Geology topics

D. R. Smith

Publications and source records attributed to D. R. Smith.

At least 19 recordsLinked to original sources

USGS2018

Temporal evaluation of estrogenic endocrine disruption markers in smallmouth bass (Micropterus dolomieu) reveals seasonal variability in intersex

A reconnaissance project completed in 2009 identified intersex and elevated plasma vitellogenin in male smallmouth bass inhabiting the Missisquoi River, VT. In an attempt to identify the presence and seasonality of putative endocrine disrupting chemicals or other factors associated with these observations, a comprehensive reevaluation was conducted between September 2012 and June 2014. Here, we collected smallmouth bass from three physically partitioned reaches along the river to measure biomarkers of estrogenic endocrine disruption in smallmouth bass. In addition, polar organic chemical integrative samples (POCIS) were deployed to identify specific chemicals associated with biological observations. We did not observe biological differences across reaches indicating the absence of clear point source contributions to the observation of intersex. Interestingly, intersex prevalence and severity decreased in a stepwise manner over the timespan of the project. Intersex decreased from 92.8% to 28.1%. The only significant predictor of intersex prevalence was year of capture, based on logistic regression analysis. The mixed model of fish length and year-of-capture best predicted intersex severity. Intersex severity was also significantly different across late summer and early spring collections indicating seasonal changes in this metric. Plasma vitellogenin and liver vitellogenin Aa transcript abundance in males did not indicate exposure to estrogenic endocrine disrupting chemicals at any of the four sample collections. Analysis of chemicals captured by the POCIS as well as results of screening discrete water samples or POCIS extracts did not indicate the contribution of appreciable estrogenic chemicals. It is possible that unreported changes in land-use activity have ameliorated the problem, and our observations indicate recovery. Regardless, this work clearly emphasizes that single, snap shot sampling for intersex may not yield representative data given that the manifestation of this condition within a population can change dramatically over time.

Vermont↗

USGS2014

Management and monitoring of the endangered Shenandoah salamander under climate change: Workshop report 10-12 April 2012

Here we report on a structured decision making (SDM) process to identify management strategies to ensure persistence of the federally endangered Shenandoah salamander (Plethodon shenandoah), given that it may be at increased extinction risk under projected climate change. The focus of this report is the second of two SDM workshops; in the first workshop, participants developed a prototype of the decision, including problem frame, management objectives and a suite of potential management strategies, predictive models to inform the decision and link alternatives with the objectives to identify potential solutions, and identified data needs to reduce key uncertainties in the decision. Participants in this second workshop included experts in National Park Service policy at multiple administrative levels, who refined objectives, further evaluated the initial management alternatives, and discussed policy constraints on implementing active management for the species and its high-elevation habitat. The conclusion of the second workshop was similar to that of the first: the current state of information and objectives suggest that there is some value in considering active management to reduce the long-term extinction risk for the species, though there are institutional conservative policies to implementing active management at range-wide scales. The workshop participants also emphasized a conservative NPS management philosophy, including caution in implementing management actions that may ultimately harm the system, a stated assumption that ecosystem changes were “natural” unless demonstrated otherwise (therefore not warranting active management to mitigate), and a need to demonstrate that extinction risk is tied to anthropogenic influence prior to taking active management to mitigate specific anthropogenic influences. Even within a protected area having minimal human disturbance, intertwined environmental variables and interspecific relationships that drive population trends challenge our ability to demonstrate direct links with (anthropogenically influenced) climate change and the decline of a species. Thus while this policy may reduce the potential for injurious management, it may also necessitate extraordinary resources to reduce uncertainty regarding fundamental drivers of species decline prior to taking action.

Natural Resource Report↗

USGS2012

Patterns of mortality in free-ranging California condors (Gymnogyps californianus)

We document causes of death in free-ranging California Condors (Gymnogyps californianus) from the inception of the reintroduction program in 1992 through December 2009 to identify current and historic mortality factors that might interfere with establishment of self-sustaining populations in the wild. A total of 135 deaths occurred from October 1992 (the first post-release death) through December 2009, from a maximum population-at-risk of 352 birds, for a cumulative crude mortality rate of 38%. A definitive cause of death was determined for 76 of the 98 submitted cases, 70% (53/76) of which were attributed to anthropogenic causes. Trash ingestion was the most important mortality factor in nestlings (proportional mortality rate [PMR] 73%; 8/11), while lead toxicosis was the most important factor in juveniles (PMR 26%; 13/50) and adults (PMR 67%; 10/15). These results demonstrate that the leading causes of death at all California Condor release sites are anthropogenic. The mortality factors thought to be important in the decline of the historic California Condor population, particularly lead poisoning, remain the most important documented mortality factors today. Without effective mitigation, these factors can be expected to have the same effects on the sustainability of the wild populations as they have in the past.

Journal of Wildlife Diseases↗

USGS2011

Beach characteristics mitigate effects of onshore wind on horseshoe crab spawning: Implications for matching with shorebird migration in Delaware Bay

Disruption of food availability by unfavorable physical processes at energetically demanding times can limit recruitment of migratory species as predicted by the match–mismatch hypothesis. Identification and protection of disruption‐resistant habitat could contribute to system resilience. For example, horseshoe crab Limulus polyphemus spawning and shorebird stopover must match temporally in Delaware Bay for eggs to be available to shorebirds. Onshore winds that generate waves can create a mismatch by delaying horseshoe crab spawning. We examined effects of beach characteristics and onshore winds on spawning activity at five beaches when water temperatures were otherwise consistent with early spawning activity. Onshore winds resulted in reduced spawning activity during the shorebird stopover, when spawning typically peaks in late May. During the period with high onshore wind, egg density was highest on the foreshore exposed to the lowest wave heights. Onshore wind was low in early June, and spawning and egg densities were high at all sites, but shorebirds had departed. Beaches that can serve as a refuge from wind and waves can be identified by physical characteristics and orientation to prevailing winds and should receive special conservation status, especially in light of predicted increases in climate change‐induced storm frequency. These results point to a potential conservation strategy that includes coastal management for adapting to climate change‐induced mismatch of migrations.

Delaware↗

USGS2011

Tag-based estimates of annual fishing mortality of a mixed atlantic coastal stock of striped bass

Tag-based estimates of annual survival and fishing mortality rates supplement annual stock assessments of migratory striped bass Morone saxatilis in the interjurisdictional fishery along the Atlantic coast. We estimated a 17-year time series of annual survival and fishing mortality (F) rates for striped bass (>711 mm) tagged during winter trawl studies (1988-2004) off the coasts of North Carolina and Virginia. The geographic and temporal distributions of tag recoveries were consistent with published patterns of striped bass migration and indicated that this southern overwintering aggregate of striped bass is composed of mixed stocks. Incremental increases in bias-adjusted annual fishing mortality rates (from 0.00-0.26) and decreases in the proportion of fish released alive (from 0.762-0.198) coincided with periods of regulatory change during the 17-year time frame. Our estimates of F fall below the current management triggers and should be considered along with other estimates of F within the striped bass management process.

Transactions of the American Fisheries Society↗

USGS2011

Evaluation of single and two-stage adaptive sampling designs for estimation of density and abundance of freshwater mussels in a large river

Reliable estimates of abundance are needed to assess consequences of proposed habitat restoration and enhancement projects on freshwater mussels in the Upper Mississippi River (UMR). Although there is general guidance on sampling techniques for population assessment of freshwater mussels, the actual performance of sampling designs can depend critically on the population density and spatial distribution at the project site. To evaluate various sampling designs, we simulated sampling of populations, which varied in density and degree of spatial clustering. Because of logistics and costs of large river sampling and spatial clustering of freshwater mussels, we focused on adaptive and non-adaptive versions of single and two-stage sampling. The candidate designs performed similarly in terms of precision (CV) and probability of species detection for fixed sample size. Both CV and species detection were determined largely by density, spatial distribution and sample size. However, designs did differ in the rate that occupied quadrats were encountered. Occupied units had a higher probability of selection using adaptive designs than conventional designs. We used two measures of cost: sample size (i.e. number of quadrats) and distance travelled between the quadrats. Adaptive and two-stage designs tended to reduce distance between sampling units, and thus performed better when distance travelled was considered. Based on the comparisons, we provide general recommendations on the sampling designs for the freshwater mussels in the UMR, and presumably other large rivers.

River Research and Applications↗

USGS2011

Multi-species attributes as the condition for adaptive sampling of rare species using two-stage sequential sampling with an auxiliary variable

Assessing populations of rare species is challenging because of the large effort required to locate patches of occupied habitat and achieve precise estimates of density and abundance. The presence of a rare species has been shown to be correlated with presence or abundance of more common species. Thus, ecological community richness or abundance can be used to inform sampling of rare species. Adaptive sampling designs have been developed specifically for rare and clustered populations and have been applied to a wide range of rare species. However, adaptive sampling can be logistically challenging, in part, because variation in final sample size introduces uncertainty in survey planning. Two-stage sequential sampling (TSS), a recently developed design, allows for adaptive sampling, but avoids edge units and has an upper bound on final sample size. In this paper we present an extension of two-stage sequential sampling that incorporates an auxiliary variable (TSSAV), such as community attributes, as the condition for adaptive sampling. We develop a set of simulations to approximate sampling of endangered freshwater mussels to evaluate the performance of the TSSAV design. The performance measures that we are interested in are efficiency and probability of sampling a unit occupied by the rare species. Efficiency measures the precision of population estimate from the TSSAV design relative to a standard design, such as simple random sampling (SRS). The simulations indicate that the density and distribution of the auxiliary population is the most important determinant of the performance of the TSSAV design. Of the design factors, such as sample size, the fraction of the primary units sampled was most important. For the best scenarios, the odds of sampling the rare species was approximately 1.5 times higher for TSSAV compared to SRS and efficiency was as high as 2 (i.e., variance from TSSAV was half that of SRS). We have found that design performance, especially for adaptive designs, is often case-specific. Efficiency of adaptive designs is especially sensitive to spatial distribution. We recommend that simulations tailored to the application of interest are highly useful for evaluating designs in preparation for sampling rare and clustered populations.

Conference Paper↗

USGS2010

Modeling distribution of dispersal distances in male white-tailed deer

Dispersal distances and their distribution pattern are important to understanding such phenomena as disease spread and gene flow, but oftentimes dispersal characteristics are modeled as a fixed trait for a given species. We found that dispersal distributions differ for spring and autumn dispersals of yearling male white-tailed deer (Odocoileus virginianus) but that combined data can be adequately modeled based on a log-normal distribution. We modeled distribution of dispersal distances from 3 distinct populations in Pennsylvania and Maryland, USA, based on the relationship between percent forest cover and mean dispersal distance and the relationship between mean and variance of dispersal distances. Our results suggest distributions of distances for dispersing yearling male white-tailed deer can be modeled by simply measuring a readily obtained landscape metric, percent forest cover, which could be used to create generalized spatially explicit disease or gene.

Journal of Wildlife Management↗

USGS2010

Feather lead concentrations and 207Pb/206Pb ratios reveal lead exposure history of California Condors (Gymnogyps californianus)

Lead poisoning is a primary factor impeding the survival and recovery of the critically endangered California Condor ( Gymnogyps californianus ). However, the frequency and magnitude of lead exposure in condors is not well-known in part because most blood lead monitoring occurs biannually, and biannual blood samples capture only ∼10% of a bird’s annual exposure history. We investigated the use of growing feathers from free-flying condors in California to establish a bird’s lead exposure history. We show that lead concentration and stable lead isotopic composition analyses of sequential feather sections and concurrently collected blood samples provided a comprehensive history of lead exposure over the 2−4 month period of feather growth. Feather analyses identified exposure events not evident from blood monitoring efforts, and by fitting an empirically derived timeline to actively growing feathers, we were able to estimate the time frame for specific lead exposure events. Our results demonstrate the utility of using sequentially sampled feathers to reconstruct lead exposure history. Since exposure risk in individuals is one determinant of population health, our findings should increase the understanding of population-level effects from lead poisoning in condors; this information may also be helpful for other avian species potentially impacted by lead poisoning.

California↗

USGS2010

Effects of nourishment on the form and function of an estuarine beach

Beach nourishment programs in estuaries can enhance shore protection, but they decrease habitat suitability by creating higher berms and wider backshores than would occur under natural conditions. Use of sediment sources from outside the area can result in sedimentary characteristics that differ from native sediments on the surface and at depth, altering conditions for both aeolian transport to dunes and interstitial fauna. Field data were gathered on an estuarine beach to determine differences in beach profile change, depth of sediment reworking, and potential for aeolian transport due to nourishment. Data were gathered over a 20-month period 6 months prior to nourishment, 3 days after nourishment, 6 months after nourishment, and 14 months after nourishment when the beach was mechanically graded to eliminate a vertical scarp in the foreshore. The nourishment consisted of 87,900m3 of sediment emplaced to create a 1.34-km-long, 30-m-wide berm 2.3m above mean tide level. Seven percent of the fill was removed from the profile within 6 months after nourishment, accompanied by 7m in horizontal retreat of the artificial berm. The fill on the backshore remained above the zone of wave influence over a winter storm season and was separated from the active foreshore by the scarp. Nourished sediments on the intertidal foreshore were significantly different from native sediments to a depth of 0.20m below the surface. A lag surface of coarse sediment formed by deflation on the backshore, resulting in a rate of aeolian transport <2% of the rate on the wave-reworked foreshore.Nourishing a beach to a level higher than would be created by natural processes can create a profile that compartmentalizes and restricts transport of sediment and movement of fauna between the foreshore and backshore. Mechanical grading can eliminate the scarp, allow for faunal interaction, and reestablish wave reworking of the backshore that will facilitate aeolian transport. Using an initial design to nourish the backshore at a lower elevation and allowing a dune to provide protection against flooding during major storms could prevent a scarp from forming and eliminate the need for follow-up grading. ?? 2010 Elsevier B.V.

Ecological Engineering↗

USGS2009

Effect of imperfect detectability on adaptive and conventional sampling: Simulated sampling of freshwater mussels in the upper Mississippi River

Adaptive sampling designs are recommended where, as is typical with freshwater mussels, the outcome of interest is rare and clustered. However, the performance of adaptive designs has not been investigated when outcomes are not only rare and clustered but also imperfectly detected. We address this combination of challenges using data simulated to mimic properties of freshwater mussels from a reach of the upper Mississippi River. Simulations were conducted under a range of sample sizes and detection probabilities. Under perfect detection, efficiency of the adaptive sampling design increased relative to the conventional design as sample size increased and as density decreased. Also, the probability of sampling occupied habitat was four times higher for adaptive than conventional sampling of the lowest density population examined. However, imperfect detection resulted in substantial biases in sample means and variances under both adaptive sampling and conventional designs. The efficiency of adaptive sampling declined with decreasing detectability. Also, the probability of encountering an occupied unit during adaptive sampling, relative to conventional sampling declined with decreasing detectability. Thus, the potential gains in the application of adaptive sampling to rare and clustered populations relative to conventional sampling are reduced when detection is imperfect. The results highlight the need to increase or estimate detection to improve performance of conventional and adaptive sampling designs.

Environmental Monitoring and Assessment↗

USGS2009

Movements of brown bullheads in Presque Isle Bay, Lake Erie, Pennsylvania

Presque Isle Bay, Lake Erie, was listed as an Area of Concern (AOC) by the International Joint Commission in part because of the high incidence of external tumor in brown bullheads. Verifying the source of the possible contaminant exposure is critical to addressing the AOC designation. We used telemetry tracking (n = 49 fish) to test the hypothesis that adult bullheads captured within the bay during spawning season do not exit the bay during the post-spawning summer and fall months. We analyzed genetic variation at 15 microsatellite loci for 112 adult fish from 5 locations, 4 inside the bay and 1 outside, in order to test for possible differences. Data from fixed-station receivers suggested fish did not leave Presque Isle Bay during the study period. Predicted locations outside Presque Isle Bay were only 0.1% of all predicted locations and were below the 0.2% error rate based on known manual relocations. However, there was evidence for movement within Presque Isle Bay. Most movement was between Misery Bay or Lagoons and the open bay area. Whereas telemetry results showed tendency for adult site fidelity, genetic results showed no differences among locations, indicating that there is a single panmictic population. Our telemetry data suggest that brown bullheads are likely a useful indicator species for environmental conditions in Presque Isle Bay, since adults likely are retained in the system.

Journal of Great Lakes Research↗

USGS2009

Proximate causes of sexual size dimorphism in horseshoe crabs (Limulus Polyphemus) of the Delaware Bay

The unresolved status of the proximate cause for sexual size dimorphism in horseshoe crabs has practical consequence, because harvest recommendations rely on assumptions about sex-specific growth and maturity. We propose and evaluate competing hypotheses for the proximate cause of sexual size dimorphism in horseshoe crabs (Limulus polyphemus) by comparing size and estimated age frequencies from spring-captured juveniles (n = 9,075) and adults (n = 36,274) to predictions from the competing hypotheses. We found that the number of identifiable juvenile size distributions was greater for females than males and the probability of remaining a juvenile was higher for females than males among older juveniles. These findings are consistent with males maturing earlier than females. Molt increments and mean sizes were similar for male and female juveniles, which is not consistent with differential growth. Among adults, one size distribution accounted for ???90% of females regardless of carapace wear. Also, size ratio of adult females to males was 1.26, and size ratio of the largest adult to largest juvenile female was 1.28. These observations are not consistent with females continuing to molt as adults. Differential-maturity is the most parsimonious explanation for sexual size dimorphism in Delaware Bay horseshoe crabs. In addition, because of a low frequency of juvenile females >195 mm relative to adult females and male-biased sex ratios starting at 105 mm, we hypothesize that females, more than males, migrate as older juveniles and mature in the ocean. Management implications include that (1) minimum size limits, as previously suggested, would not allocate harvest to older adults as intended because size does not indicate age among adult horseshoe crabs in the Delaware Bay population, and (2) the Shuster Horseshoe Crab Reserve, which has reduced harvest on the continental shelf, could be protecting older juveniles and newly mature females from harvest prior to their first spawn.

Journal of Shellfish Research↗

USGS2008

Evaluating sampling designs by computer simulation: A case study with the Missouri bladderpod

To effectively manage rare populations, accurate monitoring data are critical. Yet many monitoring programs are initiated without careful consideration of whether chosen sampling designs will provide accurate estimates of population parameters. Obtaining accurate estimates is especially difficult when natural variability is high, or limited budgets determine that only a small fraction of the population can be sampled. The Missouri bladderpod, Lesquerella filiformis Rollins, is a federally threatened winter annual that has an aggregated distribution pattern and exhibits dramatic interannual population fluctuations. Using the simulation program SAMPLE, we evaluated five candidate sampling designs appropriate for rare populations, based on 4 years of field data: (1) simple random sampling, (2) adaptive simple random sampling, (3) grid-based systematic sampling, (4) adaptive grid-based systematic sampling, and (5) GIS-based adaptive sampling. We compared the designs based on the precision of density estimates for fixed sample size, cost, and distance traveled. Sampling fraction and cost were the most important factors determining precision of density estimates, and relative design performance changed across the range of sampling fractions. Adaptive designs did not provide uniformly more precise estimates than conventional designs, in part because the spatial distribution of L. filiformis was relatively widespread within the study site. Adaptive designs tended to perform better as sampling fraction increased and when sampling costs, particularly distance traveled, were taken into account. The rate that units occupied by L. filiformis were encountered was higher for adaptive than for conventional designs. Overall, grid-based systematic designs were more efficient and practically implemented than the others. ?? 2008 The Society of Population Ecology and Springer.

Population Ecology↗

USGS2008

An adaptive two-stage sequential design for sampling rare and clustered populations

How to design an efficient large-area survey continues to be an interesting question for ecologists. In sampling large areas, as is common in environmental studies, adaptive sampling can be efficient because it ensures survey effort is targeted to subareas of high interest. In two-stage sampling, higher density primary sample units are usually of more interest than lower density primary units when populations are rare and clustered. Two-stage sequential sampling has been suggested as a method for allocating second stage sample effort among primary units. Here, we suggest a modification: adaptive two-stage sequential sampling. In this method, the adaptive part of the allocation process means the design is more flexible in how much extra effort can be directed to higher-abundance primary units. We discuss how best to design an adaptive two-stage sequential sample. ?? 2008 The Society of Population Ecology and Springer.

Population Ecology↗

USGS2008

Physical and chemical changes in the foreshore of an estuarine beach: Implications for viability and development of horseshoe crab Limulus polyphemus eggs

Knowledge of conditions that favor development of eggs is important for management of species whose population growth is sensitive to early life history survival. Viability and development of the eggs of horseshoe crabs Limulus polyphemus on a sand and gravel beach were evaluated using data gathered on Delaware Bay, USA, from 18 May to 19 June 2004. Eggs were transplanted to pouches and buried in the foreshore for up to 6 wk. Viability and developmental stage were estimated as a function of oxygen and temperature gradients across the foreshore. These gradients were related to the characteristics of the intertidal foreshore sediments, beach water table changes, and frequency of inundation due to tide and swash/backwash processes. Results demonstrate the importance of interstitial temperature for development to larvae and the passive role of sediment characteristics on moisture retention and temperature. Percentage of eggs remaining in egg stage was similar across the foreshore, but more eggs developed to embryos at 0.45 of foreshore width, where moisture and gravel content were greater and interstitial temperature was lower. More eggs developed to larvae at 0.60 and 0.75 of foreshore width, where moisture and gravel content were less but interstitial temperature was higher. The beach above 0.75 of foreshore width came under the influence of wave action or full tidal inundation only during high wave heights or spring tides, and pouches at 0.75 of foreshore width were inundated only 19% of the time. Periodic wetting at this elevation did not reduce overall viability of the eggs. High wave energy events resulted in sediment activation depths to pouches at 0.30 of foreshore width, where loss of eggs due to wave activation was the most important control on the development of eggs. ?? Inter-Research 2008.

Marine Ecology Progress Series↗

USGS2007

Continuous monitoring of dissolved oxygen and total dissolved gas pressure based on head-space partial pressures

We describe an instrument prototype that measures total dissolved gas pressure (TGP) and dissolved oxygen (DO) without need for standard wetted probe membranes or gas permeable tubing. Measurements were based instead on gas-phase partial pressures that develop within the head-space of a pressure vessel, and on Henry's Law. Performance trials established that differences between standard instrumentation and test instrument OP readings average -1.6-mm Hg (SD = 2.19, range -4.8 to -5.3) within the ΔP range of -72 to 123-mm Hg. Additional trials demonstrated the ability of the instrument to closely follow positive and negative changes in TGP at rates approaching 30-mm Hg/h. Here, the difference between test and standard instrumentation derived TGP averaged 3.4-mm Hg (range 0–41). Differences in ΔP measured by test instrument and gasometer increased with water throughput; mean differences were -3.9, -4.3, and -6.0 for water throughput of 4.6, 6.7, and 7.8 L/min, respectively. However, time to reach 90% of the steady-state instrument reading was highest for low water throughput; equilibrium times averaged 90.9, 44.4, and 44.7 min for water throughput of 4.6, 6.7, 7.8 L/min, respectively. Differences between titration and test-instrumentation based DO measurements were acceptable, averaging -0.11 mg/L (SD = 0.41, range -0.85 to 0.85) over DO from 3.3 to 19.2 mg/L and for 11.1 and 24.2 C. Whereas test instrument DO readings were indistinguishable from Winkler titration at 24.2 C; at 11.1 C there was a tendency for test instrument readings to be lower than Winkler titration at DO < 14 mg/L and higher at DO > 14 mg/L. Trials conducted under biological fouling conditions demonstrated the test instrument's ability to operate with 30% of the maintenance required by standard instrumentation.

Journal of the World Aquaculture Society↗

USGS2007

An age-structured population model for horseshoe crabs in the Delaware Bay area to assess harvest and egg availability for shorebirds

The objective of this simulation study was to create an age-structured population model for horseshoe crabs ( Limulus polyphenols ) in the Delaware Bay region using best available estimates of age-specific mortality and recent harvest levels. Density dependence was incorporated using a spatial model relating egg mortality with abundance of spawning females. Combinations of annual female harvest (0, 50, 100, and 200 thousand), timing of female harvest (before or after spawning), and three levels of density-dependent egg mortality were simulated. The probability of the population increasing was high (> 80%) with low and medium egg mortality and harvest less than 200 thousand females per year. Under the high egg mortality case, the probability of the population increasing was < 50% regardless of harvest. Harvest occurring after spawning increased the probability of population growth. The number of eggs available to shorebirds was highest when egg mortality was lowest and female abundance was at its highest levels. Although harvest and egg mortality influenced population growth and food availability to shorebirds, sensitivity and elasticity analyses showed that early-life stage mortality, age 0 mortality in particular, was the most important parameter for population growth. Our modeling results indicate areas where further research is needed and suggest effective management will involve a combination of harvest management and actions to increase early juvenile survival.

Delaware↗