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USGS2020

Occurrence of a suite of stream-obligate amphibians in timberlands of Mendocino County, California, examined using environmental DNA

Stream-obligate amphibians are important indicators of ecosystem health in the Pacific Northwest, but distributional information to improve forest management is lacking in many regions. We analyzed archived DNA extracted from water samples in 60 pools in streams on private timberlands in Mendocino County, California, for 3 California Species of Special Concern—Coastal Tailed Frogs ( Ascaphus truei ), Foothill Yellow-legged Frogs ( Rana boylii ), and Southern Torrent Salamanders ( Rhyacotriton variegatus )—to better understand their distributions in the region. Detection probabilities for eDNA of Foothill Yellow-legged Frogs and Coastal Tailed Frogs were positively influenced by water temperature. eDNA occurrence for both frogs was affected by whether silt or organic matter was a dominant substrate in the sampled pool, and Foothill Yellow-legged Frog eDNA occurrence was also affected by water temperature. Foothill Yellow-legged Frog eDNA occurrence had a strong, positive association with water temperature, with occurrence unlikely below 14°C and very likely above 16°C, and a positive association with silt or organic substrates in pools, which was likely an indicator of higher-order stream reaches. In contrast, Coastal Tailed Frogs had a negative association with silt or organic substrates. Historical visual detections were generally congruent with findings using eDNA, but differences highlight important areas for further study. We did not detect Southern Torrent Salamanders using eDNA at any sites. Our study reinforces that ecological relationships of these species are varied, and shows the importance of maintaining the integrity of streams with diverse characteristics for conserving stream amphibians.

California↗

USGS2019

Integrating fish assemblage data, modeled stream temperatures, and thermal tolerance metrics to develop thermal guilds for water temperature regulation: Wyoming case study

Many streams are experiencing increased average temperatures due to anthropogenic activity and climate change. As a result, surface water temperature regulation is critical for preserving a diverse stream fish species assemblage. The development of temperature regulations has generally been based on laboratory measurements of individual species' thermal tolerances rather than community response to temperature in the field, despite multiple limitations of using laboratory data for this purpose. Using field data to develop temperature regulations may avoid some of the limitations of laboratory data, but the use of field data comes with additional challenges that prevent its widespread adoption. We used Wyoming stream fish assemblages as a case study to examine the feasibility of addressing the limitations of field and laboratory data through a hybrid approach that integrates both types of data to classify species into thermal guilds that can potentially inform regulatory standards. We identified coldwater, coolwater, and warmwater classes of sites with modeled mean August temperatures of <15.5, 15.5–19.9, and >19.9°C, respectively. We used species' associations with these temperature classes to place species into site‐groups. Finally, we used standardized laboratory measures of species' upper acute and chronic thermal tolerances to identify and reclassify species with unusual thermal distributions. Through this process we classified species into five thermal guilds that may be useful for surface water temperature regulation in Wyoming. Our approach addresses the limitations identified for field and laboratory data and demonstrates a framework that could be used for incorporating multiple types of data to develop temperature standards.

Wyoming↗

USGS2022

Reference genome of the California glossy snake, Arizona elegans occidentalis: A declining California Species of Special Concern

The glossy snake ( Arizona elegans ) is a polytypic species broadly distributed across southwestern North America. The species occupies habitats ranging from California’s coastal chaparral to the shortgrass prairies of Texas and southeastern Nebraska, to the extensive arid scrublands of central México. Three subspecies are currently recognized in California, one of which is afforded state-level protection based on the extensive loss and modification of its preferred alluvial coastal scrub and inland desert habitat. We report the first genome assembly of A. elegans occidentalis as part of the California Conservation Genomics Project (CCGP). Consistent with the reference genome strategy of the CCGP, we used Pacific Biosciences HiFi long reads and Hi-C chromatin-proximity sequencing technologies to produce a de novo assembled genome. The assembly comprises a total of 140 scaffolds spanning 1,842,602,218 base pairs, has a contig NG50 of 61 Mb, a scaffold NG50 of 136 Mb, and a BUSCO complete score of 95.9%, and is one of the most complete snake genome assemblies. The A. e. occidentalis genome will be a key tool for understanding the genomic diversity and the basis of adaptations within this species and close relatives within the hyperdiverse snake family Colubridae.

California↗

USGS2023

Revealing the extent of sea otter impacts on bivalve prey through multi-trophic monitoring and mechanistic models

Sea otters are apex predators that can exert considerable influence over the nearshore communities they occupy. Since facing near extinction in the early 1900s, sea otters are making a remarkable recovery in Southeast Alaska, particularly in Glacier Bay, the largest protected tidewater glacier fjord in the world. The expansion of sea otters across Glacier Bay offers both a challenge to monitoring and stewardship and an unprecedented opportunity to study the top-down effect of a novel apex predator across a diverse and productive ecosystem. Our goal was to integrate monitoring data across trophic levels, space, and time to quantify and map the predator–prey interaction between sea otters and butter clams Saxidomus gigantea , one of the dominant large bivalves in Glacier Bay and a favoured prey of sea otters. We developed a spatially-referenced mechanistic differential equation model of butter clam dynamics that combined both environmental drivers of local population growth and estimates of otter abundance from aerial survey data. We embedded this model in a Bayesian statistical framework and fit it to clam survey data from 43 intertidal and subtidal sites across Glacier Bay. Prior to substantial sea otter expansion, we found that butter clam density was structured by an environmental gradient driven by distance from glacier (represented by latitude) and a quadratic effect of current speed. Estimates of sea otter attack rate revealed spatial heterogeneity in sea otter impacts and a negative relationship with local shoreline complexity. Sea otter exploitation of productive butter clam habitat substantially reduced the abundance and altered the distribution of butter clams across Glacier Bay, with potential cascading consequences for nearshore community structure and function. Spatial variation in estimated sea otter predation processes further suggests that community context and local environmental conditions mediate the top-down influence of sea otters on a given prey. Overall, our framework provides high-resolution insights about the interaction among components of this food web and could be applied to a variety of other systems involving invasive species, epidemiology or migration.

Journal of Animal Ecology↗

USGS2017

A comprehensive survey of faults, breccias, and fractures in and flanking the eastern Española Basin, Rio Grande rift, New Mexico

A comprehensive survey of geologic structures formed in the Earth’s brittle regime in the eastern Española Basin and flank of the Rio Grande rift, New Mexico, reveals a complex and protracted record of multiple tectonic events. Data and analyses from this representative rift flank-basin pair include measurements from 53 individual fault zones and 22 other brittle structures, such as breccia zones, joints, and veins, investigated at a total of just over 100 sites. Structures were examined and compared in poorly lithified Tertiary sediments, as well as in Paleozoic sedimentary and Proterozoic crystalline rocks. Data and analyses include geologic maps; field observations and measurements; orientation, kinematic, and paleostress analyses; statistical examination of fault trace lengths derived from aeromagnetic data; mineralogy and chemistry of host and fault rocks; and investigation of fault versus bolide-impact hypotheses for the origin of enigmatic breccias found in the Proterozoic basement rocks. Fault kinematic and paleostress analyses suggest a record of transitional, and perhaps partitioned, strains from the Laramide orogeny through Rio Grande rifting. Normal faults within Tertiary basin-fill sediments are consistent with more typical WNW-ESE Rio Grande rift extension, perhaps decoupled from bedrock structures due to strength contrasts favoring the formation of new faults in the relatively weak sediments. Analyses of the fault-length data indicate power-law length distributions similar to those reported from many geologic settings globally. Mineralogy and chemistry in Proterozoic fault-related rocks reveal geochemical changes tied to hydrothermal alteration and nearly isochemical transformation of feldspars to clay minerals. In sediments, faulted minerals are characterized by mechanical entrainment with minor secondary chemical changes. Enigmatic breccias in rift-flanking Proterozoic rocks are autoclastic and isochemical with respect to their protoliths and exist near shatter cones believed to be related to a previously reported pre-Pennsylvanian impact event. A weak iridium anomaly is associated with the breccias as well as adjacent protoliths, thus an impact shock wave cannot be ruled out for their origin. Major fault zones along the eastern rift-flank mountain front are discontinuous and unlikely to impede regional groundwater flow into Española Basin aquifers. The breccia bodies are not large enough to constitute aquifers, and no fault- or breccia-related geochemical anomalies were identified as potential contamination sources for ground or surface waters. The results of this work provide a broad picture of structural diversity and tectonic evolution along the eastern flank of the central Rio Grande rift and the adjacent Española Basin representative of the rift as a whole and many rifts worldwide.

New Mexico↗

USGS2018

Continuous water-quality and suspended-sediment transport monitoring in the San Francisco Bay, California, water years 2014–15

The U.S. Geological Survey (USGS) monitors water quality and suspended-sediment transport in the San Francisco Bay (bay) as part of a multi-agency effort to address management, water supply, and ecological concerns. The San Francisco Bay area is home to millions of people, and the bay teems both with resident and with migratory wildlife, plants, and fish. Freshwater mixes with salt water in the bay, which is subject both to riverine influences (floods, droughts, managed reservoir releases and freshwater diversions) and to marine influences (tides, waves, effects of salt water). To understand this environment, the USGS, along with its partners (see “Acknowledgements”), has been monitoring the bay’s waters continuously since 1988. Several water-quality variables are of particular importance to State and Federal resource managers and are monitored at key locations throughout the bay (fig. 1). Salinity, which indicates the relative mixing of fresh and ocean waters in the bay, is derived from specific conductance measurements. Water temperature, along with salinity, affects the density of water, which controls gravity-driven circulation patterns and stratification in the water column. Turbidity, a measure of light scattered from suspended particles in the water, is used to estimate suspended-sediment concentration (SSC). Suspended sediment affects the bay in multiple ways: attenuation of sunlight in the water column, affecting phytoplankton growth; deposition on tidal marsh and intertidal mudflats, which can help sustain these habitats as sea level rises; deposition in ports and shipping channels, which can necessitate dredging; and often, adsorption of contaminants, affecting their distribution and concentrations in the environment. Dissolved oxygen concentration, essential to a healthy ecosystem and a fundamental indicator of water quality, is affected by water temperature, salinity, ecosystem metabolism, tidal currents, and wind. Tidal currents in the bay reverse four times a day, and wind direction and intensity typically vary on a daily cycle. Consequently, salinity, water temperature, SSC, and dissolved-oxygen concentration vary spatially and temporally throughout the bay. Therefore, continuous measurements are needed to observe these changes. The purpose of this fact sheet is to provide information about these variables, as well as internet links to access these continuous water-quality data collected by the USGS.

California↗

USGS2021

Impacts of climate changes and amplified natural disturbance on global ecosystems

Natural disturbances maintain biological diversity and landscape heterogeneity and initiate ecosystem renewal and reorganization. However, the severity, frequency, and extent of many disturbances have increased substantially in recent decades as the result of anthropogenic climate change. Disturbances can be discrete, short-duration events, such as wildfires or hurricanes, or can exert persistent, cumulative stresses on an ecosystem (for example, ongoing warming of ocean or land surface temperatures). Landscape and ecosystem impacts can occur from a single disturbance, from several disturbances acting independently, or from the interactions of multiple, linked disturbances. Key, climate-related disturbances affecting global biomes and ecosystems include shifting temperature and hydrologic regimes (for example, warming surface temperatures and increasing aridity), increased frequency and magnitude of extreme events such as heatwaves, severe droughts, storms, and hurricanes, warming-induced permafrost thaw, and heightened wildfire activity and insect-caused tree mortality. For ecosystems and landscapes, the consequences of climate-amplified disturbance include forced poleward and upward movement of plant and animal species, widespread tree mortality and reduced forest productivity, changes in plant community structure and species distributions, reduced biodiversity, increased erosion, debris flows, wetland dynamism, declining sea ice extent, more frequent storm-driven tides and saltwater intrusion, and increased landscape flammability.

Book chapter↗

USGS2014

Genetic analysis of invasive Asian Black Carp ( Mylopharyngodon piceus ) in the Mississippi River Basin: evidence for multiple introductions

Invasive Asian Black Carp ( Mylopharyngodon piceus ) have been present in USA aquaculture facilities since the 1980s and wild Black Carp have been found in the Mississippi River Basin since the early 1990s. This study characterizes the genetic diversity and relatedness of the Basin’s Black Carp and clarifies the introduction history. Analyses focused on three mitochondrial markers (control region, cytochrome- b , and 16S) and seven nuclear microsatellite markers ( nDNA ), using aquaculture and wild-caught samples collected in the upper and lower Mississippi Basin. Of the three mitochondrial haplotypes, two were shared between the aquaculture and wild populations, while a third was only present in upper Mississippi wild-caught specimens. Due to the presence of diploid and triploid fish, microsatellite markers were scored as pseudodominant and revealed low polymorphism (N A = 4.6, N A Ave = 1.5). Nuclear Bayesian clustering analyses identified two genetically distinct groups and four subclusters, each primarily composed of a unique haplotype. Samples from three aquaculture farms were assigned to group 1, while a fourth farm included samples from both groups 1 and 2. Wild-caught fish from the upper Basin were predominantly group 1, whereas wild samples from the lower Mississippi were assigned to both genetic groups. The presence of divergent haplotypes and distinct nDNA groups, along with geographic distribution patterns, indicate that wild populations in the basin likely resulted from multiple introductions. Genetic similarities between wild and captive populations support claims that aquaculture is the introduction source, but a shortage of samples and a history of repeated transfers among facilities obscure the precise pathway.

Mississippi River Basin↗

USGS2009

Mercury cycling in stream ecosystems. 2. Benthic methylmercury production and bed sediment - Pore water partitioning

Mercury speciation, controls on methylmercury (MeHg) production, and bed sediment−pore water partitioning of total Hg (THg) and MeHg were examined in bed sediment from eight geochemically diverse streams where atmospheric deposition was the predominant Hg input. Across all streams, sediment THg concentrations were best described as a combined function of sediment percent fines (%fines; particles < 63 μm) and organic content. MeHg concentrations were best described as a combined function of organic content and the activity of the Hg(II)-methylating microbial community and were comparable to MeHg concentrations in streams with Hg inputs from industrial and mining sources. Whole sediment tin-reducible inorganic reactive Hg (Hg(II) R ) was used as a proxy measure for the Hg(II) pool available for microbial methylation. In conjunction with radiotracer-derived rate constants of 203 Hg(II) methylation, Hg(II) R was used to calculate MeHg production potential rates and to explain the spatial variability in MeHg concentration. The %Hg(II) R (of THg) was low (2.1 ± 5.7%) and was inversely related to both microbial sulfate reduction rates and sediment total reduced sulfur concentration. While sediment THg concentrations were higher in urban streams, %MeHg and %Hg(II) R were higher in nonurban streams. Sediment pore water distribution coefficients (log K d ’s) for both THg and MeHg were inversely related to the log-transformed ratio of pore water dissolved organic carbon (DOC) to bed sediment %fines. The stream with the highest drainage basin wetland density also had the highest pore water DOC concentration and the lowest log K d ’s for both THg and MeHg. No significant relationship existed between overlying water MeHg concentrations and those in bed sediment or pore water, suggesting upstream sources of MeHg production may be more important than local streambed production as a driver of water column MeHg concentration in drainage basins that receive Hg inputs primarily from atmospheric sources.

Environmental Science & Technology↗

USGS2022

Landscape characteristics influence projected growth rates of stream-resident juvenile salmon in the face of climate change in the Kenai River watershed, south-central Alaska

Objective Climate change is affecting the distribution and productivity of Pacific salmon throughout their range. At high latitudes, warmer temperatures have been associated with increased freshwater growth of juvenile salmon, but it is not clear how long this trend will continue before further warming leads to reduced growth. To explore the potential influence of climate warming on juvenile Chinook and Coho Salmon summer growth rates in southcentral Alaska, we coupled bioenergetics models with temperature sensitivity models for streams across the Kenai River watershed. Methods We measured diet ( n = 772 stomachs) and growth ( n = 3,791 weight/length values) under current conditions and used published air temperature projections to model growth for the 2030–2039 and 2060–2069 decades. Result We estimated direct effects of climate warming on juvenile growth (body mass at the end of May–September study period) will be primarily negative, ranging from +5.1% to −22.8% relative to a 2010–2019 baseline. Estimated effects depended on age cohort, feeding rate, and climate scenario. However, an extended growing season from warming could mitigate or offset predicted reductions in growth during midsummer. Conclusion Our results illustrate how diverse habitats are expected to produce variation in the magnitude of climate effects throughout juvenile salmon rearing environments.

Alaska↗

USGS2023

Providing a framework for seagrass mapping in United States coastal ecosystems using high spatial resolution satellite imagery

Seagrasses have been widely recognized for their ecosystem services, but traditional seagrass monitoring approaches emphasizing ground and aerial observations are costly, time-consuming, and lack standardization across datasets. This study leveraged satellite imagery from Maxar's WorldView-2 and WorldView-3 high spatial resolution, commercial satellite platforms to provide a consistent classification approach for monitoring seagrass at eleven study areas across the continental United States, representing geographically, ecologically, and climatically diverse regions. A single satellite image was selected at each of the eleven study areas to correspond temporally to reference data representing seagrass coverage and was classified into four general classes: land, seagrass, no seagrass, and no data. Satellite-derived seagrass coverage was then compared to reference data using either balanced agreement, the Mann-Whitney U test, or the Kruskal-Wallis test, depending on the format of the reference data used for comparison. Balanced agreement ranged from 58% to 86%, with better agreement between reference- and satellite-indicated seagrass absence (specificity ranged from 88% to 100%) than between reference- and satellite-indicated seagrass presence (sensitivity ranged from 17% to 73%). Results of the Mann-Whitney U and Kruskal-Wallis tests demonstrated that satellite-indicated seagrass percentage cover had moderate to large correlations with reference-indicated seagrass percentage cover, indicative of moderate to strong agreement between datasets. Satellite classification performed best in areas of dense, continuous seagrass compared to areas of sparse, discontinuous seagrass and provided a suitable spatial representation of seagrass distribution within each study area. This study demonstrates that the same methods can be applied across scenes spanning varying seagrass bioregions, atmospheric conditions, and optical water types, which is a significant step toward developing a consistent, operational approach for mapping seagrass coverage at the national and global scales. Accompanying this manuscript are instructional videos describing the processing workflow, including data acquisition, data processing, and satellite image classification. These instructional videos may serve as a management tool to complement field- and aerial-based mapping efforts for monitoring seagrass ecosystems.

Alaska, California, Delaware, Florida, Maine, Mary↗

USGS2003

Monitoring amphibians in Great Smoky Mountains National Park

Amphibian species have inexplicably declined or disappeared in many regions of the world, and in some instances, serious malformations have been observed. In the United States, amphibian declines frequently have occurred even in protected areas. Causes for the declines and malformations probably are varied and may not even be related. The seemingly sudden declines in widely separated areas, however, suggests a need to monitor amphibian populations as well as identify the causes when declines or malformations are discovered. In 2000, the President of the United States and Congress directed Department of the Interior (DOI) agencies to develop a plan to monitor the trends in amphibian populations on DOI lands and to conduct causes of declines. The DOI has stewardship responsibilities over vast land holdings in the United States, much of it occupied by, or potential habitat for, amphibians. The U.S. Geological Survey (USGS) was given lead responsibility for planning and organizing this program, named the Amphibian Research and Monitoring Initiative (ARMI). Authorization carried the mandate to set up a national amphibian monitoring program on Federal lands, to develop the sampling techniques and biometrical analyses necessary to determine status and trends, and to identify possible causes of amphibian declines and malformations. The biological importance of Great Smoky Mountains National Park has been recognized by its designation as an International Biosphere Reserve. As such, it is clearly the leading region of significance for amphibian research. Although no other region shares the wealth of amphibians as found in the Great Smokies (31 species of salamanders, and 13 of frogs), the entire southern and mid-section of the Appalachian Mountain chain is characterized by a high diversity of amphibians, and inventories and monitoring protocols developed in the Smokies likely will be applicable to other Appalachian National Park Service properties. From 1998 to 2001, USGS biologists carried out a pilot inventory and monitoring research project in Great Smoky Mountains National Park. A variety of inventory, sampling, and monitoring techniques were employed and tested. These included wide-scale visual encounter surveys of amphibians at terrestrial and aquatic sites, intensive monitoring of selected plots, randomly placed small-grid plot sampling, litterbag sampling in streams, monitoring nesting females of selected species, call surveys, and monitoring specialized habitats, such as caves. Coupled with information derived from amphibian surveys on Federal lands using various other techniques (automated frog call data loggers, PVC pipes, drift fences, terrestrial and aquatic traps), an amphibian monitoring program was designed to best meet the needs of biologists and natural resource managers after taking into consideration the logistics, terrain, and life histories of the species found within Great Smoky Mountains National Park. This report provides an overview of the Park’s amphibians, the factors affecting their distribution, a review of important areas of biodiversity, and a summary of amphibian life history in the Southern Appalachians. In addition, survey techniques are described as well as examples of how the techniques are set up, a critique of what the results tell the observer, and a discussion of the limitations of the techniques and the data. The report reviews considerations for site selection, outlines steps for biosecurity and for processing diseased or dying animals, and provides resource managers with a decision tree on how to monitor the Park’s amphibians based on different levels of available resources. It concludes with an extensive list of references for inventorying and monitoring amphibians. USGS and Great Smoky Mountains National Park biologists need to establish cooperative efforts and training to ensure that congressionally mandated amphibian surveys are performed in a statistically rigorous and biologically meaningful manner, and that amphibian populations on Federal lands are monitored to ensure their long-term survival. The research detailed in this report will aid these cooperative efforts.

North Carolina, Tennessee↗

USGS1999

Intestinal coccidiosis

Coccidia are a complex and diverse group of protozoan (single-celled organisms) parasites; the coccidia group contains many species, most of which do not cause clinical disease. In birds, most disease-causing or pathogenic forms of coccidia parasites belong to the genus Eimeria. Coccidia usually invade the intestinal tract, but some invade other organs, such as the liver and kidney (see Chapter 27). Clinical illness caused by infection with these parasites is referred to as coccidiosis, but their presence without disease is called coccidiasis. In most cases, a bird that is infected by coccidia will develop immunity from disease and it will recover unless it is reinfected. The occurrence of disease depends, in part, upon the number of host cells that are destroyed by the juvenile form of the parasite, and this is moderated by many factors. Severely infected birds may die very quickly. Often, tissue damage to the bird’s intestine results in interrupted feeding; disruption of digestive processes or nutrient absorption; dehydration; anemia; and increased susceptibility to other disease agents. In cranes, coccidia that normally inhabit the intestine sometimes become widely distributed throughout the body. The resulting disease, disseminated visceral coccidiosis (DVC) of cranes, is characterized by nodules, or granulomas, on the surface of organs and tissues that contain developmental stages of the parasite. Collectively, coccidia are important parasites of domestic animals, but, because each coccidia species has a preference for parasitizing a particular bird species and because of the self-limiting nature of most infections, coccidiosis in freeranging birds has not been of great concern. However, habitat losses that concentrate bird populations and the increasing numbers of captive-reared birds that are released into the wild enhance the potential for problems with coccidiosis.

Information and Technology Report↗

USGS1999

Reconstructing late Quaternary deep-water masses in the eastern Arctic Ocean using benthonic Ostracoda

The distribution of Ostracoda in three long cores from the deep eastern Arctic Ocean was studied to determine the palaeoceanographical history of the Eurasian Basin during the late Quaternary. The samples for this study were obtained from the Lomonosov Ridge, Morris Jesup Rise and Yermak Plateau during the Arctic 91 expedition. Ostracoda previously studied in coretops at the same sites as the present study have shown that individual species have a strong association with different water masses and bathymetry. Throughout the late Quaternary, cores exhibit ostracod-rich layers separated by barren intervals. On the basis of biostratigraphical, isotopic and palaeomagnetic data the fossiliferous levels are interpreted as representing interglacial stages. The twenty most significant species were selected for subsequent quantitative investigation using Cluster and Factor analyses, in order to determine similarity and variance between the assemblages. An additional statistical method employing Modern Analogues and the Squared Chord Distance dissimilarity coefficient was utilized to compare the present late Quaternary fossil samples with a modern Arctic database. The results reveal a major faunal division within the Arctic Ocean Deep Water (AODW). Highly abundant and diverse assemblages within the cores were found to group and have good analogues with the Recent bathyal depth (1000-2500 m) upper AODW assemblages. Conversely, assemblages with low abundance and diversity correlate well with abyssal depth (> 3000 m) lower AODW assemblages. The palaeoceanographical history is complicated by the influence of adjacent water masses such as Canada Basin Deep Water (CBDW), Greenland Sea Deep Water (GSDW) and most importantly, Arctic Intermediate Water (AIW), which all had an influence on the ostracod assemblages during the late Quaternary. An enhanced flow of warm saline AIW into the Eurasian Basin results in species-rich upper AODW assemblages having good analogues down to 2750 m in the water column. In contrast, lower AODW assemblages influenced by cold well-oxygenated GSDW give analogues at depths as shallow as 1000 m. The faunal changes are the consequence of rapid climatic fluctuations in the eastern Arctic Ocean during the late Quaternary that are intrinsically linked to palaeoceanographical alternations in warm and cold current inflow from adjacent basins.

Conference Paper↗

USGS2024

Why do avian responses to change in Arctic green-up vary?

Global climate change has altered the timing of seasonal events (i.e., phenology) for a diverse range of biota. Within and among species, however, the degree to which alterations in phenology match climate variability differ substantially. To better understand factors driving these differences, we evaluated variation in timing of nesting of eight Arctic-breeding shorebird species at 18 sites over a 23-year period. We used the Normalized Difference Vegetation Index as a proxy to determine the start of spring (SOS) growing season and quantified relationships between SOS and nest initiation dates as a measure of phenological responsiveness. Among species, we tested four life history traits (migration distance, seasonal timing of breeding, female body mass, expected female reproductive effort) as species-level predictors of responsiveness. For one species (Semipalmated Sandpiper), we also evaluated whether responsiveness varied across sites. Although no species in our study completely tracked annual variation in SOS, phenological responses were strongest for Western Sandpipers, Pectoral Sandpipers, and Red Phalaropes. Migration distance was the strongest additional predictor of responsiveness, with longer-distance migrant species generally tracking variation in SOS more closely than species that migrate shorter distances. Semipalmated Sandpipers are a widely distributed species, but adjustments in timing of nesting relative to variability in SOS did not vary across sites, suggesting that different breeding populations of this species were equally responsive to climate cues despite differing migration strategies. Our results unexpectedly show that long-distance migrants are more sensitive to local environmental conditions, which may help them to adapt to ongoing changes in climate.

Article↗

USGS2021

Phenotypic variation in Brook Trout Salvelinus fontinalis (Mitchill) at broad spatial scales makes morphology an insufficient basis for taxonomic reclassification of the species

It was recently proposed that there are three new species of Salvelinus with microendemic distributions in the Great Smoky Mountains National Park, Tennessee, USA. The three species of Salvelinus were hypothesized to be distinct from their congener Brook Trout S. fontinalis based on three meristic traits—pored lateral-line scales, vertebral counts, and number of basihyal teeth. After analyses that included specimens sampled from a larger portion of the geographic range of S. fontinalis , we conclude that the three populations of Salvelinus recently described as new species are not morphometrically distinct from Brook Trout and consider all three to be synonyms of S. fontinalis . Moreover, the low number of specimens originally examined conflates morphological differences among populations with sexual dimorphism and/or phenotypic plasticity, both of which are documented extensively in Brook Trout but were not controlled for in the species descriptions. While there is currently insufficient phenotypic or genotypic evidence to support the hypothesis of three new species that are distinct from S. fontinalis , we acknowledge the need to understand the unique selection pressures that shape evolutionary trajectories in small, isolated populations of Brook Trout and to conserve evolutionarily significant sources of genotypic and phenotypic diversity. To that end, we provide comments on research opportunities to support Brook Trout conservation, including the importance of collaborative, range-wide phylogenetic studies to identify the most appropriate scales of management efforts.

New York, Tennessee↗

USGS2013

Woody vegetation communities of tidal freshwater swamps in South Carolina, Georgia and Florida (US) with comparisons to similar systems in the US and South America

Questions What are the general tree communities found in tidal freshwater swamps along four large coastal rivers in the southeastern United States (US)? How do these communities compare to other tidal freshwater swamps in the US and South America? Locations Tidal floodplains of major rivers along the Atlantic and Gulf coasts of the southeastern US: Savannah, Altamaha, Suwannee and Apalachicola Rivers. Methods An extensive survey of trees and shrubs was conducted to describe the communities from a range of tidal freshwater swamps. River basins studied include micro-tidal (Gulf coast) and meso-tidal (Atlantic coast) regimes, and study areas were located both near and distant to primary channels. A total of 128 plots (100 m2 each) were inventoried, distributed evenly over the Savannah and Altamaha Rivers along the Atlantic coast, and the Suwannee and Apalachicola Rivers along the Gulf coast. Multivariate statistics helped discern communities and the significant indicator species in each. Results Four general communities were characterized and named according to the strongest individual indicator species in each: Water Tupelo (Nyssa aquatica) Community, Swamp Tupelo (Nyssa biflora) Community, Dwarf Palmetto (Sabal minor) Community and Cabbage Palm (Sabal palmetto) Community. Conclusions Descriptions of most tidal freshwater swamps in the southeastern US fit within the communities described in this study. Because studies that make inferences between environmental drivers (e.g. salinity, hydroperiod, hurricanes) and specific community types are best applied to the same communities (but perhaps different river systems), this work provides a framework by which tidal freshwater forested wetlands can be accurately compared based on their tree communities. We suggest that, within the broad range of our inventories, the four communities described identify the primary associations that should be tracked within most tidal freshwater swamps of the US. However, we identify some river basins in the US that do not fit this construct. Diversity of major tree communities in tidal freshwater swamps outside the US is generally much lower (with the notable exception of Amazonian hardwood tidal várzea), as are basal area values.

Georgia;Florida;South Carolina↗

USGS2017

Methods for measuring bird-mediated seed rain: Insights from a Hawaiian mesic forest

Amount and diversity of bird-dispersed seed rain play important roles in determining forest composition, yet neither is easy to quantify. The complex ecological processes that influence seed movement make the best approach highly context specific. Although recent advances in seed rain theory emphasize quantifying source-specific seed shadows, many ecological questions can be addressed u sing a less mechanistic approach that requires fewer assumptions. Using seed rain rates from 0.38 m 2 hoop traps sampled twice monthly over the course of a year, we show that number of traps required to identify changes in seed rain varies across seed species and forest type. Detecting a 50% increase in amount of seed rain required from 65 to >300 traps, while detecting a 200% increase generally required ≤⃒50 traps. Trap size and ecological context dictate the number of seeds found in each trap, but the coefficient of variation (CV) across traps in a given ecological context can help inform future studies about number of traps needed to detect change. To better understand factors influencing variation around estimates of seed rain, we simulated both clustered and evenly distributed patterns of fecal deposition using three different levels of seed aggregation (number of seeds in each fecal deposit). When patterns of fecal deposition were clustered, rather than evenly dispersed across the study area, they required >1.5 times the number of traps to identify a 100% increase in seed rain. Similarly, we found that low seed aggregation required >1.5 times the number of traps to detect a 100% change than when aggregation was medium or high. At low aggregations, fewer seed rain traps contained seeds (low, 33 ± 5%; medium, 23 ± 4%; high, 24 ± 5%), resulting in more variation across traps than medium and high aggregations. We also illustrate the importance of training observers to discern between morphologically similar seeds from different species and provide resources to help identify bird-dispersed seeds commonly found within midelevation mesic Hawaiian forests.

Hawaii↗