mortality and reproductive output. This lack of vital data may leave dusky grouse at risk of sub-optimal management in many areas of their distribution, especially in the isolated ‘sky island' mountain ranges of the Great Basin, where high elevation habitats are surrounded by sagebrush and salt desert shrubland flats. Many of these high elevation habitats are being altered and lost rapidly from increasing disturbance events and effects of climate change. Our objective was to evaluate dusky grouse resource selection in the Schell Creek, Duck Creek, and Egan ranges of White Pine County, Nevada, USA, during breeding, nesting, brood-rearing, and over winter to identify habitats of importance for concentrating conservation actions. We found that breeding male dusky grouse selected for aspen stands, nearness to water, and nearness to forest edges, while breeding female dusky grouse selected for mountain mahogany, aspen, and mountain shrub communities (i.e. sagebrush), and areas with high predicted probability of males. Nesting female dusky grouse selected for mountain shrub communities, intermediate elevation, low ruggedness, and high percent shrub cover. Brooding female dusky grouse selected for aspen and mountain shrub communities, nearness to water, high percent shrub cover, and intermediate elevation and ruggedness. Finally, wintering female dusky grouse selected for spruce–fir and pine conifer types, high elevation and ruggedness, and farther distances from forest edges, while selecting against high percent tree canopy cover. Our results suggest that dusky grouse presence may indicate aspen and conifer community health in the Great Basin mountain ranges. Conservation priority could be placed on these limited vegetation communities, especially given the slow regeneration and growth in the region due to the arid climate and xeric soils.

Nevada↗
USGS2021

Evidence of economical territory selection in a cooperative carnivore

As an outcome of natural selection, animals are probably adapted to select territories economically by maximizing benefits and minimizing costs of territory ownership. Theory and empirical precedent indicate that a primary benefit of many territories is exclusive access to food resources, and primary costs of defending and using space are associated with competition, travel and mortality risk. A recently developed mechanistic model for economical territory selection provided numerous empirically testable predictions. We tested these predictions using location data from grey wolves ( Canis lupus ) in Montana, USA. As predicted, territories were smaller in areas with greater densities of prey, competitors and low-use roads, and for groups of greater size. Territory size increased before decreasing curvilinearly with greater terrain ruggedness and harvest mortalities. Our study provides evidence for the economical selection of territories as a causal mechanism underlying ecological patterns observed in a cooperative carnivore. Results demonstrate how a wide range of environmental and social conditions will influence economical behaviour and resulting space use. We expect similar responses would be observed in numerous territorial species. A mechanistic approach enables understanding how and why animals select particular territories. This knowledge can be used to enhance conservation efforts and more successfully predict effects of conservation actions.

Montana↗
USGS2018

Thiamine deficiency in fishes: Causes, consequences, and potential solutions

Thiamine deficiency complex (TDC) is a disorder resulting from the inability to acquire or retain thiamine (vitamin B 1 ) and has been documented in organisms in aquatic ecosystems ranging from the Baltic Sea to the Laurentian Great Lakes. The biological mechanisms leading to TDC emergence may vary among systems, but in fishes, one common outcome is high mortality among early life stages. Here, we review the causes and consequences of thiamine deficiency in fishes and identify potential solutions. First, we examine the biochemical and physiological roles of thiamine in vertebrates and find that thiamine deficiency consistently results in impaired neurological function across diverse taxa. Next, we review natural producers of thiamine, which include bacteria, fungi, and plants, and suggest that thiamine is not currently limiting for most animal species inhabiting natural aquatic environments. A survey of historic occurrences of thiamine deficiency identifies consumption of a thiamine-degrading enzyme, thiaminase, as the primary explanation for low levels of thiamine in individuals and subsequent onset of TDC. Lastly, we review conservation and management strategies for TDC mitigation ranging from evolutionary rescue to managing for a diverse forage base. As recent evidence suggests occurrences of thiamine deficiency may be increasing in frequency, increased awareness and a better mechanistic understanding of the underlying causes associated with thiamine deficiency may help prevent further population declines.

Reviews in Fish Biology and Fisheries↗
USGS1974

Pesticides data-collection activities of the U.S. Geological Survey in Texas

The water-resources investigations program of the Geological Survey has the objective of seeing that the Nation's water resources are appraised and that the necessary water data to develop and manage them efficiently are available when needed. In carrying out this objective, the Survey is the primary source of hydrologic data that are basic not only to the quantification of the water resource but also to its development and conservation. In recent years, the need has developed for the Survey to provide data and technology to predict the impact of man's activities upon the water resource and the water environment. To accomplish its mission, the Geological Survey determines the source, quantity, quality, distribution, movement, and availability of both surface and ground water. This work includes the assessment of the chemical, physical, and biological quality of water resources and its relation to various parts of the hydrologic cycle; research to improve the scientific basis of investigations and techniques; design and operation of a national water-data network; and publication of its investigations.

Texas↗
USGS2023

A highly-contiguous and annotated genome assembly of the Lesser Prairie-Chicken (Tympanuchus pallidicinctus).

The Lesser Prairie-Chicken ( Tympanuchus pallidicinctus ; LEPC) is an iconic North American prairie grouse, renowned for ornate and spectacular breeding season displays. Unfortunately, the species has disappeared across much of its historical range, with corresponding precipitous declines in contemporary population abundance, largely due to climatic and anthropogenic factors. These declines led to a 2022 US Fish and Wildlife decision to identify and list two distinct population segments (DPSs; i.e., northern and southern DPSs) as threatened or endangered under the 1973 Endangered Species Act. Herein, we describe an annotated reference genome that was generated from a LEPC sample collected from the southern DPS. We chose a representative from the southern DPS because of the potential for introgression in the northern DPS, where some populations hybridize with the Greater Prairie-Chicken ( Tympanuchus cupido ). This new LEPC reference assembly consists of 206 scaffolds, an N50 of 45 Mb, and 15,563 predicted protein-coding genes. We demonstrate the utility of this new genome assembly by estimating genome-wide heterozygosity in a representative LEPC and in related species. Heterozygosity in a LEPC sample was 0.0024, near the middle of the range (0.0003–0.0050) of related species. Overall, this new assembly provides a valuable resource that will enhance evolutionary and conservation genetic research in prairie grouse.

Genome Biology and Evolution↗
USGS2008

A genomic view of the NOD-like receptor family in teleost fish: Identification of a novel NLR subfamily in zebrafish

Background. A large multigene family of NOD-like receptor (NLR) molecules have been described in mammals and implicated in immunity and apoptosis. Little information, however, exists concerning this gene family in non-mammalian taxa. This current study, therefore, provides an in-depth investigation of this gene family in lower vertebrates including extensive phylogenetic comparison of zebrafish NLRs with orthologs in tetrapods, and analysis of their tissue-specific expression. Results. Three distinct NLR subfamilies were identified by mining genome databases of various non-mammalian vertebrates; the first subfamily (NLR-A) resembles mammalian NODs, the second (NLR-B) resembles mammalian NALPs, while the third (NLR-C) appears to be unique to teleost fish. In zebrafish, NLR-A and NLR-B subfamilies contain five and six genes respectively. The third subfamily is large, containing several hundred NLR-C genes, many of which are predicted to encode a C-terminal B30.2 domain. This subfamily most likely evolved from a NOD3-like molecule. Gene predictions for zebrafish NLRs were verified using sequence derived from ESTs or direct sequencing of cDNA. Reverse-transcriptase (RT)-PCR analysis confirmed expression of representative genes from each subfamily in selected tissues. Conclusion. Our findings confirm the presence of multiple NLR gene orthologs, which form a large multigene family in teleostei. Although the functional significance of the three major NLR subfamilies is unclear, we speculate that conservation and abundance of NLR molecules in all teleostei genomes, reflects an essential role in cellular control, apoptosis or immunity throughout bony fish. ?? 2008 Laing et al; licensee BioMed Central Ltd.

BMC Evolutionary Biology↗
USGS2016

Research on Golden-winged Warblers: Recent progress and current needs

Considerable advances have been made in knowledge about Golden-winged Warblers ( Vermivora chrysoptera ) in the past decade. Recent employment of molecular analysis, stable-isotope analysis, telemetry-based monitoring of survival and behavior, and spatially explicit modeling techniques have added to, and revised, an already broad base of published knowledge. Here, we synthesize findings primarily from recent peer-reviewed literature on Golden-winged Warblers, from this volume and elsewhere, and we identify some of the substantial remaining research needs. We have organized this synthesis by stages of the Golden-winged Warbler annual cycle. First, we discuss the relatively well-studied breeding-grounds ecology including nesting and post-fledging ecology and hybridization with closely related Blue-winged Warblers ( Vermivora cyanoptera ). Second, we discuss the much-less-studied, non-breeding-grounds ecology, including the first empirical studies of non-breeding-grounds cover-type associations and spatial and social behavioral ecology. Third, we address migratory connectivity and migration ecology, for which little is known and research has only just begun. Last, we close with cautious optimism that current knowledge is adequate to inform initial conservation and management plans for Golden-winged Warblers, and with a sobering acknowledgement of the quantity of research still needed.

Studies in Avian Biology↗
USGS2018

Use of non-invasive genetics to generate core-area population estimates of a threatened predator in the Superior National Forest, USA

Canada lynx (Lynx canadensis) are found in boreal forests of Canada and Alaska and range southward into the contiguous United States. Much less is understood about lynx in their southern range compared to northern populations. Because lynx are currently listed as threatened under the US Endangered Species Act but have recently been recommended for delisting, information on their southern populations is important for lynx recovery, conservation, and management. We used non-invasive, genetic data collected during lynx snowtracking surveys from 2012-2017 to generate core-area estimates of abundance, trend and density in selected core areas of the Superior National Forest of Minnesota, USA. Lynx abundance estimates averaged 41.8 (SD=14.7, range=24-67) during 2012-2017 in the smaller core areas and averaged 52.3 (SD=8.3, range=43-59) during 2015-2017 in the larger core areas. We found no evidence for a decrease or increase in abundance during either period. Lynx density estimates were approximately 7-10 times lower than densities of lynx in northern populations at the low of the snowshoe hare (Lepus americanus) population cycle. To our knowledge, our results are the first attempt to estimate abundance, trend and density of lynx in Minnesota using non-invasive genetic capture-mark-recapture. Estimates such as ours provide useful benchmarks for future comparisons by providing a context with which to assess 1) potential changes in forest management that may affect lynx recovery and conservation, and 2) possible effects of climate change on the depth, density, and duration of annual snow cover and correspondingly, potential effects on snowshoe hares as well.

Minnesota↗
USGS2017

Restoring tides to reduce methane emissions in impounded wetlands: A new and potent Blue Carbon climate change intervention

Coastal wetlands are sites of rapid carbon (C) sequestration and contain large soil C stocks. Thus, there is increasing interest in those ecosystems as sites for anthropogenic greenhouse gas emission offset projects (sometimes referred to as “Blue Carbon”), through preservation of existing C stocks or creation of new wetlands to increase future sequestration. Here we show that in the globally-widespread occurrence of diked, impounded, drained and tidally-restricted salt marshes, substantial methane (CH 4 ) and CO 2 emission reductions can be achieved through restoration of disconnected saline tidal flows. Modeled climatic forcing indicates that tidal restoration to reduce emissions has a much greater impact per unit area than wetland creation or conservation to enhance sequestration. Given that GHG emissions in tidally-restricted, degraded wetlands are caused by human activity, they are anthropogenic emissions, and reducing them will have an effect on climate that is equivalent to reduced emission of an equal quantity of fossil fuel GHG. Thus, as a landuse-based climate change intervention, reducing CH 4 emissions is an entirely distinct concept from biological C sequestration projects to enhance C storage in forest or wetland biomass or soil, and will not suffer from the non-permanence risk that stored C will be returned to the atmosphere.

Scientific Reports↗
USGS1996

A semiclosed recirculating water system for high-density culture of rainbow trout

Water recirculating systems for fish culture are potentially desirable for conserving water and reducing heating requirements, maximizing production of fish under water and space limitations, minimizing effluent problems, and maintaining better control over environmental factors. A semiclosed recirculating‐water system for intensive culture of rainbow trout Oncorhynchus mykiss is described. The system used self‐cleaning, rectangular, cross‐flow rearing tanks (water volume, 9 m 3 each), multistage oxygenators, microscreen filters, and a sidestreamed, fluidized‐bed biological filter. Rainbow trout were reared under continuous culture conditions, with periodic stocking and periodic selective harvesting. Makeup water entered at 47.3 L/min, producing a newwater turnover time of 9.2 h. Steady‐state and maximum fish biomass densities and loading rates were estimated to be 66.0 and 74.6 kg/m 3 and 2.50 and 2.83 kg·L –1 ·min –1 , respectively. Steady‐state gross productivity was estimated to be 6,257 kg/year (120 kg/week). Overall food conversion (feed fed/fish weight gained) was 1.33. The system performed satisfactorily and provided data for refining future designs. Subsequent modifications of equipment and operating procedures may have made the system economically viable under some pricing scenarios.

Progressive Fish-Culturist↗
USGS2017

Assessing pollinator habitat services to optimize conservation programs

Pollination services have received increased attention over the past several years, and protecting foraging area is beginning to be reflected in conservation policy. This case study considers the prospects for doing so in a more analytically rigorous manner, by quantifying the pollination services for sites being considered for ecological restoration. The specific policy context is the Conservation Reserve Program (CRP), which offers financial and technical assistance to landowners seeking to convert sensitive cropland back to some semblance of the prairie (or, to a lesser extent, forest or wetland) ecosystem that preceded it. Depending on the mix of grasses and wildflowers that are established, CRP enrollments can provide pollinator habitat. Further, depending on their location, they will generate related services, such as biological control of crop pests, recreation, and aesthetics. While offers to enroll in CRP compete based on cost and some anticipated benefits, the eligibility and ranking criteria do not reflect these services to a meaningful degree. Therefore, we develop a conceptual value diagram to identify the sequence of steps and associated models and data necessary to quantify the full range of services, and find that critical data gaps, some of which are artifacts of policy, preclude the application of benefit-relevant indicators (BRIs) or monetization. However, we also find that there is considerable research activity underway to fill these gaps. In addition, a modeling framework has been developed that can estimate field-level effects on services as a function of landscape context. The approach is inherently scalable and not limited in geographic scope, which is essential for a program with a national footprint. The parameters in this framework are sufficiently straightforward that expert judgment could be applied as a stopgap approach until empirically derived estimates are available. While monetization of benefit-relevant indicators of yield changes (crop and honey) and of habitat benefits due to enhanced pollination and pest bio-control services would be relatively straightforward, the merits of proceeding when other services cannot be valued now should be carefully considered.

Report↗
USGS2004

Fort Collins Science Center: Aquatic Systems and Technology Applications

Land and water management agencies are responsible for restoring and conserving our nation's natural resources. However, they face increasing, often competing demands for those resources, which can result in alteration or loss of critical riverine, riparian, wetland, and terrestrial habitats. Land and resource managers may be in federal, state, or local government, but all have the same need for quantitative, objective, science-based information that helps them plan, manage, and conserve the natural resources within their purview. The Aquatic Systems and Technology Applications Branch (ASTA) of the Fort Collins Science Center (FORT) encompasses a wide variety of studies, investigations, and activities that are related to providing tools and capabilities for natural resource managers. ASTA's mission is to provide managers with credible science-based information on the interrelationships among the physical, chemical, aquatic, and biological natural resources in river basins for resource management decision-making. Branch goals are to: develop and apply specific models and analysis tools for resource management issues, identify habitat and biological linkages in river corridor environments, design and evaluate specific water quality improvement features, define economic measures for natural resource benefits, investigate altered flow regime effects on native fish populations, characterize sediment transport effects in river corridor environments, and utilize advanced technology to evaluate landscape-scale changes in river basins.

Fact Sheet↗
USGS2026

Foraging benefits promote fitness in migratory mule deer

Although migration is widespread among ungulates, the fitness benefits associated with different migratory tactics have rarely been documented. Here, we evaluated a 9-year dataset on a migratory population of mule deer to test the hypothesis that long-distance migration provides access to seasonal forage which translates into demographic benefits. Mule deer that migrated long (>130 km) and medium distances (50–130 km) accessed higher forage quality and thus gained 1.3–2.7 times more fat over the growing season compared to mule deer that remained year-round as residents within a desert ecosystem. Elevated levels of fat translated to ∼20% higher probability of adult annual survival than residents. Mule deer that remained year-round in the desert portion of the study area were so resource-limited that they raised fawns at the expense of their own survival. Due to their higher levels of fat, annual survival, and fetal rates, migrants showed more robust population growth (λ = 1.03) compared to residents, which exhibited projected declines in population size over time (λ = 0.95). These results support the notion that migration translates into demographic benefits and highlight the urgent conservation work necessary to sustain diverse ungulate migrations amid habitat alteration due to climate change and an expanding web of linear barriers to movement.

Wyoming↗
USGS2023

Spatial asynchrony and cross-scale climate interactions in populations of a coldwater stream fish

Climate change affects populations over broad geographic ranges due to spatially autocorrelated abiotic conditions known as the Moran effect. However, populations do not always respond to broad-scale environmental changes synchronously across a landscape. We combined multiple datasets for a retrospective analysis of time-series count data (5–28 annual samples per segment) at 144 stream segments dispersed over nearly 1,000 linear kilometers of range to characterize the population structure and scale of spatial synchrony across the southern native range of a coldwater stream fish (brook trout, Salvelinus fontinalis ), which is sensitive to stream temperature and flow variations. Spatial synchrony differed by life stage and geographic region: it was stronger in the juvenile life stage than in the adult life stage and in the northern sub-region than in the southern sub-region. Spatial synchrony of trout populations extended to 100–200 km but was much weaker than that of climate variables such as temperature, precipitation, and stream flow. Early life stage abundance changed over time due to annual variation in summer temperature and winter and spring stream flow conditions. Climate effects on abundance differed between sub-regions and among local populations within sub-regions, indicating multiple cross-scale interactions where climate interacted with local habitat to generate only a modest pattern of population synchrony over space. Overall, our analysis showed higher degrees of response heterogeneity of local populations to climate variation and consequently population asynchrony than previously shown based on analysis of individual, geographically restricted datasets. This response heterogeneity indicates that certain local segments characterized by population asynchrony and resistance to climate variation could represent unique populations of this iconic native coldwater fish that warrant targeted conservation. Advancing the conservation of this species can include actions that identify such priority populations and incorporate them into landscape-level conservation planning. Our approach is applicable to other widespread aquatic species sensitive to climate change.

Global Change Biology↗
USGS1994

Physical, chemical, and biological characteristics of Pueblo Reservoir, Colorado, 1985-89

Physical, chemical, and biological characteristics of Pueblo Reservoir are described on the basis of data collected from spring 1985 through fall 1989. Also included are discussions of water quality of the upper Arkansas River Basin and the reservoir as they relate to reservoir operations. Pueblo Reservoir is a multipurpose, main-stem reservoir on the Arkansas River about 6 miles west of Pueblo, Colorado. At the top of its conservation pool, the reservoir is more than 9 miles long and ranges in depth from a few feet at the inflow to about 155 feet at the dam. Pueblo Reservoir derives most of its contents from the Arkansas River, which comprises native and transmountain flow. With respect to water temperature, the reservoir typically was well mixed to weakly stratified during the early spring and gradually became strongly stratified by May. The strong thermal stratification and underflow of the Arkansas River generally persisted into August, at which time the reservoir surface began to cool and the reservoir subsequently underwent fall turnover. Following fall turnover, the reservoir was stratified to some degree in the shallow upstream part and well mixed in the deeper middle and downstream parts. Reservoir residence times were affected by the extent of stratification present. When the reservoir was well mixed, residence times were as long as several months. During the summer when the reservoir was strongly stratified, reservoir releases were large, and when underflow was the prevalent flow pattern of the Arkansas River, reservoir residence times were as short as 30 days. Most particulate matter settled from the water column between the inflow and a distance of about 5 miles downstream. On occasions of large streamflows and sediment loads from the Arkansas River, particulate matter was transported completely through the reservoir. Water transparency, as measured with a Secchi disk, increased in a downstream direction from the reservoir inflow. The increase probably was a result of sediment settling from the water column in the upstream part of the reservoir. Secchi-disk depths in December through April were larger than those in May through November. Secchi-disk depths were small between May through August as inflow sediment loads and reservoir biomass increased. In the fall, Secchi-disk depths remained small possibly as the result of resuspension of sediment and detritus within the water column. Dissolved-oxygen concentrations generally were near supersaturation near the reservoir surface. Dissolved-oxygen concentrations decreased with increasing depth. On several occasions during the summer, dissolved oxygen became completely depleted in the hypolimnion of the downstream part of the reservoir. The most extensive period of anoxia that was measured was in August 1988; the bottom 12 to 30 feet of the downstream end of the reservoir was anoxic. Fall turnover typically resulted in well-oxygenated conditions throughout the water column from September or October through the spring. Values of pH ranged from 7.5 to 9.0 and typically were largest near the surface and decreased with depth. Dissolved-solids concentrations in the reservoir primarily are affected by dissolved solids in the inflow from the Arkansas River. Concentrations are largest during periods of decreased streamflows, September through April, and decrease with increasing streamflows in May through August. The median dissolved-solids concentration increased from 224 milligrams per liter at the inflow to 262 milligrams per liter at the outflow. However, a statistical analysis of dissolved solids indicated the apparent increase in dissolved-solids concentrations between the inflow and outflow was not significant. Calcium, sulfate, and bicarbonate are the major dissolved ions in Pueblo Reservoir. Concentrations of the major nutrients, nitrogen and phosphorus, varied within the reservoir because of settling of particulate matter, uptake by phytoplankton near the reservoir surface, and releases from the reservoir bottom sediments. Phosphorus was indicated to be a potentially growth-limiting nutrient in the reservoir because of its relatively small concentrations. During 1986 and 1987, the reservoir retained about 35 percent (359 tons) of the total nitrogen load and about 83 percent (203 tons) of the total phosphorus load. Settling of particulate matter from the water column and uptake by phytoplankton are the major nutrient sinks in the reservoir. Barium, iron, manganese, and zinc were the major trace elements in Pueblo Reservoir. Traceelement concentrations in the reservoir varied because of seasonality of trace-element concentrations in the Arkansas River, settling of particulate matter, and flux of trace elements from the bottom sediments. The aquatic-life standard in Pueblo Reservoir for total-recoverable iron (1,000 micrograms per liter) and the public water-supply standard for dissolved manganese (50 micrograms per liter) were exceeded on several occasions during the summer. Elevated concentrations of totalrecoverable iron and dissolved manganese in the Arkansas River during summer runoff contributed to exceedances in the upper part of the reservoir. Flux of manganese from the reservoir bottom sediments during periods of low or depleted dissolved-oxygen concentrations contributed to exceedances in the deeper, downstream parts of the reservoir. Concentrations of lead, mercury, and zinc were elevated in the reservoir bottom sediments and may be the result of metal-mine drainage in the upper Arkansas River Basin. Median concentrations of total organic carbon ranged from 3.1 to 4.5 milligrams per liter in May through September and from 2.5 to 3.5 milligrams per liter in October through April. Totalorganic-carbon concentrations in the reservoir were largest in the summer when streamflows and total-organic-carbon concentrations are largest in the Arkansas River. Total-organic-carbon concentrations in the reservoir decrease downstream from the reservoir inflow because of settling of particulate organic carbon. Levels of gross-alpha and gross-beta radioactivity generally were relatively low. In 7 of 31 samples collected, dissolved gross-alpha radioactivity, as natural uranium, exceeded 5 picocuries per liter, the level at which additional radiochemical analyses are recommended for drinking-water supplies. Potential sources of uranium in Pueblo Reservoir include weathering of exposed uranium ore deposits in the upper Arkansas River Basin and a uranium milling operation near Canon City. Phytoplankton densities and biovolumes measured during the winter, spring, and fall generally were indicative of a small to moderate algal biomass. Phytoplankton production tended to be largest during the summer. During the summer, phytoplankton densities and biovolumes generally were indicative of a moderate to large algal biomass. However, excessive algal production and biomass periodically occurred during the spring, summer, and fall. Three species of phytoplankton that are specifically associated with taste-and-odor problems in drinking water were identified on several occasions in water samples collected from Pueblo Reservoir. Reservoir operations and hydrodynamics can substantially affect processes that affect reservoir water quality. Stratification, underflow, and hypolimnetic withdrawals affect concentrations of dissolved solids, availability of nutrients, and concentrations of metals in the reservoir. Stratification impedes the mixing of epilimnetic and hypolimnetic waters, and the prevalent underflow that occurs during the summer results in a decrease in the potential dilution of inflowing river water with reservoir water. The underflow also decreases the maximum available nutrient load to the euphotic zone, which can, in turn, offset the maximum algal growth potential. Increased dissolved-solids, nutrient, and metal concentrations that occur in the hypolimnion during the summer are partially offset by hypolimnetic withdrawals.

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