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USGS2023

Ten best practices for effective phenological research

The number and diversity of phenological studies has increased rapidly in recent years. Innovative experiments, field studies, citizen science projects, and analyses of newly available historical data are contributing insights that advance our understanding of ecological and evolutionary responses to the environment, particularly climate change. However, many phenological data sets have peculiarities that are not immediately obvious and can lead to mistakes in analyses and interpretation of results. This paper aims to help researchers, especially those new to the field of phenology, understand challenges and practices that are crucial for effective studies. For example, researchers may fail to account for sampling biases in phenological data, struggle to choose or design a volunteer data collection strategy that adequately fits their project’s needs, or combine data sets in inappropriate ways. We describe ten best practices for designing studies of plant and animal phenology, evaluating data quality, and analyzing data. Practices include accounting for common biases in data, using effective citizen or community science methods, and employing appropriate data when investigating phenological mismatches. We present these best practices to help researchers entering the field take full advantage of the wealth of available data and approaches to advance our understanding of phenology and its implications for ecology.

International Journal of Biometeorology↗

USGS2012

Changes in faunal and vegetation communities along a soil calcium gradient in northern hardwood forests

Depletion of Ca from forest soils due to acidic deposition has had potentially pervasive effects on forest communities, but these impacts remain largely unknown. Because snails, salamanders, and plants play essential roles in the Ca cycle of northern hardwood forests, we hypothesized that their community diversity, abundance, and structure would vary with differences in biotic Ca availability. To test this hypothesis, we sampled 12 upland hardwood forests representing a soil Ca gradient in the Adirondack Mountains, New York (USA), where chronic deposition has resulted in acidified soils but where areas of well-buffered soils remain Ca rich due to parent materials. Along the gradient of increasing soil [Ca 2+ ], we observed increasing trends in snail community richness and abundance, live biomass of redback salamanders (Plethodon cinereus (Green, 1818)), and canopy tree basal area. Salamander communities were dominated by mountain dusky salamanders (Desmognathus ochrophaeus Cope, 1859) at Ca-poor sites and changed continuously along the Ca gradient to become dominated by redback salamanders at the Ca-rich sites. Several known calciphilic species of snails and plants were found only at the highest-Ca sites. Our results indicated that Ca availability, which is shaped by geology and acidic deposition inputs, influences northern hardwood forest ecosystems at multiple trophic levels, although the underlying mechanisms require further study.

New York↗

USGS2008

Moist-soil seed abundance in managed wetlands in the Mississippi Alluvial Valley

Managed moist-soil units support early succession herbaceous vegetation that produces seeds, tubers, and other plant parts used by waterfowl in the Mississippi Alluvial Valley (MAV), USA. We conducted a stratified multi-stage sample survey on state and federal lands in the MAV of Arkansas, Louisiana, Mississippi, and Missouri during autumns 2002?2004 to generate a contemporary estimate of combined dry mass of seeds and tubers (herein seed abundance) in managed moist-soil units for use by the Lower Mississippi Valley Joint Venture (LMVJV) of the North American Waterfowl Management Plan. We also examined variation in mean seed abundance among moist-soil units in 2003 and 2004 in relation to management intensity (active or passive), soil pH and nutrient levels, proportional occurrence of plant life-forms (e.g., grass, flatsedge, and forb; vine; woody plants), and unit area. Estimates of mean seed abundance were similar in 2002 (X over bar = 537.1 kg/ha, SE = 100.1) and 2004 (X over bar = 555.2 kg/ha, SE = 105.2) but 35?40% less in 2003 (X over bar = 396.8 kg/ha, SE = 116.1). Averaged over years, seed abundance was 496.3 kg/ha (SE = 62.0; CV = 12.5%). Multiple regression analysis indicated seed abundance varied among moist-soil units inversely with proportional occurrence of woody vegetation and unit area and was greater in actively than passively managed units (R2adj = 0.37). Species of early succession grasses occurred more frequently in actively than passively managed units (P < 0.09), whereas mid- and late-succession plants occurred more often in passively managed units (P < 0.02). We recommend the LMVJV consider 556 kg/ha as a measure of seed abundance for use in estimating carrying capacity in managed moist-soil units on public lands in the MAV. We recommend active management of moist-soil units to achieve maximum potential seed production and further research to determine recovery rates of seeds of various sizes from core samples and the relationship between seed abundance and unit area.

Journal of Wildlife Management↗

USGS2015

Role of ground ice dynamics and ecological feedbacks in recent ice wedge degradation and stabilization

Ground ice is abundant in the upper permafrost throughout the Arctic and fundamentally affects terrain responses to climate warming. Ice wedges, which form near the surface and are the dominant type of massive ice in the Arctic, are particularly vulnerable to warming. Yet processes controlling ice wedge degradation and stabilization are poorly understood. Here we quantified ice wedge volume and degradation rates, compared ground ice characteristics and thermal regimes across a sequence of five degradation and stabilization stages and evaluated biophysical feedbacks controlling permafrost stability near Prudhoe Bay, Alaska. Mean ice wedge volume in the top 3 m of permafrost was 21%. Imagery from 1949 to 2012 showed thermokarst extent (area of water-filled troughs) was relatively small from 1949 (0.9%) to 1988 (1.5%), abruptly increased by 2004 (6.3%) and increased slightly by 2012 (7.5%). Mean annual surface temperatures varied by 4.9°C among degradation and stabilization stages and by 9.9°C from polygon center to deep lake bottom. Mean thicknesses of the active layer, ice-poor transient layer, ice-rich intermediate layer, thermokarst cave ice, and wedge ice varied substantially among stages. In early stages, thaw settlement caused water to impound in thermokarst troughs, creating positive feedbacks that increased net radiation, soil heat flux, and soil temperatures. Plant growth and organic matter accumulation in the degraded troughs provided negative feedbacks that allowed ground ice to aggrade and heave the surface, thus reducing surface water depth and soil temperatures in later stages. The ground ice dynamics and ecological feedbacks greatly complicate efforts to assess permafrost responses to climate change.

Journal of Geophysical Research F: Earth Surface↗

USGS2013

Vascular flora of saline lakes in the southern high plains of Texas and eastern New Mexico

Saline lakes and freshwater playas form the principal surface hydrological feature of the High Plains of the Southern Great Plains. Saline lakes number less than 50 and historically functioned as discharge wetlands with relatively consistent water availability due to the presence of one or more springs. Currently, less than ten saline lakes contain functional springs. A survey of vascular plants at six saline lakes in the Southern High Plains of northwest Texas and one in eastern New Mexico during May and September 2009 resulted in a checklist of 49 species representing 16 families and 40 genera. The four families with the most species were Asteraceae (12), Amaranthaceae (8), Cyperaceae (5), and Poaceae (12). Non-native species (Bromus catharticus, Poa compressa, Polypogon monspeliensis, Sonchus oleraceus, Kochia scoparia, and Tamarix ramosissima) accounted for 10% of the total species recorded. Whereas nearly 350 species of vascular plants have been identified in playas in the Southern High Plains, saline lakes contain a fraction of this species richness. The Southern High Plains saline lake flora is regionally unique, containing taxa not found in playas, with species composition that is more similar to temperate desert wetlands of the Intermountain Region and Gulf Coastal Plain of North America.

New Mexico, Texas↗

USGS2013

Evaluation of a new model of aeolian transport in the presence of vegetation

Aeolian transport is an important characteristic of many arid and semiarid regions worldwide that affects dust emission and ecosystem processes. The purpose of this paper is to evaluate a recent model of aeolian transport in the presence of vegetation. This approach differs from previous models by accounting for how vegetation affects the distribution of shear velocity on the surface rather than merely calculating the average effect of vegetation on surface shear velocity or simply using empirical relationships. Vegetation, soil, and meteorological data at 65 field sites with measurements of horizontal aeolian flux were collected from the Western United States. Measured fluxes were tested against modeled values to evaluate model performance, to obtain a set of optimum model parameters, and to estimate the uncertainty in these parameters. The same field data were used to model horizontal aeolian flux using three other schemes. Our results show that the model can predict horizontal aeolian flux with an approximate relative error of 2.1 and that further empirical corrections can reduce the approximate relative error to 1.0. The level of error is within what would be expected given uncertainties in threshold shear velocity and wind speed at our sites. The model outperforms the alternative schemes both in terms of approximate relative error and the number of sites at which threshold shear velocity was exceeded. These results lend support to an understanding of the physics of aeolian transport in which (1) vegetation's impact on transport is dependent upon the distribution of vegetation rather than merely its average lateral cover and (2) vegetation impacts surface shear stress locally by depressing it in the immediate lee of plants rather than by changing the bulk surface's threshold shear velocity. Our results also suggest that threshold shear velocity is exceeded more than might be estimated by single measurements of threshold shear stress and roughness length commonly associated with vegetated surfaces, highlighting the variation of threshold shear velocity with space and time in real landscapes.

Journal of Geophysical Research F: Earth Surface↗

USGS1985

Total chemical management in photographic processing

The mission of the U. S. Geological Survey's Earth Resources Observation Systems (EROS) Data Center is to produce high-quality photographs of the earth taken from aircraft and Landsat satellite. In order to meet the criteria of producing research-quality photographs, while at the same time meeting strict environmental restrictions, a total photographic chemical management system was installed. This involved a three-part operation consisting of the design of a modern chemical analysis laboratory, the implementation of a chemical regeneration system, and the installation of a waste treatment system, including in-plant pretreatment and outside secondary waste treatment. Over the last ten years the result of this program has yielded high-quality photographs while saving approximately 30,000 per year and meeting all Environmental Protection Agency (EPA) restrictions.

Journal of Imaging Technology↗

USGS2023

Integrated rangeland fire management strategy actionable science plan completion assessment: Restoration topic, 2015–20

Loss and degradation of sagebrush rangelands due to an accelerated invasive annual grass-wildfire cycle and other stressors are substantial management, conservation, and economic issues in the western United States. These sagebrush rangelands comprise a unique biome spanning 11 states, support over 350 wildlife species, and provide important ecosystem services that include stabilizing the economies of western communities. Impacts to sagebrush ecosystem processes over large areas due to the annual grass-wildfire cycle necessitated the development of a coordinated, science-based strategy for improving efforts to achieve long-term protection, conservation, and restoration of sagebrush rangelands, which was framed in 2015 under the Integrated Rangeland Fire Management Strategy (IRFMS). Central to this effort was the development of an Actionable Science Plan (Plan) that identified 37 priority science needs (Needs) for informing the actions proposed under the 5 topics (Fire, Invasives, Restoration, Sagebrush and Sage-Grouse, Climate and Weather) that were part of the collective focus of the IRFMS. Notable keys to this effort were identification of the Needs co-produced by managers and researchers, and a focus on resulting science being “actionable.” Substantial investments aimed at fulfilling the Needs identified in the Plan have been made since its release in 2016. While the state of the science has advanced considerably, the extent to which knowledge gaps remain relative to identified Needs is relatively unknown. Moreover, new Needs have likely emerged since the original strategy as results from actionable science reveal new questions, and possible (yet untested) solutions. A quantifiable assessment of the progress made on the original science Needs can identify unresolved gaps and new information that can help inform prioritization of future research efforts. This report details a systematic literature review that evaluated how well peer-reviewed journal articles and formal technical reports published between January 1, 2015, and December 31, 2020, addressed 10 needs (hereinafter “Needs”) identified under the Restoration topic in the Plan. The topic outlined research Needs for improving restoration success in degraded sagebrush rangelands. We established the level of progress towards addressing each Need following a standardized set of criteria, and developed summaries detailing how research objectives nested within Needs identified in the Plan (“Next Steps”) were either addressed well, partially addressed or remain outstanding (that is, addressed poorly) in the literature through 2020. Our searches resulted in the inclusion of 371 science products that at least partially addressed a Need identified in the Restoration topic. The Needs that were well and partially addressed included: the development of methods to improve seeding success of native plants after fire; evaluation of short- and long-term plant responses relative to biotic and abiotic factors following restoration treatments; assessments of long-term effects on ecosystem processes following conifer removal treatments and development of decision support tools to aid in conifer management; determination of the costs of restoration treatments relative to the benefits to sage-grouse occupancy, survival, and populations; and assessments of the factors which contribute to soil degradation and development of soil enhancement methods that enhance seed germination and seedling survival while resisting nonnative plants. Needs that were not addressed well included: the development of methods for the rapid recovery of sagebrush and native herbaceous plants following wildfire and determination of whether treatments benefit sage-grouse and mitigate impacts from fires; determination of thresholds for successful restoration across a range of environmental conditions and development of decision support tools to assist with restoration effectiveness monitoring; and development and evaluation of the utility of seed transfer zones. The information provided in this assessment will assist updating the Plan along with other science strategies.

western United States↗

USGS2006

Isotope sourcing of prehistoric willow and tule textiles recovered from western Great Basin rock shelters and caves - proof of concept

Isotope and trace-metal analyses were used to determine the origin of plants used to manufacture prehistoric textiles (basketry and matting) from archaeological sites in the western Great Basin. Research focused on strontium (87Sr/86Sr) and oxygen (18O/16O) isotope ratios of willow (Salix sp.) and tule (Schoenoplectus sp.), the dominant raw materials in Great Basin textiles. The oxygen-isotope data indicated that the willow and tule used to produce the textiles were harvested from the banks of rivers or in marshes characterized by flowing water and not from lakes or sinks. The strontium-isotope data were useful in showing which plants came from the Humboldt River and which came from rivers headed in the Sierra Nevada.

Journal of Archaeological Science↗

USGS2022

Introduction to the special issue on fire impacts on hydrological processes

Fire has been present on the Earth since vegetation began colonizing the continents (Santos et al., 2017). The role of fire on terrestrial sedimentation processes was already highlighted by Schumm (1968) in his pioneering research to understand the detachment, transport, and sedimentation of material on the Planet. The use of fire by humans as a tool that transformed the landscapes of the world has been widely accepted (Wang et al., 1999). Glacial-interglacial changes can affect vegetation with resulting implications for global fire regimes and trace gas emissions (Thonicke et al., 2005). Wildfire effects on vegetation can, in turn, alter soil erosion rates (Lenton, 2001), which is mainly due to the control plants exert on soil erosion processes (López-Vicente et al., 2021).

Journal of Hydrology and Hydromechanics↗

USGS2023

Comparing sediment microbial communities of Arctic beaver ponds to tundra lakes and streams

In recent decades the habitat of North American beaver ( Castor canadensis ) has expanded from boreal forests into Arctic tundra ecosystems. Beaver ponds in Arctic watersheds are known to alter stream biogeochemistry, which is likely coupled with changes in the activity and composition of microbial communities inhabiting beaver pond sediments. We investigated bacterial, archaeal, and fungal communities in beaver pond sediments along tundra streams in northwestern Alaska (AK), USA and compared them to those of tundra lakes and streams in north-central Alaska that are unimpacted by beavers. β -glucosidase activity assays indicated higher cellulose degradation potential in beaver ponds than in unimpacted streams and lakes within a watershed absent of beavers. Beta diversity analyses showed that dominant lineages of bacteria and archaea in beaver ponds differed from those in tundra lakes and streams, but dominant fungal lineages did not differ between these sample types. Beaver pond sediments displayed lower relative abundances of Crenarchaeota and Euryarchaeota archaea and of bacteria from typically anaerobic taxonomic groups, suggesting differences in rates of fermentative organic matter (OM) breakdown, syntrophy, and methane generation. Beaver ponds also displayed low relative abundances of Chytridiomycota (putative non-symbiotic) fungi and high relative abundances of ectomycorrhizal (plant symbionts) Basidiomycota fungi, suggesting differences in the occurrence of plant and fungi mutualistic interactions. Beaver ponds also featured microbes with taxonomic identities typically associated with the cycling of nitrogen and sulfur compounds in higher relative abundances than tundra lakes and streams. These findings help clarify the microbiological implications of beavers expanding into high latitude regions.

Alaska↗

USGS2013

A computer model to forecast wetland vegetation changes resulting from restoration and protection in coastal Louisiana

The coastal wetlands of Louisiana are a unique ecosystem that supports a diversity of wildlife as well as a diverse community of commercial interests of both local and national importance. The state of Louisiana has established a 5-year cycle of scientific investigation to provide up-to-date information to guide future legislation and regulation aimed at preserving this critical ecosystem. Here we report on a model that projects changes in plant community distribution and composition in response to environmental conditions. This model is linked to a suite of other models and requires input from those that simulate the hydrology and morphology of coastal Louisiana. Collectively, these models are used to assess how alternative management plans may affect the wetland ecosystem through explicit spatial modeling of the physical and biological processes affected by proposed modifications to the ecosystem. We have also taken the opportunity to advance the state-of-the-art in wetland plant community modeling by using a model that is more species-based in its description of plant communities instead of one based on aggregated community types such as brackish marsh and saline marsh. The resulting model provides an increased level of ecological detail about how wetland communities are expected to respond. In addition, the output from this model provides critical inputs for estimating the effects of management on higher trophic level species though a more complete description of the shifts in habitat.

Louisiana↗

USGS2019

Assessment of larval fish assemblages and nursery habitat in the St. Clair River delta

The St. Clair River delta, part of the St. Clair-Detroit River System (SCDRS), is the most fished coastal wetland area in the Laurentian Great Lakes and provides nursery habitat for a variety of fish species; however, few large-scale surveys of larval fish have been performed within the delta since the 1980s. Larval fish, zooplankton, and aquatic plants were sampled at 20 sites from May through July in 2010 and 2011 to characterize shallow channel and backwater delta habitats used by fish. The larval fish assemblage was sampled using active and passive gears (conical nets and light traps) and was dominated by Cyprinidae, Catostomidae, and Gobiidae. The microzooplankton assemblage was composed of rotifers, copepod nauplii, and Dreissena spp. veligers, while the macrozooplankton assemblage was composed of mostly cyclopoids and harpacticoids in May and cladocerans later in the season. Scirpus spp. dominated the plant assemblage in June and was replaced by Chara spp. in July. Seasonal compositional shifts were evident for larval fish, zooplankton, and plant assemblages, and greater densities of microzooplankton and cladocerans were typically found in backwater areas. Assemblage compositions were comparable to those in historical surveys but invasive Gobiidae and Dreissena spp. veligers now represent substantial proportions of the larval fish and zooplankton assemblages, respectively. Due to the high connectivity and advective nature of the SCDRS, understanding the larval fish assemblage dynamics of the delta can help inform estimates of system productivity.

Michigan↗

USGS1975

Phoma herbarum , a fungal plant saprophyte, as a fish pathogen

Phoma herbarum , a fungal plant saprophyte, was isolated from diseased hatchery-reared coho salmon ( Oncorhynchus kisutch ), chinook salmon ( O . tshawytscha ), and rainbow trout ( Salmo gairdneri ). The disease was observed at 10 national fish hatcheries in Washington and Oregon, but the low incidence of experimental infections indicate that it is only weakly contagious. Histopathological examination suggests that the air bladder is one of the primary organs infected. The visceral organs are also affected in both natural and experimental infections.

Journal of the Fisheries Research Board of Canada↗

USGS2000

Benthic foraminifera and environmental changes in Long Island Sound

Benthic foraminiferal faunas in Long Island Sound (LIS) in the 1940s and 1960s were of low diversity, and dominated by species of the genus Elphidium , mainly Elphidium excavatum clavatum , with common Buccella frigida and Eggerella advena . The distribution of these species was dominantly correlated with depth, but it was not clear which depth-related environmental variable was most important. Differences between faunas collected in 1996 and 1997, and in the 1940s and 1960s include a strong decrease in relative abundance of Eggerella advena over all LIS, an increase in relative abundance of Ammonia beccarii in western LIS, and a decrease in species diversity. The decreased diversity suggests that environmental stress caused the faunal changes. Oxygen isotope data for E. excavatum clavatum indicate that a change in salinity is not a probable cause. Carbon isotope data suggest that the supply of organic matter to the benthos increased since the early 1960s, with a stronger increase in western LIS where algal blooms have occurred since the early 1970s, possibly as a result of nutrient input by waste water treatment plants. These blooms or the resulting episodes of anoxia/hypoxia may have played a role in the increased relative abundance of A. beccarii . There is no clear explanation for the decreased abundance of E. advena , but changes in the phytoplankton composition (thus food supply) are a possible cause. Benthic foraminiferal faunal and stable isotope data have excellent potential as indicators of physicochemical environmental changes and their effects on the biota in LIS.

Connecticut, New York↗

USGS2008

Predicted effects of proposed new regulation plans on sedge/grass meadows of Lake Ontario

Previously described models for predicting the percent of Lake Ontario wetlands that would be occupied by sedge/grass-dominated meadow marsh were used to test four proposed new plans for regulation of lake levels and to make comparisons with the current plan and unregulated conditions. The models for drowned river mouth, barrier beach, open embayment, and protected embayment wetlands assessed responses to lake levels that would be generated by each plan under net total supplies modified from those that occurred from1900 to 2000. In years when reduced supplies would allow meadow marsh regeneration, simulated unregulated lake levels produced the most meadow marsh in all wetland geomorphic types; current Plan 1958DD produced the least. Overall predicted percent meadow marsh under the test plans decreased in the order B+, 2007, D+, and A+, and the latter three plans produced rather similar results in many cases. Lower percentages of meadow marsh under some plans were due to insufficient low lake levels that could allow soils to dry and restrict invasion by cattails, as well as lack of periodic high lake levels that could kill invading upland plants. An assessment of seasonal lake-level characteristics demonstrated that Plan 2007 would reduce mean winter lake levels by 13 cm or more than Plan B+ and springtime lake levels by more than 10 cm. These seasonal differences could result in less winter habitat for muskrats and reduced access to spring spawning habitats for fish such as northern pike. Our model results provide important information for use in the process of selecting a new regulation plan for Lake Ontario.

Journal of Great Lakes Research↗

USGS2016

Variation of energy and carbon fluxes from a restored temperate freshwater wetland and implications for carbon market verification protocols

Temperate freshwater wetlands are among the most productive terrestrial ecosystems, stimulating interest in using restored wetlands as biological carbon sequestration projects for greenhouse gas reduction programs. In this study, we used the eddy covariance technique to measure surface energy carbon fluxes from a constructed, impounded freshwater wetland during two annual periods that were 8 years apart: 2002–2003 and 2010–2011. During 2010–2011, we measured methane (CH 4 ) fluxes to quantify the annual atmospheric carbon mass balance and its concomitant influence on global warming potential (GWP). Peak growing season fluxes of latent heat and carbon dioxide (CO 2 ) were greater in 2002–2003 compared to 2010–2011. In 2002, the daily net ecosystem exchange reached as low as −10.6 g C m −2  d −1 , which was greater than 3 times the magnitude observed in 2010 (−2.9 g C m −2  d −1 ). CH 4 fluxes during 2010–2011 were positive throughout the year and followed a strong seasonal pattern, ranging from 38.1 mg C m −2  d −1 in the winter to 375.9 mg C m −2  d −1 during the summer. The results of this study suggest that the wetland had reduced gross ecosystem productivity in 2010–2011, likely due to the increase in dead plant biomass (standing litter) that inhibited the generation of new vegetation growth. In 2010–2011, there was a net positive GWP (675.3 g C m −2  yr −1 ), and when these values are evaluated as a sustained flux, the wetland will not reach radiative balance even after 500 years.

California↗

USGS1995

Disturbance and recovery of the Louisiana coastal marsh landscape from the impacts of Hurricane Andrew

The impact of Hurricane Andrew on the Louisiana coastal landscape and the initial recovery of wetland plant communities was determined from extensive surveys of a large geographic region of coastal marsh near Atchafalaya Bay and intensive studies of an oligohaline marsh on Otter Bayou. Wind and water movements associated with the hurricane resulted in the formation of compressed marsh, thick sediment deposits, wrack deposition, areas of salt burning, and scour. No sites were entirely without some impact. Sediments were deposited over large areas of coastal marsh. Marsh sites near Atchafalaya Bay had the thickest post-storm accumulations documented, up to 16 cm on average, while inland marsh sites accumulated lesser amounts of sediments. The nature of the sediment deposited on the marsh surface varied with location relative to the path of the storm and sources of sediment. Lateral compression resulted in surface relief 5-10 times greater than normal surface relief. Plant cover quickly recovered in all hurricane impact types except for scour areas and areas of thick wrack accumulation. Shifts in species dominance occurred in laterally compressed areas and are related to increased elevations. These findings suggest that hurricanes result in a variety of impacts in coastal Louisiana marshes and that the heterogeneity of the coastal landscape contributes to the magnitude and distribution of these impacts.

Louisiana↗