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At least 127 records · Page 7Linked to original sources
USGS2019

Responses of biological soil crusts to rehabilitation strategies

Biological soil crusts (biocrusts) are common to dryland ecosystems and can influence a broad suite of soil ecological functions including stability and surface hydrology. Due to long recovery times following disturbance, there is a clear need for rehabilitation strategies to enhance the recovery of biocrust communities. Essential to biocrust recovery are exopolysaccharides (EPS): secretions comprised mainly of high molecular weight polymers that protect cyanobacteria from harsh environmental conditions. We examined whether biocrust rehabilitation strategies (inoculation in combination with surface shading and artificial soil stabilization) promote EPS production. To test if responses varied by soil texture, we measured biocrust recovery on two fine-textured soil types (clay and sandy clay loam) in a cool desert ecosystem. Shade coupled with inoculum addition resulted in the highest biocrust recovery, especially on clay soils. Independent of rehabilitation strategies, natural recovery of biocrusts occurred more rapidly on clay soils, reflected by greater increases in chlorophyll a (chl a). Chl a, a proxy for cyanobacterial biomass, was correlated to EPS amounts, suggesting that cyanobacteria are significant contributors to EPS production in biocrust development. Despite the role of EPS in biocrust establishment, EPS amounts had negligible effects on soil stability due inherent properties of fine soil texture.

Utah↗
USGS2014

Spectroscopy from Space

This chapter reviews detection of materials on solid and liquid (lakes and ocean) surfaces in the solar system using ultraviolet to infrared spectroscopy from space, or near space (high altitude aircraft on the Earth), or in the case of remote objects, earth-based and earth-orbiting telescopes. Point spectrometers and imaging spectrometers have been probing the surfaces of our solar system for decades. Spacecraft carrying imaging spectrometers are currently in orbit around Mercury, Venus, Earth, Mars, and Saturn, and systems have recently visited Jupiter, comets, asteroids, and one spectrometer-carrying spacecraft is on its way to Pluto. Together these systems are providing a wealth of data that will enable a better understanding of the composition of condensed matter bodies in the solar system. Minerals, ices, liquids, and other materials have been detected and mapped on the Earth and all planets and/or their satellites where the surface can be observed from space, with the exception of Venus whose thick atmosphere limits surface observation. Basaltic minerals (e.g., pyroxene and olivine) have been detected with spectroscopy on the Earth, Moon, Mars and some asteroids. The greatest mineralogic diversity seen from space is observed on the Earth and Mars. The Earth, with oceans, active tectonic and hydrologic cycles, and biological processes, displays the greatest material diversity including the detection of amorphous and crystalline inorganic materials, organic compounds, water and water ice. Water ice is a very common mineral throughout the Solar System and has been unambiguously detected or inferred in every planet and/or their moon(s) where good spectroscopic data has been obtained. In addition to water ice, other molecular solids have been observed in the solar system using spectroscopic methods. Solid carbon dioxide is found on all systems beyond the Earth except Pluto, although CO 2 sometimes appears to be trapped in other solids rather than as an ice on some objects. The largest deposits of carbon dioxide ice are found on Mars. Sulfur dioxide ice is found in the Jupiter system. Nitrogen and methane ices are common beyond the Uranian system. Saturn’s moon Titan probably has the most complex active extra-terrestrial surface chemistry involving organic compounds. Some of the observed or inferred compounds include ices of benzene (C 6 H 6 ), cyanoacetylene (HC 3 N), toluene (C 7 H 8 ), cyanogen (C 2 N 2 ), acetonitrile (CH 3 CN), water (H 2 O), carbon dioxide (CO 2 ), and ammonia (NH 3 ). Confirming compounds on Titan is hampered by its thick smoggy atmosphere, where in relative terms the atmospheric interferences that hamper surface characterization lie between that of Venus and Earth. In this chapter we exclude discussion of the planets Jupiter, Saturn, Uranus, and Neptune because their thick atmospheres preclude observing the surface, even if surfaces exist. However, we do discuss spectroscopic observations on a number of the extra-terrestrial satellite bodies. Ammonia was predicted on many icy moons but is notably absent among the definitively detected ices with possible exceptions on Charon and possible trace amounts on some of the Saturnian satellites. Comets, storehouses of many compounds that could exist as ices in their nuclei, have only had small amounts of water ice definitively detected on their surfaces from spectroscopy. Only two asteroids have had a direct detection of surface water ice, although its presence can be inferred in others.

Reviews in Mineralogy and Geochemistry↗
USGS1996

Organic geochemistry applied to environmental assessments of Prince William Sound, Alaska, after the Exxon Valdez oil spill—a review

Organic geochemistry played a major role in the environmental assessments conducted following the Exxon Valdez oil spill, which occurred on March 24, 1989, and released about 258,000 bbls (41 million liters) of Alaska North Slope crude oil into Prince William Sound. Geochemical analyses of more than 15,000 sediment, tar, and biological samples and about 5000 water samples provide the largest database yet collected on oil-spill chemistry, and we review the results here. The marine environment of the Sound has a complex background of petrogenic, pyrogenic, and biogenic hydrocarbons from natural and anthropogenic sources. Geochemical evaluation of the fate and effects of the spilled oil required that this oil and its residues be distinguished from the background. A variety of molecular and isotopic techniques were employed to identify various hydrocarbon sources and to distinguish quantitatively among mixed sources in the samples. Although the specific criteria used to distinguish multiple sources in the region affected by the Exxon Valdez spill are not necessarily applicable to all spill situations, the principles that governed their selection are. Distributions of polycyclic aromatic hydrocarbons (PAH) and dibenzothiophenes distinguish Exxon Valdez oil and its weathered residues from background hydrocarbons in benthic sediments. Ratios of C 2 -dibenzothiophene C 2 -phenanthrene "> C 2 -dibenzothiopheneC 2 -phenanthrene and C 3 -dibenzothiophene C 3 -phenanthrene "> C 3 -dibenzothiopheneC 3 -phenanthrene were particularly useful. Carbon isotopes and terpane distributions distinguished Exxon Valdez residues found on shorelines from tars from other sources. Diesel and diesel soot were identified by the absence of alkylated chrysenes and a narrow distribution of n -alkanes, whereas pyrogenic products were distinguished by the dominance of 4- to 6-ring PAH over 2- to 3-ring PAH and by the dominance of non-alkylated over alkylated homologues of each PAH series. The presence of 18α(H)-oleanane in benthic sediments, coupled with its absence in Exxon Valdez oil and its residues, confirm another petrogenic source. Results of geochemical studies suggest that the petrogenic component in the background of benthic sediments is derived from oil seeps in the eastern Gulf of Alaska. In 1990 and 1991, Exxon Valdez residues, generally forming a small increment to the pre-spill background, were found to be only sporadically distributed in some shallow, near shore sediments adjacent to shorelines that had been heavily oiled in 1989. In 1994, occurrences of Exxon Valdez tars on shoreline surfaces were rare, although residues could be found buried in shoreline sediments at some isolated locations along the spill path where they were protected from wave action. Spilled oil residues collected 16 months after the spill were degraded, on average, by nearly 50%. Shoreline residues from sources other than the spill were also identified and are widespread throughout the Sound. These residues include (1) geochemically distinct tars and oils imported from California oil fields to Alaska for fuel and construction purposes prior to the discovery of the Cook Inlet and North Slope oil fields, (2) diesel and diesel soot, and (3) more highly refined products. Of the more than 2700 chemical analyses of biological samples of higher life forms (fish, birds, and mammals) about 150 (6%) indicate recognizable residues of Exxon Valdez oil, which were identified by their distribution of polycyclic aromatic hydrocarbons (PAH). Most of these samples (138) were collected in 1989 and most were associated with external surfaces or the gastrointestinal tract. Rarely do internal tissues or fluids contain recognizable fingerprints of spilled oil. This observation includes samples from marine mammals that were visibly oiled externally. Other hydrocarbon sources, including diesel and a non-petroleum artifact that occurs when concentrations of individual PAH are at or near their method detection limit, are also identified in biological samples.

Alaska↗
USGS2024

Molecular sexing of birds using quantitative PCR (qPCR) of sex-linked genes and logistic regression models

The ability to sex individuals is an important component of many behavioural and ecological investigations and provides information for demographic models used in conservation and species management. However, many birds are difficult to sex using morphological characters or traditional molecular sexing methods. In this study, we developed probabilistic models for sexing birds using quantitative PCR (qPCR) data. First, we quantified distributions of gene copy numbers at a set of six sex-linked genes, including the sex-determining gene DMRT1 , for individuals across 17 species and seven orders of birds ( n = 150). Using these data, we built predictive logistic models for sex identification and tested their performance with independent samples from 51 species and 13 orders ( n = 209). Models using the two loci most highly correlated with sex had greater accuracy than models using the full set of sex-linked loci, across all taxonomic levels of analysis. Sex identification was highly accurate when individuals to be assigned were of species used in model building. Our analytical approach was widely applicable across diverse neognath bird lineages spanning millions of years of evolutionary divergence. Unlike previous methods, our probabilistic framework incorporates uncertainty around qPCR measurements as well as biological variation within species into decision-making rules. We anticipate that this method will be useful for sexing birds, including those of high conservation concern and/or subsistence value, that have proven difficult to sex using traditional approaches. Additionally, the general analytical framework presented in this paper may also be applicable to other organisms with sex chromosomes.

Molecular Ecology Resources↗
USGS2012

Stable isotope deltas: Tiny, yet robust signatures in nature

Although most of them are relatively small, stable isotope deltas of naturally occurring substances are robust and enable workers in anthropology, atmospheric sciences, biology, chemistry, environmental sciences, food and drug authentication, forensic science, geochemistry, geology, oceanography, and paleoclimatology to study a variety of topics. Two fundamental processes explain the stable isotope deltas measured in most terrestrial systems: isotopic fractionation and isotope mixing. Isotopic fractionation is the result of equilibrium or kinetic physicochemical processes that fractionate isotopes because of small differences in physical or chemical properties of molecular species having different isotopes. It is shown that the mixing of radioactive and stable isotope end members can be modelled to provide information on many natural processes, including 14C abundances in the modern atmosphere and the stable hydrogen and oxygen isotopic compositions of the oceans during glacial and interglacial times. The calculation of mixing fractions using isotope balance equations with isotope deltas can be substantially in error when substances with high concentrations of heavy isotopes (e.g. 13C, 2H, and 18O ) are mixed. In such cases, calculations using mole fractions are preferred as they produce accurate mixing fractions. Isotope deltas are dimensionless quantities. In the International System of Units (SI), these quantities have the unit 1 and the usual list of prefixes is not applicable. To overcome traditional limitations with expressing orders of magnitude differences in isotope deltas, we propose the term urey (symbol Ur), after Harold C. Urey, for the unit 1. In such a manner, an isotope delta value expressed traditionally as−25 per mil can be written as−25 mUr (or−2.5 cUr or−0.25 dUr; the use of any SI prefix is possible). Likewise, very small isotopic differences often expressed in per meg ‘units’ are easily included (e.g. either+0.015 ‰ or+15 per meg can be written as+15 μUr.

Isotopes in Environmental and Health Studies↗
USGS2009

Research in thermal biology: Burning questions for coldwater stream fishes

With the increasing appreciation of global warming impacts on ecological systems, in addition to the myriad of land management effects on water quality, the number of literature citations dealing with the effects of water temperature on freshwater fish has escalated in the past decade. Given the many biological scales at which water temperature effects have been studied, and the growing need to integrate knowledge from multiple disciplines of thermal biology to fully protect beneficial uses, we held that a survey of the most promising recent developments and an expression of some of the remaining unanswered questions with significant management implications would best be approached collectively by a diverse research community. We have identified five specific topic areas of renewed research where new techniques and critical thought could benefit coldwater stream fishes (particularly salmonids): molecular, organism, population/species, community and ecosystem, and policy issues in water quality. Our hope is that information gained through examination of recent research fronts linking knowledge at various scales will prove useful in managing water quality at a basin level to protect fish populations and whole ecosystems. Standards of the past were based largely on incipient lethal and optimum growth rate temperatures for fish species, while future standards should consider all integrated thermal impacts to the organism and ecosystem. ?? Taylor and Francis Group, LLC.

Reviews in Fisheries Science↗
USGS1994

Biological monitoring of environmental quality: The use of developmental instability

Distributed robustness is thought to influence the buffering of random phenotypic variation through the scale-free topology of gene regulatory, metabolic, and protein-protein interaction networks. If this hypothesis is true, then the phenotypic response to the perturbation of particular nodes in such a network should be proportional to the number of links those nodes make with neighboring nodes. This suggests a probability distribution approximating an inverse power-law of random phenotypic variation. Zero phenotypic variation, however, is impossible, because random molecular and cellular processes are essential to normal development. Consequently, a more realistic distribution should have a y-intercept close to zero in the lower tail, a mode greater than zero, and a long (fat) upper tail. The double Pareto-lognormal (DPLN) distribution is an ideal candidate distribution. It consists of a mixture of a lognormal body and upper and lower power-law tails.

Journal of Environmental Engineering↗
USGS2020

Book review: Proceedings of the First International Snakehead Symposium

Snakehead fishes (family Channidae) are among the most maligned aquatic invasive species in the USA and some other countries where they have been introduced outside of their native range in Asia and Africa. Nevertheless, snakeheads continue to be widely exploited in the live‐food trade in aquaculture and wild‐capture fisheries, are highly sought by anglers, and are also popular in the aquarium trade (Courtenay and Williams 2004). The Northern Snakehead Channa argus is the most widespread of the three channid species that are currently naturalized in the USA. This species has generated much concern and controversy, a situation that is partly fueled by sensational media coverage and B‐grade science fiction horror films, such as “Frankenfish,” “Snakehead Terror,” and “Snakehead Swamp.” Media reports of snakehead introductions are often replete with provocative terms, such as “vicious,” “villain,” “voracious,” “monster,” “diabolical,” and even “ecological Armageddon.” When snakeheads first appeared in natural waters of the USA, fisheries professionals became increasingly interested in their status. Established populations rapidly expanded in the mid‐Atlantic region and Arkansas, with scattered reports of introduced snakeheads from isolated locations in Hawaii, California, North Carolina, Florida, the Upper Midwest, and New England. In 2002, snakeheads were added to the list of injurious fishes under the Lacey Act, thereby prohibiting their importation or transport across state lines without a permit. This symposium was conceived by the editors and other concerned fisheries professionals of the Mississippi River Basin Panel on Aquatic Invasive Species. The mission of the symposium, held in Alexandria, Virginia, in July 2018, was to bring together experts on snakehead biology and ecology and to synthesize existing information into summary papers. In this book, 35 authors contributed to 15 peer‐reviewed articles that detail the current state of knowledge about snakehead introductions in the USA. Additionally, 16 abstracts are included from meeting presentations that were not accompanied by full‐length manuscripts. Also included is a summary of a facilitated symposium panel discussion featuring eight experts representing state and federal natural resource agencies and private fishing organizations. The book is organized into six sections. In the first section (Distribution), three papers provide an overview of the Channa species introduced into the USA and historical accounts of occurrence and dispersal of the Northern Snakehead in the mid‐Atlantic region and Arkansas. The second section (Biology/Ecology) consists of two articles that examine growth and energetics of Northern Snakehead populations and two papers that investigate diet, diel feeding activity, and movement of this species in the Potomac River drainage. The third section (Monitoring/Response) includes a paper that models range expansion of the Northern Snakehead in the southeastern USA based on occurrence data and environmental conditions. Also included in this section is a paper summarizing an environmental DNA study to assess the status and range of the Bullseye Snakehead C. marulius in southern Florida. The fourth section (Management/Control) is comprised of four papers that address harvest, age and growth, and development of a stock–recruitment model to inform management decisions regarding control and mitigation for Northern Snakehead populations in the greater Chesapeake Bay area. The fifth section (Perspectives) includes a paper on the history of snakehead introductions in Japan and a thought‐provoking social commentary on the human dimensions of Northern Snakehead management. Abstracts in the final section provide brief summaries of a diversity of snakehead studies, including aspects of distribution, ecology, behavior, control and monitoring efforts, public outreach, and pathology. The summary of the panel discussion is an engaging dialogue about the challenges of snakehead management in the context of conflicts regarding snakeheads as injurious versus their value as game and food species. Most of this book is focused on the Northern Snakehead. Much has been done to document snakehead distributions and certain aspects of snakehead biology, such as diets, age, and growth. Less research has been devoted to understanding the ecological impacts of snakeheads to native aquatic communities and ecosystems. This book would have benefited from a chapter summarizing the current systematics and diversity of the Channidae to inform fisheries biologists about the morphological characteristics of the family, approximate numbers of genera and species, and taxonomic instability. Exemplifying the latter, recent molecular and morphological evidence indicates uncertainty regarding identification of the feral snakehead population in Florida (Adamson and Britz 2019). Those authors suggest that this population may have originated from western Thailand, a possibility that could have implications for understanding historical pathways of snakehead introductions into the USA. In comparison with many published AFS symposia, this volume is relatively narrow in scope and lacks cohesive integration. It will primarily be of interest to those fisheries professionals engaged in the study of snakeheads as well as other nonnative species for which there are contrasting social values regarding their management: whether to monitor and attempt control or eradication efforts or to maintain populations for harvest as game or food species. The book should serve to identify information gaps and guide future research.

Transactions of the American Fisheries Society↗
USGS2022

Evaluating noninvasive methods for estimating cestode prevalence in a wild carnivore population

Helminth infections are cryptic and can be difficult to study in wildlife species. Helminth research in wildlife hosts has historically required invasive animal handling and necropsy, while results from noninvasive parasite research, like scat analysis, may not be possible at the helminth species or individual host levels. To increase the utility of noninvasive sampling, individual hosts can be identified by applying molecular methods. This allows for longitudinal sampling of known hosts and can be paired with individual-level covariates. Here we evaluate a combination of methods and existing long-term monitoring data to identify patterns of cestode infections in gray wolves in Yellowstone National Park. Our goals were: (1) Identify the species and apparent prevalence of cestodes infecting Yellowstone wolves; (2) Assess the relationships between wolf biological and social characteristics and cestode infections; (3) Examine how wolf samples were affected by environmental conditions with respect to the success of individual genotyping. We collected over 200 wolf scats from 2018–2020 and conducted laboratory analyses including individual wolf genotyping, sex identification, cestode identification, and fecal glucocorticoid measurements. Wolf genotyping success rate was 45%, which was higher in the winter but decreased with higher precipitation and as more time elapsed between scat deposit and collection. One cestode species was detected in 28% of all fecal samples, and 38% of known individuals. The most common infection was Echinococcus granulosus sensu lato (primarily E . canadensis ). Adult wolves had 4x greater odds of having a cestode infection than pups, as well as wolves sampled in the winter. Our methods provide an alternative approach to estimate cestode prevalence and to linking parasites to known individuals in a wild host system, but may be most useful when employed in existing study systems and when field collections are designed to minimize the time between fecal deposition and collection.

PLoS ONE↗
USGS2008

Avian movements and wetland connectivity in landscape conservation

The current conservation crisis calls for research and management to be carried out on a long-term, multi-species basis at large spatial scales. Unfortunately, scientists, managers, and agencies often are stymied in their effort to conduct these large-scale studies because of a lack of appropriate technology, methodology, and funding. This issue is of particular concern in wetland conservation, for which the standard landscape approach may include consideration of a large tract of land but fail to incorporate the suite of wetland sites frequently used by highly mobile organisms such as waterbirds (e.g., shorebirds, wading birds, waterfowl). Typically, these species have population dynamics that require use of multiple wetlands, but this aspect of their life history has often been ignored in planning for their conservation. We outline theoretical, empirical, modeling, and planning problems associated with this issue and suggest solutions to some current obstacles. These solutions represent a tradeoff between typical in-depth single-species studies and more generic multi-species studies. They include studying within- and among-season movements of waterbirds on a spatial scale appropriate to both widely dispersing and more stationary species; multi-species censuses at multiple sites; further development and use of technology such as satellite transmitters and population-specific molecular markers; development of spatially explicit population models that consider within-season movements of waterbirds; and recognition from funding agencies that landscape-level issues cannot adequately be addressed without support for these types of studies.

Conservation Biology↗
USGS2007

Biodegradation of PAHs and PCBs in soils and sludges

Results from a multi-year, pilot-scale land treatment project for PAHs and PCBs biodegradation were evaluated. A mathematical model, capable of describing sorption, sequestration, and biodegradation in soil/water systems, is applied to interpret the efficacy of a sequential active-passive biotreatment process of organic chemicals on remediation sites. To account for the recalcitrance of PAHs and PCBs in soils and sludges during long-term biotreatment, this model comprises a kinetic equation for organic chemical intraparticle sequestration process. Model responses were verified by comparison to measurements of biodegradation of PAHs and PCBs in land treatment units; a favorable match was found between them. Model simulations were performed to predict on-going biodegradation behavior of PAHs and PCBs in land treatment units. Simulation results indicate that complete biostabilization will be achieved when the concentration of reversibly sorbed chemical (S RA) reduces to undetectable levels, with a certain amount of irreversibly sequestrated residual chemical (S IA) remaining within the soil particle solid phase. The residual fraction (S IA) tends to lose its original chemical and biological activity, and hence, is much less available, toxic, and mobile than the "free" compounds. Therefore, little or no PAHs and PCBs will leach from the treatment site and constitutes no threat to human health or the environment. Biotreatment of PAHs and PCBs can be terminated accordingly. Results from the pilot-scale testing data and model calculations also suggest that a significant fraction (10-30%) of high-molecular-weight PAHs and PCBs could be sequestrated and become unavailable for biodegradation. Bioavailability (large K d , i.e., slow desorption rate) is the key factor limiting the PAHs degradation. However, both bioavailability and bioactivity (K in Monod kinetics, i.e., number of microbes, nutrients, and electron acceptor, etc.) regulate PCBs biodegradation. The sequential active-passive biotreatment can be a cost-effective approach for remediation of highly hydrophobic organic contaminants. The mathematical model proposed here would be useful in the design and operation of such organic chemical biodegradation processes on remediation sites. ?? 2007 Springer Science+Business Media B.V.

Water, Air, & Soil Pollution↗
USGS2011

Review of concepts useful for maintaining quality of male reproductive field samples for laboratory study

Investigations into cellular and molecular characteristics of male gametes obtained from fish in natural ecosystems require careful sample handling and shipping in order to minimize artifacts. Maintaining sample integrity engenders confident assessments of ecosystem health, whereby animal condition is often reflected by gamete biomarkers - indicators that respond in measurable ways to changes. A number of our investigations have addressed the hypothesis that biomarkers from fish along a pollution gradient are reflective of site location. Species biology and the selected biological endpoints direct choice of parameters such as: temperature, buffer osmolality, time in transit, fixation, cryoprotectants, protease inhibition, and antibiotic inclusion in extender. This paper will highlight case studies, and outline parameters and thoughts on approaches for use by field and laboratory researchers.

Conference Paper↗
USGS2014

Clinal variation or validation of a subspecies? A case study of the Graptemys nigrinoda complex (Testudines: Emydidae)

Widely distributed species often display intraspecific morphological variation due to the abiotic and biotic gradients experienced across their ranges. Historically, in many vertebrate taxa, such as birds and reptiles, these morphological differences within a species were used to delimit subspecies. Graptemys nigrinoda is an aquatic turtle species endemic to the Mobile Bay Basin. Colour pattern and morphological variability were used to describe a subspecies ( G. n. delticola ) from the lower reaches of the system, although it and the nominate subspecies also reportedly intergrade over a large portion of the range. Other researchers have suggested that these morphological differences merely reflect clinal variation. Our molecular data (mtDNA) did not support the existence of the subspecies, as the haplotypes were differentiated by only a few base pairs and one haplotype was shared between the putative subspecies. While there were significant morphological and pattern differences among putative specimens of G. n. nigrinoda, G. n. delticola and G. n. nigrinoda × delticola , these differences probably represent clinal variation as they were also related to environmental variables [i.e. cumulative drainage area and drainage (categorical)]. Specimens occupying slow-current, high-turbidity river reaches (e.g. the Tensaw River) exhibited greater relative carapace heights and more dark pigmentation, while specimens occupying fast-current, clearer rivers (e.g. the upper Alabama, Cahaba and Tallapoosa rivers) exhibited lower carapace heights and more yellow pigmentation. Given the absence of clear molecular and morphological differences that are related to drainage characteristics, we suggest that there is not sufficient evidence for the recognition of G. n. delticola as a distinct subspecies.

Alabama;Mississippi↗
USGS2018

Toxicity assessment of groundwater contaminated by petroleum hydrocarbons at a well-characterized, aged, crude oil release site

Management of petroleum-impacted waters by monitored natural attenuation requires an understanding of the toxicology of both the original compounds released and the transformation products formed during natural breakdown. Here, we report data from a groundwater plume consisting of a mixture of crude oil compounds and transformation products in an effort to bridge the gap between groundwater quality information and potential biological effects of human exposures. Groundwater samples were characterized for redox processes, concentrations of nonvolatile dissolved organic carbon (NVDOC) and total petroleum hydrocarbons in the diesel range, as well as for activation of human nuclear receptors (hNR) and toxicologically relevant transcriptional pathways. Results show upregulation of several biological pathways, including peroxisome proliferator-activated receptor gamma and alpha, estrogen receptor alpha, and pregnane X receptor (PXR) with higher levels of hNR activity observed in more contaminated samples. Our study of affected groundwater contaminated by a crude-oil release 39 years ago shows these types of waters may have the potential to cause adverse impacts on development, endocrine, and liver functioning in exposed populations. Additionally, positive trends in activation of some of the molecular targets (e.g., PXR) with increasing NVDOC concentrations (including polar transformation products) demonstrate the importance of improving our understanding of the toxicity associated with the unknown transformation products present in hydrocarbon-impacted waters. Our results begin to provide insight into the potential toxicity of petroleum-impacted waters, which is particularly timely given the ubiquitous nature of waters impacted by petroleum contamination not only recently but also in the past and the need to protect drinking-water quality.

Environmental Science & Technology↗
USGS2020

Determinants and consequences of dispersal in vertebrates with complex life cycles: a review of pond-breeding amphibians

Dispersal is a central process in ecology and evolution. It strongly influences the dynamics of spatially structured populations, by affecting population growth rate and local colonization-extinction processes. Dispersal can also influence evolutionary processes because it determines rates and patterns of gene flow in spatially structured populations and is closely linked to local adaptation. For these reasons, dispersal has received considerable attention from ecologists and evolutionary biologists. However, although it has been studied extensively in taxa such as birds and mammals, much less is known about dispersal in vertebrates with complex life cycles such as pond-breeding amphibians. Over the past two decades, researchers have taken an interest in amphibian dispersal and initiated both fundamental and applied studies, using a broad range of experimental and observational approaches. This body of research reveals complex dispersal patterns, causations and syndromes, with dramatic consequences for the demography and genetics of amphibian populations. In this review, our goals are to (1) redefine and clarify the concept of amphibian dispersal, (2) review current knowledge about the effects of individual (i.e., condition-dependent dispersal) and environmental (i.e., context-dependent dispersal) factors during the three stages of dispersal (i.e., emigration, immigration, transience), (3) identify the demographic and genetic consequences of dispersal in spatially structured amphibian populations, and (4) propose new research avenues to extend our understanding of amphibian dispersal. In particular, we emphasize the need to (1) quantify dispersal rate and distance rigorously using suitable model systems, (2) investigate the genetic basis and dispersal evolution patterns, and (3) examine dispersal-related eco-evolutionary dynamics. These proposed research avenues tap from the recent advances in quantitative and molecular methods and have the potential to improve our understanding of dispersal in organisms with complex life cycles.

The Quarterly Review of Biology↗
USGS2015

Spatial structure of morphological and neutral genetic variation in Brook Trout

Brook Trout Salvelinus fontinalis exhibit exceptional levels of life history variation, remarkable genetic variability, and fine-scale population structure. In many cases, neighboring populations may be highly differentiated from one another to an extent that is comparable with species-level distinctions in other taxa. Although genetic samples have been collected from hundreds of populations and tens of thousands of individuals, little is known about whether differentiation at neutral markers reflects phenotypic differences among Brook Trout populations. We compared differentiation in morphology and neutral molecular markers among populations from four geographically proximate locations (all within 24 km) to examine how genetic diversity covaries with morphology. We found significant differences among and/or within streams for all three morphological axes examined and identified the source stream of many individuals based on morphology (52.3% classification efficiency). Although molecular and morphological differentiation among streams ranged considerably (mean pairwise F ST : 0.023–0.264; pairwise P ST : 0.000–0.339), the two measures were not significantly correlated. While in some cases morphological characters appear to have diverged to a greater extent than expected by neutral genetic drift, many traits were conserved to a greater extent than were neutral genetic markers. Thus, while Brook Trout exhibit fine-scale spatial patterns in both morphology and neutral genetic diversity, these types of biological variabilities are being structured by different ecological and evolutionary processes. The relative influences of genetic drift versus selection and phenotypic plasticity in shaping morphology appear to vary among populations occupying nearby streams.

Maryland↗
USGS2022

Biogeography of freshwater mussels (Bivalvia: Unionida) in Texas and implications on conservation biology

Aim Biogeography seeks to identify and explain the spatial distributions of species and has become an important tool used by conservationists to protect and manage aquatic organisms. Texas, located in the southwestern United States, is home to 52 species of freshwater mussels, 9 of which are endemic to Texas and 7 that are endemic to Texas and neighboring states or countries. There have been two major attempts to classify this fauna into biogeographical provinces; however, both efforts relied on limited distribution information and outdated taxonomy. To address both issues, we set out to delineate biogeographic provinces for freshwater mussels in Texas by using a comprehensive distributional dataset of >28,000 records and molecular information. Location Southwestern United States. Methods We compiled community and molecular data for 48 of the 52 freshwater mussel species that occur in Texas. We performed algorithmic hierarchal cluster analysis (HCA) and nonmetric multidimensional scaling (NMDS) based on Euclidean distance to identify biogeographic groupings. We conducted a similar analysis using molecular sequence data for our target species. Results Based on the results from community and molecular data, we identified seven biogeographic provinces for freshwater mussels in Texas: Great Plains, Mississippi Embayment, Sabine-Neches, Trinity-San Jacinto, Central Texas, Rio Grande and Coastal. However, the Coastal and Great Plains provinces were not included in our analysis and were recognized based on previous work. Main conclusions Our approach integrating community and molecular datasets provides a comprehensive assessment of the biogeography of freshwater mussels in Texas, which serves as a model for future biogeographic studies. Our findings also shed light on the ecological, evolutionary and geologic processes shaping freshwater mussel communities in Texas, which is important for the conservation of remaining biodiversity in the state.

Texas↗
USGS2020

Introduction to life cycles, taxonomy, distribution and basic research techniques

Avian haemosporidian parasites are a closely related group of apicomplexan parasites with important similarities in their life cycles, development, physiology, and reproduction. Current phylogenies based on mitochondrial and nuclear genes reflect more traditional attempts to classify these organisms based on life history characteristics and morphology, but limited sampling from poorly characterized taxa such as the Garniidae from tropical and subtropical regions continues to limit our understanding of their phylogeny and evolution. Recent advances in molecular diagnostics and the ability to barcode these parasites using mitochondrial cytochrome b sequences have revolutionized the field, but traditional methodology based on microscopy of Giemsa-stained blood smears remains essential for diagnostics and understanding life history characteristics and biodiversity of these organisms. The relative strengths and weaknesses of current methods in wildlife haemosporidian research are discussed. We call for a combination of microscopic, PCR-based, and serological diagnostic methodologies for better estimates of true distribution and other aspects of biology of haemosporidians, particularly in studies on virulence, prevalence, and biodiversity.

Book chapter↗