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USGS2024

Global assessment of aquatic Isoëtes species ecology

Isoëtes are iconic but understudied wetland plants, despite having suffered severe losses globally mainly because of alterations in their habitats. We therefore provide the first global ecological assessment of aquatic Isoëtes to identify their environmental requirements and to evaluate if taxonomically related species differ in their ecology. The assessment resulted in an extensive new database on aquatic Isoëtes , ecological niche analyses, and descriptive species accounts. We compiled a global database that includes all known environmental data collected from 1935 to 2023 regarding aquatic Isoëtes. We then evaluated the environmental drivers of 16 species using 2,179 global records. Additionally, we used hypervolume analysis to quantify the ecological niches of the two species with the greatest number of records, finding significant differences and evidence that Isoëtes echinospora occupies a wider ecological niche than Isoëtes lacustris . Fifty-nine species (30% of the c. 200 Isoëtes species known today) were categorised as aquatic and were mainly reported in the Americas and northern Europe. About 38% of the aquatic species are threatened with extinction or are endemic to a small region, according to the International Union for Conservation of Nature's Red List in 2023. Many species were determined to be sensitive to certain water physical and chemical factors, generally preferring oligotrophic conditions such as low total phosphorus, moderate total nitrogen, moderate to low pH, and low conductivity. This analysis includes ecological data in the assessment of rare/threatened aquatic plants globally. This new database and the ecological analyses completed defined the ecological requirements of several species and identified knowledge gaps, which can aid management actions and future research. This paper highlights ecological significance and environmental sensitivities of aquatic Isoëtes . The current level of knowledge is inadequate for a large proportion of known taxa. We affirm the extreme need to support global, collaborative initiatives on which to build future conservation strategies.

Freshwater Biology↗
USGS2009

Phylogeographic reconstruction of a bacterial species with high levels of lateral gene transfer

Background: Phylogeographic reconstruction of some bacterial populations is hindered by low diversity coupled with high levels of lateral gene transfer. A comparison of recombination levels and diversity at seven housekeeping genes for eleven bacterial species, most of which are commonly cited as having high levels of lateral gene transfer shows that the relative contributions of homologous recombination versus mutation for Burkholderia pseudomallei is over two times higher than for Streptococcus pneumoniae and is thus the highest value yet reported in bacteria. Despite the potential for homologous recombination to increase diversity, B. pseudomallei exhibits a relative lack of diversity at these loci. In these situations, whole genome genotyping of orthologous shared single nucleotide polymorphism loci, discovered using next generation sequencing technologies, can provide very large data sets capable of estimating core phylogenetic relationships. We compared and searched 43 whole genome sequences of B. pseudomallei and its closest relatives for single nucleotide polymorphisms in orthologous shared regions to use in phylogenetic reconstruction. Results: Bayesian phylogenetic analyses of >14,000 single nucleotide polymorphisms yielded completely resolved trees for these 43 strains with high levels of statistical support. These results enable a better understanding of a separate analysis of population differentiation among >1,700 B. pseudomallei isolates as defined by sequence data from seven housekeeping genes. We analyzed this larger data set for population structure and allele sharing that can be attributed to lateral gene transfer. Our results suggest that despite an almost panmictic population, we can detect two distinct populations of B. pseudomallei that conform to biogeographic patterns found in many plant and animal species. That is, separation along Wallace's Line, a biogeographic boundary between Southeast Asia and Australia. Conclusion: We describe an Australian origin for B. pseudomallei, characterized by a single introduction event into Southeast Asia during a recent glacial period, and variable levels of lateral gene transfer within populations. These patterns provide insights into mechanisms of genetic diversification in B. pseudomallei and its closest relatives, and provide a framework for integrating the traditionally separate fields of population genetics and phylogenetics for other bacterial species with high levels of lateral gene transfer. ?? 2009 Pearson et al; licensee BioMed Central Ltd.

BMC Biology↗
USGS2009

Land crabs as key drivers in tropical coastal forest recruitment

Plant populations are regulated by a diverse assortment of abiotic and biotic factors that influence seed dispersal and viability, and seedling establishment and growth at the microsite. Rarely does one animal guild exert as significant an influence on different plant assemblages as land crabs. We review three tropical coastal ecosystems-mangroves, island maritime forests, and mainland coastal terrestrial forests-where land crabs directly influence forest composition by limiting tree establishment and recruitment. Land crabs differentially prey on seeds, propagules and seedlings along nutrient, chemical and physical environmental gradients. In all of these ecosystems, but especially mangroves, abiotic gradients are well studied, strong and influence plant species distributions. However, we suggest that crab predation has primacy over many of these environmental factors by acting as the first limiting factor of tropical tree recruitment to drive the potential structural and compositional organisation of coastal forests. We show that the influence of crabs varies relative to tidal gradient, shoreline distance, canopy position, time, season, tree species and fruiting periodicity. Crabs also facilitate forest growth and development through such activities as excavation of burrows, creation of soil mounds, aeration of soils, removal of leaf litter into burrows and creation of carbon-rich soil microhabitats. For all three systems, land crabs influence the distribution, density and size-class structure of tree populations. Indeed, crabs are among the major drivers of tree recruitment in tropical coastal forest ecosystems, and their conservation should be included in management plans of these forests. ?? 2009 Cambridge Philosophical Society.

Biological Reviews↗
USGS2013

Relative contribution of lipid sources to eggs of lesser scaup

Studies of how birds mobilize nutrients to eggs have traditionally considered a continuum of possible allocation strategies ranging from income breeding (rely on food sources found on the breeding grounds) to capital breeding (rely on body reserves stored prior to the breeding season). For capital breeding, stored body reserves can be acquired either on or away from the breeding grounds, but it has been difficult to quantify the relative contribution of each, precluding identification of key habitats for acquiring nutrients for clutch formation. During 2006–2009, we explored the importance of spring-staging habitats versus breeding-area habitats for egg-lipid formation in female lesser scaup Aythya affinis using stable carbon (δ 13 C) isotope analyses. Although δ 13 C values for abdominal lipid reserves brought to the breeding grounds overlapped those of local amphipods, we were able to quantify the importance of local plant carbohydrates (seeds of emergent wetland plants) to the production of eggs. We compared the importance of local wetland seeds (overall δ 13 C: −29.1 ± 0.9‰ SD) to combined lipid stores and lipids from local amphipods (overall δ 13 C: −23.8 ± 2.2‰). Local seeds and stored body lipids contributed equally to egg lipid formation across years but we found evidence of annual variation in their relative importance. Wetland seeds contributed 39% (SE = 10%) to egg lipid production, and the importance of this source varied by year (90% CI = 47–75% in 2006, 13–42% in 2007, 29–65% in 2008, and 7–30% in 2009). In contrast to earlier studies that suggest lesser scaup predominantly employ a capital breeding strategy, our results suggest that in some years females may attain half of their energy for clutch formation from foods on the breeding grounds.

Journal of Avian Biology↗
USGS2013

Regional constraints to biological nitrogen fixation in post-fire forest communities

Biological nitrogen fixation (BNF) is a key ecological process that can restore nitrogen (N) lost in wildfire and shape the pace and pattern of post-fire forest recovery. To date, there is limited information on how climate and soil fertility interact to influence different pathways of BNF in early forest succession. We studied asymbiotic (forest floor and soil) and symbiotic (the shrub Ceanothus integerrimus) BNF rates across six sites in the Klamath National Forest, California, USA. We used combined gradient and experimental phosphorus (P) fertilization studies to explore cross-site variation in BNF rates and then related these rates to abiotic and biotic variables. We estimate that our measured BNF rates 22 years after wildfire (6.1–12.1 kg N·ha -1 ·yr -1 ) are unlikely to fully replace wildfire N losses. We found that asymbiotic BNF is P limited, although this is not the case for symbiotic BNF in Ceanothus. In contrast, Ceanothus BNF is largely driven by competition from other vegetation: in high-productivity sites with high potential evapotranspiration (Et), shrub biomass is suppressed as tree biomass increases. Because shrub biomass governed cross-site variation in Ceanothus BNF, this competitive interaction led to lower BNF in sites with high productivity and Et. Overall, these results suggest that the effects of nutrients play a larger role in driving asymbiotic than symbiotic fixation across our post-fire sites. However, because symbiotic BNF is 8–90 x greater than asymbiotic BNF, it is interspecific plant competition that governs overall BNF inputs in these forests.

California↗
USGS2011

Incorporating parametric uncertainty into population viability analysis models

Uncertainty in parameter estimates from sampling variation or expert judgment can introduce substantial uncertainty into ecological predictions based on those estimates. However, in standard population viability analyses, one of the most widely used tools for managing plant, fish and wildlife populations, parametric uncertainty is often ignored in or discarded from model projections. We present a method for explicitly incorporating this source of uncertainty into population models to fully account for risk in management and decision contexts. Our method involves a two-step simulation process where parametric uncertainty is incorporated into the replication loop of the model and temporal variance is incorporated into the loop for time steps in the model. Using the piping plover, a federally threatened shorebird in the USA and Canada, as an example, we compare abundance projections and extinction probabilities from simulations that exclude and include parametric uncertainty. Although final abundance was very low for all sets of simulations, estimated extinction risk was much greater for the simulation that incorporated parametric uncertainty in the replication loop. Decisions about species conservation (e.g., listing, delisting, and jeopardy) might differ greatly depending on the treatment of parametric uncertainty in population models.

Biological Conservation↗
USGS2023

Ammonia and aquatic ecosystems – A review of global sources, biogeochemical cycling, and effects on fish

The purpose of this review is to better understand the full life cycle and influence of ammonia from an aquatic biology perspective. While ammonia has toxic properties in water and air, it also plays a central role in the biogeochemical nitrogen (N) cycle and regulates mechanisms of normal and abnormal fish physiology. Additionally, as the second most synthesized chemical on Earth, ammonia contributes economic value to many sectors, particularly fertilizers, energy storage, explosives, refrigerants, and plastics. But, with so many uses, industrial N 2 -fixation effectively doubles natural reactive N concentrations in the environment. The consequence is global, with excess fixed nitrogen driving degradation of soils, water, and air; intensifying eutrophication, biodiversity loss, and climate change; and creating health risks for humans, wildlife, and fisheries. Thus, the need for ammonia research in aquatic systems is growing. In response, we prepared this review to better understand the complexities and connectedness of environmental ammonia. Even the term “ammonia” has multiple meanings. So, we have clarified the nomenclature, identified units of measurement, and summarized methods to measure ammonia in water. We then discuss ammonia in the context of the N-cycle, review its role in fish physiology and mechanisms of toxicity, and integrate the effects of human N-fixation, which continuously expands ammonia's sources and uses. Ammonia is being developed as a carbon-free energy carrier with potential to increase reactive nitrogen in the environment. With this in mind, we review the global impacts of excess reactive nitrogen and consider the current monitoring and regulatory frameworks for ammonia. The presented synthesis illustrates the complex and interactive dynamics of ammonia as a plant nutrient, energy molecule, feedstock, waste product, contaminant, N-cycle participant, regulator of animal physiology, toxicant, and agent of environmental change. Few molecules are as influential as ammonia in the management and resilience of Earth's resources.

Science of the Total Environment↗
USGS2021

Understanding the future of big sagebrush regeneration: challenges of projecting complex ecological processes

Regeneration is an essential demographic step that affects plant population persistence, recovery after disturbances, and potential migration to track suitable climate conditions. Challenges of restoring big sagebrush ( Artemisia tridentata ) after disturbances including fire-invasive annual grass interactions exemplify the need to understand the complex regeneration processes of this long-lived, woody species that is widespread across the semiarid western U.S. Projected 21st century climate change is expected to increase drought risks and intensify restoration challenges. A detailed understanding of regeneration will be crucial for developing management frameworks for the big sagebrush region in the 21st century. Here, we used two complementary models to explore spatial and temporal relationships in the potential of big sagebrush regeneration representing (1) range-wide big sagebrush regeneration responses in natural vegetation (process-based model) and (2) big sagebrush restoration seeding outcomes following fire in the Great Basin and the Snake River Plains (regression-based model). The process-based model suggested substantial geographic variation in long-term regeneration trajectories with central and northern areas of the big sagebrush region remaining climatically suitable, whereas marginal and southern areas are becoming less suitable. The regression-based model suggested, however, that restoration seeding may become increasingly more difficult, illustrating the particularly difficult challenge of promoting sagebrush establishment after wildfire in invaded landscapes. These results suggest that sustaining big sagebrush on the landscape throughout the 21st century may climatically be feasible for many areas and that uncertainty about the long-term sustainability of big sagebrush may be driven more by dynamics of biological invasions and wildfire than by uncertainty in climate change projections. Divergent projections of the two models under 21st century climate conditions encourage further study to evaluate potential benefits of re-creating conditions of uninvaded, unburned natural big sagebrush vegetation for post-fire restoration seeding, such as seeding in multiple years and, for at least much of the northern Great Basin and Snake River Plains, the control of the fire-invasive annual grass cycle.

Ecosphere↗
USGS2002

Managing for biodiversity in young Douglas-fir forests of western Oregon

This project addressed potential contributions of forest thinning to enhancing biodiversity and accelerating development of old-growth characteristics in relatively young Douglas-fir forests typical of those managed according to the Northwest Forest Plan. Studies focused primarily on 32 paired unthinned and thinned stands and 20 associated old-growth stands in the Coast Range and Cascade mountains of western Oregon. Data were collected on vascular plants in most stands surveyed, and on epiphytic lichens and bryophytes, moths, and birds in subsets of these stands. Studies assessed whether or not (1) communities of organisms differed among stand types, (2) communities in thinned stands were more similar to those in old-growth stands than were those in unthinned stands, (3) species diversity or abundance was related to specific stand features, and (4) these specific stand features were shared across taxa. Results indicated that communities differed among stand types, and that communities in thinned stands were not necessarily more similar to old-growth communities than were those in unthinned stands. Variation in stand conditions appeared to enhance biodiversity, and hardwood trees and shrubs were important for many species. These and other results form the basis for general thinning guidelines, which are presented here, and will guide future research.

Biological Science Report↗
USGS2005

Water quality and hydrology of the Lac Vieux Desert watershed, Gogebic County, Michigan, and Vilas County, Wisconsin, 2002-04

Lac Vieux Desert is a prominent 6.6 square-mile lake that straddles the Michigan-Wisconsin border and forms the headwaters of the Wisconsin River. For generations, the Lac Vieux Desert Band of Lake Superior Chippewa Indians have used Lac Vieux Desert and the surrounding area for growing and harvesting wild rice, and hunting and fishing. The Lac Vieux Desert Band is concerned about the impact of lake-stage regulation on hydrology and ecology, and the impact on water quality of development along and near the shore, and recreational watercraft use and sport fishing. In 2005, the U.S. Geological Survey completed a water-resources investigation of the Lac Vieux Desert watershed in cooperation with the Lac Vieux Desert Band of Lake Superior Chippewa Indians. Water quality of Lac Vieux Desert is typical of many lakes in the northern United States. Trophic State Index calculations classify Lac Vieux Desert as a highly productive eutrophic lake. The pH of water in Lac Vieux Desert ranged from 6.5 to 9.5, and specific conductance ranged from 62 to 114 µs/cm. Chloride concentration was less than 1.5 mg/L, indicating little effect from septic-tank or road-salt input. Results indicate that the water can be classified as soft, with hardness concentrations reported as calcium carbonate ranging from 29 to 49 mg/L. Concentrations of calcium, magnesium, chloride, and other dissolved solids ranged from 47 to 77 mg/L. Alkalinity of Lac Vieux Desert ranged from 27 to 38 mg/L. Pervasive aquatic blooms, including a bloom noted during the September 2003 sampling, are apparently common in late summer. Biological productivity at Lac Vieux Desert does not appear to have changed appreciably between 1973 and 2004. In the current study, total phosphorus concentrations ranged from 0.01 to 0.064 mg/L and dissolved nitrite plus nitrate nitrogen concentrations ranged from at, or below detection limit to 0.052 mg/L. Overabundance of nutrients in Lac Vieux Desert, particularly nitrogen and phosphorus, could result in considerable degradation in lake-water quality. The estimated water balance includes the following inputs from the surrounding watershed: direct precipitation (35 percent); runoff, composed of streamflow and overland flow (50 percent); and ground-water flow (15 percent). Outputs from Lac Vieux Desert include streamflow into the Wisconsin River (68 percent) and evaporation from the lake surface (32 percent). Seasonal regulation of Lac Vieux Desert outflow results in an artificially high lake stage throughout the year, except from late winter to very early spring, prior to snowmelt and runoff. Regulation of Lac Vieux Desert outflow causes Wisconsin River streamflow to be artificially low during spring and summer and artificially high in fall and winter. Recent studies indicate that lake-level regulation over the past century may have affected wild rice growth and propagation in Lac Vieux Desert. As per licensing agreement between the Federal Energy Regulatory Commission and the Wisconsin Valley Improvement Company (operators of the dam at the outlet), the maximum lake level of Lac Vieux Desert was lowered about 0.8 feet to investigate the relation between lake-level regulation and propagation of wild rice from 2003 through 2012. Recent plantings of wild rice by the Lac Vieux Desert Band have been successful, indicating that suitable habitat and hydrologic regime were present in 2004-05.

Michigan, Wisconsin↗
USGS2024

Wildfire probability estimated from recent climate and fine fuels across the big sagebrush region

Background Wildfire is a major proximate cause of historical and ongoing losses of intact big sagebrush ( Artemisia tridentata Nutt.) plant communities and declines in sagebrush obligate wildlife species. In recent decades, fire return intervals have shortened and area burned has increased in some areas, and habitat degradation is occurring where post-fire re-establishment of sagebrush is hindered by invasive annual grasses. In coming decades, the changing climate may accelerate these wildfire and invasive feedbacks, although projecting future wildfire dynamics requires a better understanding of long-term wildfire drivers across the big sagebrush region. Here, we integrated wildfire observations with climate and vegetation data to derive a statistical model for the entire big sagebrush region that represents how annual wildfire probability is influenced by climate and fine fuel characteristics. Results Wildfire frequency varied significantly across the sagebrush region, and our statistical model represented much of that variation. Biomass of annual and perennial grasses and forbs, which we used as proxies for fine fuels, influenced wildfire probability. Wildfire probability was highest in areas with high annual forb and grass biomass, which is consistent with the well-documented phenomenon of increased wildfire following annual grass invasion. The effects of annuals on wildfire probability were strongest in places with dry summers. Wildfire probability varied with the biomass of perennial grasses and forbs and was highest at intermediate biomass levels. Climate, which varies substantially across the sagebrush region, was also predictive of wildfire probability, and predictions were highest in areas with a low proportion of precipitation received in summer, intermediate precipitation, and high temperature. Conclusions We developed a carefully validated model that contains relatively simple and biologically plausible relationships, with the goal of adequate performance under novel conditions so that useful projections of average annual wildfire probability can be made given general changes in conditions. Previous studies on the impacts of vegetation and climate on wildfire probability in sagebrush ecosystems have generally used more complex machine learning approaches and have usually been applicable to only portions of the sagebrush region. Therefore, our model complements existing work and forms an additional tool for understanding future wildfire and ecological dynamics across the sagebrush region.

Fire Ecology↗
USGS2010

Effects of resource availability and propagule supply on native species recruitment in sagebrush ecosystems invaded by Bromus tectorum

Resource availability and propagule supply are major factors influencing establishment and persistence of both native and invasive species. Increased soil nitrogen (N) availability and high propagule inputs contribute to the ability of annual invasive grasses to dominate disturbed ecosystems. Nitrogen reduction through carbon (C) additions can potentially immobilize soil N and reduce the competitiveness of annual invasive grasses. Native perennial species are more tolerant of resource limiting conditions and may benefit if N reduction decreases the competitive advantage of annual invaders and if sufficient propagules are available for their establishment. Bromus tectorum , an exotic annual grass in the sagebrush steppe of western North America, is rapidly displacing native plant species and causing widespread changes in ecosystem processes. We tested whether nitrogen reduction would negatively affect B. tectorum while creating an opportunity for establishment of native perennial species. A C source, sucrose, was added to the soil, and then plots were seeded with different densities of both B. tectorum (0, 150, 300, 600, and 1,200 viable seeds m −2 ) and native species (0, 150, 300, and 600 viable seeds m −2 ). Adding sucrose had short-term (1 year) negative effects on available nitrogen and B. tectorum density, biomass and seed numbers, but did not increase establishment of native species. Increasing propagule availability increased both B. tectorum and native species establishment. Effects of B. tectorum on native species were density dependent and native establishment increased as B. tectorum propagule availability decreased. Survival of native seedlings was low indicating that recruitment is governed by the seedling stage.

Nevada↗
USGS2022

Potential effects of energy development on environmental resources of the Williston Basin in Montana, North Dakota, and South Dakota—Species of conservation concern

The ecosystems of the Williston Basin provide direct and indirect benefits to society. These benefits include carbon sequestration, flood control, nutrient rich soils for agricultural productivity, and habitat for wildlife. This chapter’s main focus is on the effects of energy development on species that occupy the ecosystems in the Williston Basin. We compiled a list of documented species of conservation concern that are of most interest to Federal regulators and resource managers. Species of concern were either listed as endangered or threatened under the Endangered Species Act or listed by States as species of concern in Natural Heritage Program checklists or State Wildlife Action Plans. All told, we determined that 357 species of concern likely occupy the Williston Basin. These species represented seven different taxonomic groups: plants (native and nonnative), terrestrial invertebrates, birds, mammals, reptiles and amphibians, and fish and mussels. We reviewed the existing scientific information pertaining to potential effects of energy development on these taxonomic groups. Currently, little is known about the abundance and distribution of many of these species. But some information exists that may be useful in predicting the potential effects of energy development on certain taxonomic groups. Most of this information has been developed through scientific research focused on effects to mammal and bird populations. Effects to other taxonomic groups seems to be understudied. In general, it seems that disturbances and modifications associated with development have the potential to negatively affect a wide range of species; however, many studies produce uncertain results because they are not designed to compare populations before and after energy development takes place. Most of these studies also do not monitor resources over multiple years and thus cannot detect population trends. Likewise, there are few examples of landscape-scale assessments of the cumulative effects of energy development that could be used for species or habitat management purposes. We suggest that more research needs to be completed to measure potential effects to a broad range of species in multiple taxonomic groups. This may require also developing some understanding about the basic ecology of many of the species covered in this report. In concert with this more basic research, we also suggest that more comprehensive assessments of potential negative cumulative effects across the Williston Basin should be developed in an effort to guide more strategic management of biological resources.

Montana, North Dakota, South Dakota↗
USGS2009

Coastal Circulation and Sediment Dynamics in War-in-the-Pacific National Historical Park, Guam; measurements of waves, currents, temperature, salinity, and turbidity, June 2007-January 2008

Flow in and around coral reefs affects a number of physical, chemical and biologic processes that influence the health and sustainability of coral reef ecosystems. These range from the residence time of sediment and contaminants to nutrient uptake and larval retention and dispersal. As currents approach a coast they diverge to flow around reef structures, causing high horizontal and vertical shear. This can result in either the rapid advection of material in localized jets, or the retention of material in eddies that form in the lee of bathymetric features. The high complexity and diversity both within and between reefs, in conjunction with past technical restrictions, has limited our understanding of the nature of flow and the resulting flux of physical, chemical, and biologic material in these fragile ecosystems. Sediment, nutrients, and other pollutants from a variety of land-based activities adversely impact many coral reef ecosystems in the U.S. and around the world. These pollutants are transported in surface water runoff, groundwater seepage, and atmospheric fallout into coastal waters, and there is compelling evidence that the sources have increased globally as a result of human-induced changes to watersheds. In Guam, and elsewhere on U.S. high islands in the Pacific and Caribbean, significant changes in the drainage basins due to agriculture, feral grazing, fires, and urbanization have in turn altered the character and volume of land-based pollution released to coral reefs. Terrigenous sediment run-off (and the associated nutrients and contaminants often absorbed to it) and deposition on coral reefs are recognized to potentially have significant impact on coral health by blocking light and inhibiting photosynthesis, directly smothering and abrading coral, and triggering increases in macro algae. Studies that combine information on watershed, surface water- and groundwater-flow, transport and fate of sediment and other pollutants in the reef environment, and their impact on reef health and ecology are essential for effective reef management. Two of the main anthropogenic activities along west-central Guam's coastline that may impact the region's coral reef ecosystems include pollution and coastal land use/development, as discussed in the review by Porter and others (2005). The pollution threats include point-sources, such as municipal wastewater (Northern District, Hagatna, Naval Station Guam, and Agat-Santa Rita Waster Water Treatment Plants), cooling water (Tanguisson Steam and Cabras Power Plants), and numerous storm water, ballast water, and tank bottom draw outfalls; nonpoint sources include septic systems, urban runoff, illegal dumping, and groundwater discharges. Poor land-use practices include development without the use of runoff management measures, increased areal extent of impervious surfaces and decreased extent of vegetative barriers, and recreational off-road vehicle use. Furthermore, feral ungulates and illegal wildfires remove protective vegetative cover and generally result in increased soil erosion. While anthropogenic point-sources have been reduced in many areas due to better management practices, nonpoint sources have either stayed constant or increased. Between 1975 and 1999, it is estimated that Guam lost more than a quarter of its tree cover, and more than 750 wildfires each year have resulted in a greater proportion of badlands and other erosion-prone land surfaces with high erosion rates (Forestry and Soil Resources Division, 1999). Approximately 1.8 square kilometers (km2) of Asan Bay, west-central Guam, lies within the National Park Service's (NPS) War-in-the-Pacific National Historical Park's (WAPA) Asan Unit; the bay is the sink for material coming out of the Asan watershed. Anthropogenic modifications of the watersheds adjacent to Asan Bay, which include intentionally-set wildfires, construction, and agriculture (Minton, 2005), are believed to have increased over the past 25

Open-File Report↗
USGS2016

Filling the interspace—restoring arid land mosses: source populations, organic matter, and overwintering govern success

Biological soil crusts contribute to ecosystem functions and occupy space that could be available to invasive annual grasses. Given disturbances in the semiarid shrub steppe communities, we embarked on a set of studies to investigate restoration potential of mosses in sagebrush steppe ecosystems. We examined establishment and growth of two moss species common to the Great Basin, USA: Bryum argenteum and Syntrichia ruralis from two environmental settings (warm dry vs. cool moist). Moss fragments were inoculated into a third warm dry setting, on bare soil in spring and fall, both with and without a jute net and with and without spring irrigation. Moss cover was monitored in spring seasons of three consecutive years. Both moss species increased in cover over the winter. When Bryum received spring irrigation that was out of sync with natural precipitation patterns, moss cover increased and then crashed, taking two seasons to recover. Syntrichia did not respond to the irrigation treatment. The addition of jute net increased moss cover under all conditions, except Syntrichia following fall inoculation, which required a second winter to increase in cover. The warm dry population of Bryum combined with jute achieved on average 60% cover compared to the cool moist population that achieved only 28% cover by the end of the study. Differences were less pronounced for Syntrichia where moss from the warm dry population with jute achieved on average 51% cover compared to the cool moist population that achieved 43% cover by the end of the study. Restoration of arid land mosses may quickly protect soils from erosion while occupying sites before invasive plants. We show that higher moss cover will be achieved quickly with the addition of organic matter and when moss fragments originate from sites with a climate that is similar to that of the restoration site.

Ecology and Evolution↗
USGS2014

Assessment of metal and trace element contamination in water, sediment, plants, macroinvertebrates, and fish in Tavasci Marsh, Tuzigoot National Monument, Arizona

Tavasci Marsh is a large freshwater marsh within the Tuzigoot National Monument in central Arizona. It is the largest freshwater marsh in Arizona that is unconnected to the Colorado River and is designated as an Important Bird Area by the Audubon Society. The marsh has been altered significantly by previous land use and the monument’s managers are evaluating the restoration of the marsh. In light of historical mining activities located near the marsh from the first half of the 20th century, evaluations of water, sediment, plant, and aquatic biota in the marsh were conducted. The evaluations were focused on nine metals and trace elements commonly associated with mining and other anthropogenic activities (As, Cd, Cr, Cu, Hg, Ni, Pb, Se, and Zn) together with isotopic analyses to understand the presence, sources and timing of water and sediment contaminants to the marsh and the occurrence in aquatic plants, dragonfly larvae, and fish. Results of water analyses indicate that there were two distinct sources of water contributing to the marsh during the study: one from older high elevation recharge entering the marsh at Shea Spring (as well as a number of unnamed seeps and springs on the northeastern edge of the marsh) and the other from younger low elevation recharge or from Pecks Lake. Water concentrations for arsenic exceeded the U.S. Environmental Protection Agency primary drinking water standard of 10 μg/L at all sampling sites. Surface waters at Tavasci Marsh may contain conditions favorable for methylmercury production. All surficial and core sediment samples exceeded or were within sample concentration variability of at least one threshold sediment quality guideline for As, Cd, Cr, Cu, Hg, Ni, Pb, and Zn. Several sediment sites were also above or were within sample concentration variability of severe or probable effect sediment quality guidelines for As, Cd, and Cu. Three sediment cores collected in the marsh have greater metal and trace element concentrations at depth for Bi, Cd, Cu, Hg, In, Pb, Sb, Sn, Te, and Zn. Radioisotope dating indicates that the elevated metal and trace element concentrations are associated with sediments deposited before 1963. Arsenic concentration was greater in cattail roots compared with surrounding sediment at Tavasci Marsh. Concentrations of As, Ni, and Se from yellow bullhead catfish (Ameiurus natalis) in Tavasci Marsh exceeded the 75th percentile of several other regional studies. Mercury concentration in dragonfly larvae and fish from Tavasci Marsh were similar to or greater than in Tavasci Marsh sediment. Future work includes a biologic risk assessment utilizing the data collected in this study to provide the monument management with additional information for their restoration plan.

Arizona↗
USGS2016

Potential utility of environmental DNA for early detection of Eurasian watermilfoil ( Myriophyllum spicatum )

Considering the harmful and irreversible consequences of many biological invasions, early detection of an invasive species is an important step toward protecting ecosystems (Sepulveda et al. 2012). Early detection increases the probability that suppression or eradication efforts will be successful because invasive populations are small and localized (Vander Zanden et al. 2010). However, most invasive species are not detected early because current tools have low detection probabilities when target species are rare and the sampling effort required to achieve acceptable detection capabilities with current tools is seldom tractable (Jerde et al. 2011). As a result, many invasive species go undetected until they are abundant and suppression efforts become costly. Novel DNA-based surveillance tools have recently revolutionized early detection abilities using environmental DNA (eDNA) present in the water (Darling and Mahon 2011, Bohmann et al. 2014). In brief, eDNA monitoring enables the identification of organisms from DNA present and collected in water samples. Aquatic and semiaquatic organisms release DNA contained in sloughed, damaged, or partially decomposed tissue and waste products into the water and molecular techniques allow this eDNA in the water column to be identified from simple and easy-tocollect water samples (Darling and Mahon 2011). Despite limited understanding of the production, persistence, and spread of DNA in water (Barnes et al. 2014), eDNA monitoring has been applied not only to invasive species (Jerde et al. 2011), but also to species that are rare, endangered, or highly elusive (Spear et al. 2014). However, most eDNA research and monitoring has focused on detection of invertebrates and vertebrates and less attentionhas been given to developing eDNA techniques for detecting aquatic invasive plants. Eurasian watermilfoil (EWM; Myriophyllum spicatum L.) is an invasive species for which improved early detection would be particularly helpful. Advanced EWM invasions have negative impacts on native biodiversity, recreational boating, fishing, and other types of aquatic tourism (e.g., Eiswerth et al. 2000). On a broader scale, EWM can also be harmful to man-made aquatic infrastructure, such as hydroelectric dams. If an EWM invasion can be detected in an early stage where eradication is still a possibility, many of these negative consequences can be limited or prevented altogether (e.g., Madsen et al. 2002). The purpose of this research was to develop and validate a traditional polymerase chain reaction (PCR) assay for the detection of pure and hybridized EWM DNA using both laboratory and field experiments. We performed a pilot experiment in outdoor tanks to determine the basic functionality and sensitivity of the assay. Following this initial test, we collected field samples from Michigan and Montana lakes with and without known EWM populations. Taken together, our findings suggest that eDNA techniques have potential to be a useful strategy for the early detection of EWM.

Journal of Aquatic Plant Management↗
USGS2021

Near-field receiving-water monitoring of trace metals and a benthic community near the Palo Alto Regional Water Quality Control Plant in south San Francisco Bay, California—2019

Trace-metal concentrations in sediment and in the clam Limecola petalum (formerly reported as Macoma balthica and M. petalum ), clam reproductive activity, and benthic macroinvertebrate community structure were investigated in a mudflat 1 kilometer south of the discharge of the Palo Alto Regional Water Quality Control Plant (PARWQCP) in south San Francisco Bay, Calif. This report includes the data collected by the U.S. Geological Survey (USGS) for the period January 2019 to December 2019. These data append to long-term datasets extending back to 1974. A major focus of the report is an integrated description of the 2019 data within the context of the longer, multidecadal dataset. This dataset supports the City of Palo Alto’s Near-Field Receiving-Water Monitoring Program, initiated in 1994. Significant reductions in silver and copper contamination occurred at the site in the 1980s following the implementation by PARWQCP of advanced wastewater treatment and source control measures. Since the 1990s, concentrations of these elements in surface sediments have continued to decrease, although more slowly. Silver appears to have stabilized at concentrations about twice the regional background concentration. Presently, sediment copper concentrations appear to be near the regional background level. Over the same period (1994–2019), sedimentary iron and zinc also exhibited modest declines. Sedimentary aluminum, chromium, mercury, nickel, and selenium have not exhibited any trend. Since 1994, concentrations of silver and copper in L. petalum have varied seasonally, apparently in response to a combination of site-specific metal exposures and cyclic growth and reproduction, as reported previously. Seasonal patterns for other elements, including chromium, mercury, nickel, selenium, and zinc, were generally similar in timing and magnitude as those for silver and copper. The annual growth and reproductive cycle explained a small amount of the variance in annual silver and zinc tissue metal concentrations. However, interannual trends are not apparent for any element. Biological effects of elevated silver and copper contamination at the Palo Alto site have been interpreted from data collected during and after the recession of these contaminants. Concentrations of both elements in the soft tissues of L. petalum declined with sedimentary copper and silver. This pattern was associated with changes in the reproductive activity of L. petalum , as well as the structure of the benthic invertebrate community. Reproductive activity of L. petalum increased as metal concentrations in L. petalum declined and presently is stable with almost all animals initiating reproduction in the fall and spawning the following spring. Analyses of the benthic community structure indicate that the infaunal invertebrate community has shifted from one dominated by several opportunistic species when silver and copper exposures were highest to one in which the species abundance is more evenly distributed, a pattern that indicates a more stable community that is subjected to fewer stressors. Importantly, this long-term change is unrelated to other metals and other measured environmental factors, including salinity and sediment composition. In addition, two of the opportunistic species ( Ampelisca abdita and Streblospio benedicti ) that brood their young and live on the surface of the sediment in tubes have shown a continual decline in dominance coincident with the decline in metals. Both species had short-lived rebounds in abundance in 2008, 2009, and 2010 and showed signs of increasing abundance in 2019. Heteromastus filiformis (a subsurface polychaete worm that lives in the sediment, consumes sediment and organic particles residing in the sediment, and reproduces by laying its eggs on or in the sediment) showed a concurrent increase in dominance and, in the last several years before 2008, showed a stable population. H. filiformis abundance increased slightly in 2011–2012 and returned to pre-2011 numbers in 2019. An unidentified disturbance occurred on the mudflat in early 2008 that resulted in the loss of the benthic animals, except for deep-dwelling animals like L. petalum . However, within two months of this event, animals returned to the mudflat. The resilience of the community suggested that the disturbance was not caused by a persistent toxin or anoxia. The reproductive mode of most species that were present in 2019 was indicative of species that were available either as pelagic larvae or as mobile adults. Although oviparous species were lower in number in this group, the authors hypothesize that these species will return slowly as more species move back into the area. The use of functional ecology was highlighted in the 2019 benthic community data, which showed that the animals that have now returned to the mudflat are those that can respond successfully to a physical, nontoxic disturbance. Today, community data show a mix of species that consume the sediment, or filter feed, those that have pelagic larvae that must survive landing on the sediment, and those that brood their young. USGS scientists view the 2008 disturbance event as a response by the infaunal community to an episodic natural stressor (possibly sediment accretion or a pulse of freshwater), in contrast to the long-term recovery from metal contamination. We will compare this recovery to the long-term recovery observed after the 1970s when the decline in sediment pollutants was the dominating factor.

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