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At least 109 records · Page 6Linked to original sources
USGS2014

Transport and retention of vertically migrating adult mysid and decapod shrimp in the tidal front on Georges Bank

Vertical profiles of the adult epibenthic shrimp Neomysis americana and Crangon septemspinosus obtained during June 1985 were used to simulate possible rates of ascent from bottom (40 to 50 m) to near surface at night and return by day, and the consequence of these rates on their horizontal distribution. Numerical particles were released at the sampling site using archived model current fields with specified vertical rates (from no swim behavior to 20 mm s(-1)) and tracked for up to 30 d. The best match between observed and modeled vertical profiles was with a vertical swimming speed of 10 mm s(-1) for N. americana and 2 mm s(-1) for C. septemspinosus. Whereas N. americana rapidly swims towards the surface at dusk and descends to bottom by dawn, C. septemspinosus tends to only swim up to the middle of the water column at night. After 16 d, the simulation with 10 mm s(-1) swim speed showed most particles were concentrated in an area centered around the 60 m isobath, where the tidal front was located. At 2 mm s(-1) swim speed particles were concentrated more shoalward onto the western end of Georges Bank. N. americana are expected to be more closely associated with the tidal front, since they spend more time near the front surface convergence, but are more likely to be transported off the bank due to the south-westward-flowing surface tidal jet, whereas C. septemspinosus would be retained primarily on the bank, since they are found deeper in the water column during both day and night.

Marine Ecology Progress Series↗
USGS2012

Effects of mining-derived metals on riffle-dwelling crayfish in southwestern Missouri and southeastern Kansas, USA

Riffle-dwelling crayfish populations were sampled at 16 sites in 4 tributaries of the Spring River located within the Tri-State Mining District in southwest Missouri. Crayfish density, physical habitat quality, and water quality were examined at each site to assess the ecological effects of mining-derived metals on crayfish. Metals (lead, zinc, and cadmium) were analyzed in samples of surface water, sediment, detritus, and whole crayfish. Sites were classified a posteriori into reference, mining, and downstream sites primarily based on metal concentrations in the materials analyzed. Three species of crayfish ( Orconectes neglectus neglectus , O. macrus , and O. virilis ) were collected during the study; however, only O. n. neglectus was collected at all sites. Mean crayfish densities were significantly lower at mining sites than at reference sites. Mean concentrations of metals were significantly correlated among the materials analyzed and were significantly greater at mining and downstream sites than at reference sites. Principal component analyses showed a separation of sites due to an inverse relationship among crayfish density, metals concentrations, and physical habitat quality variables. Sediment probable-effects quotients and surface-water toxic unit scores were significantly correlated; both indicated risk of toxicity to aquatic biota at several sites. Metals concentrations in whole crayfish at several sites exceeded concentrations known to be toxic to carnivorous wildlife. Mining-derived metals have the potential to impair ecosystem function through decreased organic matter processing and nutrient cycling in streams due to decreased crayfish densities.

Kansas;Missouri↗
USGS2022

Using paleoecological data to inform decision making: A deep-time perspective

Latest climate models project conditions for the end of this century that are generally outside of the human experience. These future conditions affect the resilience and sustainability of ecosystems, alter biogeographic zones, and impact biodiversity. Deep-time records of paleoclimate provide insight into the climate system over millions of years and provide examples of conditions very different from the present day, and in some cases similar to model projections for the future. In addition, the deep-time paleoecologic and sedimentologic archives provide insight into how species and habitats responded to past climate conditions. Thus, paleoclimatology provides essential context for the scientific understanding of climate change needed to inform resource management policy decisions. The Pliocene Epoch (5.3–2.6 Ma) is the most recent deep-time interval with relevance to future global warming. Analysis of marine sediments using a combination of paleoecology, biomarkers, and geochemistry indicates a global mean annual temperature for the Late Pliocene (3.6–2.6 Ma) ∼3°C warmer than the preindustrial. However, the inability of state-of-the-art climate models to capture some key regional features of Pliocene warming implies future projections using these same models may not span the full range of plausible future climate conditions. We use the Late Pliocene as one example of a deep-time interval relevant to management of biodiversity and ecosystems in a changing world. Pliocene reconstructed sea surface temperatures are used to drive a marine ecosystem model for the North Atlantic Ocean. Given that boundary conditions for the Late Pliocene are roughly analogous to present day, driving the marine ecosystem model with Late Pliocene paleoenvironmental conditions allows policymakers to consider a future ocean state and associated fisheries impacts independent of climate models, informed directly by paleoclimate information.

Frontiers in Ecology and Evolution↗
USGS2017

Younger-Dryas cooling and sea-ice feedbacks were prominent features of the Pleistocene-Holocene transition in Arctic Alaska

Declining sea-ice extent is currently amplifying climate warming in the Arctic. Instrumental records at high latitudes are too short-term to provide sufficient historical context for these trends, so paleoclimate archives are needed to better understand the functioning of the sea ice-albedo feedback. Here we use the oxygen isotope values of wood cellulose in living and sub-fossil willow shrubs (δ 18 O wc ) ( Salix spp.) that have been radiocarbon-dated ( 14 C) to produce a multi-millennial record of climatic change on Alaska's North Slope during the Pleistocene-Holocene transition (13,500–7500 calibrated 14 C years before present; 13.5–7.5 ka). We first analyzed the spatial and temporal patterns of δ 18 O wc in living willows growing at upland sites and found that over the last 30 years δ 18 O wc values in individual growth rings correlate with local summer temperature and inter-annual variations in summer sea-ice extent. Deglacial δ 18 O wc values from 145 samples of subfossil willows clearly record the Allerød warm period (∼13.2 ka), the Younger Dryas cold period (12.9–11.7 ka), and the Holocene Thermal Maximum (11.7–9.0 ka). The magnitudes of isotopic changes over these rapid climate oscillations were ∼4.5‰, which is about 60% of the differences in δ 18 O wc between those willows growing during the last glacial period and today. Modeling of isotope-precipitation relationships based on Rayleigh distillation processes suggests that during the Younger Dryas these large shifts in δ 18 O wc values were caused by interactions between local temperature and changes in evaporative moisture sources, the latter controlled by seaice extent in the Arctic Ocean and Bering Sea. Based on these results and on the effects that sea-ice have on climate today, we infer that ocean-derived feedbacks amplified temperature changes and enhanced precipitation in coastal regions of Arctic Alaska during warm times in the past. Today, isotope values in willows on the North Slope of Alaska are similar to those growing during the warmest times of the Pleistocene-Holocene transition, which were times of widespread permafrost thaw and striking ecological changes.

Alaska↗
USGS2011

Baseline ecological risk assessment of the Calcasieu Estuary, Louisiana: 3. An evaluation of the risks to benthic invertebrates associated with exposure to contaminated sediments

The sediments in the Calcasieu Estuary are contaminated with a wide variety of chemicals of potential concern (COPCs), including heavy metals, polycyclic aromatic hydrocarbons, polychlorinated biphenyls, phthalates, chlorinated benzenes, and polychlorinated dibenzo-p-dioxins and dibenzofurans. The sources of these COPCs include both point and non-point source discharges. As part of a baseline ecological risk assessment, the risks to benthic invertebrates posed by exposure to sediment-associated COPCs were assessed using five lines of evidence, including whole-sediment chemistry, pore-water chemistry, whole-sediment toxicity, pore-water toxicity, and benthic invertebrate community structure. The results of this assessment indicated that exposure to whole sediments and/or pore water from the Calcasieu Estuary generally posed low risks to benthic invertebrate communities (i.e., risks were classified as low for 68% of the sampling locations investigated). However, incremental risks to benthic invertebrates (i.e., compared with those associated with exposure to conditions in reference areas) were indicated for 32% of the sampling locations within the estuary. Of the three areas of concern (AOCs) investigated, the risks to benthic invertebrates were highest in the Bayou d'Inde AOC; risks were generally lower in the Upper Calcasieu River AOC and Middle Calcasieu River AOC. The areas showing the highest risks to sediment-dwelling organisms were generally located in the vicinity of point source discharges of COPCs. These results provided risk managers with the information required to make decisions regarding the need for remedial actions at the site.

Louisiana↗
USGS2016

Cheatgrass percent cover change: Comparing recent estimates to climate change − Driven predictions in the Northern Great Basin

Cheatgrass ( Bromus tectorum L.) is a highly invasive species in the Northern Great Basin that helps decrease fire return intervals. Fire fragments the shrub steppe and reduces its capacity to provide forage for livestock and wildlife and habitat critical to sagebrush obligates. Of particular interest is the greater sage grouse ( Centrocercus urophasianus ), an obligate whose populations have declined so severely due, in part, to increases in cheatgrass and fires that it was considered for inclusion as an endangered species. Remote sensing technologies and satellite archives help scientists monitor terrestrial vegetation globally, including cheatgrass in the Northern Great Basin. Along with geospatial analysis and advanced spatial modeling, these data and technologies can identify areas susceptible to increased cheatgrass cover and compare these with greater sage grouse priority areas for conservation (PAC). Future climate models forecast a warmer and wetter climate for the Northern Great Basin, which likely will force changing cheatgrass dynamics. Therefore, we examine potential climate-caused changes to cheatgrass. Our results indicate that future cheatgrass percent cover will remain stable over more than 80% of the study area when compared with recent estimates, and higher overall cheatgrass cover will occur with slightly more spatial variability. The land area projected to increase or decrease in cheatgrass cover equals 18% and 1%, respectively, making an increase in fire disturbances in greater sage grouse habitat likely. Relative susceptibility measures, created by integrating cheatgrass percent cover and temporal standard deviation datasets, show that potential increases in future cheatgrass cover match future projections. This discovery indicates that some greater sage grouse PACs for conservation could be at heightened risk of fire disturbance. Multiple factors will affect future cheatgrass cover including changes in precipitation timing and totals and increases in freeze-thaw cycles. Understanding these effects can help direct land management, guide scientific research, and influence policy.

Idaho, Montana, Nevada, Oregon, Utah, Washington, ↗
USGS2010

Relationships between water temperatures and upstream migration, cold water refuge use, and spawning of adult bull trout from the Lostine River, Oregon, USA

Understanding thermal habitat use by migratory fish has been limited by difficulties in matching fish locations with water temperatures. To describe spatial and temporal patterns of thermal habitat use by migratory adult bull trout, Salvelinus confluentus, that spawn in the Lostine River, Oregon, we employed a combination of archival temperature tags, radio tags, and thermographs. We also compared temperatures of the tagged fish to ambient water temperatures to determine if the fish were using thermal refuges. The timing and temperatures at which fish moved upstream from overwintering areas to spawning locations varied considerably among individuals. The annual maximum 7-day average daily maximum (7DADM) temperatures of tagged fish were 16-18 ??C and potentially as high as 21 ??C. Maximum 7DADM ambient water temperatures within the range of tagged fish during summer were 18-25 ??C. However, there was no evidence of the tagged fish using localized cold water refuges. Tagged fish appeared to spawn at 7DADM temperatures of 7-14 ??C. Maximum 7DADM temperatures of tagged fish and ambient temperatures at the onset of the spawning period in late August were 11-18 ??C. Water temperatures in most of the upper Lostine River used for spawning and rearing appear to be largely natural since there has been little development, whereas downstream reaches used by migratory bull trout are heavily diverted for irrigation. Although the population effects of these temperatures are unknown, summer temperatures and the higher temperatures observed for spawning fish appear to be at or above the upper range of suitability reported for the species. Published 2009. This article is a US Governmentwork and is in the public domain in the USA.

Ecology of Freshwater Fish↗
USGS2017

The role of paleoecology in restoration and resource management—The past as a guide to future decision-making: Review and example from the Greater Everglades Ecosystem, U.S.A

Resource managers around the world are challenged to develop feasible plans for sustainable conservation and/or restoration of the lands, waters, and wildlife they administer—a challenge made greater by anticipated climate change and associated effects over the next century. Increasingly, paleoecologic and geologic archives are being used to extend the period of record of observed data and provide information on centennial to millennial scale responses to long-term drivers of ecosystem change. The development of paleoecology from an emerging field investigating past environments to a highly relevant applied science is reviewed and general examples of the application of paleoecologic research to resource management questions in diverse habitats and regions are provided. Specific examples of the application of paleoecologic research to the restoration of the Greater Everglades Ecosystem of south Florida (U.S.A) are presented. Conducting valuable scientific research that would benefit resource management decisions, however, is not enough. Scientists and resource managers need to be engaged in collaborative discussions from the beginning of the research process to ensure that management questions are being addressed and that the science reaches the people who will benefit from the information. Paleoecology and related disciplines provide an understanding of how ecosystems and individual species function and change over time in response to both natural and anthropogenic drivers. Information on pre-anthropogenic baseline conditions is provided by paleoecologic research, but it is the detection of long-term trends and cycles that allow resource managers to set realistic goals and targets by moving away from the fixed-point baseline concept to one of dynamic landscapes that anticipates and incorporates an expectation of change into decision-making.

Florida↗
USGS2022

What determines the effectiveness of Pinyon-Juniper clearing treatments? Evidence from the remote sensing archive and counter-factual scenarios

In the intermountain western US, expansion of Pinyon ( Pinus edulis) and Juniper ( Juniperus spp. ) woodlands (PJ) into grasslands and shrublands is a pervasive phenomenon, and an example of the global trend towards enhanced woody growth in drylands. Due to the perceived impacts of these expansions on ecosystem services related to biodiversity, hydrology, soil stability, fire prevention, and livestock forage, mechanical and chemical PJ reduction treatments have been a long-standing practice in the region. More recently, PJ reduction practices have come under enhanced public scrutiny, due to potential impacts on PJ-dependent wildlife, risk of erosion due to soil disturbance, and cost effectiveness due to variable rates of long-term success. Moreover, there is growing interest in understanding the biotic, abiotic, and management conditions under which PJ reduction treatments are effective. Here, we evaluated PJ reduction treatment outcomes leveraging large, curated databases of land treatments, new remotely sensed fractional cover time-series products, gridded climate and soils data, and analytical approaches adopted from the econometric literature. From 302 treatment events and 1569 distinct treatment polygons we found evidence that treatments reduced tree cover and largely increased shrub and perennial herbaceous cover for 10 or more years. However, treatments were also associated with increases in annual, likely non-native, herbaceous cover . Importantly, we noted treatment outcomes varied by landscape context, with some soil and geomorphic settings exhibiting consistent returns to pre-treatment conditions within 10–15 years, and others exhibiting more persistent changes in functional type composition. Despite the overall trends we observed, there was considerable unexplained variability in outcomes from treatment to treatment, highlighting the need for caution and attention to local geomorphic and biological context in planning future treatments.

Arizona, Colorado, New Mexico, Utah↗
USGS1998

Toxicity of sediment collected upriver and downriver of major cities along the Lower Mississippi River

The Lower Mississippi River contributes significantly to the biodiversity and ecological stability of the alluvial valley, but agricultural, industrial, and municipal developments have historically impacted environmental quality of the river. Toxicity of sediment and sediment pore water was used to assess the current effects of major cities on sediment quality along the Lower Mississippi River. Composite sediment samples were collected from four sites upriver and four sites downriver of five major cities: Cairo, IL; Memphis, TN; Vicksburg, MS; Baton Rouge, LA; and New Orleans, LA. Acute toxicity was determined by exposing Hyalella azteca to solid-phase sediment for 10 days with two water renewals per day and to sediment pore water under static conditions for 96 h. After the initial tests, animals were exposed to ultraviolet light for 16 h. Sediments were analyzed for organics (organochlorine pesticides, PCBs, organophosphate insecticides, and PAHs) and metals (Cr, Cu, Pb, Mn, Ni, Zn). With the exception of upriver from Memphis, solid-phase sediments were not toxic to H. azteca. Pore water from sediments collected upriver of Memphis also showed slight toxicity. Exposure of H. azteca to ultraviolet light did not increase the toxicity of the sediment or pore-water samples, indicating a lack of toxicity from PAHs that are photoactivated by ultraviolet light. Chemical analyses did not reveal any contaminant levels of concern in the sediments. Based on toxicity testing and chemical analyses, quality of sediments collected from the Lower Mississippi was good, with the exception of sites sampled upriver of Memphis.

Illinois, Louisiana, Mississippi, Tennessee↗
USGS2019

Mapping cropland extent of Southeast and Northeast Asia using multi-year time-series Landsat 30-m data using Random Forest classifier on Google Earth Engine

Cropland extent maps are useful components for assessing food security. Ideally, such products are a useful addition to countrywide agricultural statistics since they are not politically biased and can be used to calculate cropland area for any spatial unit from an individual farm to various administrative unites (e.g., state, county, district) within and across nations, which in turn can be used to estimate agricultural productivity as well as degree of disturbance on food security from natural disasters and political conflict. However, existing cropland extent maps over large areas (e.g., Country, region, continent, world) are derived from coarse resolution imagery (250 m to 1 km pixels) and have many limitations such as missing fragmented and\or small farms with mixed signatures from different crop types and\or farming practices that can be, confused with other land cover. As a result, the coarse resolution maps have limited useflness in areas where fields are small (<1 ha), such as in Southeast Asia. Furthermore, coarse resolution cropland maps have known uncertainties in both geo-precision of cropland location as well as accuracies of the product. To overcome these limitations, this research was conducted using multi-date, multi-year 30-m Landsat time-series data for 3 years chosen from 2013 to 2016 for all Southeast and Northeast Asian Countries (SNACs), which included 7 refined agro-ecological zones (RAEZ) and 12 countries (Indonesia, Thailand, Myanmar, Vietnam, Malaysia, Philippines, Cambodia, Japan, North Korea, Laos, South Korea, and Brunei). The 30-m (1 pixel = 0.09 ha) data from Landsat 8 Operational Land Imager (OLI) and Landsat 7 Enhanced Thematic Mapper (ETM+) were used in the study. Ten Landsat bands were used in the analysis (blue, green, red, NIR, SWIR1, SWIR2, Thermal, NDVI, NDWI, LSWI) along with additional layers of standard deviation of these 10 bands across 1 year, and global digital elevation model (GDEM)-derived slope and elevation bands. To reduce the impact of clouds, the Landsat imagery was time-composited over four time-periods (Period 1: January- April, Period 2: May-August, and Period 3: September-December) over 3-years. Period 4 was the standard deviation of all 10 bands taken over all images acquired during the 2015 calendar year. These four period composites, totaling 42 band data-cube, were generated for each of the 7 RAEZs. The reference training data (N = 7849) generated for the 7 RAEZ using sub-meter to 5-m very high spatial resolution imagery (VHRI) helped generate the knowledge-base to separate croplands from non-croplands. This knowledge-base was used to code and run a pixel-based random forest (RF) supervised machine learning algorithm on the Google Earth Engine (GEE) cloud computing environment to separate croplands from non-croplands. The resulting cropland extent products were evaluated using an independent reference validation dataset (N = 1750) in each of the 7 RAEZs as well as for the entire SNAC area. For the entire SNAC area, the overall accuracy was 88.1% with a producer’s accuracy of 81.6% (errors of omissions = 18.4%) and user’s accuracy of 76.7% (errors of commissions = 23.3%). For each of the 7 RAEZs overall accuracies varied from 83.2 to 96.4%. Cropland areas calculated for the 12 countries were compared with country areas reported by the United Nations Food and Agriculture Organization and other national cropland statistics resulting in an R 2 value of 0.93. The cropland areas of provinces were compared with the province statistics that showed an R 2 = 0.95 for South Korea and R 2 = 0.94 for Thailand. The cropland products are made available on an interactive viewer at www.croplands.org and for download at National Aeronautics and Space Administration’s (NASA) Land Processes Distributed Active Archive Center (LP DAAC): https://lpdaac.usgs.gov/node/1281 .

International Journal of Applied Earth Observation↗
USGS2010

Status and distribution of mangrove forests of the world using earth observation satellite data

Aim Our scientific understanding of the extent and distribution of mangrove forests of the world is inadequate. The available global mangrove databases, compiled using disparate geospatial data sources and national statistics, need to be improved. Here, we mapped the status and distributions of global mangroves using recently available Global Land Survey (GLS) data and the Landsat archive. Methods We interpreted approximately 1000 Landsat scenes using hybrid supervised and unsupervised digital image classification techniques. Each image was normalized for variation in solar angle and earth–sun distance by converting the digital number values to the top-of-the-atmosphere reflectance. Ground truth data and existing maps and databases were used to select training samples and also for iterative labelling. Results were validated using existing GIS data and the published literature to map ‘true mangroves’. Results The total area of mangroves in the year 2000 was 137,760 km2 in 118 countries and territories in the tropical and subtropical regions of the world. Approximately 75% of world's mangroves are found in just 15 countries, and only 6.9% are protected under the existing protected areas network (IUCN I-IV). Our study confirms earlier findings that the biogeographic distribution of mangroves is generally confined to the tropical and subtropical regions and the largest percentage of mangroves is found between 5° N and 5° S latitude. Main conclusions We report that the remaining area of mangrove forest in the world is less than previously thought. Our estimate is 12.3% smaller than the most recent estimate by the Food and Agriculture Organization (FAO) of the United Nations. We present the most comprehensive, globally consistent and highest resolution (30 m) global mangrove database ever created. We developed and used better mapping techniques and data sources and mapped mangroves with better spatial and thematic details than previous studies.

Global Ecology and Biogeography↗
USGS2016

Trade-offs between energy maximization and parental care in a central place forager, the sea otter

Between 1999 and 2014, 126 archival time–depth recorders (TDRs) were used to examine the foraging behavior of southern sea otters ( Enhydra lutris nereis ) off the coast of California, in both resource-abundant (recently occupied, low sea otter density) and resource-limited (long-occupied, high sea otter density) locations. Following predictions of foraging theory, sea otters generally behaved as energy rate maximizers. Males and females without pups employed similar foraging strategies to optimize rates of energy intake in resource-limited habitats, with some exceptions. Both groups increased overall foraging effort and made deeper, longer and more energetically costly dives as resources became limited, but males were more likely than females without pups to utilize extreme dive profiles. In contrast, females caring for young pups (≤10 weeks) prioritized parental care over energy optimization. The relative importance of parental care versus energy optimization for adult females with pups appeared to reflect developmental changes as dependent young matured. Indeed, contrary to females during the initial stages of lactation, females with large pups approaching weaning once again prioritized optimizing energy intake. The increasing prioritization of energy optimization over the course of lactation was possible due to the physiological development of pups and likely driven by the energetic deficit incurred by females early in lactation. Our results suggest that regardless of resource availability, females at the end of lactation approach a species-specific ceiling for percent time foraging and that reproductive females in the central portion of the current southern sea otter range are disproportionately affected by resource limitation.

Behavioral Ecology↗
USGS2012

Long-term effects of the 'Exxon Valdez' oil spill: Sea otter foraging in the intertidal as a pathway of exposure to lingering oil

The protracted recovery of some bird and mammal populations in western Prince William Sound (WPWS), Alaska, and the persistence of spilled 'Exxon Valdez' oil in intertidal sediments, suggests a pathway of exposure to consumers that occupy nearshore habitats. To evaluate the hypothesis that sea otter ( Enhydra lutris ) foraging allows access to lingering oil, we contrast spatial relations between foraging behavior and documented oil distribution. We recovered archival time-depth recorders implanted in 19 sea otters in WPWS, where lingering oil and delayed ecosystem recovery are well documented. Sea otter foraging dives ranged from +2.7 to -92 m below sea level (MLLW), with intertidal accounting for 5 to 38% of all foraging. On average, female sea otters made 16050 intertidal dives per year and 18% of these dives were at depths above the +0.80 m tidal elevation. Males made 4100 intertidal dives per year and 26% of intertidal foraging took place at depths above the +0.80 m tidal elevation. Estimated annual oil encounter rates ranged from 2 to 24 times yr -1 for females, and 2 to 4 times yr -1 for males. Exposure rates increased in spring when intertidal foraging doubled and females were with small pups. In summer 2008, we found sea otter foraging pits on 13.5 of 24.8 km of intertidal shoreline surveyed. Most pits (82%) were within 0.5 m of the zero tidal elevation and 15% were above 0.5 m, the level above which most (65%) lingering oil remains. In August 2008, we detected oil above background concentrations in 18 of 41 (44%) pits excavated by sea otters on beaches with prior evidence of oiling, with total PAH concentrations up to 56000 ng g−1 dry weight. Our estimates of intertidal foraging, the widespread presence of foraging pits in the intertidal, and the presence of oil in and near sea otter foraging pits documents a pathway of exposure from lingering intertidal oil to sea otters foraging in WPWS.

Alaska↗
USGS2020

Microbiomes from biorepositories? 16S rRNA bacterial amplicon sequencing of archived and contemporary intestinal samples of wild mammals (Eulipotyphla: Soricidae)

Interest in gut microbial community composition has exploded recently as a result of the increasing ability to characterize these organisms and a growing understanding of their role in host fitness. New technologies, such as next generation amplicon (16S rRNA) sequencing, have enabled identification of bacterial communities from samples of diverse origin (e.g., fecal, skin, genital, environmental, etc.). Relatively little work, however, has explored the feasibility of utilizing historical samples (e.g., museum archived samples) of varying age, quality, and preservation type. Because natural history collections span multiple decades, these biorepositories have the potential to provide fundamental historical baselines to measure and better understand biodiversity on a changing planet. Utilizing even a small proportion of museum specimens could provide a means of sampling past microbial communities, allowing for direct comparison to contemporary communities and more complete understanding of dynamic shifts through time. We examined the feasibility of obtaining 16S rRNA amplicon microbiome data from whole gastrointestinal tracts (GIs) of shrews of varying age and preservation method, including 5 freshly collected shrew GIs immediately fixed in liquid nitrogen (LN2), 10 ten-year old shrew GIs frozen at −20°C (whole animal), and 10 shrews of varying ages (4 from 1968, 1 from 1980, 1 from 2001, 1 from 2004, 1 from 2007, 1 from 2011 and 2 from 2013) fixed and stored whole in 70% ethanol. Not surprisingly, results of 16S rDNA amplicon sequencing reveal significantly different bacterial communities between different preservation techniques and age of samples. Ten-year old frozen samples had bacterial communities most similar to freshly collected (LN2) samples, while the bacterial communities of both were significantly different from the 70% ethanol preserved samples of various ages. Amongst those preserved in 70% ethanol, age of samples also influenced bacterial community composition. Additionally, we compare results of OTU based and ASV based analyses. Looking ahead, field collectors and museums should develop and adopt best practices related to frozen preservation to ensure adequate material for future microbiome investigations.

Frontiers in Ecology and Evolution↗
USGS2006

Seasonal migration and environmental conditions of Pacific halibut Hippoglossus stenolepis , elucidated from pop-up archival transmitting (PAT) tags

Pop-up archival transmitting (PAT) tags were used to study the fall migration of halibut in the Gulf of Alaska (GOA). We tagged 6 Pacific halibut Hippoglossus stenolepis on summer feeding grounds in the eastern GOA and another 6 in the western GOA from June 13 to August 6, 2002. The tags were programed to be released from the fish on January 15, 2003, at the height of the winter spawning season: 10 tags successfully detached, transmitted archived environmental data (depth and temperature), and generated accurate latitude–longitude coordinates shortly after pop-up; 2 tags deployed off SE Alaska were lost. The tags revealed that 6 fish had moved a considerable distance (>200 km) between tagging and pop-up, and all of these had moved northward to some extent. The longest of the observed migrations was from the southern Alaska Peninsula to Yakutat Bay, a linear displacement of 1153 km; 4 fish showed little evidence of geographic displacement, exhibiting migrations that ranged only from 30 to 69 km. Although 2 fish had moved inshore by the end of the tagging period, all other fish had moved offshore regardless of their overall migration distance. The precise timing of offshore movements varied, beginning as early as August and as late as January. These observations generally corroborate conventional tagging, indicating migration of halibut toward winter spawning grounds in the northern GOA, and movement of fish to deep water in fall. However, no single stereotypic migration behavior was apparent, and a variety of vertical movement patterns and temperature profiles were observed. Halibut spent most time in waters of 5 to 7°C, but experienced temperatures ranging from 2.6 to 11.6°C. Depth observations ranged from 0 to 736 m, with summertime activity concentrated in depths from 0 to 400 m, and halibut that exhibited offshore movement were typically observed at 300 to 700 m by mid-winter. Vertical movement (short-period changes in depth) varied among fish and over time, with some fish displaying little vertical activity, others displaying short periods of activity, and still others displaying considerable activity throughout their time at liberty.

Marine Ecology Progress Series↗
USGS2008

Distribution of pesticides, PAHs, PCBs, and bioavailable metals in depositional sediments of the lower Missouri River, USA

The lower Missouri River was studied to determine the distribution of selected persistent organic pollutants and bioavailable metals in depositional sediments. Nineteen sites between Omaha, Nebraska and Jefferson City, Missouri were sampled. This stretch of the river receives point-source and non-point-source inputs from industrial, urban, and agricultural activities. As part of an ecological assessment of the river, concentrations of 29 legacy organochlorine pesticides (OC pesticides), including chlordanes, DDTs, and hexachlorocyclohexanes; a select list of current-use pesticides, including trifluralin, diazinon, chlorpyrifos, and permethrin, polycyclic aromatic hydrocarbons (PAHs), polychlorinated biphenyls (PCBs), divalent metals (copper, nickel, zinc, cadmium, and lead), and polybrominated diphenyl ethers (PBDEs) were determined. Concentrations (dry weight basis) of OC pesticides in the sediments were less than 1 ng/g, with the exception of the backwater sediment collected from the mouth of the Blue River in the Kansas City metropolitan area, which contained up to 20 ng/g total chlordane, 8.1 ng/g p,p???-DDE, 1.5 ng/g lindane, 4.8 ng/g dieldrin, and 3 ng/g endrin. Concentrations of chlorpyrifos and permethrin ranged from less than 1 ng/g to 5.5 ng/g and 44 ng/g, respectively. Concentrations of PCBs ranged from less than 11 ng/g to 250 ng/g, with the Blue River and Sibley sediments containing 100 and 250 ng/g total PCBs, respectively. Concentrations of total PAHs at 17 of the 19 sites ranged from 250 to 700 ng/g, whereas the Riverfront and Blue River sites in Kansas City contained 1100 ng/g and nearly 4000 ng/g, respectively. Concentrations of the metals did not vary significantly among most sites; however, the Blue River site contained elevated concentrations of zinc (104 ??g/g), cadmium (0.7 ??g/g), and lead (34 ??g/g) compared to the other sites. The moderately high concentrations of acid-volatile sulfide in the sediments suggest a low potential for metal toxicity to benthic organisms along this reach of the Missouri River. The depositional area sediments contained concentrations of the targeted persistent organic chemicals and metals that were below published probable effect level concentrations. ?? 2008 Springer Science+Business Media, LLC.

Archives of Environmental Contamination and Toxico↗
USGS1993

2,3,7,8-Tetrachlorodibenzo-p-dioxin equivalents in tissues of birds at Green Bay, Wisconsin, USA

The environment has become contaminated with complex mixtures of planar, chlorinated hydrocarbons (PCHs) such as polychlorinated biphenyls (PCBs), polychlorinated dibenzo- p -dioxins (PCDDs), polychlorinated dibenzofurans (PCDFs) and structurally similar compounds. Because the potencies of individual congeners to cause the same adverse effects vary greatly and the relative as well as absolute concentrations of individual PCH vary among samples from different locations, it is difficult to assess the toxic effects of these mixtures on wildlife. These compounds can cause a number of adverse effects, however, because the toxic effects which occur at ecologically-relevant concentrations such as embryo-lethality and birth defects appear to be mediated through the same mechanism, the potency of individual congeners can be reported relative to 2,3,7,8-tetrachlorodibenzo- p -dioxin (2,3,7,8-TCDD) which is the most toxic congener in the PCH class. The concentations of 2,3,7,8-TCDD Equivalents (TCDD-EQ) were determined in the tissues of aquatic and terrestrial birds of Green Bay, Wisconsin by the H4IIE bioassay system and compared toxic equivalency factors (TEFs) with the concentration predicted by the use of toxic equivalency factors applied to concentrations of PCH, which were determined by instrumental analyses. Concentrations of TCDD-EQ ranged from 0.52 to 440 ng/kg, wet weight. The greatest concentrations occurred in the fish-eating birds. Concentrations of TCDD-EQ, which were determined by the two methods were significantly correlated, but the additive model which used the TEFs with concentrations of measured PCB, PCDD and PCDF congeners underestimated the concentrations of TCDD-EQ measured by the H4IIE bioassay by an average of 57%. This is thought to be due to contributions from un-quantified PCH, which are known to occur in the environment. Of the quantified PCH congeners, PCDD and PCDF contributed a small portion of the TCDD-EQ in the aquatic birds, while most of the TCDD-EQ were due to non-ortho-substituted PCBs. In the terrestrial birds, the proportion of the TCDD-EQ contributed by the PCDD and PCDF was greater. This paper has been reviewed in accord with U.S. Environmental Protection Agency policy. Mention of specific products or trade names does not imply endorsement by the U.S. Government.

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