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At least 883 records · Page 49Linked to original sources

Adaptive population divergence and directional gene flow across steep elevational gradients in a climate‐sensitive mammal

The American pika is a thermally sensitive, alpine lagomorph species. Recent climate-associated population extirpations and genetic signatures of reduced population sizes range-wide indicate the viability of this species is sensitive to climate change. To test for potential adaptive responses to climate stress, we sampled pikas along two elevational gradients (each ~470 to 1640 m) and employed three outlier detection methods, BAYESCAN, LFMM, and BAYPASS, to scan for genotype-environment associations in samples genotyped at 30,763 SNP loci. We resolved 173 loci with robust evidence of natural selection detected by either two independent analyses or replicated in both transects. A BLASTN search of these outlier loci revealed several genes associated with metabolic function and oxygen transport, indicating natural selection from thermal stress and hypoxia. We also found evidence of directional gene flow primarily downslope from large high-elevation populations and reduced gene flow at outlier loci, a pattern suggesting potential impediments to the upward elevational movement of adaptive alleles in response to contemporary climate change. Finally, we documented evidence of reduced genetic diversity associated the south-facing transect and an increase in corticosterone stress levels associated with inbreeding. This study suggests the American pika is already undergoing climate-associated natural selection at multiple genomic regions. Further analysis is needed to determine if the rate of climate adaptation in the American pika and other thermally sensitive species will be able to keep pace with rapidly changing climate conditions.

Washington↗

Validation of a real-time quaking-induced conversion (RT-QuIC) assay protocol to detect chronic wasting disease using rectal mucosa of naturally infected, pre-clinical white-tailed deer (Odocoileus virginianus)

Chronic wasting disease (CWD) is a fatal prion disease of cervids spreading across North America. More effective mitigation efforts may require expansion of the available toolkit to include new methods that provide earlier antemortem detection, higher throughput, and less expense than current immunohistochemistry (IHC) methods. The rectal mucosa near the rectoanal junction is a site of early accumulation of CWD prions and is safely sampled in living animals by pinch biopsy. A fluorescence-based, 96-well format, protein-aggregation assay-the real-time quaking-induced conversion (RT-QuIC) assay-is capable of ultra-sensitive detection of CWD prions. Notably, the recombinant protein substrate is crucial to the assay's performance and is now commercially available. In this blinded independent study, the preclinical diagnostic performance of a standardized RT-QuIC protocol using a commercially sourced substrate (MNPROtein) and a laboratory-produced substrate was studied using mock biopsy samples of the rectal mucosa from 284 white-tailed deer ( Odocoileus virginianus ). The samples were from a frozen archive of intact rectoanal junctions collected at depopulations of farmed herds positive for CWD in the United States. All deer were pre-clinical at the time of depopulation and infection status was established from the regulatory record, which evaluated the medial retropharyngeal lymph nodes (MRPLNs) and obex by CWD-IHC. A pre-analytic sample precipitation step was found to enhance the protocol's detection limit. Performance metrics were influenced by the choice of RT-QuIC diagnostic cut points (minimum number of positive wells and assay time) and by deer attributes (preclinical infection stage and prion protein genotype). The peak overall diagnostic sensitivities of the protocol were similar for both substrates (MNPROtein, 76.8%; laboratory-produced, 73.2%), though each was achieved at different cut points. Preclinical infection stage and prion protein genotype at codon 96 (G = glycine, S = serine) were primary predictors of sensitivity. The diagnostic sensitivities in late preclinical infections (CWD-IHC positive MPRLNs and obex) were similar, ranging from 96% in GG96 deer to 80% in xS96 deer (x = G or S). In early preclinical infections (CWD-IHC positive MRPLNs only), the diagnostic sensitivity was 64-71% in GG96 deer but only 25% in xS96 deer. These results demonstrate that this standardized RT-QuIC protocol for rectal biopsy samples using a commercial source of substrate produced stratified diagnostic sensitivities similar to or greater than those reported for CWD-IHC but in less than 30 hours of assay time and in a 96-well format. Notably, the RT-QuIC protocol used herein represents a standardization of protocols from several previous studies. Alignment of the sensitivities across these studies suggests the diagnostic performance of the assay is robust given quality reagents, optimized diagnostic criteria, and experienced staff.

PLoS ONE↗

Watersheds and drainage networks

This topic is an overview of basic concepts about how the distribution of water on the Earth, with specific regard to watersheds, stream and river networks, and waterbodies are represented by geographic data. The flowing and non-flowing bodies of water on the earth’s surface vary in extent largely due to seasonal and annual changes in climate and precipitation. Consequently, modeling the detailed representation of surface water using geographic information is important. The area of land that collects surface runoff and other flowing water and drains to a common outlet location defines a watershed. Terrain and surface features can be naturally divided into watersheds of various sizes. Drainage networks are important data structures for modeling the distribution and movement of surface water over the terrain. Numerous tools and methods exist to extract drainage networks and watersheds from digital elevation models (DEMs). The cartographic representations of surface water are referred to as hydrographic features and consist of a snapshot at a specific time. Hydrographic features can be assigned general feature types, such as lake, pond, river, and ocean. Hydrographic features can be stored, maintained, and distributed for use through vector geospatial databases, such as the National Hydrography Dataset (NHD) for the United States.

Book chapter↗

Comments on the Yule Marble Haines block: Potential replacement, Tomb of the Unknown Soldier, Arlington National Cemetery

Marble for the Tomb of the Unknown Soldier at Arlington National Cemetery was cut from the Colorado Yule Marble Quarry in 1931. Although anecdotal reports suggest that cracks were noticed in the main section of the monument shortly after its installation at the Arlington National Cemetery in Arlington, Virginia, detailed documentation of the extent of cracking did not appear until 1963. Although debate continues as to whether the main section of the Tomb of the Unknowns monument should be repaired or replaced, Mr. John S. Haines of Glenwood Springs, Colorado, in anticipation of the permanent closing of the Yule Quarry, donated a 58-ton block of Yule Marble, the so-called Haines block, as a potential backup. The brief study reported here was conducted during mid-summer 2009 at the behest of the superintendent of Arlington National Cemetery. The field team entered the subterranean Yule Marble Quarry with the Chief Extraction Engineer in order to contrast the method used for extraction of the Haines block with the method that was probably used to extract the marble block that is now cracked. Based on surficial inspection and shallow coring of the Haines block, and on the nature of crack propagation in Yule Marble as judged by close inspection of a large collection of surrogate Yule Marble blocks, the team found the block to be structurally sound and cosmetically equivalent to the marble used for the current monument. If the Haines block were needed, it would be an appropriate replacement for the existing cracked section of the Tomb of the Unknown Soldier Monument.

Virginia↗

National assessment of shoreline change — Historical shoreline change along the north coast of Alaska, Icy Cape to Cape Prince of Wales

Beach erosion is a persistent problem along most open-ocean shores of the United States. Along the Arctic coast of Alaska, coastal erosion is widespread and threatens communities, defense and energy-related infrastructure, and coastal habitat. As coastal populations continue to expand and infrastructure and habitat are increasingly threatened by erosion, there is increased demand for accurate information regarding past and present trends and rates of shoreline movement. Shoreline change was evaluated by comparing three to four historical shoreline positions derived from 1950s-era topographic surveys and black and white aerial photography, 1980s-era color-infrared Alaska High-Altitude Aerial Photography, 2003 natural color aerial photography, and 2010s-era natural color aerial photography. Long-term (1950s–2010s) and short-term (1980s–2010s) shoreline change rates were calculated using linear-regression and end-point methods, respectively, at transects spaced approximately every 50 meters along both the mainland and barrier island coasts. Shoreline change rates calculated on more than 24,000 individual transects indicate that between 1948 and 2016 the northern coast of Alaska between Icy Cape and Cape Prince of Wales was slightly erosional, with 68 percent of the total transects showing shoreline retreat over the long term and 63 percent over the short term. However, only 9 percent of the total transects showed shoreline retreat greater than 1 meter per year (m/yr) over the long and short term, respectively. Mean rates of shoreline change of −0.2±0.1 and −0.2±0.3 m/yr, were calculated for the long and short term, respectively. Many rates measured were near the limit of our shoreline change uncertainty estimates. Erosion and accretion rates on individual transects ranged from −8.3 to +9.6 m/yr over the long term and −16.0 to +20.0 m/yr over the short-term analysis periods. The highest rates of erosion and accretion were associated with the formation and migration of inlets along barrier island coasts. The highest erosional rates of change were measured in the southern part of the study area between Sullivan Lake and Cape Prince of Wales. The highest accretional rates of change were measured in the northern part of the study area on the open-ocean coast of barrier islands fronting Kasegaluk Lagoon. Open-ocean exposed shorelines compose 85 percent of all transects and 70 percent were erosional over the long term. Sheltered mainland-lagoon shorelines compose 15 percent of all transects in the study area and 58 percent were erosional over the long term. Although mean shoreline change rates were quite low along all coasts, exposed shorelines retreated at twice the rate (−0.2±0.1 m/yr) of sheltered shorelines (−0.1±0.1 m/yr). Barrier shoreline transects (includes barrier islands, spits, and beaches) compose 49 percent of the total transects and 56 percent of all exposed shoreline transects. Mean shoreline change rates on exposed barrier shorelines were only slightly greater than exposed mainland shorelines (−0.3±0.1 and −0.2±0.1 m/yr, respectively). Mean shoreline change rates on sheltered barrier shorelines were similar to sheltered mainland shorelines (−0.1±0.3 m/yr). In contrast to the majority of the Nation’s shorelines, for all but three months of the year (July–September), the north coast of Alaska has historically been protected by landfast sea ice from processes such as waves, winds, and currents that typically drive coastal change on beaches in more temperate regions of the world. Projected and observed increases in periods of sea-ice-free conditions, as sea ice melts earlier and forms later in the year, particularly in the autumn, when large storms are more common in the Arctic, suggest that Arctic coasts will be more vulnerable to storm surge and wave energy, potentially resulting in accelerated shoreline erosion and terrestrial habitat loss in the future. Increases in air and sea water temperatures may also increase erosion of the ice-rich, coastal permafrost bluffs present along much of Alaska’s Arctic coast. More frequent shoreline change data collection and analysis in this rapidly changing environment should be considered in order to evaluate shoreline change trends in the future.

Alaska↗

Reconnaissance of chemical and physical characteristics of selected bottom sediments of the Caloosahatchee River and estuary, tributaries, and contiguous bays, Lee County, Florida, July 20-30, 1998

This report summarizes a reconnaissance study, conducted July 20-30, 1998, of chemical and physical characteristics of recently deposited bottom sediments in the Caloosahatchee River and Estuary. Recently deposited sediments were identified using an isotopic chronometer, Beryllium-7 (7Be), a short-lived radioisotope. Fifty-nine sites were sampled in an area that encompasses the Caloosahatchee River (River) about three miles upstream from the Franklin Lock (S-79), the entire tidally affected length of the river (estuary), and the contiguous water bodies of Matlacha Pass, San Carlos Bay, Estero Bay, Tarpon Bay, and Pine Island Sound in Lee County, Florida. Bottom sediments were sampled for 7Be at 59 sites. From the results of the 7Be analysis, 30 sites were selected for physical and chemical analysis. Sediments were analyzed for particle size, total organic carbon (TOC), trace elements, and toxic organic compounds, using semiquantitative methods for trace elements and organic compounds. The semiquantitative scans of trace elements indicated that cadmium, copper, lead, and zinc concentrations, when normalized to aluminum, were above the natural background range at 24 of 30 sites. Particle size and TOC were used to characterize sediment deposition patterns and organic content. Pesticides, polychlorinated biphenyls (PCBs), and carcinogenic polycyclic aromatic hydrocarbons (CaPAHs) were determined at 30 sites using immunoassay analysis. The semiquantitative immunoassay analyses of toxic organic compounds indicated that all of the samples contained DDT, cyclodienes as chlordane (pesticides), and CaPAHs. PCBs were not detected. Based on analyses of the 30 sites, sediments at 10 of these sites were analyzed for selected trace elements and toxic organic compounds, including pesticides, PCBs, and PAHs, using quantitative laboratory procedures. No arsenic or cadmium was detected. Zinc was detected at two sites with concentrations greater than the lower limit of the range of sediment contaminant concentrations that are usually or always associated with adverse effects (Florida Department of Environmental Protection's Sediment Quality Assessment Guidelines). Organochlorine pesticides were detected at four sites at concentrations below the reporting limits; there were no organophosphorus pesticides or PCBs detected. PAHs were detected at eight sites; however, only four sites had concentrations above the reporting limit.

Florida↗

The coral reef of South Moloka'i, Hawai'i— Portrait of a sediment-threatened fringing reef

Moloka‘i, with the most extensive coral reef in the main Hawaiian Islands, is especially sacred to Hina, the Goddess of the Moon. As Hinaalo, she is the Mother of the Hawaiian people; as Hinapuku‘a, she is the Goddess of Fishermen; and in the form Hina‘opuhalako‘a, she is the Goddess who gave birth to coral, coral reefs, and all spiny marine organisms. Interdependence between the reef’s living resources, the people, and their cosmology was the basis for management of Moloka‘i’s coastal waters for over a thousand years. The ancient residents of Moloka‘i built the greatest concentration of fishponds known anywhere, but their mastery of mariculture, something needed now more than ever, was lost after near genocide from exotic Western diseases. Subsequent destruction of the native vegetation for exotic cattle, goats, pigs, sugar cane, and pineapple caused soil erosion and sedimentation on the reef flat. This masterful volume clearly documents that soil washing into the sea is the major threat to the reef today. Abandoned fishponds, choked with sediment, now act as barriers and mud traps, making damage to corals less than it would otherwise would have been. The role of mud and freshwater from land in preventing coral reef growth, clearly articulated in Charles Darwin’s first book, The Structure and Distribution of Coral Reefs, is the major theme of this book. All around the tropics, coral reefs have died from huge increases in terrestrial sedimentation that resulted from destruction of hillside forests for cash-crop agriculture and pastures in the colonial era, especially in Latin America, Asia, and the islands of the Caribbean and Indo-Pacific. It is obvious that one cannot manage the coastal zone as a unit separate from the watersheds that drain into it. Yet there has been surprisingly little comprehensive scientific study of these impacts. In this landmark volume, U.S. Geological Survey researchers and their colleagues have developed and applied a remarkably integrated approach to the reefs of Moloka‘i, combining geology, oceanography, and biology to provide an in-depth understanding of the processes that have made these reefs grow and that now limit them. They have joined old fashioned natural history of marine animals and plants with study of the geological evolution of the island, hydrology, meteorology, and land-use history, to an arsenal of new methods of remote sensing, including aerial photography, laser ranging, infrared thermal mapping, seismic reflection, in-situ instrumentation to measure chemical parameters of water quality, and direct measurements of the physical driving forces affecting them—such as wave energy, currents, sedimentation, and sediment transport. They provide a level of documentation and insight that has never been available for any reef before. A remarkable feature of this book is that it is aimed at the people of Moloka‘i to inform them of what is happening to their reef and what they might do to preserve their vital resources. The scientific data and interpretations are expressed in unusually clear and comprehensible language, free of the professional jargon that makes most technical publications impenetrable to the public that most needs to know about them, yet without loss of scientific rigor. Here readers will see clearly explained the whole path of soil loss, from the impacts of wild pigs and goats at higher elevations, deforestation of the hills for cattle pasture at lower levels, and denudation of low lands for cash crops. The resulting biological impoverishment has bared the soils, which wash away in flash storms, smothering the inshore reefs, whose growth was already limited because they had grown right up to sea level. The data in this book show that the mud doesn’t get far if it is washed into the sea during a big storm with heavy waves. Afterwards this mud keeps getting stirred up by every succeeding storm, spreading and affecting corals over wider areas until it is finally washed out of the system—and that only happens if there is no more new mud washing onto the reef. I saw this myself a few years ago in Pila‘a Bay on Kaua‘i, where a bulldozed hillside of abandoned sugar cane fields had slumped right on top of a coral reef following exceptional rains. Years later, the algae species were zoned in a way that clearly mapped the distribution of nutrients washed into the bay, most likely from fertilizers bound to the eroded soils. That pattern closely mimics, on a small scale, that shown in Moloka‘i in this volume, where the inner reef is covered with algae, zoned by species in a way that points to land-based sources of nutrients, while the outermost reef slope is still coral dominated, and the deep algae seem to indicate deep-water nutrient upwelling. What of the future? The Hawaiian Islands have been exceptionally fortunate to be spared the worst coral heatstroke death from high temperatures, at least to date. So far, the worst global warming impacts have luckily been small in this region, and the small number of people on Moloka‘i has kept population densities, and sewage pollution, low compared to the more developed islands. Nutrients from years of sugar and pineapple fertilization, and the washing of this soil onto the reefs, show clear influences on the pattern of algae on the reef. Even at very low levels of nutrients, well below that which drives algae to smother and kill coral reefs, more algae is present. Soil erosion control is therefore the key to better management of both nutrients and turbidity on Moloka‘i reefs. To that end land management actions mentioned in this book, such as suppressing wild fires and eliminating wild goats and pigs, could be made even more effective if supplemented by active erosion control using plants whose roots bind the soil effectively in place. Through all of these efforts, Hina and the people of Moloka‘i could be happy again!

Hawaii↗

Trends in environmental, anthropogenic, and water-quality characteristics in the upper White River Basin, Indiana

The U.S. Geological Survey (USGS), in cooperation with The Nature Conservancy, undertook a study to update and extend results from a previous study (Koltun, 2019, https://doi.org/10.3133/sir20195119 ), using data from 3 additional years and newer estimation methods. Koltun (2019) assessed trends in streamflow, precipitation, and estimated annual mean concentrations and flux of nitrate plus nitrite, total Kjeldahl nitrogen, total phosphorus, and total suspended solids (TSS) for USGS streamflow gages on the upper White River at Muncie, near Nora, and near Centerton, Indiana. Annual mean and maximum daily streamflows had statistically significant upward trends at all study gages between water years 1978 and 2020. An abrupt increase in streamflow occurred around water year 2001. Annual total precipitation at the Indianapolis International Airport increased between calendar years 1932 and 2020 at an average rate of 0.089 inches per year. The current study assessed the magnitude, direction, and likelihood of change in flow-normalized concentrations and flux of TSS, total phosphorus, nitrate plus nitrite, and total Kjeldahl nitrogen between water years 1997 and 2019. With two exceptions, concentration and flux changes that were statistically significant in Koltun (2019, https://doi.org/10.3133/sir20195119 ), which reported changes between water years 1997 and 2017, still have the same statistically significant change directions. The reliability of the current trend result for TSS is uncertain because of a large gap in the TSS record for the Centerton gage. For each constituent, spatial patterns were examined in the sampled distribution of nutrient and TSS concentration data from 20 mainstem, tributary, and distributary locations in the upper White River Basin. The largest median concentrations of TSS, total phosphorus, and total Kjeldahl nitrogen were associated with mainstem upper White River sites downstream from Indianapolis. The median total phosphorus and total Kjeldahl nitrogen concentrations were elevated relative to bracketing upstream/downstream mainstem sites at the upper White River site immediately downstream from Muncie. Data on several anthropogenic factors that could influence the concentrations and fluxes of nutrients and TSS were gathered and analyzed to better understand the factors’ spatial and temporal variations. Those anthropogenic factors included population, land cover, cropping and operational tillage practices, fertilizer application, and upgrades to wastewater treatment systems and delivery processes.

Indiana↗

Effects of three highway-runoff detention methods on water quality of the surficial aquifer system in central Florida

Water quality of the surficial aquifer system was evaluated at one exfiltration pipe, two ponds (detention and retention), and two swales in central Florida, representing three runoff detention methods, to detect any effects from infiltrating highway runoff. Concentrations of major ions, metals, and nutrients were measured in ground water and bottom sediments from 1984 through 1986. At each study area, constituent concentrations in ground water near the structure were compared to concentrations in ground water from an upgradient control site. Ground-water quality data also were pooled by detention method and statistically compared to detect any significant differences between methods. Analysis of variance of the rank-converted water-quality data at the exfiltration pipe indicated that mean concentrations of 14 of 26 water-quality variables are significantly different among sampling locations (the pipe, unsaturated zone, saturated zone, and the control well). Most of these differences are between the unsaturated zone and the other locations. Only phosphorus is significantly higher in ground water near the pipe than in ground water at the control well. Analysis of variance of rank-converted water-quality data at the retention pond indicated significant differences in 14 of 25 water-quality variables among sampling locations (surficial aquifer system, intermediate aquifer, pond and the control well), but mean concentrations in ground water below the pond were never significantly higher than in ground water from the control well. Analysis of variance results at other study areas indicated few significant differences in water quality among sampling locations. Values of water-quality variables measured in ground water at all study areas generally were within drinking water standards. The few exceptions included pH (frequently lower than the limit of 6.5 at one pond and both swales), and iron, which frequently exceeded 300 micrograms per liter in ground water at one swale and the detention pond. Large concentrations of polyaromatic hydrocarbons were measured in sediments at the retention pond but qualitative analysis of organic compounds in ground water from three wells indicated concentrations of only 1 to 5 micrograms per liter at one site, and below detection level (1 microgram per liter) at the other two sites. This may be an indication of immobilization of organic compounds in sediments. Significant differences for most variables were indicated among ground-water quality data pooled by detention method. Nitrate nitrogen and phosphorus concentrations were highest in ground water near swales and the exfiltration pipe, and Kjeldahl nitrogen was highest near ponds. Chromium, copper, and lead concentrations in ground water were frequently below detection levels at all study areas, and no significant differences among detention methods were detected for any metal concentration with the exception of iron. High iron concentrations in ground water near the detention pond and one swale most likely were naturally occurring and unrelated to highway runoff. Results of the study indicate that natural processes occurring in soils attenuate inorganic constituents in runoff prior to reaching the receiving ground water. However, organic compounds detected in sediments at the retention pond indicate a potential problem that may eventually affect the quality of the receiving ground water.

Florida↗

A river system to watch: documenting the effects of saltcedar ( Tamarix spp.) biocontrol in the Virgin River valley

Throughout riparian areas of the southwestern United States, non-native saltcedar (also known as tamarisk; Tamarix spp.) can form dense, monotypic stands and is often reported to have detrimental effects on native plants and habitat quality (Everitt 1980; Shafroth et al. 2005). Natural resource managers of these riparian areas spend considerable time and resources controlling saltcedar using a variety of techniques, including chemical (Duncan and McDaniel 1998), mechanical, and burning methods (Shafroth et al. 2005). Approximately one billion dollars are spent each year on river restoration projects nationally (Bernhardt et al. 2005), and a majority of these projects focus on invasive species control in the Southwest (Follstad Shah et al. 2007). A technique that has drawn much attention is the use of the saltcedar leaf beetle ( Diorhabda spp.), a specialist herbivore, as biological control of saltcedar (Lewis et al. 2003). Research testing was conducted with beetles housed in secure enclosures in six states in 1998 and 1999 (Dudley et al. 2001), followed by open release at some of those sites starting in 2001 (DeLoach et al. 2004). By 2005, full-scale saltcedar biocontrol was implemented in 13 states, led by the USDA Animal and Plant Health Inspection Service (APHIS), the agency that oversees biological control programs, and with the participation and support of the U.S. Fish and Wildlife Service (USFWS). Despite the widespread application of Diorhabda , however, only limited research has quantified the consequences (benefits and costs) on biotic communities and ecosystem services. Alterations to riparian areas caused by various non-native species control activities have the potential to affect a variety of habitat types used by wildlife (Bateman et al. 2008a); processes like water availability, fluvial deposition, and erosion; and the establishment of other non-native species (Carruthers and D'Antonio 2005, Shafroth et al. 2005, DeLoach et al. 2006). Similarly, biocontrol is expected to modify riparian ecosystems, and it is imperative to document and evaluate both the environmental benefits and the potential costs of this tamarisk management method.

Virgin River↗

SUBMICROSCOPIC ( less than 1 mu m) MINERAL CONTENTS OF VITRINITES IN SELECTED BITUMINOUS COAL BEDS.

An important aspect of the petrographic description of coal is the characterization of coal quality, including chemical attributes. For geologic investigations, data on the concentrations, distribution, and modes of occurrence of minor and trace elements provide a basis for reconstructing the probable geochemical environment of the swamp material that was converted into peat, and the geochemical conditions that prevailed during and subsequent to coalification. We have been using electron (EPMA) and proton (PIXE) microprobe analytical methods to obtain data on the chemical characteristics of specific coal constituents in their original associations within coal samples. The present study is aimed at evaluation of the nature of mineral occurrences and heterogeneous elemental concentrations within vitrinites. Vitrinites are usually the most abundant, and therefore most important, maceral group in bituminous coal. 8 refs.

Conference Paper↗

Influence of restored koa in supporting bird communities

Deforestation of Hawaiian forests has adversely impacted native wildlife, including forest birds, bats and arthropods. Restoration activities have included reforestation with the native koa (Acacia koa), a dominant canopy tree species that is easy to propagate, has high survivorship, and has fast growth rates. We review recent research describing the ecological benefits of koa restoration on wildlife colonization/use, plant dispersal, and native plant recruitment. In general, planting monotypic koa stands can provide forest habitats for species that need them but does not automatically lead to natural regeneration of a diverse forest species assemblage and may require additional restoration activities such as outplanting of other native plants and alien grass control to achieve more natural forest systems. Although early signs of forest and wildlife recovery have been encouraging, the goals of restoration for wildlife conservation versus commercial grade harvesting require different restoration methods.

Hawai'i↗

Preserving meander bend geometry through scale

Stream meander geometry is a function of hydrologic, geologic, and anthropogenic forces. Meander morphometrics are used in geomorphic classification, ecological characterization, and tectonic and hydrologic change detection. Thus, detailed measurement and classification of meander geometry is imperative to multiscale representation of hydrographic features, which raises important questions. What meander geometries are important to preserve in multi-scale databases? How are geometries measured? How are they preserved? Is the choice between preservation of geometry or use of classification attributes? Questions related to multiscale measurement and representation of hydrographic features continue to emerge with increased spatial and temporal data collection. A key metric for understanding meander bend geometry is sinuosity. The most common measure of sinuosity is the length of a feature divided by the distance between stream head and mouth. The measure relays deviation from a straight line but nothing about meander wavelength. There is not a clear consensus on methods for measuring meander geometry, much less efficiently, at scales made viable with increased data resolution. Here we propose a method for automated characterization of meander wavelength or bend radius. The method, termed Scale-Specific Sinuosity ( S 3 ), is a derivation from the Richardson plot. The Richardson (1961) plot is a classic means of calculating fractal dimension of natural line features and describes feature length (ℓ) given increasing vertex spacing, or step size (S), plotted on a log-log plot. The S 3 metric is defined as negative one times the slope of a Richardson plot for a given stride length. This paper demonstrates utility of S 3 for estimating changes in sinuosity with scale change.

Conference Paper↗

The finicky nature of earthquake shaking-triggered submarine sediment slope failures and sediment gravity flows

Since 2011, seafloor temperatures, pressures, and seismic ground motions have been measured by the seafloor cabled Dense Oceanfloor Network system for Earthquakes and Tsunamis (DONET) on the Nankai margin. These measurements, high-resolution bathymetry, and abundant contextual information make the DONET region seem ideally suited to provide constraints on seismic shaking-triggered sediment slope failures and gravity flows, particularly since numerous published studies have linked paleo- to modern earthquakes to failures and flows within the DONET. The occurrences of the local 2016 M6.0 Mie-ken and regional M7.0 Kumamoto earthquakes within and at regional distances, respectively, from the DONET data set provided an opportunity to explore this potential. We used DONET seismic recordings of the posited triggering shaking and to search for submarine slide signals and continuous temperature and pressure data to detect pulses of warm and densified water indicative of passing flows. We developed and applied a variety of analytical methods to eliminate signals generated by water column processes, while leaving slope failures and sediment gravity flow anomalies as residuals. Our explorations yielded no evidence that earthquake shaking initiated either phenomenon, which we suggest reflects the finicky nature both of the detection of and the physical processes that contribute to slope failures and flows (i.e., both require satisfying precise suites of conditions). Nonetheless, this negative result, our analyses, and the estimates of physical properties we derived for them, provide useful lessons and inputs for future studies.

Journal of Geophysical Research↗

Assessment of Energetic Compounds, Semi-volatile Organic Compounds, and Trace Elements in Streambed Sediment and Stream Water from Streams Draining Munitions Firing Points and Impact Areas, Fort Riley, Kansas, 2007-08

An assessment of energetic compounds (explosive and propellant residues) and associated semi-volatile organic compounds (SVOCs) and trace elements in streambed sediment and stream water from streams draining munitions firing points and impact areas at Fort Riley, northeast Kansas, was performed during 2007-08 by the U.S. Geological Survey (USGS) in cooperation with the U.S. Army. Streambed sediment from 16 sampling sites and stream-water samples from 5 sites were collected at or near Fort Riley and analyzed for as many as 17 energetic compounds, 65 SVOCs, and 27 trace elements. None of the energetic compounds or SVOCs were detected in streambed sediment collected from sites within the Fort Riley Military Reservation. This may indicate that these compounds either are not transported from dispersal areas or that analytical methods are not sensitive enough to detect the small concentrations that may be transported. Concentrations of munitions-associated trace elements did not exceed sediment-quality guidelines recommended by the U.S. Environmental Protection Agency (USEPA) and are not indicative of contamination of streambed sediment at selected streambed sampling sites, at least in regards to movement from dispersal areas. Analytical results of stream-water samples provided little evidence of contamination by energetic compounds, SVOCs, or associated trace elements. Perchlorate was detected in 19 of 20 stream-water samples at concentrations ranging from an estimated 0.057 to an estimated 0.236 ug/L (micrograms per liter) with a median concentration of an estimated 0.114 ug/L, substantially less than the USEPA Interim Health Advisory criterion (15 ug/L), and is in the range of documented background concentrations. Because of these small concentrations and possible natural sources (precipitation and groundwater), it is likely that the occurrence of perchlorate in stream water is naturally occurring, although a definitive identification of the source of perchlorate in stream water at Fort Riley is difficult. The only SVOCs detected in stream-water samples were bis(2-ethylhexyl) phthalate and di-n-butyl phthalate but at concentrations substantially less than the most stringent aquatic-life criteria established by the Kansas Department of Health and Environment. All trace element concentrations in stream-water samples were less than the most stringent aquatic-life criteria. The implication of these stream-water results is that contamination arising from firing-range activities, if it exists, is so small as to be nondetectable with current analytical methods or is not distinguishable from background concentrations for constituents that also are naturally occurring. Overall, the munitions-related constituents analyzed in streambed sediment and stream water, when detected, were at concentrations that were less than regulatory criteria

Scientific Investigations Report↗

Clarity versus complexity: land-use modeling as a practical tool for decision-makers

The last decade has seen a remarkable increase in the number of modeling tools available to examine future land-use and land-cover (LULC) change. Integrated modeling frameworks, agent-based models, cellular automata approaches, and other modeling techniques have substantially improved the representation of complex LULC systems, with each method using a different strategy to address complexity. However, despite the development of new and better modeling tools, the use of these tools is limited for actual planning, decision-making, or policy-making purposes. LULC modelers have become very adept at creating tools for modeling LULC change, but complicated models and lack of transparency limit their utility for decision-makers. The complicated nature of many LULC models also makes it impractical or even impossible to perform a rigorous analysis of modeling uncertainty. This paper provides a review of land-cover modeling approaches and the issues causes by the complicated nature of models, and provides suggestions to facilitate the increased use of LULC models by decision-makers and other stakeholders. The utility of LULC models themselves can be improved by 1) providing model code and documentation, 2) through the use of scenario frameworks to frame overall uncertainties, 3) improving methods for generalizing key LULC processes most important to stakeholders, and 4) adopting more rigorous standards for validating models and quantifying uncertainty. Communication with decision-makers and other stakeholders can be improved by increasing stakeholder participation in all stages of the modeling process, increasing the transparency of model structure and uncertainties, and developing user-friendly decision-support systems to bridge the link between LULC science and policy. By considering these options, LULC science will be better positioned to support decision-makers and increase real-world application of LULC modeling results.

Journal of Environmental Management↗

Selenium isotope fractionation during reduction by Fe(II)-Fe(III) hydroxide-sulfate (green rust)

We have determined the extent of Se isotope fractionation induced by reduction of selenate by sulfate interlayered green rust (GR SO4 ), a Fe(II)-Fe(III) hydroxide-sulfate. This compound is known to reduce selenate to Se(0), and it is the only naturally relevant abiotic selenate reduction pathway documented to date. Se reduction reactions, when they occur in nature, greatly reduce Se mobility and bioavailability. Se stable isotope analysis shows promise as an indicator of Se reduction, and Se isotope fractionation by various Se reactions must be known in order to refine this tool. We measured the increase in the 80 Se/ 76 Se ratio of dissolved selenate as lighter isotopes were preferentially consumed during reduction by GR SO4 . Six different experiments that used GR SO4 made by two methods, with varying solution compositions and pH, yielded identical isotopic fractionations. Regression of all the data yielded an instantaneous isotope fractionation of 7.36 ± 0.24‰. Selenate reduction by GR SO4 induces much greater isotopic fractionation than does bacterial selenate reduction. If selenate reduction by GR SO4 occurs in nature, it may be identifiable on the basis of its relatively large isotopic fractionation.

Geochimica et Cosmochimica Acta↗

A practical guide to understanding and validating complex models using data simulations

Biologists routinely fit novel and complex statistical models to push the limits of our understanding. Examples include, but are not limited to, flexible Bayesian approaches (e.g. BUGS, stan), frequentist and likelihood-based approaches (e.g. packages lme4 ) and machine learning methods. These software and programs afford the user greater control and flexibility in tailoring complex hierarchical models. However, this level of control and flexibility places a higher degree of responsibility on the user to evaluate the robustness of their statistical inference. To determine how often biologists are running model diagnostics on hierarchical models, we reviewed 50 recently published papers in 2021 in the journal Nature Ecology & Evolution , and we found that the majority of published papers did not report any validation of their hierarchical models, making it difficult for the reader to assess the robustness of their inference. This lack of reporting likely stems from a lack of standardized guidance for best practices and standard methods. Here, we provide a guide to understanding and validating complex models using data simulations. To determine how often biologists use data simulation techniques, we also reviewed 50 recently published papers in 2021 in the journal Methods Ecology & Evolution . We found that 78% of the papers that proposed a new estimation technique, package or model used simulations or generated data in some capacity (18 of 23 papers); but very few of those papers (5 of 23 papers) included either a demonstration that the code could recover realistic estimates for a dataset with known parameters or a demonstration of the statistical properties of the approach. To distil the variety of simulations techniques and their uses, we provide a taxonomy of simulation studies based on the intended inference. We also encourage authors to include a basic validation study whenever novel statistical models are used, which in general, is easy to implement. Simulating data helps a researcher gain a deeper understanding of the models and their assumptions and establish the reliability of their estimation approaches. Wider adoption of data simulations by biologists can improve statistical inference, reliability and open science practices.

Methods in Ecology and Evolution↗