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At least 1,297 records · Page 72Linked to original sources

USGS2007

TiO 2 as a photocatalyst for control of the aquatic invasive alga, Cladophora, under natural and artificial light

Cladophora, a nuisance and invasive, filamentous algae (Chlorophyta), massively accumulates along the shores of the lower Great Lakes each summer causing great economic damage and compromising recreational opportunity and perhaps public health. In vitro experiments showed that Cladophora samples were physically and biologically degraded when subjected to TiO 2 -mediated photocatalysis. For the most successful photocatalytic process, TiO 2 was immobilized on a glass surface and used in combination with either sunlight or artificial UV light. The loss of vital algal pigments was monitored using UV–vis spectrophotometry, and cell structural changes were determined by microscopic observation. Cladophora, in the presence of TiO 2 -covered glass beads, experienced a loss of chloroplast pigments after 2 h of UV lamp light irradiation. In a separate experiment, sunlight exposure over 4 days (&sim;24 h) resulted in the complete oxidative degradation of the green chloroplast pigments, verified by the UV spectra of the algal extracts. These results suggest that TiO 2 , mobilized on sunlit silicates may be useful in controlling growth and survival of this alga in the Great Lakes, thus mitigating many of the economic, aesthetic ecological impacts of this invasive alga.

Journal of Photochemistry and Photobiology A: Chem↗

USGS2006

Strand-specific, real-time RT-PCR assays for quantification of genomic and positive-sense RNAs of the fish rhabdovirus, Infectious hematopoietic necrosis virus

The fish rhabdovirus, Infectious hematopoietic necrosis virus (IHNV), is an important pathogen of salmonids. Cell culture assays have traditionally been used to quantify levels of IHNV in samples; however, real-time or quantitative RT-PCR assays have been proposed as a rapid alternative. For viruses having a single-stranded, negative-sense RNA genome, standard qRT-PCR assays do not distinguish between the negative-sense genome and positive-sense RNA species including mRNA and anti-genome. Thus, these methods do not determine viral genome copy number. This study reports development of strand-specific, qRT-PCR assays that use tagged primers for enhancing strand specificity during cDNA synthesis and quantitative PCR. Protocols were developed for positive-strand specific (pss-qRT-PCR) and negative-strand specific (nss-qRT-PCR) assays for IHNV glycoprotein (G) gene sequences. Validation with synthetic RNA transcripts demonstrated the assays could discriminate the correct strand with greater than 1000-fold fidelity. The number of genome copies in livers of IHNV-infected fish determined by nss-qRT-PCR was, on average, 8000-fold greater than the number of infectious units as determined by plaque assay. We also compared the number of genome copies with the quantity of positive-sense RNA and determined that the ratio of positive-sense molecules to negative-sense genome copies was, on average, 2.7:1. Potential future applications of these IHNV strand-specific qRT-PCR assays are discussed.

Journal of Virological Methods↗

USGS2017

Analytical validation of a reverse transcriptase droplet digital PCR (RT-ddPCR) for quantitative detection of infectious hematopoietic necrosis virus

Infectious hematopoietic necrosis virus (IHNV) is an important pathogen of salmonid fishes. A validated universal reverse transcriptase quantitative PCR (RT-qPCR) assay that can quantify levels of IHNV in fish tissues has been previously reported. In the present study, we adapted the published set of IHNV primers and probe for use in a reverse-transcriptase droplet digital PCR (RT-ddPCR) assay for quantification of the virus in fish tissue samples. The RT-ddPCR and RT-qPCR assays detected 13 phylogenetically diverse IHNV strains, but neither assay produced detectable amplification when RNA from other fish viruses was used. The RT-ddPCR assay had a limit of detection (LOD) equating to 2.2 plaque forming units (PFU)/μl while the LOD for the RT-qPCR was 0.2 PFU/μl. Good agreement (69.4–100%) between assays was observed when used to detect IHNV RNA in cell culture supernatant and tissues from IHNV infected rainbow trout ( Oncorhynchus mykiss ) and arctic char ( Salvelinus alpinus ). Estimates of RNA copy number produced by the two assays were significantly correlated but the RT-qPCR consistently produced higher estimates than the RT-ddPCR. The analytical properties of the N gene RT-ddPCR test indicated that this method may be useful to assess IHNV RNA copy number for research and diagnostic purposes. Future work is needed to establish the within and between laboratory diagnostic performance of the RT-ddPCR assay.

Journal of Virological Methods↗

USGS2010

Modeling the effects of wave climate and sediment supply variability on large-scale shoreline change

The application of an integrated data analysis and modeling scheme reveals that decadal-scale shoreline evolution along a U.S. Pacific Northwest littoral cell is highly dependent on both sediment supply and wave climate variability. In particular, accurate estimates of (Columbia River) sediment supply and sediment feeding from the lower shoreface are critical components of balancing the barrier beach sediment budget and are therefore essential to making sensible shoreline change hindcasts and forecasts. A simple deterministic one-line shoreline change model, applied in a quasi-probabilistic manner, enables evaluation of the influence of sediment supply and wave climate variability through simulation of historical shoreline change. Through iteration, a range of realistic scenarios are developed to constrain decadal-scale shoreline change predictions. Modeled shoreline changes are significantly sensitive to directional changes in the incident waves, and therefore sensitive to the occurrence of interannual climatic fluctuations such as major El Niño events. A predicted increase in the intensity of the east Pacific wave climate (1.0 m increase in significant wave height in 20 yr) affects forecast shoreline positions only when this increase occurs during the winter storm season. However, the effect of this increase in storm power during any given year is small relative to the impact of major El Niño events. The model has significant skill in decadal-scale hindcasts suggesting that alongshore gradients in sediment transport dominate coastal change at this scale at this site. However, both data and model results suggest that net onshore feeding from the lower shoreface is responsible for approximately 20% of the decadal-scale coastal change. Field measurements and poor model skill at annual scale indicate that cross-shore processes likely dominate coastal change at shorter time scales.

Oregon, Washington↗

USGS2008

Mechanical and electromagnetic properties of northern Gulf of Mexico sediments with and without THF hydrates

Using an oedometer cell instrumented to measure the evolution of electromagnetic properties, small strain stiffness, and temperature, we conducted consolidation tests on sediments recovered during drilling in the northern Gulf of Mexico at the Atwater Valley and Keathley Canyon sites as part of the 2005 Chevron Joint Industry Project on Methane Hydrates. The tested specimens include both unremolded specimens (as recovered from the original core liner) and remolded sediments both without gas hydrate and with pore fluid exchanged to attain 100% synthetic (tetrahydrofuran) hydrate saturation at any stage of loading. Test results demonstrate the extent to which the electromagnetic and mechanical properties of hydrate-bearing marine sediments are governed by the vertical effective stress, stress history, porosity, hydrate saturation, fabric, ionic concentration of the pore fluid, and temperature. We also show how permittivity and electrical conductivity data can be used to estimate the evolution of hydrate volume fraction during formation. The gradual evolution of geophysical properties during hydrate formation probably reflects the slow increase in ionic concentration in the pore fluid due to ion exclusion in closed systems and the gradual decrease in average pore size in which the hydrate forms. During hydrate formation, the increase in S-wave velocity is delayed with respect to the decrease in permittivity, consistent with hydrate formation on mineral surfaces and subsequent crystal growth toward the pore space. No significant decementation/debonding occurred in 100% THF hydrate-saturated sediments during unloading, hence the probability of sampling hydrate-bearing sediments without disturbing the original sediment fabric is greatest for samples in which the gas hydrate is primarily responsible for maintaining the sediment fabric and for which the time between core retrieval and restoration of in situ effective stress in the laboratory is minimized. In evaluating the impact of core retrieval on specimen properties, it is also important to consider how far removed hydrate-bearing samples are from hydrate stability conditions.

Louisiana, Texas↗

USGS2019

Permeability anisotropy and relative permeability in sediments from the National Gas Hydrate Program Expedition 02, offshore India

Gas and water permeability through hydrate-bearing sediments essentially governs the economic feasibility of gas production from gas hydrate deposits. Characterizing a reservoir’s permeability can be difficult because even collocated permeability measurements can vary by 4-5 orders of magnitude, due partly to differences between how various testing methods inherently measure permeability in different directions and at different scales. This study uses a customized flow anisotropy cell to investigate geomechanical and hydrological properties of hydrate-bearing sediments focusing on permeability anisotropy (i.e., horizontal, kh, to vertical, kv, permeability ratio) and relative permeability. Two cores recovered during India’s National Gas Hydrate Program Expedition 02 (NGHP-02) are tested in this study. Near in situ effective vertical stress, ~ 2MPa, the permeability anisotropy is approximately kh/kv = 1.86 for the “seal core” (from a fine-grained non-reservoir overburden sedimentary section) and kh/kv = 4.24 for the gas hydrate reservoir score with tetrahydrofuran (THF) hydrate saturation Sh = 0.8. Permeability anisotropy increases exponentially with effective vertical stress, as described by kh/kv = α(σv/MPa)^β, with α = 1.6, β = 0.22 for seal sediment and α = 3, β = 0.5 for THF hydrate-bearing sediment. Results imply the measured permeability from permeameter tests with vertical flow may underestimate the reservoir’s flow performance, which is mainly horizontal (radial) toward a vertical well. Hydrates in sediment increase the gas-entry pressure and residual water saturation, but decrease the water retention curve’s shape factor (m), resulting in a steeper curve. Distributions of available pore space sizes for flow in sediment with and without THF hydrate (Sh = 0.8) follow a log-normal distribution. Hydrate formation decreases the apparent mean pore size from ~10 µm to ~2 µm, without evidently changing the pore size distribution's standard deviation. Gas hydrate dissociation increases effective permeability and relative permeability to gas.

Journal of Marine and Petroleum Geology↗

USGS2004

Presence, infectivity, and stability of enteric viruses in seawater: Relationship to marine water quality in the Florida Keys

Concerns about the presence of enteric viruses in the surface waters of the Florida Keys prompted analyses of virus stability and persistence in these waters. In an in vitro study we evaluated the survival of poliovirus and stability of viral RNA in filtered natural seawater (FSW), unfiltered natural seawater (USW), artificial seawater (ASW) and DI water. This study compared cell culture infectivity with direct reverse transcription-polymerase chain reaction analysis. Attenuated poliovirus was seeded in the above water types and incubated in the dark at 22 and 30??C for 60 days. At 22??C, enhanced poliovirus survival and enhanced detection of viral RNA was observed in the seeded DI water control, artificial seawater and FSW samples. Detection of viruses in unfiltered seawater decreased rapidly at both temperatures by both methods of detection, suggesting that in the natural environment detection of enteroviral RNA may indicate a recent contamination event. In addition, in situ sampling in the Florida Keys during the late winter of 2000 revealed the presence of infectious enteroviruses at two sites and no sites exceeded recommended levels of microbial water quality indicators (enterococci or fecal coliform bacteria). ?? 2003 Elsevier Ltd. All rights reserved.

Marine Pollution Bulletin↗

USGS2021

Determination of four arsenic species in environmental water samples by liquid chromatography- inductively coupled plasma - tandem mass spectrometry

Robust and sensitive methods for monitoring inorganic and organic As species As(III), As(V), dimethylarsinate (DMA), and monomethylarsonate (MMA) in environmental water are necessary to understand the toxicity and redox processes of As in a specific environment. The method is sufficiently sensitive and selective to ensure accurate and precise quantitation of As(III), As(V), DMA, and MMA in surface water and groundwater samples with As species concentrations from tens of nanograms per liter to 50 µg/L without dilution of the sample. Mean recoveries of the four species spiked into reagent water, surface water and groundwater and measured periodically over three months ranged from 87.2 % to 108.7 % and relative standard deviation of replicates of all analytes ranged from 1.1 % to 9.0 %. •A PRP-X100 column and nitrate/phosphate mobile phase was used to separate As(III), As(V), DMA, and MMA in 0.45 µm filtered surface water and groundwater matrices. •Oxygen was used in the collision cell of the inductively coupled plasma-mass spectrometer with MS/MS mode to shift the measured As mass from 75 to 91. • The analytical performance of the method and figures of merit including detection limits, precision, accuracy, and interferences when applied to surface water and groundwater matrices were investigated.

MethodsX↗

USGS2014

Screening native botanicals for bioactivity: an interdisciplinary approach

Objective: Plant-based therapies have been used in medicine throughout recorded history. Information about the therapeutic properties of plants often can be found in local cultures as folk medicine is communicated from one generation to the next. The aim of this study was to identify native Louisiana plants from Creole folk medicine as a potential source of therapeutic compounds for the treatment of insulin resistance, type 2 diabetes, and related disorders. Methods: We used an interdisciplinary approach combining expertise in disciplines ranging from cultural anthropology and botany to biochemistry and endocrinology to screen native southwest Louisiana plants. Translation of accounts of Creole folk medicine yielded a list of plants with documented use in treating a variety of conditions, including inflammation. These plants were collected, vouchered, and catalogued before extraction of soluble components. Extracts were analyzed for bioactivity in regulating inflammatory responses in macrophages or fatty acid–induced insulin resistance in C2C12 skeletal muscle cells. Results: Several extracts altered gene expression of inflammatory markers in macrophages. Multiplex analysis of kinase activation in insulin-signaling pathways in skeletal muscle also identified a subset of extracts that alter insulin-stimulated protein kinase B phosphorylation in the presence of fatty-acid–induced insulin resistance. Conclusion: An interdisciplinary approach to screening botanical sources of therapeutic agents can be successfully applied to identify native plants used in folk medicine as potential sources of therapeutic agents in treating insulin resistance in skeletal muscle or inflammatory processes associated with obesity-related insulin resistance.

Louisiana↗

USGS2018

Two-event lode-ore deposition at Butte, USA: 40Ar/39Ar and U-Pb documentation of Ag-Au-polymetallic lodes overprinted by younger stockwork Cu-Mo ores and penecontemporaneous Cu lodes

The ore-genesis model for world-class deposits of the Butte mining district, Montana, USA, is deep pre-Main Stage porphyry Cu-Mo and overlying Main Stage Ag-Zn-Cu zoned-lode deposits, both of which formed from hydrothermal fluids driven by minor volumes of rhyolitic magma. The lode-specific model is that hydrothermal processes diminished in intensity outward from district center along lode veins, synchronously forming metal zones. The accepted models are controverted by new geologic and multi-method geochronologic studies. The new data reveal the following sequence of events: (1) Thermal study of country rock indicates that the 76.9-Ma Butte Granite cooled to 350–400 °C by 4 m.y. after emplacement. (2) Five quartz porphyry rhyolite dikes were emplaced at 67–65 Ma and another at 60 Ma (SHRIMP U-Pb) into the cooled Butte Granite without resetting 40 Ar/ 39 Ar ages in country rock. (3) Fifty-eight white mica and K-feldspar samples from alteration envelopes adjacent to Ag-Au-polymetallic lodes in outer parts of the district, Zn-rich lodes in intermediate parts, and Cu-rich lodes in the district center yield 40 Ar/ 39 Ar ages of 73–70 Ma for Ag-rich lodes, 65–64 Ma for Cu-rich lodes, and complex age spectra of 69–65 Ma for Zn-rich lodes. The data show that Ag-Au-polymetallic lodes occupied cross-district fractures by about 73 Ma, forming the greater Butte mining district. At 67–65 Ma, minor quartz porphyry dikes were emplaced into central and eastern parts of the rejuvenated fracture system but without evidence of related cupola or volcanic rocks or of thermal disturbance in the country rock. At 64.5 Ma, overlapping hydrothermal cells formed two stockwork Cu-Mo domes in deep parts of the fracture system. At 65–64 Ma and closely related to late-stage stockwork Cu-Mo activity, a penecontemporaneous hydrothermal pulse formed a high-sulfidation hydrothermal plume that (1) utilized the large re-opened fractures to cannibalize and remobilize Cu from autologous, stockwork, and older Ag-Au-polymetallic lodes, (2) deposited the rich, high-sulfidation Cu lodes, and (3) mobilized metals from early Ag-Au-polymetallic veins in middle parts of the district, transported the metals outward and redeposited them, enriching early veins, especially in the intermediate Zn plus Cu areas. Metals zones in lodes of the Butte district are the result of an intensely focused, Cu-rich hydrothermal plume that variably reworked the center of significantly larger, 10 m.y. older, Ag-Au-polymetallic lodes.

Montana↗

USGS2008

Thermal stability of ladderane lipids as determined by hydrous pyrolysis

Anaerobic ammonium oxidation (anammox) has been recognized as a major process resulting in loss of fixed inorganic nitrogen in the marine environment. Ladderane lipids, membrane lipids unique to anammox bacteria, have been used as markers for the detection of anammox in marine settings. However, the fate of ladderane lipids after sediment burial and maturation is unknown. In this study, anammox bacterial cell material was artificially matured by hydrous pyrolysis at constant temperatures ranging from 120 to 365 ??C for 72 h to study the stability of ladderane lipids during progressive dia- and catagenesis. HPLC-MS/MS analysis revealed that structural alterations of ladderane lipids already occurred at 120 ??C. At temperatures >140 ??C, ladderane lipids were absent and only more thermally stable products could be detected, i.e., ladderane derivatives in which some of the cyclobutane rings were opened. These diagenetic products of ladderane lipids were still detectable up to temperatures of 260 ??C using GC-MS. Thus, ladderane lipids are unlikely to occur in ancient sediments and sedimentary rocks, but specific diagenetic products of ladderane lipids will likely be present in sediments and sedimentary rocks of relatively low maturity (i.e., C31 hopane 22S/(22S + 22R) ratio <0.2 or ????/(???? + ???? + ????) ratio of >0.5). ?? 2008 Elsevier Ltd.

Organic Geochemistry↗

USGS2015

Limits to benthic feeding by eiders in a vital Arctic migration corridor due to localized prey and changing sea ice

Four species of threatened or declining eider ducks that nest in the Arctic migrate through the northeast Chukchi Sea, where anticipated industrial development may require prioritizing areas for conservation. In this nearshore corridor (10–40 m depth), the eiders’ access to benthic prey during the spring is restricted to variable areas of open water within sea ice. For the most abundant species, the king eider ( Somateria spectabilis ), stable isotopes in blood cells, muscle, and potential prey indicate that these eiders ate mainly bivalves when traversing this corridor. Bivalves there were much smaller than the same taxa in deeper areas of the northern Bering Sea, possibly due to higher mortality rates caused by ice scour in shallow water; future decrease in seasonal duration of fast ice may increase this effect. Computer simulations suggested that if these eiders forage for >15 h/day, they can feed profitably at bivalve densities >200 m −2 regardless of water depth or availability of ice for resting. Sampling in 2010–2012 showed that large areas of profitable prey densities occurred only in certain locations throughout the migration corridor. Satellite data in April–May over 13 years (2001–2013) indicated that access to major feeding areas through sea ice in different segments of the corridor can vary from 0% to 100% between months and years. In a warming and increasingly variable climate, unpredictability of access may be enhanced by greater effects of shifting winds on unconsolidated ice. Our results indicate the importance of having a range of potential feeding areas throughout the migration corridor to ensure prey availability in all years. Spatial planning of nearshore industrial development in the Arctic, including commercial shipping, pipeline construction, and the risk of released oil, should consider these effects of high environmental variability on the adequacy of habitats targeted for conservation.

Alaska↗

USGS2015

Isotopic insights into biological regulation of zinc in contaminated systems

Aquatic organisms use a variety of biogeochemical reactions to regulate essential and non-essential trace metals. Many of these mechanisms can lead to isotopic fractionation, thus measurement of metal isotopes may yield insights into the processes by which organisms respond to metal exposure. We illustrate these concepts with two case studies, one involving an intra- and the other an extra-cellular mechanism of Zn sequestration. In the first study, the mayfly Neocloeon triangulifer was grown in the laboratory, and fed a diet of Zn-doped diatoms at Zn levels exceeding the requirements for normal mayfly life functions. The N. triangulifer larvae consumed the diatoms and retained their Zn isotopic signature. Upon metamorphosis, the subimago life stage lost Zn mass either in the exuvia or by excretion, and the Zn retained was isotopically enriched. Thus, Zn uptake is nonfractionating, but Zn regulation favors the lighter isotope. Thus the Zn remaining in the subimago was isotopically heavier. In the second study, Zn was adsorbed on the cell walls and exopolysaccharide secretions of cyanobacteria, which favored the heavier Zn isotope. Continued adsorption eventually resulted in nucleation and biomineralization of hydrozincite {Zn5(CO3)2(OH)6}. These case studies demonstrate the utility of Zn isotopes to provide insights into how aquatic insects respond to metal exposure.

Procedia Earth and Planetary Science↗

USGS2014

A deglacial and Holocene record of climate variability in south-central Alaska from stable oxygen isotopes and plant macrofossils in peat

We used stable oxygen isotopes derived from bulk peat (δ 18 O TOM ), in conjunction with plant macrofossils and previously published carbon accumulation records, in a &sim;14,500 cal yr BP peat core (HT Fen) from the Kenai lowlands in south-central Alaska to reconstruct the climate history of the area. We find that patterns are broadly consistent with those from lacustrine records across the region, and agree with the interpretation that major shifts in δ 18 O TOM values indicate changes in strength and position of the Aleutian Low (AL), a semi-permanent low-pressure cell that delivers winter moisture to the region. We find decreased strength or a more westerly position of the AL (relatively higher δ 18 O TOM values) during the Bølling-Allerød, Holocene Thermal Maximum (HTM), and late Holocene, which also correspond to warmer climate regimes. These intervals coincide with greater peat preservation and enhanced carbon (C) accumulation rates at the HT Fen and with peatland expansion across Alaska. The HTM in particular may have experienced greater summer precipitation as a result of an enhanced Pacific subtropical high, a pattern consistent with modern δ 18 O values for summer precipitation. The combined warm summer temperatures and greater summer precipitation helped promote the observed rapid peat accumulation. A strengthened AL (relatively lower δ 18 O TOM values) is most evident during the Younger Dryas, Neoglaciation, and the Little Ice Age, consistent with lower peat preservation and C accumulation at the HT Fen, suggesting less precipitation reaches the leeward side of the Kenai Mountains during periods of enhanced AL strength. The peatlands on the Kenai Peninsula thrive when the AL is weak and the contribution of summer precipitation is higher, highlighting the importance of precipitation seasonality in promoting peat accumulation. This study demonstrates that δ 18 O TOM values in peat can be applied toward understand large-scale shifts in atmospheric circulation over millennial timescales.

Alaska↗

USGS2023

The persistence of time: The lifespan of Bacillus anthracis spores in environmental reservoirs

Anthrax is a lethal bacterial zoonosis primarily affecting herbivorous wildlife and livestock. Upon host death Bacillus anthracis vegetative cells form spores capable of surviving for years in soil. Anthrax transmission requires host exposure to large spore doses. Thus, conditions that facilitate higher spore concentrations or promote spore survival will increase the probability that a pathogen reservoir infects future hosts. We investigated abiotic and pathogen genomic variation in relation to spore concentrations in surface soils (0e1 cm depth) at 40 plains zebra (Equus quagga) anthrax carcass sites in Namibia. Specifically, how initial spore concentrations and spore survival were affected by seasonality associated with the timing of host mortality, local soil characteristics, and pathogen genomic variation. Zebras dying of anthrax in wet seasons-the peak season for anthrax in Etosha National Park-had soil spore concentrations 1.36 orders of magnitude higher than those that died in dry seasons. No other variables considered affected spore concentrations, and spore survival rates did not differ among sites. Surface soils at these pathogen reservoirs remained culture positive for a range of 3.8e10.4 years after host death. Future research could evaluate if seasonal patterns in spore concentrations are driven by differences in sporulation success or levels of terminal bacteremia.

Etosha National Park↗

USGS2017

UAV lidar and hyperspectral fusion for forest monitoring in the southwestern USA

Forest vegetation classification and structure measurements are fundamental steps for planning, monitoring, and evaluating large-scale forest changes including restoration treatments. High spatial and spectral resolution remote sensing data are critically needed to classify vegetation and measure their 3-dimensional (3D) canopy structure at the level of individual species. Here we test high-resolution lidar, hyperspectral, and multispectral data collected from unmanned aerial vehicles (UAV) and demonstrate a lidar-hyperspectral image fusion method in treated and control forests with varying tree density and canopy cover as well as in an ecotone environment to represent a gradient of vegetation and topography in northern Arizona, U.S.A. The fusion performs better (88% overall accuracy) than either data type alone, particularly for species with similar spectral signatures, but different canopy sizes. The lidar data provides estimates of individual tree height ( R 2 = 0.90; RMSE = 2.3 m) and crown diameter ( R 2 = 0.72; RMSE = 0.71 m) as well as total tree canopy cover ( R 2 = 0.87; RMSE = 9.5%) and tree density ( R 2 = 0.77; RMSE = 0.69 trees/cell) in 10 m cells across thin only, burn only, thin-and-burn, and control treatments, where tree cover and density ranged between 22 and 50% and 1–3.5 trees/cell, respectively. The lidar data also produces highly accurate digital elevation model (DEM) ( R 2 = 0.92; RMSE = 0.75 m). In comparison, 3D data derived from the multispectral data via structure-from-motion produced lower correlations with field-measured variables, especially in dense and structurally complex forests. The lidar, hyperspectral, and multispectral sensors, and the methods demonstrated here can be widely applied across a gradient of vegetation and topography for monitoring landscapes undergoing large-scale changes such as the forests in the southwestern U.S.A.

Arizona↗

USGS2022

Spectral mixture analysis for surveillance of harmful algal blooms (SMASH): A field-, laboratory-, and satellite-based approach to identifying cyanobacteria genera from remotely sensed data

Algal blooms around the world are increasing in frequency and severity, often with the possibility of adverse effects on human and ecosystem health. The health and economic impacts associated with harmful algal blooms, or HABs, provide compelling rationale for developing new methods for monitoring these events via remote sensing. Although concentrations of chlorophyll- a and key pigments like phycocyanin are routinely estimated from satellite images and used to infer algal or cyanobacterial cell counts, current methods are unable to provide information on the taxonomic composition of a bloom. This study introduced a new approach capable of differentiating among genera based on their reflectance characteristics: Spectral Mixture Analysis for Surveillance of HABs, or SMASH. The foundation of SMASH is a multiple endmember spectral mixture analysis (MESMA) algorithm that takes a library of cyanobacteria endmembers and a hyperspectral image as input and estimates the fractional abundance of each genus, plus water, on a per-pixel basis. Importantly, we assume that the water column consists of only pure water and cyanobacteria, implying that our linear spectral unmixing models do not account for other optically active constituents such as suspended sediment and colored dissolved organic matter (CDOM). We used reflectance spectra for 12 genera measured under a microscope to populate an algal spectral library and applied the SMASH workflow to satellite images from four waterbodies across the United States. Normalized spectral separability scores indicated that the 12 genera were distinct from one another and the MESMA algorithm reproduced known input fractions for simulated mixtures that included all pairwise combinations of genera and water. We used Upper Klamath Lake as an example to illustrate data products generated via SMASH: maps of the normalized difference chlorophyll index and cyanobacterial index, a MESMA-based classification of algal genera, fraction images for each endmember, and a root mean square error (RMSE) image that summarizes uncertainty. For Upper Klamath Lake, these outputs highlighted a complex algal bloom featuring several genera, primarily Aphanizomenon , and intricate spatial patterns associated with gyres. The maximum RMSE constraint imposed on the MESMA algorithm provided a means of avoiding false positive detection of genera not present in a waterbody but must not be set so low as to leave much of an image unclassified in cases where genera included in the library are present. Comparison of endmember fractions with relative biovolumes calculated from field samples indicated that taxonomic information from SMASH was consistent with field observations. For example, the algorithm successfully identified Microcystis in Owasco Lake but avoided misclassifying Asterionella , a genus not yet included in our library, in Detroit Lake. This proof-of-concept investigation demonstrates the potential of SMASH to enhance our understanding of algal blooms, particularly with respect to their spatial and temporal dynamics.

New York, Oregon, Texas↗

USGS2021

Stable isotopes used to infer trophic position of green turtles (Chelonia mydas) from Dry Tortugas National Park, Gulf of Mexico, United States

Evaluating resource use patterns for imperiled species is critical for understanding what supports their populations. Here we established stable isotope ( δ 13 "> δ13 C, δ 15 "> δ15 N) values for the endangered green sea turtle ( Chelonia mydas ) population found within the boundaries of Dry Tortugas National Park (DRTO), south Florida, USA. There is little gene flow between turtles sampled at DRTO and in other rookeries in Florida, underscoring the need to study this distinct population. Between 2008 and 2015 we collected multiple sample types (skin [homogenized epidermis/dermis], whole blood, red blood cells, plasma, carapace) from 151 unique green turtles, including 43 nesting females and 108 in-water captures; some individuals were resampled multiple times across years to evaluate consistency of isotope signatures. Isotopic ratios ranged from -27.3 to -5.4 for δ 13 "> δ 13 C and 3.7 to 10.6 for δ 15 "> δ 15 N. Using linear mixed models, we evaluated covariates (sample type, turtle size and year) that best explained the isotope patterns observed in turtle tissues. Predictions from the top model for δ 13 "> δ 13 C indicated a slight decrease over time and for δ 15 "> δ 15 N a slight increase in the middle sampling years (2010–2012); results indicated that turtle size appeared to be the driver behind the range in δ 13 "> δ 13 C and δ 15 "> δ 15 N observed in turtle skin. We found a pattern in stable carbon isotope values that are indicative of an ontogenetic change from an omnivorous diet in smaller turtles to a seagrass-based diet in larger turtles. When we compared the stable carbon and nitrogen isotope values of the samples collected from turtles with that of seagrasses found in DRTO, we found that turtles > 65 cm SCL had similar stable carbon isotope values to the seagrass species present. Results of this study suggest stable isotope analysis coupled with data for available resources can be useful for tracking and detecting future changes in green turtle resource shifts in DRTO.

Florida↗