Geology topics

R.J. Cooper

Publications and source records attributed to R.J. Cooper.

At least 19 recordsLinked to original sources

USGS2021

Early successional riparian vegetation is important for western Yellow-billed Cuckoo nesting habitat

Western Yellow-billed Cuckoo (Cuckoo; Coccyzus americanus ) populations continue to decline in the western United States despite efforts to increase availability of riparian forest. Cuckoos have unique breeding habitat requirements such as large contiguous tracts of riparian forest (>80 ha), large estimated home ranges (20–90 ha), and dense vertical structure around the nest. However, local habitat-scale features may be missing in landscapes of predominantly mature riparian forest that may need to be specifically managed for nesting. We used historical nest data ( n = 95) from the South Fork Kern River Valley, California, from 1985 to 1996 to identify important nest site features that may be missing in current riparian forests. We found that increased canopy cover and vertical structure at all levels in the canopy greatly increased the probability of Cuckoo nesting. With smaller estimated effect sizes, the probability of Cuckoo nesting increased with increasing willows and forbs and smaller mean tree dbh. Cuckoos selected plots with disproportionately high percent willow cover relative to availability plots regardless of whether sites had low or high percent willow available. Counts of fledged young were positively related to willow percentage. No vegetation variable influenced daily survival rate which was 0.991 (LCI = 0.980, UCI = 0.996). Overall 17-day nest success was likely high (0.86, LCI = 0.71, UCI = 0.93). In the absence of natural processes that create early successional stage forest, specific management for early successional stage forest is needed to increase the probability of Cuckoo nesting and nest productivity.

California↗

USGS2021

Challenging our understanding of western Yellow-billed Cuckoo habitat needs and accepted management practices

Riparian restoration in the southwestern United States frequently involves planting cottonwood ( Populus spp.) and willow ( Salix spp.). In the absence of flooding and gap-forming disturbance, planted forests often senesce without further young tree recruitment. This has largely been the case in California riparian systems that historically supported state-endangered western Yellow-billed Cuckoo ( Coccyzus americanus ; Cuckoo). A decline in Cuckoo population numbers in the past 30 years has been associated with forest maturation. Other riparian species of concern show a concomitant decline, indicating the problem is not specific to Cuckoos. Although varying hypotheses exist for recent decline, alternative management practices have not been sufficiently explored to rule out breeding ground habitat quality as a major contributing factor. Few intensive Cuckoo datasets exist to test hypotheses about breeding habitat quality due to extremely low populations in the remaining occupied sites. We used a historical (1986–1996) spot mapping dataset from the South Fork Kern River Valley, CA to identify vegetation characteristics related to Cuckoo and five other sensitive riparian bird territory densities. We found Cuckoo densities were positively associated with increased vertical vegetative structure 1–5 m above ground with a threshold for mean tree height. Sensitive species densities were also related to vertical structure and started to decline with stand height greater than 6–8 m. Naturally regenerated sites had higher densities of most sensitive bird species than planted sites. We provide ideas for restoring mature forest with little vertical structure.

California↗

USGS2011

Conservation in the face of climate change: The roles of alternative models, monitoring, and adaptation in confronting and reducing uncertainty

The broad physical and biological principles behind climate change and its potential large scale ecological impacts on biota are fairly well understood, although likely responses of biotic communities at fine spatio-temporal scales are not, limiting the ability of conservation programs to respond effectively to climate change outside the range of human experience. Much of the climate debate has focused on attempts to resolve key uncertainties in a hypothesis-testing framework. However, conservation decisions cannot await resolution of these scientific issues and instead must proceed in the face of uncertainty. We suggest that conservation should precede in an adaptive management framework, in which decisions are guided by predictions under multiple, plausible hypotheses about climate impacts. Under this plan, monitoring is used to evaluate the response of the system to climate drivers, and management actions (perhaps experimental) are used to confront testable predictions with data, in turn providing feedback for future decision making. We illustrate these principles with the problem of mitigating the effects of climate change on terrestrial bird communities in the southern Appalachian Mountains, USA.

Southern Appalachian Mountains↗

USGS2011

Latitudinal variation in reproductive strategies by the migratory Louisiana Waterthrush

We evaluated hypotheses that seek to explain breeding strategies of the Louisiana Waterthrush (Parkesia motacilla) that vary across a latitudinal gradient. On the basis of data from 418 nests of color-banded individuals in southwestern Pennsylvania and 700 km south in the Georgia Piedmont, we found that clutch size in replacement nests and probability of renesting were significantly greater in Pennsylvania (clutch size 4.4; renesting probability 0.66) than in Georgia (clutch size 3.8; renesting probability 0.54). Contrasts of the remaining measures of breeding were not statistically significant, and, in particular, mean daily nest survival in the two study areas was nearly identical (0.974 in Pennsylvania; 0.975 in Georgia). An individual-based model of fecundity (i.e., number of fledged young per adult female), predicted that approximately half of the females in both Pennsylvania and Georgia fledge at least one young, and mean values for fecundity in Pennsylvania and Georgia were 2.28 and 1.91, respectively. On the basis of greater support for the food-limitation hypothesis than for the season-length hypothesis, the trade-off between breeding in a region with more food but making a longer migration may be greater for waterthrushes breeding farther north than for those breeding farther south. ?? The Cooper Ornithological Society 2011.

Condor↗

USGS2009

Conservation of northern bobwhite on private lands in Georgia, USA under uncertainty about landscape-level habitat effects

Large-scale habitat enhancement programs for birds are becoming more widespread, however, most lack monitoring to resolve uncertainties and enhance program impact over time. Georgia?s Bobwhite Quail Initiative (BQI) is a competitive, proposal-based system that provides incentives to landowners to establish habitat for northern bobwhites (Colinus virginianus). Using data from monitoring conducted in the program?s first years (1999?2001), we developed alternative hierarchical models to predict bobwhite abundance in response to program habitat modifications on local and regional scales. Effects of habitat and habitat management on bobwhite population response varied among geographical scales, but high measurement variability rendered the specific nature of these scaled effects equivocal. Under some models, BQI had positive impact at both local farm scales (1, 9 km2), particularly when practice acres were clustered, whereas other credible models indicated that bird response did not depend on spatial arrangement of practices. Thus, uncertainty about landscape-level effects of management presents a challenge to program managers who must decide which proposals to accept. We demonstrate that optimal selection decisions can be made despite this uncertainty and that uncertainty can be reduced over time, with consequent improvement in management efficacy. However, such an adaptive approach to BQI program implementation would require the reestablishment of monitoring of bobwhite abundance, an effort for which funding was discontinued in 2002. For landscape-level conservation programs generally, our approach demonstrates the value in assessing multiple scales of impact of habitat modification programs, and it reveals the utility of addressing management uncertainty through multiple decision models and system monitoring.

Landscape Ecology↗

USGS2009

Seasonal shifts in shelter and microhabitat use of drymarchon couperi (eastern indigo snake) in Georgia

Drymarchon couperi (Eastern Indigo Snake), a threatened species of the southeastern Coastal Plain of the United States, has experienced population declines because of extensive habitat loss and degradation across its range. In Georgia and northern Florida, the species is associated with longleaf pine habitats that support Gopherus polyphemus (Gopher Tortoise) populations, the burrows of which D. couperi uses for shelter. The extent that D. couperi uses these burrows, in addition to the use of other underground shelters and the microhabitat features associated with these structures is largely unknown. From 2003 through 2004, we conducted a radiotelemetry study of D. couperi (n = 32) to examine use of shelters and microhabitat in Georgia. We used repeated measures regression on a candidate set of models created from a priori hypotheses using principal component scores, derived from analysis of microhabitat data to examine microhabitat use at underground shelters. Proportion of locations recorded underground did not differ seasonally or between sexes. In winter, we recorded >0.90 of underground locations at tortoise burrows. Use of these burrows was less pronounced in spring for males. Females used abandoned tortoise burrows more frequently than males year-round and used them on approximately 0.60 of their underground locations during spring. Microhabitat use at underground shelters was most influenced by season compared to sex, site, or body size. Females in spring and summer used more open microhabitat compared to males, potentially in response to gestation. Our results suggest that the availability of suitable underground shelters, especially G. polyphemus burrows, may be a limiting factor in the northern range of D. couperi, with important implications for its conservation. ?? 2009 by the American Society of Ichthyologists and Herpetologists.

Copeia↗

USGS2009

Survival of radio-implanted drymarchon couperi (Eastern Indigo Snake) in relation to body size and sex

Drymarchon couperi (eastern indigo snake) has experienced population declines across its range primarily as a result of extensive habitat loss, fragmentation, and degradation. Conservation efforts for D. couperi have been hindered, in part, because of informational gaps regarding the species, including a lack of data on population ecology and estimates of demographic parameters such as survival. We conducted a 2- year radiotelemetry study of D. couperi on Fort Stewart Military Reservation and adjacent private lands located in southeastern Georgia to assess individual characteristics associated with probability of survival. We used known-fate modeling to estimate survival, and an information-theoretic approach, based on a priori hypotheses, to examine intraspecific differences in survival probabilities relative to individual covariates (sex, size, size standardized by sex, and overwintering location). Annual survival in 2003 and 2004 was 0.89 (95% CI = 0.73-0.97, n = 25) and 0.72 (95% CI = 0.52-0.86; n = 27), respectively. Results indicated that body size, standardized by sex, was the most important covariate determining survival of adult D. couperi, suggesting lower survival for larger individuals within each sex. We are uncertain of the mechanisms underlying this result, but possibilities may include greater resource needs for larger individuals within each sex, necessitating larger or more frequent movements, or a population with older individuals. Our results may also have been influenced by analysis limitations because of sample size, other sources of individual variation, or environmental conditions. ?? 2009 by The Herpetologists' League, Inc.

Herpetologica↗

USGS2009

Indigo snake capture methods: effectiveness of two survey techniques for Drymarchon couperi in Georgia

Drymarchon couperi (Eastern Indigo Snake), a federally threatened species of the southeastern Coastal Plain, has presented challenges for surveyors, with few reliable methods developed for its detection or monitoring. Surveys for D. couperi at potential underground shelters conducted in late fall through early spring have been relatively successful when conducted by experienced surveyors, especially in the northern portions of the range. However, trapping efforts for D. couperi conducted throughout the range have met with limited success. To further evaluate detection methods, we conducted trapping and surveying from December 2002 to April 2004 in areas known to support D. couperi in southeastern Georgia. We captured 18 D. couperi through surveys of potential underground shelters from December 2002 to March 2003 (14 person-hours per capture) and six individuals through trapping (141 trap days or 27 in-field person-hours per capture). Trapping was most successful during early fall, a period when surveys are often less effective compared to those conducted in late fall through early spring. We recommend a combination of surveys from mid-fall through March in conjunction with trapping, especially from late-summer through fall in the northern portions of the snake?s range. We also recommend further experimentation with alternative trap designs and survey methods for D. couperi.

Florida Scientist↗

USGS2008

Design for a region-wide adaptive search for the ivorybilled woodpecker with the objective of estimating occupancy and related parameters

We describe a survey design and field protocol for the Ivory-billed Woodpecker (Campephilus principalis) search effort that will: (1) allow estimation of occupancy, use, and detection probability for habitats at two spatial scales within the bird?s former range, (2) assess relationships between occupancy, use, and habitat characteristics at those scales, (3) eventually allow the development of a population viability model that depends on patch occupancy instead of difficult-to-measure demographic parameters, and (4) be adaptive, allowing newly collected information to update the above models and search locations. The approach features random selection of patches to be searched from a sampling frame stratified and weighted by patch quality, and requires multiple visits per patch. It is adaptive within a season in that increased search activity is allowed in and around locations of strong visual and/or aural evidence, and adaptive among seasons in that habitat associations allow modification of stratum weights. This statistically rigorous approach is an improvement over simply visiting the ?best? habitat in an ad hoc fashion because we can learn from prior effort and modify the search accordingly. Results from the 2006-07 search season indicate weak relationships between occupancy and habitat (although we suggest modifications of habitat measurement protocols), and a very low detection probability, suggesting more visits per patch are required. Sample size requirements will be discussed.

Book chapter↗

USGS2006

Cumulative uncertainty in measured streamflow and water quality data for small watersheds

The scientific community has not established an adequate understanding of the uncertainty inherent in measured water quality data, which is introduced by four procedural categories: streamflow measurement, sample collection, sample preservation/storage, and laboratory analysis. Although previous research has produced valuable information on relative differences in procedures within these categories, little information is available that compares the procedural categories or presents the cumulative uncertainty in resulting water quality data. As a result, quality control emphasis is often misdirected, and data uncertainty is typically either ignored or accounted for with an arbitrary margin of safety. Faced with the need for scientifically defensible estimates of data uncertainty to support water resource management, the objectives of this research were to: (1) compile selected published information on uncertainty related to measured streamflow and water quality data for small watersheds, (2) use a root mean square error propagation method to compare the uncertainty introduced by each procedural category, and (3) use the error propagation method to determine the cumulative probable uncertainty in measured streamflow, sediment, and nutrient data. Best case, typical, and worst case data quality scenarios were examined. Averaged across all constituents, the calculated cumulative probable uncertainty (%) contributed under typical scenarios ranged from 6% to 19% for streamflow measurement, from 4% to 48% for sample collection, from 2% to 16% for sample preservation/storage, and from 5% to 21% for laboratory analysis. Under typical conditions, errors in storm loads ranged from 8% to 104% for dissolved nutrients, from 8% to 110% for total N and P, and from 7% to 53% for TSS. Results indicated that uncertainty can increase substantially under poor measurement conditions and limited quality control effort. This research provides introductory scientific estimates of uncertainty in measured water quality data. The results and procedures presented should also assist modelers in quantifying the quality of calibration and evaluation data sets, determining model accuracy goals, and evaluating model performance.

Transactions of the ASABE↗

USGS2006

Risky business: Site selection by Acadian Flycatchers under threat of nest predation and brood parasitism

Habitat quality is determined not only by habitat structure and the availability of resources, but also by competitors, cooperators, predators, and parasites. We hypothesized that, for passerines, minimizing risk from avian nest predators and brood parasites is an important factor in selecting a breeding site. Through the early part of two breeding seasons, we spot-mapped locations of Acadian Flycatchers (Empidonax virescens, territory selectors), Red-bellied Woodpeckers (Melanerpes carolinus, nest predators) and Brown-headed Cowbirds (Molothrus ater, brood parasites) in a 56-ha study area within an extensive bottomland hardwood forest. We were thereby able to determine the order of flycatcher territory settlement and nest initiation in relation to risk of predation and parasitism, while accounting for habitat structure. Male settlement was influenced by both habitat structure and risk avoidance. However, risk trom woodpeckers was relatively more important in the first season and risk from cowbirds in the second, evidently due to differences in the relative abundance of predator and brood-parasite in each year. For male flycatchers, settlement choices appear to be flexible in the face of changing 'risk landscapes.' For females, habitat structure was the most important predictor of nest site selection. Even so, there was evidence that females avoided cowbirds. Surprisingly, nest site selection was positively associated with woodpecker abundance in the first season when woodpeckers were present in greater numbers. Possible explanations for this contradictory result are discussed.

Book chapter↗

USGS2006

Detrimental impacts of radiotransmitters on juvenile Louisiana Waterthrushes

The Louisiana Waterthrush (waterthrush: Seiurus motacilla) is a forest-dwelling, Nearctic-Neotropical migratory passerine that nests along streams. We attached radiotransmitters (0.6-0.8 g) to 12 nestling waterthrushes using snug, elastic loops. At three nests, adult waterthrushes were videotaped removing radio-tagged young from the nest. In addition, we recovered nine radio-backpacks (with two still attached to the carcasses of nestlings) near nests within a few days after attaching transmitters. Only one of 12 radio-tagged young was relocated more than 24 h after attaching the transmitter. Thus, the method of transmitter attachment we used was not effective. Using snug, nonelastic loops (e.g., nylon) for the harness may reduce the loss of transmitters, but may injure the skin as fledglings grow. Other possible alternatives include (1) gluing the transmitter to skin on the back of nestlings, (2) capturing fledglings in mist nets and attaching transmitters a week or more after fledging by which time contour feathers have grown and the likelihood of a parent removing the transmitter may be reduced, or (3) attempting to monitor fledglings without attaching transmitters. The success of the latter two alternatives would likely be enhanced by attaching transmitters to adults and then tracking them to locate their still-dependent fledglings.

Journal of Field Ornithology↗

USGS2005

Waiting for trees to grow: nest survival, brood parasitism, and the impact of reforestation efforts

Of the forested wetlands that once covered the Mississippi Alluvial Valley, only -25% remain due to large-scale conversion to agriculture. Reforestation efforts are currently underway, but tracts planted with slow-growing oaks maintain the structure of a grassland for 5 yr or longer, and will require at least 40 yr to resemble a mature forest. Nonetheless, it is hoped that reforestation, even in early stages, can effectively increase core area in extant tracts of mature forest by reducing higher rates of nest failure and brood parasitism often associated with forest-agriculture interfaces. To test this, we monitored nests of a mature-forest specialist, the Acadian Flycatcher, in extensive bottomland forests adjacent to agricultural fields and reforested tracts (<20 yr-old). We used an information-theoretic approach to evaluate alternative hypotheses regarding the relative impacts of agriculture and reforestation in the landscape. Controlling for year, season, and stand basal area, there was little evidence that landscape context significantly affected nest survival, although survival tended to increase with decreasing amounts of agriculture. The probability of brood parasitism increased with greater proportions of open habitats in the landscape. There was much stronger support for the hypothesis that parasitism rates depended on the sum of agricultural and reforested tracts, rather than on the amount of agriculture alone. Thus, reforested tracts are not expected to have the desired effect of reducing parasitism rates in the adjacent mature forest until several decades have passed.

Book chapter↗

USGS2004

Annual survival estimation of migratory songbirds confounded by incomplete breeding site-fidelity: Study designs that may help

Many species of bird exhibit varying degrees of site-fidelity to the previous year's territory or breeding area, a phenomenon we refer to as incomplete breeding site-fidelity. If the territory they occupy is located beyond the bounds of the study area or search area (i.e., they have emigrated from the study area), the bird will go undetected and is therefore indistinguishable from dead individuals in capture-mark-recapture studies. Differential emigration rates confound inferences regarding differences in survival between sexes and among species if apparent survival rates are used as estimates of true survival. Moreover, the bias introduced by using apparent survival rates for true survival rates can have profound effects on the predictions of population persistence through time, source/sink dynamics, and other aspects of life-history theory. We investigated four study design and analysis approaches that result in apparent survival estimates that are closer to true survival estimates. Our motivation for this research stemmed from a multi-year capture-recapture study of Prothonotary Warblers (Protonotaria citrea) on multiple study plots within a larger landscape of suitable breeding habitat where substantial inter-annual movements of marked individuals among neighboring study plots was documented. We wished to quantify the effects of this type of movement on annual survival estimation. The first two study designs we investigated involved marking birds in a core area and resighting them in the core as well as an area surrounding the core. For the first of these two designs, we demonstrated that as the resighting area surrounding the core gets progressively larger, and more "emigrants" are resighted, apparent survival estimates begin to approximate true survival rates (bias < 0.01). However, given observed inter-annual movements of birds, it is likely to be logistically impractical to resight birds on sufficiently large surrounding areas to minimize bias. Therefore, as an alternative protocol, we analyzed the data with subsets of three progressively larger areas surrounding the core. The data subsets provided four estimates of apparent survival that asymptotically approached true survival. This study design and analytical approach is likely to be logistically feasible in field settings and yields estimates of true survival unbiased (bias < 0.03) by incomplete breeding site-fidelity over a range of inter-annual territory movement patterns. The third approach we investigated used a robust design data collection and analysis approach. This approach resulted in estimates of survival that were unbiased (bias < 0.02), but were very imprecise and likely would not yield reliable estimates in field situations. The fourth approach utilized a fixed study area size, but modeled detection probability as a function of bird proximity to the study plot boundary (e.g., those birds closest to the edge are more likely to emigrate). This approach also resulted in estimates of survival that were unbiased (bias < 0.02), but because the individual covariates were normalized, the average capture probability was 0.50, and thus did not provide an accurate estimate of the true capture probability. Our results show that the core-area with surrounding resight-only can provide estimates of survival that are not biased by the effects of incomplete breeding site-fidelity. ?? 2004 Museu de Cie??ncies Naturals.

Animal Biodiversity and Conservation↗

USGS2002

Groundwater hydrochemistry in the active layer of the proglacial zone, Finsterwalderbreen, Svalbard

Glacial bulk meltwaters and active-layer groundwaters were sampled from the proglacial zone of Finsterwalderbreen during a single melt season in 1999, in order to determine the geochemical processes that maintain high chemical weathering rates in the proglacial zone of this glacier. Results demonstrate that the principle means of solute acquisition is the weathering of highly reactive moraine and fluvial active-layer sediments by supra-permafrost groundwaters. Active-layer groundwater derives from the thaw of the proglacial snowpack, buried ice and glacial bulk meltwaters. Groundwater evolves by sulphide oxidation and carbonate dissolution. Evaporation- and freeze-concentration of groundwater in summer and winter, respectively produce Mg-Ca-sulphate salts on the proglacial surface. Re-dissolution of these salts in early summer produces groundwaters that are supersaturated with respect to calcite. There is a pronounced spatial pattern to the geochemical evolution of groundwater. Close to the main proglacial channel, active layer sediments are flushed diurnally by bulk meltwaters. Here, Mg-Ca-sulphate deposits become exhausted in the early season and geochemical evolution proceeds by a combination of sulphide oxidation and carbonate dissolution. At greater distances from the channel, the dissolution of Mg-Ca-sulphate salts is a major influence and dilution by the bulk meltwaters is relatively minor. The influence of sulphate salt dissolution decreases during the sampling season, as these salts are exhausted and waters become increasingly routed by subsurface flowpaths. ?? 2002 Elsevier Science B.V. All rights reserved.

Journal of Hydrology↗

USGS2000

Estimating forest crown area removed by selection cutting: a linked regression-GIS approach based on stump diameters

The purpose of this research was to develop a model that could be used to provide a spatial representation of uneven-aged silvicultural treatments on forest crown area. We began by developing species-specific linear regression equations relating tree DBH to crown area for eight bottomland tree species at White River National Wildlife Refuge, Arkansas, USA. The relationships were highly significant for all species, with coefficients of determination (r(2)) ranging from 0.37 for Ulmus crassifolia to nearly 0.80 for Quercus nuttalliii and Taxodium distichum. We next located and measured the diameters of more than 4000 stumps from a single tree-group selection timber harvest. Stump locations were recorded with respect to an established gl id point system and entered into a Geographic Information System (ARC/INFO). The area occupied by the crown of each logged individual was then estimated by using the stump dimensions (adjusted to DBHs) and the regression equations relating tree DBH to crown area. Our model projected that the selection cuts removed roughly 300 m(2) of basal area from the logged sites resulting in the loss of approximate to 55 000 m(2) of crown area. The model developed in this research represents a tool that can be used in conjunction with remote sensing applications to assist in forest inventory and management, as well as to estimate the impacts of selective timber harvest on wildlife.

Forest Ecology and Management↗

USGS2000

An evaluation strategy for conservation goals of the Mississippi Alluvial Valley

The population goals and habitat objectives established by the Mississippi Alluvial Valley Migratory Bird Initiative are based on several unverified assumptions. We have developed an evaluation strategy that identifies research needed to verify these assumptions. We also have outlined a monitoring strategy designed to track progress toward achieving habitat objectives and population goals.

Book chapter↗

USGS2000

Estimating survival of neotropical-nearctic migratory birds: Are they dead or just dispersed?

The most common method for estimating adult survival in site specific demographic studies of Neotropical-Nearctic migratory bird populations is by measuring the return rate of marked individuals. Return rate historically has been defined as the ratio of resighted birds to the total number banded (i.e., with bands on) the prior year, and has been used as a 'minimum number known alive' estimate of survival. Return rates potentially underestimate true survival (the complement of mortality) for two reasons. First, not every bird that returns to the study plot is actually encountered by the field researcher, and second, not every bird that survives to the next breeding season returns to the study plot. We use a branching-tree diagram to illustrate that the essential problem with return rate methodology is that the fate of birds that are not resighted is unknown. It is widely recognized that Cormack-Jolly-Seber based analyses greatly improve 'survival' estimates by incorporating the probability of resighting a bird given that it is alive and present on the study plot. However, these estimates will underestimate true survival if birds disperse beyond the range of the resighting effort. Because long-distance dispersal events are an important component of migratory bird ecology, we cannot estimate true survival from return rate data until better information on dispersal distances and probabilities are collected. We discuss several conservation implications of underestimating survival,.and suggest terminology that is potentially less confusing.

Book chapter↗