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USGS1999

The ecological condition of estuaries in the Gulf of Mexico

The Gulf of Mexico is a vast natural resource encompassing the coastal areas of western Florida, Alabama, Mississippi, Louisiana, and Texas, as well as a portion of Mexico. Many estuaries flow into the Gulf of Mexico and serve as nursery grounds for fish, habitat for a wide variety of wildlife, shipping routes, and a source of recreation. Estuarine-dependent species constitute more than 95 percent of the commercial fishery harvests from the Gulf of Mexico, and many important recreational fishery species depend on estuaries during some part of their life cycle. Gulf estuaries are diverse and productive ecosystems that provide a variety of valuable resources, including fish and shellfish, recreation, transportation, and water supply. Assessing the overall condition of Gulf of Mexico estuaries required incorporating data from other federal, state, and local monitoring programs to augment the information on ecological indicators collected by the U.S. Environmental Protection Agency’s (USEPA) Environmental Monitoring and Assessment Program (EMAP). The resulting document would provide a synthesis of the available knowledge about the condition of Gulf of Mexico estuaries. This document is intended for use by scientists and other citizens concerned with the ecological condition of estuaries, as well as by managers and lawmakers interested in the sustained use of estuaries for commercial and recreational purposes. It also addresses public concerns about the aesthetic quality of coastal areas vital to tourism and recreation. By producing this report on the ecological condition of estuaries in the Gulf of Mexico, we have taken one step in assessing the health of this environmental resource. We have produced an environmental “report card” to be used as a guide in the evaluation of management decisions and research directions. This report is organized in three parts: (1) an introduction that gives background information on the Gulf of Mexico, estuarine ecology, and the factors that impact estuaries in the gulf, (2) the main section on priority ecological indicators used to measure the condition of estuaries in the gulf and (3) an ecological report card that summarizes the data on ecological indicators and provides a rating of the condition of estuaries in each gulf state and for gulf estuaries overall. Many of the ratings were based on the percent area of estuaries in each state exhibiting degraded or adverse levels of an indicator. Eutrophication, a condition of high nutrients often resulting in low oxygen levels and other adverse effects, is an important water quality concern for estuaries along the gulf coast. The National Oceanic and Atmospheric Administration (NOAA) has compared the Gulf of Mexico to other coastal regions like the middle Atlantic and has ranked the Gulf of Mexico as having the highest number of point sources of nutrients and the highest percentage of land use devoted to agriculture. We evaluated monitoring data for nitrogen, chlorophyll, and dissolved oxygen as indicators of eutrophication. Although most of the estuaries exhibited high nitrogen or chlorophyll or low dissolved oxygen concentrations at least once during a survey, many times these conditions were observed in small rivers or bayous rather than in the entire estuary. Often, the percent area affected was low. The gulf estuaries had moderate conditions overall for nutrients and dissolved oxygen. Definite nutrient problems were observed in >25% of the estuarine area in Louisiana and Texas and definite dissolved oxygen problems were observed in Alabama. Contaminants in estuarine sediments provide evidence of the accumulation of chemicals from anthropogenic sources. We compared the concentrations of sediment contaminants to established guideline values to determine the proportion of estuarine area that could have potential adverse effects on living organisms. Although detectable levels of contaminants were measured in almost every estuary in the Gulf of Mexico, <25% of the estuarine area in all states had contaminant concentrations that exceeded these guidelines. Wetlands are integral parts of estuarine systems. Declining acreage means habitat loss that may be the result of commercial and residential development, hydrologic alterations, or dredge and fill operations. The Gulf of Mexico region contains more than 50% of the coastal wetland acreage in the U.S. and yet it also has the highest rate of coastal wetland loss. Nine of the top ten estuarine drainage areas ranked by total wetland area are in the Gulf of Mexico region. The most current estimates of total wetland loss over the past 200 years range from 41% to 54% for the gulf states. Although coastal wetlands continue to be altered or destroyed, some estimates indicate that the rate of loss has slowed. All gulf states were rated as having severe problems with wetland loss. The condition of benthic (bottom-dwelling) invertebrates, fish and shellfish, birds, and threatened and endangered species was used to evaluate the health of estuarine fauna. Degraded benthic communities inhabited <25% of the estuarine area in all gulf states except for Texas. Commercial fish and shellfish landings may be used as an indicator of population stability while fish biomarkers are used to measure the health of individuals in the population. Commercial landings of the top four fisheries (shrimp, menhaden, blue crab, and oyster) are stable in the gulf states while fish biomarkers indicate fair to poor fish health in Alabama and Texas and good fish health elsewhere. Coastal and marine bird populations appear to be in good condition throughout the gulf. Four threatened or endangered species inhabit coastal areas in the Gulf of Mexico: brown pelican, Gulf sturgeon, manatee, and Kemp’s ridley sea turtle. In general, populations of these species are in good to fair condition in the gulf states. Public health indicators include shellfish bed closures and chemicals found in edible fish tissue. Harvest of shellfish (primarily oyster in the Gulf of Mexico) is restricted or prohibited when concentrations of bacteria or other pathogens reach levels that could impair human health. The gulf states contain the most acreage of shellfish-growing waters in the U.S. but also have the most acreage restricted for harvest. All gulf states except Mississippi have >25% of their shellfish-growing waters restricted for harvest, mostly due to pollution from wastewater treatment plants or other upstream sources. Advisories may be issued that limit consumption when the concentrations of chemicals in fish tissue exceed levels known to be harmful to humans. Although seafood consumption advisories have been issued in all gulf states, the percent of the fish population with high concentrations of contaminants is relatively low in the gulf overall.

Alabama, Florida, Louisiana, Mississippi, Texas↗

USGS2017

Body mass, wing length, and condition of wintering ducks relative to hematozoa infection

Waterfowl managers lack information regarding factors that may be reducing the positive response of waterfowl body condition to habitat improvements. Protozoan blood parasites (i.e., hematozoa) are commonly found in birds and have been related to reduced body mass, wing length, and body condition. We studied relationships between 12 measures of hematozoa infection and body mass, wing length, and body mass divided by wing length (i.e., body condition index [BCI]) of the five most common duck species (northern pintail [ Anas acuta ], mallard [ A. platyrhynchos ], green-winged teal [ A. crecca ], American wigeon [ A. Americana ], northern shoveler [ A. clypeata ]) wintering in the Central Valley of California during October 2006-January 2007. After accounting for variation due to species, age-sex cohort, Central Valley region, and month; wing length, body mass, and BCI were found to be negatively related to infection by Leucocytozoon and by "any hematozoa" but not related to infection by only Plasmodium or Haemoproteus , or coinfections of greater than one genera or parasite haplotype (albeit, few ducks had Plasmodium or Haemoproteus infection or coinfections). Evidence of a negative relationship with infection was stronger for body mass and BCI than for wing length and indicated that the relationships varied among species, age-sex cohorts, regions, and months. Compared to uninfected ducks, hematozoa-infected duck body mass, wing length, and BCI was -1.63% (85% CI = -2.79%- -0.47%), -0.12% (-0.41%- +0.17%), and -1.38% (-2.49%- -0.26%), respectively. Although, seemingly small, the -1.63% difference in body mass represents a large percentage (e.g., 38% for northern pintail) of the observed increase in wintering duck body mass associated with Central Valley habitat improvements. Because infection prevalence and relationship to body condition might change over time due to climate or other factors, tracking hematozoa infection prevalence might be important to inform and accurately assess the effect of conservation programs designed to improve waterfowl body condition.

California↗

USGS2025

When the wild things are: Defining mammalian diel activity and plasticity

Circadian rhythms are a mechanism by which species adapt to environmental variability and fundamental to understanding species behavior. However, we lack data and a standardized framework to accurately assess and compare temporal activity for species during rapid ecological change. Through a global network representing 38 countries, we leveraged 8.9 million mammalian observations to create a library of 14,587 standardized diel activity estimates for 445 species. We found that less than half the species’ estimates were in agreement with diel classifications from the reference literature and that species commonly used more than one diel classification. Species diel activity was highly plastic when exposed to anthropogenic change. Furthermore, body size and distributional extent were strongly associated with whether a species is diurnal or nocturnal. Our findings provide essential knowledge of species behavior in an era of rapid global change and suggest the need for a new, quantitative framework that defines diel activity logically and consistently while capturing species plasticity.

Science Advances↗

USGS2021

Avian predation of juvenile Lost River and Shortnose Suckers in Upper Klamath Lake: An assessment of Sucker assisted rearing program releases during 2018–2020

To bolster recruitment in Endangered Species Act (ESA) listed Lost River Suckers (Deltistes luxatus) and Shortnose Suckers (Chasmistes brevirostris) in the Upper Klamath Basin (UKB), the U.S. Fish and Wildlife Service (USFWS) and its partners have implemented the Sucker Assisted Rearing Program (SARP). As part of this program, juvenile suckers were reared in captivity, implanted with passive integrated transponder (PIT) tags (n= 8,857), and released into the Upper Klamath Lake or its tributaries during 2018–2020. Previous research suggests that predation by American White Pelicans (Pelecanus erythrorhynchos), Double-crested Cormorants (Nannopterum auritum), and Caspian Terns (Hydroprogne caspia) may negatively influence sucker survival, particularly predation on juvenile suckers. Estimates of predation impacts from past studies, however, represented minimum estimates of sucker mortality because analyses did not account for the proportion of consumed tags that were deposited by birds on their breeding colony where PIT tag recovery efforts took place. To estimate and account for deposition probabilities, we conducted a field study in which we fed pelicans PIT-tagged juvenile suckers (n = 401). We accounted for deposition probabilities of cormorants and terns by using previously published estimates. Sucker PIT tags were recovered from pelican, cormorant, and tern nesting sites in the UKB following each breeding season and a hierarchical Bayesian model was used to estimate predation rates (percentage of available tagged fish consumed) on SARP releases as well as naturally-reared or wild juvenile suckers and adult suckers that were PIT-tagged in Upper Klamath Lake and Clear Lake Reservoir. Pelican deposition probabilities were estimated at 0.47 (95% credible interval = 0.36–0.60), indicating that for every 100 PIT tags consumed, on average, 47 were deposited by pelicans on breeding colonies. Estimates of predation rates that incorporate corrections for deposition on SARP releases ranged annually from 4.4% (95% credible interval = 2.9–6.8%) to 8.8% (6.2–13.3%) during 2018–2020. Results suggest that colonial waterbird predation impacts on SARP releases likely constituted a small, but unknown, component of total mortality for suckers released into the Upper Klamath Lake system. Predation impacts on SARP juvenile suckers and wild juvenile suckers, which were estimated annually at 4.7% (1.0–13.9%) to 14.9% (7.6–29.3%), were consistently higher than those observed on adult suckers, with predation on adult suckers typically less than 4.0% of available fish annually. Future predation studies may consider models that integrate both live and dead detections of PIT-tagged suckers to generate more accurate and precise estimates of survival following release, as well as models that consider environmental factors that influence sucker susceptibility to colonial waterbird predation. Such models would provide a more holistic understanding of the degree to which avian predation limits the survival of ESA-listed suckers in the UKB.

Oregon↗

USGS2014

Carryover effects and climatic conditions influence the postfledging survival of greater sage-grouse

Prebreeding survival is an important life history component that affects both parental fitness and population persistence. In birds, prebreeding can be separated into pre- and postfledging periods; carryover effects from the prefledging period may influence postfledging survival. We investigated effects of body condition at fledging, and climatic variation, on postfledging survival of radio-marked greater sage-grouse ( Centrocercus urophasianus ) in the Great Basin Desert of the western United States. We hypothesized that body condition would influence postfledging survival as a carryover effect from the prefledging period, and we predicted that climatic variation may mediate this carryover effect or, alternatively, would act directly on survival during the postfledging period. Individual body condition had a strong positive effect on postfledging survival of juvenile females, suggesting carryover effects from the prefledging period. Females in the upper 25th percentile of body condition scores had a postfledging survival probability more than twice that (Φ = 0.51 ± 0.06 SE) of females in the bottom 25th percentile (Φ = 0.21 ± 0.05 SE). A similar effect could not be detected for males. We also found evidence for temperature and precipitation effects on monthly survival rates of both sexes. After controlling for site-level variation, postfledging survival was nearly twice as great following the coolest and wettest growing season (Φ = 0.77 ± 0.05 SE) compared with the hottest and driest growing season (Φ = 0.39 ± 0.05 SE). We found no relationships between individual body condition and temperature or precipitation, suggesting that carryover effects operated independently of background climatic variation. The temperature and precipitation effects we observed likely produced a direct effect on mortality risk during the postfledging period. Conservation actions that focus on improving prefledging habitat for sage-grouse may have indirect benefits to survival during postfledging, due to carryover effects between the two life phases.

Ecology and Evolution↗

USGS2014

Diet composition and fish consumption of double-crested cormorants from three St. Lawrence River colonies in 2013

Double-crested Cormorants ( Phalacrocorax auritus ) were first observed nesting in the upper St. Lawrence River at Strachan Island in 1992. Cormorants now nest at a number of islands in the Thousand Islands section of the river. Griswold, McNair, and Strachan islands are among the largest colonies in the upper river. Until 2011, nest counts had remained relatively stable, ranging from 200 to 603 nests per colony. However, since 2011 the number of nests at McNair Island have exceeded 700 each year. Although the size of cormorant colonies in the upper St. Lawrence River is smaller than those in the eastern basin of Lake Ontario, the close proximity of islands in the upper river that have colonies may cause a cumulative fish consumption effect similar to a larger colony. Because of increasing numbers of Double-crested Cormorants in the upper St. Lawrence River and the possible effects on fish populations, studies were initiated in 1999 to quantify cormorant diet and fish consumption at the three largest colonies. From 1999 to 2012, these studies have shown that cormorants consumed about 128.6 million fish including 37.5 million yellow perch ( Perca flavescens ), 17.4 million rock bass ( Ambloplites rupestris ) and 1.0 million smallmouth bass ( Micropterus dolemieu ) (Johnson et al. 2012). During this same time period fish assessment studies near some of these islands have shown a major decrease in yellow perch populations (Klindt 2007). This occurrence is known as the halo effect and happens when piscivorous birds deplete local fish populations in areas immediately surrounding the colony (Ashmole 1963). This paper describes the diet and fish consumption of cormorants in the upper St. Lawrence River in 2013.

New York↗

USGS2019

Evaluating community-level response to management actions across a diverse Hawaiian forest bird community

Although species‐specific approaches are necessary to understand the dynamics of individual species composing a community, they do not offer a framework for making optimal management decisions at the community level. Here, we present a simple framework for comparing the response of entire communities to multiple management scenarios. Our approach uses a weighted average of standardized species‐specific responses to produce a single integrative measure of the community response and employs mixed‐effect linear models to quantify the increase in the community response due to each management action, or combination of actions. We demonstrate our approach with a simulation study assessing the potential benefits of multiple management actions on the avian community of Hakalau Forest National Wildlife Refuge, Hawaiʻi, which is composed of eight native species with conservation status varying from endangered to least concern. Management actions considered included a reduction of avian malaria transmission risk, reducing rat predation, and increasing forest habitat. We used three different prioritization (weighting) schemes to assess whether the response to management actions differed along a conservation gradient (from endangered to least concern). We also investigated whether future changes in disease distribution as a result of climate change will alter the relationship between management practices and community response. Our community‐level analysis produced three important insights, highlighting the need to consider the response from multiple species to changing threats and management actions. First, increasing the amount of habitat always had the greatest positive impact on the avian community, regardless of the weighting scheme. Second, the community response to management was different under current vs. future conditions, with increased benefit in the future when disease risks were higher. Third, the response to management varied along the conservation gradient. Reducing malaria transmission risk in 2100 had the greatest benefit to endangered species, while increasing forest habitat had the greatest benefit to “least concern” species. However, reducing rat predation appeared to benefit a subset of species based on ecological factors unrelated to rarity, such as nest accessibility. Our approach is widely applicable using experimental, observational, or simulation‐based data, allowing managers to consider the response of all species while weighting their priority levels.

Hawaii↗

USGS2001

The role of native birds and other wildlife on the emergence of zoonotic diseases

Wildlife can be an important source of transmission of infectious disease to humans. One potential transmission route involves hunting and fishing, both common activities in the United States and worldwide. For example, during 1996, approximately 11 million Americans, about 40 percent of the total population 16 years of age and older, took part in some recreational activity relating to wildlife and fish. Another potential route of infection focuses on urban and suburban environments. These locations are of special concern because of their increasing role as wildlife habitat, the greater interface between humans and wildlife that takes place within those environments, the paucity of knowledge about disease in those wildlife populations, and the general lack of orderly management for wildlife within those environments. In the wild, several trends are contributing to the growing importance of zoonotic diseases. First, the spectrum of infectious diseases affecting wildlife today is greater than at any time during the previous century. Second, the occurrence of infectious diseases has changed, from sporadic, self-limiting outbreaks that generally resulted in minor losses to frequently occurring events that generally result in major losses of wildlife. Third, disease emergence has occurred on a worldwide scale in a broad spectrum of wildlife species and habitats. Given the scope of the problem, current disease surveillance efforts are inadequate. Few state wildlife agencies allocate personnel and resources to address wildlife disease, despite their statutory responsibility for managing nonmigratory wildlife. Some state agencies provide minimal support for regional programs based at universities. At the federal level, the primary surveillance effort is conducted by the National Wildlife Health Center, operated by the U.S. Geological Survey. Outside of government, some veterinary schools, agriculture diagnostic laboratories, and other programs provide additional information on animal diseases, primarily by examining carcasses of dead wildlife submitted for analysis, and individual university-based researchers carry out a variety of studies. Typically, information about the occurrence of disease in free-ranging wildlife is derived from surveys and mortality events in areas where wildlife observations by agencies and the public are frequent enough to detect their occurrence before carcasses are removed by scavengers and predatory animals. The result is that disease occurrence is grossly underreported, heavily biased toward mortality events, and biased toward species of special concern and interest, such as game and endangered species. Therefore, the available information should be viewed as the “proverbial tip of the iceberg” relative to disease activity within wildlife populations.

National Academy of Science.↗

USGS1998

Epizootic vacuolar myelinopathy of the central nervous system of bald eagles ( Haliaeetus leucocephalus ) and American coots ( Fulica americana )

Unprecedented mortality occurred in bald eagles ( Haliaeetus leucocephalus ) at DeGray Lake, Arkansas, during the winters of 1994-1995 and 1996-1997. The first eagles were found dead during November, soon after arrival from fall migration, and deaths continued into January during both episodes. In total, 29 eagles died at or near DeGray Lake in the winter of 1994-1995 and 26 died in the winter of 1996-1997; no eagle mortality was noted during the same months of the intervening winter or in the earlier history of the lake. During the mortality events, sick eagles were observed overflying perches or colliding with rock walls. Signs of incoordination and limb paresis were also observed in American coots ( Fulica americana ) during the episodes of eagle mortality, but mortality in coots was minimal. No consistent abnormalities were seen on gross necropsy of either species. No microscopic findings in organs other than the central nervous system (CNS) could explain the cause of death. By light microscopy, all 26 eagles examined and 62/77 (81%) coots had striking, diffuse, spongy degeneration of the white matter of the CNS. Vacuolation occurred in all myelinated CNS tissue, including the cerebellar folia and medulla oblongata, but was most prominent in the optic tectum. In the spinal cord, vacuoles were concentrated near the gray matter, and occasional swollen axons were seen. Vacuoles were uniformly present in optic nerves but were not evident in the retina or peripheral or autonomic nerves. Cellular inflammatory response to the lesion was distinctly lacking. Vacuoles were 8-50 microns in diameter and occurred individually, in clusters, or in rows. In sections stained by luxol fast blue/periodic acid-Schiff stain, the vacuoles were delimited and transected by myelin strands. Transmission electron microscopy revealed intramyelinic vacuoles formed in the myelin sheaths by splitting of one or more myelin lamellae at the intraperiodic line. This lesion is characteristic of toxicity from hexachlorophene, triethyltin, bromethalin, isonicotinic acid hydrazide, and certain exotic plant toxins; however, despite exhaustive testing, no etiology was determined for the DeGray Lake mortality events. This is the first report of vacuolar myelinopathy associated with spontaneous mortality in wild birds.

Arkansas↗

USGS2014

An analysis of monthly home range size in the critically endangered California Condor Gymnogyps californianus

Condors and vultures comprise the only group of terrestrial vertebrates in the world that are obligate scavengers, and these species move widely to locate ephemeral, unpredictable, and patchily-distributed food resources. In this study, we used high-resolution GPS location data to quantify monthly home range size of the critically endangered California Condor Gymnogyps californianus throughout the annual cycle in California. We assessed whether individual-level characteristics (age, sex and breeding status) and factors related to endangered species recovery program efforts (rearing method, release site) were linked to variation in monthly home range size. We found that monthly home range size varied across the annual cycle, with the largest monthly home ranges observed during late summer and early fall (July–October), a pattern that may be linked to seasonal changes in thermals that facilitate movement. Monthly home ranges of adults were significantly larger than those of immatures, but males and females used monthly home ranges of similar size throughout the year and breeding adults did not differ from non-breeding adults in their average monthly home range size. Individuals from each of three release sites differed significantly in the size of their monthly home ranges, and no differences in monthly home range size were detected between condors reared under captive conditions relative to those reared in the wild. Our study provides an important foundation for understanding the movement ecology of the California Condor and it highlights the importance of seasonal variation in space use for effective conservation planning for this critically endangered species.

Bird Conservation International↗

USGS2009

Sexing California Clapper Rails using morphological measurements

California Clapper Rails (Rallus longirostris obsoletus) have monomorphic plumage, a trait that makes identification of sex difficult without extensive behavioral observation or genetic testing. Using 31 Clapper Rails (22 females, 9 males), caught in south San Francisco Bay, CA, and using easily measurable morphological characteristics, we developed a discriminant function to distinguish sex. We then validated this function on 33 additional rails. Seven morphological measurements were considered, resulting in three which were selected in the discriminate function: culmen length, tarsometatarsus length, and flat wing length. We had no classification errors for the development or testing datasets either with resubstitution or cross-validation procedures. Male California Clapper Rails were 6-22% larger than females for individual morphological traits, and the largest difference was in body mass. Variables in our discriminant function closely match variables developed for sexing Clapper Rails of Gulf Coast populations. However, a universal discriminant function to sex all Clapper Rail subspecies is not likely because of large and inconsistent differences in morphological traits among subspecies.

North American Bird Bander↗

USGS2015

Wildlife specimen collection, preservation, and shipment

Specimens are used to provide supporting information leading to the determination of the cause of disease or death in wildlife and for disease monitoring or surveillance. Commonly used specimens for wildlife disease investigations include intact carcasses, tissues from carcasses, euthanized or moribund animals, parasites, ingested food, feces, or environmental samples. Samples from live animals or the environment (e.g., contaminated feed) in the same vicinity as a mortality event also may be helpful. The type of specimen collected is determined by availability of samples and biological objectives. Multiple fresh, intact carcasses from affected species are the most useful in establishing a cause for a mortality event. Submission of entire carcasses allows observation of gross lesions and abnormalities, as well as disease testing of multiple tissues. Samples from live animals may be more appropriate when sick animals cannot be euthanized (e.g., threatened or endangered species) or for research and monitoring projects examining disease or agents circulating in apparently healthy animals or those not exhibiting clinical signs. Samples from live animals may include collections of blood, hair, feathers, feces, or ectoparasites, or samples obtained by swabbing lesions or orifices. Photographs and videos are useful additions for recording field and clinical signs and conveying conditions at the site. Collection of environmental samples (e.g., feces, water, feed, or soil) may be appropriate when animals cannot be captured for sampling or the disease agent may persist in the environment. If lethal collection is considered necessary, biologists should refer to the policies, procedures, and permit requirements of their institution/facility and the agency responsible for species management (U.S. Fish and Wildlife Service or State natural resource agency) prior to use in the field. If threatened or endangered species are found dead, or there is evidence of illegal take, field personal should contact local wildlife law enforcement authorities immediately and prior to handling the carcass. Prior to collecting samples, it is important to determine the capabilities and submission criteria of the laboratory receiving the samples. Some laboratories may specialize in a limited number of tests, be equipped to accept only certain types of tissues (instead of entire carcasses), or specialize in particular species or group of animals (e.g., reptiles, birds, mammals). Diagnostic laboratories have specific requirements regarding preparation, labeling, and shipping of samples. Adherence to these requirements helps ensure the usefulness of any submitted specimens. Although laboratories may vary in the cost and turnaround times for diagnostic tests, some laboratories may be able to prioritize samples and accommodate accelerated time frames if communicated at the time of submission. Keeping a prepacked kit with basic carcass-collection supplies, including a paper copy of the specimen history form (available for download from the Web sites of most diagnostic laboratories), in the office or vehicle will decrease the chances of forgetting an essential item and decrease response time for arriving at an event.

Techniques and Methods↗

USGS1999

Terrestrial predator alarm vocalizations are a valid monitor of stress in captive brown capuchins (Cebus apella)

The vocal behavior of captive animals is increasingly exploited as an index of well-being. Here we show that the terrestrial predator alarm (TPA) vocalization, a robust and acoustically distinctive anti-predation vocal response present in many mammal and bird species, offers useful information on the relative well-being and stress levels of captive animals. In a 16-week experiment evaluating the effects of varying levels of physical environmental enrichment (control < toys < foraging box < foraging box and toys) in the cages of eight singly housed adult male brown capuchins, we quantified the 1) emission rate of TPAs, 2) proportions of normal and abnormal behavior sample intervals, and 3) fecal and plasma cortisol levels. Variation in TPA emission across the experimental conditions was significant. We found significant reductions in the mean TPA production rate by the group in the enriched (toys, foraging box, and foraging box and toys) compared to the control condition; pre- and post-experimental conditions, however, did not differ from the control condition. Mean TPA production by the group was also significantly positively correlated to mean group levels of fecal cortisol and proportion of abnormal behavior sample intervals, and significantly negatively correlated to the average proportion of normal behavior sample intervals in the group. Based on group means, plasma cortisol levels were positively, but not significantly, related to increasing TPA rate. At the level of the responses of an individual subject, however, the covariation between the vocal and non-vocal behavioral measures and the cortisol assays seldom attained significance. Nevertheless, the direction of the relationships among these parameters within individual subjects typically mirrored those correlations based on group means. At both the group mean and individual levels, our results are consistent with the interpretation that in conditions of low environmental enrichment the study subjects were more stressed, and therefore more reactive to the presence of a threatening terrestrial stimulus (human observer), than when in more enriched conditions. We suggest that protocols to evaluate the effectiveness of enrichment for captive species other than brown capuchins could also profitably exploit TPAs as a first-line monitor or as corroboratory evidence of current well-being.

Zoo Biology↗

USGS1977

A new banding technique for nesting adult purple martins

Mery (1966) showed an almost equal sex ratio, males returned more frequently than females, over 50% of returns paired with other returns, an adult return rate of 20%, and no pair bonds maintained for more than one season. Her study lasted 13 years. Our study has shown that the return rate of locals to parent colonies is 4.1%, sex ratios are nearly equal (combination of banding and observation), return rate of locals to nearby colonies is 0.9,one pair maintained the pair bond for two years, SY females lay fewer eggs than ASY's, SY adults occasionally do not feed frequently enough to maintain the normal growth pattern of the young, SY adults often build poorly constructed nests with little or no mud, overall nest success is lower in SY adults, adults do indeed return to the same colony (19.6%) box and/or compartment, sexes are balanced in a stable colony, males or females are sometimes in excess in a new colony, SY adults are predominate in a new colony, the limiting factor in colony size is most likely the number of boxes and/or compartments available for nesting and,finally, adults and young do indeed use the boxes for roosting after nesting and fledging is complete (even boxes not their own). All of our results are tentative and subject to change after f rther study. Much additional study will be required before we can come up with conclusive answers to many of these questions about the Purple Martin.

North American Bird Bander↗

USGS2014

Dynamics and ecological consequences of the 2013−2014 koa moth outbreak at Hakalau Forest National Wildlife Refuge.

A massive outbreak of the koa moth (Geometridea: Scotorythra paludicola) defoliated more than a third of the koa (Acacia koa) forest on Hawai‘i Island during 2013−2014. This was the largest koa moth outbreak ever recorded and the first on the island since 1953. The outbreak spread to sites distributed widely around the island between 800−2,000 m elevation and in wet rainforest to dry woodland habitats. We monitored the outbreak at two windward forest sites (Laupāhoehoe and Saddle Road Kīpuka) and one leeward forest site (Kona), and we studied the dynamics of the outbreak and its impacts on the forest ecosystem at Hakalau Forest National Wildlife Refuge, our higher elevation windward site. Study sites at Hakalau included two stands of koa that were planted (reforestation stands) in former cattle pastureland about 20 years earlier and two stands of koa that were dominated by ‘ōhi‘a (Metrosideros polymorpha) and that were naturally recovering from cattle grazing (forest stands). We observed one outbreak at Hakalau, multiple outbreaks at the two other windward sites, but no outbreak at the leeward site. Caterpillars at Hakalau reached peak estimated abundances of more than 250,000 per tree and 18,000,000 per hectare, and they removed between 64−93% of the koa canopy in managed forest stands. Defoliation was more extensive in naturally recovering forest, where ‘ōhi‘a dominated and koa was less abundant, compared to the planted stands, where koa density was high. Koa trees were still growing new foliage six months after being defoliated, and leaves were produced in greater proportion to phyllodes, especially by small koa (≤ 8 cm dbh) and by larger trees in forest stands, where light levels may have remained relatively low after defoliation due to the high cover of ‘ōhi‘a. Small branches of many trees apparently died, and canopy regrowth was absent or low in 9% of koa trees and seedlings, which indicates the likely level of mortality. Between 2,000−5,000 kg/ha of frass fell during the defoliation event, resulting in the deposition of up to 200 kg/ha of highly labile nitrogen on the forest floor in less than two months. The deposition of nitrogen was detected as pulses in resin-available nitrogen in the top 5−10 cm of soil at two of three sites. These sites showed elevated soil nitrogen for about seven months. Nitrogen content of understory plant foliage, which is indicative of nitrogen uptake, suggested weak and variable effects of nitrogen deposition in the soil. Foliar nitrogen increased slightly in alien pasture grasses four months after the deposition of frass, although distinctive increases were not detected in native woody species. Birds responded to the abundance of caterpillars by increasing their activity in koa during the buildup of caterpillars and decreasing their use of koa after defoliation. During the outbreak, caterpillars increased in the diets of the two generalist insectivores we examined, and nearly all species gained weight. Bats responded to the abundance of moths by compression of active foraging into the first three hours of darkness each night after presumably having reached a digestive bottleneck. Reduced foraging activity by bats also resulted in lower indices of detectability based upon acoustic monitoring when compared to non-outbreak years. Parasitoid wasps tracked caterpillar abundance, but the low rate at which they attacked caterpillars suggests that they had little influence on the population. The predatory yellowjacket (Vespula pensylvanica) did not respond to the outbreak. Although a single, protracted outbreak occurred at Hakalau, multiple outbreaks and defoliations occurred at lower elevations. Our results provide a broad foundation for evaluating the dynamics and impacts of future Scotorythra outbreaks.

Hawaii↗

USGS2024

Hydrologic investigations and a preliminary conceptual model of the groundwater system at North Penn Area 1 Superfund Site, Souderton, Montgomery County, Pennsylvania

The U.S. Geological Survey (USGS) conducted hydrogeologic investigations, reviewed existing data, and developed a preliminary conceptual model of the groundwater system as part of technical support of the U.S. Environmental Protection Agency (EPA) at the North Penn Area 1 Superfund Site (hereafter, the NP1 Site) located within the Borough of Souderton in Montgomery County, Pennsylvania. Field work and monitoring took place during 2012–18. The area is underlain by sedimentary formations that form a fractured-rock aquifer used for drinking water and industrial supply. The EPA placed the Site on the National Priorities List in 1989, identifying tetrachloroethylene (PCE) and trichloroethylene (TCE) as contaminants of concern. During 2012–18, the USGS conducted field activities that included drilling an 82-foot (ft)-deep monitoring well (MG 2220) in 2016, reconstructing a 208-ft-deep former industrial production well (MG 668 [Granite Knitting Mill]), and collecting borehole geophysical and video logs and water levels from those and five additional wells, which ranged in depth from about 50 to 200 ft below land surface. Continuous water levels were collected during 2014–17, and a synoptic set of water levels were measured in April 2018 in the seven wells. The borehole geophysical logs (caliper, acoustic televiewer, natural gamma, single-point resistance, vertical flow, and fluid temperature and resistivity) and borehole video logs in the seven wells were evaluated to assess potential for lithologic correlation and to identify and describe water-bearing features, which included both low- and high-angle fractures and other openings oriented along dipping bedding planes, joints, or possible faults. Borehole geophysical logs collected by USGS in 1992 in a 300-ft-deep former production well near the Site were also evaluated. Few to no distinctive features were identified on geophysical logs (natural gamma and single-point resistance) that could be used for correlation, thus limiting this approach to determining local geologic structure. Extensive fracturing in the upper 62 ft of monitoring well MG 2220 indicates that the well was likely drilled through a zone of faulting, and other evidence of faulting is present in the area near the Site. Assessment of continuous water levels showed hydraulic connections among some wells as indicated by rising or falling water levels in response to changes in pumping rates at nearby wells. A map of water levels measured in April 2018 indicates potential for groundwater flow generally toward the stream to the south and southwest of the Site, but the limited water-level data are insufficient to describe vertical groundwater gradients or lateral gradients in any detail. Review of 1999–2022 volatile organic compound (VOC) monitoring data collected by the Pennsylvania Department of Environmental Protection for five monitoring wells indicates that the highest groundwater concentrations of PCE and TCE were found in samples from extraction well MG 2201 (S-1) downgradient from, and nearest to, the previously identified Site contaminant source area, and these concentrations fluctuated through time. PCE concentrations were higher than TCE concentrations in samples from all five monitoring wells and were much higher than TCE concentrations in samples from extraction well MG 2201 (S-1). Temporally variable recharge is a possible factor affecting observed fluctuations in PCE concentrations in groundwater samples from well extraction MG 2201 (S-1), as indicated by a general inverse relation between PCE concentrations and water levels in a nearby long-term observation well. The PCE concentration of 1,830 micrograms per liter (μg/L) in a May 2018 water sample from monitoring well MG 2220 was more than four times the PCE concentration of 444 μg/L in a December 2017 sample from the nearby extraction well MG 2201 (S-1), which is open to fewer fractures. Low concentrations of VOCs were measured in surface water at two stream sites downgradient from wells with the highest groundwater VOC concentrations at the Site, indicating that discharge of contaminated groundwater to the stream is likely. Development of a conceptual model of the groundwater system was constrained by limited data. In areas with no pumping, groundwater-flow directions generally are thought to be controlled by topography and geologic structure (bedding orientation) and likely to the south and southwest of the Site, with local flow directions affected by orientations of fractures, joints, and local faults. Additional investigations that could help improve the conceptual model of the groundwater system and help delineate the extent of groundwater contamination and its transport are discussed.

Pennsylvania↗

USGS1996

Detailed study of water quality, bottom sediment, and biota associated with irrigation drainage in the Klamath Basin, California and Oregon, 1990-92

The effect of irrigation drainage on the water quality and wildlife of the Klamath Basin in California and Oregon was evaluated during 1990-92 as part of the National Irrigation Water Quality Program of the U.S. Department of the Interior. The study focused on land serviced by the Bureau of Reclamation Klamath Project, which supplies irrigation water to agricultural land in the Klamath Basin and the Lost River Basin. The Tule Lake and Lower Klamath National Wildlife Refuges, managed by the U.S. Fish and Wildlife Service, are in the study area. These refuges provide critical resting and breeding habitat for waterfowl on the Pacific flyway and are dependent on irrigation drainwater from upstream agriculture for most of their water supply. Water-quality characteristics throughout the study area were typical of highly eutrophic systems during the summer months of 1991 and 1992. Dissolved-oxygen concentrations and pH tended to fluctuate each day in response to diurnal patterns of photosynthesis, and frequently exceeded criteria for protection of aquatic organisms. Nitrogen and phosphorus concentrations were generally at or above threshold levels characteristic of eutrophic lakes and streams. At most sites the bulk of dissolved nitrogen was organically bound. Elevated ammonia concentrations were common in the study area, especially downstream of drain inputs. High pH of water increased the toxicity of ammonia, and concentrations exceeded criteria at sites upstream and downstream of irrigated land. Concentrations of ammonia in samples from small drains on the Tule Lake refuge leaseland were higher than those measured in the larger, integrating drains at primary monitoring sites. The mean ammonia concentration in leaseland drains [1.21 milligrams per liter (mg/L)] was significantly higher than the mean concentration in canals delivering water to the leaseland fields (0.065 mg/L) and higher than concentrations reported to be lethal to Daphnia magna (median lethal concentration of 0.66 mg/L). Dissolved-oxygen concentrations also were lower, and Daphnia survivability measured during in situ bioassays was correspondingly lower in the leaseland drains than in water delivery canals. In static laboratory bioassays, water samples collected at the primary monitoring sites caused toxicity in up to 78 percent of Lemna minor tests, in up to 49 percent of Xenopus laevis tests, in 17 percent and 8 percent of Hyalella azteca and Pimephales promelas tests, respectively, and 0 percent in Daphnia magna tests. In situ exposure at the sites caused mortality in more than 83 percent of Pimephales tests and in more than 41 percent of Daphnia and Hyalella tests. Much of the observed toxicity appears to have been caused by low dissolved oxygen, high pH, and ammonia. Although water in the study area was toxic to a variety of organisms, no statistically significant differences in the degree of toxicity between sites were observed above or below irrigated agricultural land in any of the bioassays. Pesticides were frequently detected in water samples collected at the monitoring sites during the 1991 and 1992 irrigation seasons. Among the most frequently detected compounds were the herbicides simazine, metribuzin, EPTC, and metolachlor and the insecticide terbufos. All the insecticides detected were at concentrations substantially below acute toxicity values reported for aquatic organisms. The herbicide acrolein has been used extensively in the basin to manage aquatic plant growth in irrigation canals and drains. The concentration of acrolein was monitored in a canal near Tule Lake after an application in order to evaluate the potential for the pesticide to be transported to refuge waters. Although acrolein concentrations were toxic to fish in the channels adjacent to Tule Lake, very little of the canal water entered the refuge during the monitoring period. Organochlorine pesticide concentrations in 25 surficial sediment samples collected in 1990 were below baseline levels commonly found in soils and sediment. Seventeen sediment samples were analyzed for chlorophenoxy acid herbicides and two samples were analyzed for organophosphorus and carbamate insecticides in 1992. No pesticides were detected in any of these samples. Residues of the trace elements selenium, mercury, and arsenic in algae, invertebrates, fish, and avian eggs revealed no bioaccumulation problems. Concentrations of organochlorine compounds, especially of p,p' DDE, were associated with a mean 11-percent eggshell thinning in white-faced ibis. However, ibis populations appear to be increasing, and some eggs of ibis were relatively low in DDE concentration. DDE concentrations in eggs of western grebes were not as high as in the eggs of ibis. Concentrations and types of organochlorine compounds detected in grebe and ibis eggs were highly variable, indicating that the birds were exposed to these compounds outside the basin. Fish and invertebrates inhabiting drainwater were representative of pollution-tolerant species assemblages. The aquatic communities retained little of their historic ecological structure. Extensive hydrologic modifications and hypereutrophic conditions in Klamath Basin waterways have degraded the quality of aquatic habitat and altered aquatic communities.

California, Oregon↗

USGS2021

Least Bell's Vireos and Southwestern Willow Flycatchers at the San Luis Rey flood risk management project area in San Diego County, California—Breeding activities and habitat use—2020 annual report

Executive Summary Surveys and monitoring for the endangered Least Bell’s Vireo ( Vireo bellii pusillus ; vireo) were done at the San Luis Rey Flood Risk Management Project Area (Project Area) in the city of Oceanside, San Diego County, California, between March 31 and July 20, 2020. We completed four protocol surveys during the breeding season, supplemented by weekly territory monitoring visits. We identified a total of 161 territorial male vireos; 145 were confirmed as paired and 4 were confirmed as single males. For the remaining 12 territories, we were unable to confirm pair status. Three transient vireos were detected in 2020. The vireo population in the Project Area increased by 26 percent from 2019 to 2020. Vireo populations increased across San Diego County, with a 39-percent increase documented at Marine Corps Base Camp Pendleton (MCBCP); a 58-percent increase at Marine Corps Air Station; a 78-percent increase on the Otay River; and a 7-percent increase in the population on the middle San Luis Rey River. We used an index of treatment (Treatment Index) to evaluate the impact of on-going vegetation clearing on the Project Area vireo population. The Treatment Index measures the cumulative effect of vegetation treatment within a territory (since 2005) by using the percent area treated weighted by the number of years since treatment. We found that the Treatment Index for unoccupied habitat was more than five times that of occupied habitat, indicating that vireos selected less disturbed habitat in which to settle. We monitored vireo nests at three general site types: (1) within the flood channel where exotic and native vegetation removal has occurred regularly (Channel), (2) three sites next to the flood channel where limited exotic and native vegetation removal has occurred (Off-channel), and (3) three sites that have been actively restored by planting native vegetation (Restoration). Nesting activity was monitored in 100 territories, 4 of which were occupied by single males. Hatching success was higher in the Channel relative to the Off-channel. We found no other differences between Channel, Off-channel, and Restoration nests in terms of clutch size or fledging success. There also was no difference in measures of productivity per pair between Channel, Off-channel, Restoration, and Mixed territories (territories that were classified as one site type but nesting occurred in another site type, or where multiple site types were used for nesting). Overall, breeding success and productivity were lower in 2020 than in 2019, with 69 percent of pairs fledgling at least one young and pairs fledging an average of 2.1±1.7 young. To investigate whether the cumulative years of treatment had an impact on vireo reproductive effort, we looked at the effects of the Treatment Index on reproductive parameters. Results from generalized linear models indicated that treatment did not have an effect on vireo nesting effort or the number of vireo fledglings per pair produced in 2020. Similarly, our analysis of nest survival for 2020 revealed no effect of Treatment Index on daily survival rate. Analysis of vegetation data collected at vireo nests from 2006 to 2020 revealed that vegetation at 1–2 meters (m) from the ground was the most important predictor of daily survival rate. There were differences in nest-placement characteristics among site types and successful/unsuccessful nests. Channel nests were placed higher in the vegetation than Off-channel or Restoration nests. Host plant height, distance to edge of host plant, and distance to edge of vegetation clump were greater at Channel sites compared with Off-channel sites, but were not different from Restoration sites. Within sites, we found only one difference between successful and unsuccessful nests. At Off-channel sites, successful nests were placed higher in the vegetation than unsuccessful nests. Red/arroyo willow ( Salix laevigata or Salix lasiolepis ) and mule fat ( Baccharis salicifolia ) were the species most commonly selected for nesting by vireos in all 3 site types. Vireos used a wider variety of species for nesting in Channel and Off-channel sites (7 and 10 species, respectively) compared to Restoration sites (3 species). Ninety-three vireos banded before the 2020 breeding season were resighted and identified at the Project Area in 2020, all of which were originally banded at the Project Area. Adult birds of known age ranged from 1 to 9 years old. A total of 171 vireos were newly banded in 2020. Twenty-eight adult vireos were banded with a unique color combination, and 143 nestlings were banded with a single dark blue numbered federal band on the left leg. Between 2006 and 2020, survivorship of males (67±10 percent) was consistently higher than females (59±11 percent). First-year birds from 2006 to 2020 had an average over-winter survivorship of 17±5 percent. First-year dispersal in 2020 averaged 2.9±2.9 kilometers (km), with the longest dispersal (13.5 km) by a female that was recaptured at Las Flores Creek, MCBCP. From 2007 to 2012, most returning first-year vireos returned to the Project Area, whereas from 2013 to 2017, the majority of returning birds dispersed to areas outside of the Project Area. In 2018, the trend shifted, and most first-year vireos returned to the Project area. This trend continued in 2020 with most first-year vireos returning to the Project Area; 77 percent of all re-encountered first-year birds returned to the Project Area and 23 percent dispersed to areas outside of the Project Area (upstream to the middle San Luis Rey River and to drainages on MCBCP). Most of the returning adult male vireos showed strong between-year site fidelity to their previous territories. Eighty percent of males (45/56) occupied a territory in 2020 that they had defended in 2019 (within 100 m). Thirty-three percent of females (2/6) detected in 2020 returned to a territory that they occupied in 2019. The average between-year movement for returning adult vireos was 0.1±0.5 km. We completed four protocol surveys for the endangered Southwestern Willow Fycatcher ( Empidonax traillii extimus ; flycatcher) at the Project Area between May 20 and July 20, 2020. No Willow Flycatchers were detected in the Project Area in 2020. A total of 46 vegetation transects (526 points) were sampled at the San Luis Rey Flood Risk Management Project Area in 2020. Seventy-one percent (376/526) of points were in the Channel and 22 percent (115/526) were at Upper Pond. The remaining 7 percent (35/526) were at the Whelan Restoration site. Foliage cover below 1 m was higher at the Channel points compared to Upper Pond and Whelan Restoration. Higher foliage cover in the Channel was attributed to the higher herbaceous component. However, foliage cover from 1 to 3 m was higher at the Whelan Restoration site compared to both Upper Pond and the Channel. Average canopy height was similar at all three site types and was 4.4 m or less. From 2006 to 2020, total foliage cover declined above 1 m in the Channel, from 4 to 5 m at Upper Pond, and above 8 m at Whelan Restoration. Within the Channel, the steepest declines occurred between 2009 and 2013 and between 2014 and 2016. Since 2016, we observed an increase in percent foliage between 0 and 2 m within the Channel, but for other height classes, percent cover remained below levels detected before 2009. Changes in cover at Upper Pond and Whelan Restoration appeared to be driven by the loss of tall tree cover. The vegetation mowing and treatment activities, in combination with lack of precipitation (especially between 2012 and 2016), may have contributed to the decline in foliage cover observed from 2006 to 2020. We sampled vegetation at 49 vireo nests and 49 random plots (“territory” plots) within territories in the Channel and Upper Pond following the 2020 breeding season. Vireos in the Channel selected territories with significantly more foliage cover above 2 m but less cover below 1 m relative to the available habitat. In contrast, Channel vireos selected nest sites within their territories with lower foliage cover above 3 m and were non-selective with regard to cover below 2 m. Vireos at Upper Pond generally were less selective with regard to territory and nest sites but tended to select territories with more foliage cover from 1 to 2 m and above 8 m, and they selected nest sites within their territories with greater foliage cover from 0 to 1 m.

California↗