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Shannon K. Brewer

Publications and source records attributed to Shannon K. Brewer.

At least 91 records · Page 5Linked to original sources
USGS2016

Advancing environmental flow science: Developing frameworks for altered landscapes and integrating efforts across disciplines.

Environmental flows represent a legal mechanism to balance existing and future water uses and sustain non-use values. Here, we identify current challenges, provide examples where they are important, and suggest research advances that would benefit environmental flow science. Specifically, environmental flow science would benefit by (1) developing approaches to address streamflow needs in highly modified landscapes where historic flows do not provide reasonable comparisons, (2) integrating water quality needs where interactions are apparent with quantity but not necessarily the proximate factor of the ecological degradation, especially as frequency and magnitudes of inflows to bays and estuaries, (3) providing a better understanding of the ecological needs of native species to offset the often unintended consequences of benefiting non-native species or their impact on flows, (4) improving our understanding of the non-use economic value to balance consumptive economic values, and (5) increasing our understanding of the stakeholder socioeconomic spatial distribution of attitudes and perceptions across the landscape. Environmental flow science is still an emerging interdisciplinary field and by integrating socioeconomic disciplines and developing new frameworks to accommodate our altered landscapes, we should help advance environmental flow science and likely increase successful implementation of flow standards.

Environmental Management↗
USGS2016

Landscape and flow metrics affecting the distribution of a federally-threatened fish: Improving management, model fit, and model transferability

Truncated distributions of pelagophilic fishes have been observed across the Great Plains of North America, with water use and landscape fragmentation implicated as contributing factors. Developing conservation strategies for these species is hindered by the existence of multiple competing flow regime hypotheses related to species persistence. Our primary study objective was to compare the predicted distributions of one pelagophil, the Arkansas River Shiner Notropis girardi , constructed using different flow regime metrics. Further, we investigated different approaches for improving temporal transferability of the species distribution model (SDM). We compared four hypotheses: mean annual flow (a baseline), the 75th percentile of daily flow, the number of zero-flow days, and the number of days above 55th percentile flows, to examine the relative importance of flows during the spawning period. Building on an earlier SDM, we added covariates that quantified wells in each catchment, point source discharges, and non-native species presence to a structured variable framework. We assessed the effects on model transferability and fit by reducing multicollinearity using Spearman’s rank correlations, variance inflation factors, and principal component analysis, as well as altering the regularization coefficient (β) within MaxEnt. The 75th percentile of daily flow was the most important flow metric related to structuring the species distribution. The number of wells and point source discharges were also highly ranked. At the default level of β, model transferability was improved using all methods to reduce collinearity; however, at higher levels of β, the correlation method performed best. Using β = 5 provided the best model transferability, while retaining the majority of variables that contributed 95% to the model. This study provides a workflow for improving model transferability and also presents water-management options that may be considered to improve the conservation status of pelagophils.

Great Plains of North America↗
USGS2016

Habitat use and growth of the western painted crayfish Orconectes palmeri longimanus

Identifying ontogenetic shifts in habitat use by aquatic organisms is necessary for improving conservation strategies; however, our ability to designate life stages based on surrogate metrics (i.e., length) is questionable without validation. This study identified growth patterns of age-0 western painted crayfish Orconectes palmeri longimanus (Faxon, 1898) reared in the laboratory, provided support for field-based designations of age-0 lengths, and identified microhabitat factors important to adult and juvenile presence from field collections. Two growth periods of a laboratory crayfish population were described using a broken line model: a rapid, early-growth period (weeks 2-20, slope = 0.81 ± 0.03SE), and a slower, late-growth period (weeks 22-50, slope = 0.13 ± 0.03SE). A smoothed curve was generated to represent the size distribution of juveniles from our laboratory population to determine the probability that an age-0 crayfish from our laboratory population had a carapace length (CL) similar to that found in previous field studies using onset of maturity (22.4 mm CL). We determined that the probability of the age-0 crayfish in our summer laboratory population exceeding 22.4 mm CL was 0.06. The threshold between the lower 0.95 and upper 0.05 probabilities was 22.9 mm CL, confirming previous field observations of onset at maturity. We used this threshold to identify juveniles and adults from our field collections, and found that both life stages were positively associated with coarse substrate and negatively associated with water depth. Adults, however, were negatively related to gravel, whereas juveniles showed a positive relationship. This result is reflective of the relationship between crayfish body size and refuge use within the interstitial spaces of substrates, whereby adult crayfish are unable to seek refuge in the small interstitial spaces of gravel.

Journal of Crustacean Biology↗
USGS2016

The Impacts of flow alterations to crayfishes in Southeastern Oklahoma, with an emphasis on the mena crayfish (orconectes menae)

Human activities can alter the environment to the point that it is unsuitable to the native species resulting in a loss of biodiversity. Ecologists understand the importance of biodiversity and the conservation of vulnerable species. Species that are narrowly endemic are considered to be particularly vulnerable because they often use specific habitats that are highly susceptible to human disturbance. The basic components of species conservation are 1) delineation of the spatial distribution of the species, 2) understanding how the species interacts with its environment, and 3) employing management strategies based on the ecology of the species. In this study, we investigated several crayfish species endemic to the Ouachita Mountains in Oklahoma and Arkansas. We established the spatial distributions (i.e., range) of the crayfish using Maximum Entropy species distribution modeling. We then investigated crayfish habitat use with quantitative sampling and a paired movement study. Finally, we evaluated the ability of crayfish to burrow under different environmental conditions in a controlled laboratory setting. Crayfish distribution at the landscape scale was largely driven by climate, geology and elevation. In general, the endemic crayfish in this study occurred above 300-m elevation where the geology was dominated by sandstone and shale, and rainfall totals were the highest compared to the rest of the study region. Our quantitative data indicated crayfish did not select for specific habitat types at the reach scale; however, crayfish appeared to continue to use shallow and dry habitat even as the streams dried. Movement by passive integrated transponder (PIT) tagged crayfish was highly variable but crayfish tended to burrow in response to drought rather than migrate to wet habitat. Controlled laboratory experiments revealed smaller substrate size (pebble) restricted crayfish burrowing more than larger substrates (cobble). We also found excess fine sediment restricted crayfish burrowing regardless of dominant substrate size. Our results suggest climate change and sedimentation resulting from land-use practices, combined with increased water withdrawals have the potential to alter crayfish distributions and affect persistence of some crayfish populations.

Report↗
USGS2016

Identification of Neosho Smallmouth Bass (Micropterus dolomieu velox) stocks for possible introduction into Grand Lake, Oklahoma

Stocking black basses (Micropterus spp.) is a common practice used to increase angling opportunities in impoundments; however, when non-native black basses are introduced they often invade riverine habitats where they threaten the persistence of other fishes, including native black basses. Neosho Smallmouth Bass (M. dolomieu velox) is endemic to portions of the Ozark Highlands and Boston Mountains ecoregions and is threatened by introductions of non-native Smallmouth Bass (“SMB”) forms. Because of recent interest in stocking SMB into Grand Lake o’ the Cherokees, we assessed the suitability of local Neosho SMB populations as potential broodstock sources by assessing introgression with non-native SMB forms, as well as characterizing population structure and genetic diversity. The majority of Neosho SMB populations contained low, but non-negligible, genomic proportions of two genetically distinct non-native SMB forms. Introgression was highest in the Illinois River upstream of Lake Tenkiller, where Tennessee ‘lake strain’ SMB were stocked in the early 1990’s. We recovered three genetically distinct clusters of Neosho SMB at the uppermost hierarchical level of population structure: a distinct Illinois River cluster and two Grand River clusters that appear to naturally mix at some sites. Genetic diversity measures generally increased with stream size, and smaller populations with low diversity measures may benefit from immigration of novel genetic material. Overall, introgression with non-native SMB forms appears to pose a prominent threat to Neosho SMB; however, relatively intact populations of Neosho SMB exist in some Grand Lake o’ the Cherokees tributaries. Results could be used in developing a stocking program that promotes and sustains existing genetic diversity within and among Neosho SMB populations.

Cooperator Science Series↗
USGS2015

Biology and ecology of Neosho Smallmouth Bass and the genetically distinct Ouachita lineage

We reviewed the published and gray literature associated with Neosho Smallmouth Bass and the genetically-distinct Ouachita lineage. Substantial inter-stream variation appears to occur among these populations, particularly related to age. The Neosho subspecies is more abundant, grows faster, and lives longer than the genetically-distinct Ouachita lineage. Recruitment is highly variable among streams for both populations and appears to be related to some undescribed aspects of hydrology but also likely reflect bias due to sampling gear. Information on annual and seasonal trends is lacking for the Neosho subspecies and the Ouachita lineages, particularly as related to the spawning period. Conservation efforts for these lineages might benefit from agencies partnering to achieve goals that extend beyond a particular agencies responsibilities and state boundaries. Recognition of spatial and temporal considerations, combined with a better understanding of the population dynamics as related to abundance, growth, mortality and reproduction would benefit the creation of more effective conservation and management strategies for genetically-distinct populations of Smallmouth Bass.

Book chapter↗
USGS2014

Response of crayfish to hyporheic water availability and excess sedimentation

Crayfish in many headwater streams regularly cope with seasonal drought. However, it is unclear how landscape changes affect the long-term persistence of crayfish populations. We designed two laboratory experiments to investigate the acute effects of common landscape stressors on crayfish: water withdrawal and sedimentation. The first experiment tested the interaction among water withdrawals (four 24-h water reductions of 0, 15, 30, or 45 cm) and two substrate treatments (pebble and cobble) on the burrowing depth of crayfish. The second experiment evaluated the effects of excess fine sediment (three treatments of 0, 45, and 90% sediment) and substrate type (cobble and pebble) on crayfish burrowing depth. Crayfish were able to burrow deeper into the simulated hyporheic zone in cobble substrate when compared to pebble. Crayfish subjected to greater water withdrawals in the pebble treatment were not able to reach the simulated hyporheic zone. Excess fine sediment reduced the depth that crayfish burrowed, regardless of substrate type. Results from this study suggest excess fine sediment may reduce crayfish persistence, particularly when seeking refuge during prolonged dry conditions.

Hydrobiologia↗
USGS2014

Evaluating the use of side-scan sonar for detecting freshwater mussel beds in turbid river environments

Side-scan sonar is a valuable tool for mapping habitat features in many aquatic systems suggesting it may also be useful for locating sedentary biota. The objective of this study was to determine if side-scan sonar could be used to identify freshwater mussel (unionid) beds and the required environmental conditions. We used side-scan sonar to develop a series of mussel-bed reference images by placing mussel shells within homogenous areas of fine and coarse substrates. We then used side-scan sonar to map a 32-km river reach during spring and summer. Using our mussel-bed reference images, several river locations were identified where mussel beds appeared to exist in the scanned images and we chose a subset of sites ( n = 17) for field validation. The validation confirmed that ~60% of the sites had mussel beds and ~80% had some mussels or shells present. Water depth was significantly related to our ability to predict mussel-bed locations: predictive ability was greatest at depths of 1–2 m, but decreased in water >2-m deep. We determined side-scan sonar is an effective tool for preliminary assessments of mussel presence during times when they are located at or above the substrate surface and in relatively fine substrates excluding fine silt.

Oklahoma↗
USGS2014

Interacting effects of discharge and channel morphology on transport of semibuoyant fish eggs in large, altered river systems

Habitat fragmentation and flow regulation are significant factors related to the decline and extinction of freshwater biota. Pelagic-broadcast spawning cyprinids require moving water and some length of unfragmented stream to complete their life cycle. However, it is unknown how discharge and habitat features interact at multiple spatial scales to alter the transport of semi-buoyant fish eggs. Our objective was to assess the relationship between downstream drift of semi-buoyant egg surrogates (gellan beads) and discharge and habitat complexity. We quantified transport time of a known quantity of beads using 2–3 sampling devices at each of seven locations on the North Canadian and Canadian rivers. Transport time was assessed based on median capture time (time at which 50% of beads were captured) and sampling period (time period when 2.5% and 97.5% of beads were captured). Habitat complexity was assessed by calculating width:depth ratios at each site, and several habitat metrics determined using analyses of aerial photographs. Median time of egg capture was negatively correlated to site discharge. The temporal extent of the sampling period at each site was negatively correlated to both site discharge and habitat-patch dispersion. Our results highlight the role of discharge in driving transport times, but also indicate that higher dispersion of habitat patches relates to increased retention of beads within the river. These results could be used to target restoration activities or prioritize water use to create and maintain habitat complexity within large, fragmented river systems.

Oklahoma↗
USGS2014

A comparison of two gears for quantifying abundance of lotic-dwelling crayfish

Crayfish (saddlebacked crayfish, Orconectes medius) catch was compared using a kick seine applied two different ways with a 1-m2 quadrat sampler (with known efficiency and bias in riffles) from three small streams in the Missouri Ozarks. Triplicate samples (one of each technique) were taken from two creeks and one headwater stream (n=69 sites) over a two-year period. General linear mixed models showed the number of crayfish collected using the quadrat sampler was greater than the number collected using either of the two seine techniques. However, there was no significant interaction with gear suggesting year, stream size, and channel unit type did not relate to different catches of crayfish by gear type. Variation in catch among gears was similar, as was the proportion of young-of-year individuals across samples taken with different gears or techniques. Negative binomial linear regression provided the appropriate relation between the gears which allows correction factors to be applied, if necessary, to relate catches by the kick seine to those of the quadrat sampler. The kick seine appears to be a reasonable substitute to the quadrat sampler in these shallow streams, with the advantage of ease of use and shorter time required per sample.

Journal of Crustacean Biology↗
USGS2014

Preliminary testing of flow-ecology hypotheses developed for the GCP LCC region

The Ecological Limits of Hydrological Alteration (ELOHA) framework calls for the development of flow-ecology hypotheses to support protection of the flow regime from ecologically harmful alteration due to human activities. As part of a larger instream flow project for the Gulf Coast Prairie Landscape Conservation Cooperative (GCP LCC), regional flow-ecology hypotheses were developed for fish, mussels, birds, and riparian vegetation (Davis and Brewer 20141 ). The objective of this study was to assess the usefulness of existing ecological and hydrological data to test these hypotheses or others that may be developed in the future. Several databases related to biological collections and hydrologic data from Oklahoma, Texas, and Louisiana were compiled. State fish-community data from Oklahoma and Louisiana were summarized and paired with existing USGS gage data having at least a 40-year period of record that could be separated into reference and current conditions for comparison. The objective of this study was not to conduct exhaustive analyses of these data, the hypotheses, or analyses interpretation, but rather to use these data to determine if existing data were adequate to statistically test the regional flow-ecology hypotheses. The regional flow-ecology hypotheses were developed for the GCP LCC by a committee chaired by Shannon Brewer and Mary Davis (Davis and Brewer 2014). Existing data were useful for informing the hypotheses and suggest support for some hypotheses, but also highlight the need for additional testing and development as some results contradicted hypotheses. Results presented here suggest existing data are adequate to support some flow-ecology hypotheses; however, lack of sampling effort reported with the fish collections and the need for ecoregion-specific analyses suggest more data would be beneficial to analyses in some ecoregions. Additional fish sampling data from Texas and Louisiana will be available for future analyses and may ameliorate some of the data concerns and improve hypothesis interpretation. If the regional hydrologic model currently under development by the U.S. Geological Survey for the South-Central Climate Science Center is improved to produce daily hydrographs, it will enable use of fish data at ungaged locations. In future efforts, exhaustive analyses using these data, in addition to the development of more complex multivariate hypotheses, would be beneficial to understanding data gaps, particularly as relevant to species of conservation concern.

Cooperator Science Series↗
USGS2013

Spatial and temporal variation in efficiency of the Moore egg collector

The Moore egg collector (MEC) was developed for quantitative and nondestructive capture of semibuoyant fish eggs. Previous studies have indicated that capture efficiency of the MEC was low and the use of one device did not adequately represent the spatial distribution within the water column of egg surrogates (gellan beads) of pelagic broadcast-spawning cyprinids. The objective of this study was to assess whether use of multiple MECs showed differences in spatial and temporal distribution of bead catches. Capture efficiency of three MECs was tested at four 500-m sites on the South Canadian River, a Great Plains river in Oklahoma. For each trial, approximately 100,000 beads were released and mean capture efficiency was 0.47–2.16%. Kolmogorov–Smirnov tests indicated the spatial distributions of bead catches were different among multiple MECs at three of four sites. Temporal variability in timing of peak catches of gellan beads was also evident between MECs. We concluded that the use of multiple MECs is necessary to properly sample eggs of pelagic broadcast-spawning cyprinids.

Oklahoma↗
USGS2013

Backcasting the decline of a vulnerable Great Plains reproductive ecotype: identifying threats and conservation priorities

Conservation efforts for threatened or endangered species are challenging because the multi-scale factors that relate to their decline or inhibit their recovery are often unknown. To further exacerbate matters, the perceptions associated with the mechanisms of species decline are often viewed myopically rather than across the entire species range. We used over 80 years of fish presence data collected from the Great Plains and associated ecoregions of the United States, to investigate the relative influence of changing environmental factors on the historic and current truncated distributions of the Arkansas River shiner Notropis girardi . Arkansas River shiner represent a threatened reproductive ecotype considered especially well adapted to the harsh environmental extremes of the Great Plains. Historic ( n = 163 records) and current ( n = 47 records) species distribution models were constructed using a vector-based approach in MaxEnt by splitting the available data at a time when Arkansas River shiner dramatically declined. Discharge and stream order were significant predictors in both models; however, the shape of the relationship between the predictors and species presence varied between time periods. Drift distance (river fragment length available for ichthyoplankton downstream drift before meeting a barrier) was a more important predictor in the current model and indicated river segments 375–780 km had the highest probability of species presence. Performance for the historic and current models was high (area under the curve; AUC > 0.95); however, forecasting and backcasting to alternative time periods suggested less predictive power. Our results identify fragments that could be considered refuges for endemic plains fish species and we highlight significant environmental factors (e.g., discharge) that could be manipulated to aid recovery.

Great Plains↗
USGS2013

Channel unit use by Smallmouth Bass: Do land-use constraints or quantity of habitat matter?

I examined how land use influenced the distribution of Smallmouth Bass Micropterus dolomieu in channel units (discrete morphological features—e.g., pools) of streams in the Midwestern USA. Stream segments ( n = 36), from four clusters of different soil and runoff conditions, were identified that had the highest percent of forest ( n = 12), pasture ( n = 12), and urban land use ( n = 12) within each cluster. Channel units within each stream were delineated and independently sampled once using multiple gears in summer 2006. Data were analyzed using a generalized linear mixed model procedure with a binomial distribution and odds ratio statistics. Land use and channel unit were strong predictors of age-0, age-1, and age->1 Smallmouth Bass presence. Each age-class was more likely to be present in streams within watersheds dominated by forest land use than in those with pasture or urban land uses. The interaction between land use and channel unit was not significant in any of the models, indicating channel unit use by Smallmouth Bass did not depend on watershed land use. Each of the three age-classes was more likely to use pools than other channel units. However, streams with high densities of Smallmouth Bass age >1 had lower proportions of pools suggesting a variety of channel units is important even though habitat needs exist at the channel-unit scale. Management may benefit from future research addressing the significance of channel-unit quality as a possible mechanism for how land use impacts Smallmouth Bass populations. Further, management efforts aimed at improving stream habitat would likely be more beneficial if focused at the stream segment or landscape scale, where a variety of quality habitats might be supported.

MIssouri↗
USGS2013

The influence of coarse-scale environmental features on current and predicted future distributions of narrow-range endemic crayfish populations

1.A major limitation to effective management of narrow-range crayfish populations is the paucity of information on the spatial distribution of crayfish species and a general understanding of the interacting environmental variables that drive current and future potential distributional patterns. 2.Maximum Entropy Species Distribution Modeling Software (MaxEnt) was used to predict the current and future potential distributions of four endemic crayfish species in the Ouachita Mountains. Current distributions were modelled using climate, geology, soils, land use, landform and flow variables thought to be important to lotic crayfish. Potential changes in the distribution were forecast by using models trained on current conditions and projecting onto the landscape predicted under climate-change scenarios. 3.The modelled distribution of the four species closely resembled the perceived distribution of each species but also predicted populations in streams and catchments where they had not previously been collected. Soils, elevation and winter precipitation and temperature most strongly related to current distributions and represented 6587% of the predictive power of the models. Model accuracy was high for all models, and model predictions of new populations were verified through additional field sampling. 4.Current models created using two spatial resolutions (1 and 4.5km2) showed that fine-resolution data more accurately represented current distributions. For three of the four species, the 1-km2 resolution models resulted in more conservative predictions. However, the modelled distributional extent of Orconectes leptogonopodus was similar regardless of data resolution. Field validations indicated 1-km2 resolution models were more accurate than 4.5-km2 resolution models. 5.Future projected (4.5-km2 resolution models) model distributions indicated three of the four endemic species would have truncated ranges with low occurrence probabilities under the low-emission scenario, whereas two of four species would be severely restricted in range under moderatehigh emissions. Discrepancies in the two emission scenarios probably relate to the exclusion of behavioural adaptations from species-distribution models. 6.These model predictions illustrate possible impacts of climate change on narrow-range endemic crayfish populations. The predictions do not account for biotic interactions, migration, local habitat conditions or species adaptation. However, we identified the constraining landscape features acting on these populations that provide a framework for addressing habitat needs at a fine scale and developing targeted and systematic monitoring programmes.

Freshwater Biology↗