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At least 955 records · Page 53Linked to original sources

USGS2026

A waterfowl reproduction model to predict carryover effects of oil spills

For wintering and migrating birds, contamination from oil and other substances may delay arrival on the breeding grounds and lead to lower body mass upon arrival. These delays and losses of body mass could lead to smaller clutch sizes and lower propensity to renest. To determine potential effects of these consequences on breeding, we used an augmented version of an existing mallard ( Anas platyrhynchos ) reproduction model. By combining that reproduction model with the outputs of a previously developed migration and energetics model, we assessed carryover effects of simulated wintering ground oil spills on duckling production and other breeding season-related population parameters. For simulated oil spills that occurred in January, reduced adult population and sublethal effects of migration delays both contributed to decreases in duckling production. For a simulated oil spill that occurred in March, sublethal effects from reduced body mass were the primary driver of decreased duckling production. By combining migration and energetics modeling with a reproduction model, this framework could provide the basis for a tool to generate quantitative estimates of lost reproduction resulting from carryover effects. Furthermore, this modeling framework could also be adapted for other avian species, facilitating assessments of reproductive loss in the context of Natural Resource Damage Assessments following contamination events.

Ecology and Evolution↗

USGS2021

Integrating environmental DNA results with diverse data sets to improve biosurveillance of river health

Autonomous, robotic environmental (e)DNA samplers now make it possible for biological observations to match the scale and quality of abiotic measurements collected by automated sensor networks. Merging these automated data streams may allow for improved insight into biotic responses to environmental change and stressors. Here, we merged eDNA data collected by robotic samplers installed at three U.S. Geological Survey (USGS) streamgages with gridded daily weather data, and daily water quality and quantity data into a cloud-hosted database. The eDNA targets were a rare fish parasite and a more common salmonid fish. We then used computationally expedient Bayesian hierarchical occupancy models to evaluate associations between abiotic conditions and eDNA detections and to simulate how uncertainty in result interpretation changes with the frequency of autonomous robotic eDNA sample collection. We developed scripts to automate data merging, cleaning and analysis steps into a chained-step, workflow. We found that inclusion of abiotic covariates only provided improved insight for the more common salmonid fish since its DNA was more frequently detected. Rare fish parasite DNA was infrequently detected, which caused occupancy parameter estimates and covariate associations to have high uncertainty. Our simulations found that collecting samples at least once per day resulted in more detections and less parameter uncertainty than less frequent sampling. Our occupancy and simulation results together demonstrate the advantages of robotic eDNA samplers and how these samples can be combined with easy to acquire, publicly available data to foster real-time biosurveillance and forecasting.

Idaho, Wyoming, Montana↗

USGS2014

Reproductive ecology of lampreys

Lampreys typically spawn in riffle habitats during the spring. Spawning activity and diel (i.e., during daylight and at night) behavioral patterns are initiated when spring water temperatures increase to levels that coincide with optimal embryologic development. Nests are constructed in gravel substrate using the oral disc to move stones and the tail to fan sediment out of the nest. Spawning habitat used by individual species is generally a function of adult size, where small-bodied species construct nests in shallower water with slower flow and smaller gravel than large-bodied species. The mating system of lampreys is primarily polygynandrous (i.e., where multiple males mate with multiple females). Lamprey species with adult total length less than 30 cm generally spawn communally, where a nest may contain 20 or more individuals of both sexes. Lamprey species with adult sizes greater than 35 cm generally spawn in groups of two to four. Operational sex ratios of lampreys are highly variable across species, populations, and time, but are generally male biased. The act of spawning typically starts with the male attaching with his oral disc to the back of the female’s head; the male and female then entwine and simultaneously release gametes. However, alternative mating behaviors (e.g., release of gametes without paired courtship and sneaker males) have been observed. Future research should determine how multiple modalities of communication among lampreys (including mating pheromones) are integrated to inform species recognition and mate choice. Such research could inform both sea lamprey control strategies and provide insight into possible evolution of reproductive isolation mechanisms between paired lamprey species in sympatry.

Book chapter↗

USGS2011

Spatial capture-recapture models for search-encounter data

1. Spatial capture–recapture models make use of auxiliary data on capture location to provide density estimates for animal populations. Previously, models have been developed primarily for fixed trap arrays which define the observable locations of individuals by a set of discrete points. 2. Here, we develop a class of models for 'search-encounter' data, i.e. for detections of recognizable individuals in continuous space, not restricted to trap locations. In our hierarchical model, detection probability is related to the average distance between individual location and the survey path. The locations are allowed to change over time owing to movements of individuals, and individual locations are related formally by a model describing individual activity or home range centre which is itself regarded as a latent variable in the model. We provide a Bayesian analysis of the model in WinBUGS, and develop a custom MCMC algorithm in the R language. 3. The model is applied to simulated data and to territory mapping data for the Willow Tit from the Swiss Breeding Bird Survey MHB. While the observed density was 15 territories per nominal 1 km 2 plot of unknown effective sample area, the model produced a density estimate of 21∙12 territories per square km (95% posterior interval: 17–26). 4. Spatial capture–recapture models are relevant to virtually all animal population studies that seek to estimate population size or density, yet existing models have been proposed mainly for conventional sampling using arrays of traps. Our model for search-encounter data, where the spatial pattern of searching can be arbitrary and may change over occasions, greatly expands the scope and utility of spatial capture–recapture models.

Methods in Ecology and Evolution↗

USGS2024

Uranium redox and deposition transitions embedded in deep-time geochemical models and mineral chemistry networks

Uranium (U) is an important global energy resource and a redox sensitive trace element that reflects changing environmental conditions and geochemical cycling. The redox evolution of U mineral chemistry can be interrogated to understand the formation and distribution of U deposits and the redox processes involved in U geochemistry throughout Earth history. In this study, geochemical modeling using thermodynamic data, and mineral chemistry network analysis are used to investigate U geochemistry and deposition through time. The number of U 6+ mineral localities surpasses the number of U 4+ mineral localities in the Paleoproterozoic. Moreover, the number of sedimentary U 6+ mineral localities increases earlier in the Phanerozoic than the number of U 4+ sedimentary mineral localities, likely due to the necessity of sufficient sedimentary organic matter to reduce U 6+ –U 4+ . Indeed, modeling calculations indicate that increased oxidative weathering due to surface oxygenation limited U 4+ uraninite (UO 2 ) formation from weathered granite and basalt. Louvain network community detection shows that U 6+ forms minerals with many more shared elements and redox states than U 4+ . The range of weighted Mineral Element Electronegativity Coefficient of Variation (wMEE CV ) values of U 6+ minerals increases through time, particularly during the Phanerozoic. Conversely, the range of wMEE CV values of U 4+ minerals is consistent through time due to the relative abundance of uraninite, coffinite, and brannerite. The late oxidation and formation of U 6+ minerals compared to S 6+ minerals illustrates the importance of the development of land plants, organic matter deposition, and redox-controlled U deposition from ground water in continental sediments during this time-period.

Geochemistry, Geophysics, Geosystems↗

USGS2022

Positively selected genes in the hoary bat (Lasiurus cinereus) lineage: Prominence of thymus expression, immune and metabolic function, and regions of ancient synteny

Background Bats of the genus Lasiurus occur throughout the Americas and have diversified into at least 20 species among three subgenera. The hoary bat ( Lasiurus cinereus ) is highly migratory and ranges farther across North America than any other wild mammal. Despite the ecological importance of this species as a major insect predator, and the particular susceptibility of lasiurine bats to wind turbine strikes, our understanding of hoary bat ecology, physiology, and behavior remains poor. Methods To better understand adaptive evolution in this lineage, we used whole-genome sequencing to identify protein-coding sequence and explore signatures of positive selection. Gene models were predicted with Maker and compared to seven well-annotated and phylogenetically representative species. Evolutionary rate analysis was performed with PAML. Results Of 9,447 single-copy orthologous groups that met evaluation criteria, 150 genes had a significant excess of nonsynonymous substitutions along the L. cinereus branch ( P < 0.001 after manual review of alignments). Selected genes as a group had biased expression, most strongly in thymus tissue. We identified 23 selected genes with reported immune functions as well as a divergent paralog of Steep1 within suborder Yangochiroptera. Seventeen genes had roles in lipid and glucose metabolic pathways, partially overlapping with 15 mitochondrion-associated genes; these adaptations may reflect the metabolic challenges of hibernation, long-distance migration, and seasonal variation in prey abundance. The genomic distribution of positively selected genes differed significantly from background expectation by discrete Kolmogorov–Smirnov test ( P < 0.001). Remarkably, the top three physical clusters all coincided with islands of conserved synteny predating Mammalia, the largest of which shares synteny with the human cat-eye critical region (CECR) on 22q11. This observation coupled with the expansion of a novel Tbx1 -like gene family may indicate evolutionary innovation during pharyngeal arch development: both the CECR and Tbx1 cause dosage-dependent congenital abnormalities in thymus, heart, and head, and craniodysmorphy is associated with human orthologs of other positively selected genes as well.

PeerJ↗

USGS2017

Tackling an intractable problem: Can greater taxon sampling help resolve relationships within the Stenopelmatoidea (Orthoptera: Ensifera)?

The relationships among and within the families that comprise the orthopteran superfamily Stenopelmatoidea (suborder Ensifera) remain poorly understood. We developed a phylogenetic hypothesis based on Bayesian analysis of two nuclear ribosomal and one mitochondrial gene for 118 individuals (84 de novo and 34 from GenBank). These included Gryllacrididae from North, Central, and South America, South Africa and Madagascar, Australia and Papua New Guinea; Stenopelmatidae from North and Central America and South Africa; Anostostomatidae from North and Central America, Papua New Guinea, New Zealand, Australia, and South Africa; members of the Australian endemic Cooloola (three species); and a representative of Lezina from the Middle East. We also included representatives of all other major ensiferan families: Prophalangopsidae, Rhaphidophoridae, Schizodactylidae, Tettigoniidae, Gryllidae, Gryllotalpidae and Myrmecophilidae and representatives of the suborder Caelifera as outgroups. Bayesian analyses of concatenated sequence data supported a clade of Stenopelmatoidea inclusive of all analyzed members of Gryllacrididae, Stenopelmatidae, Anostostomatidae, Lezina and Cooloola. We found Gryllacrididae worldwide to be monophyletic, while we did not recover a monophyletic Stenopelmatidae nor Anostostomatidae. Australian Cooloola clustered in a clade composed of Australian, New Zealand, and some (but not all) North American Anostostomatidae. Lezina was included in a clade of New World Anostostomatidae. Finally, we compiled and compared karyotypes and sound production characteristics for each supported group. Chromosome number, centromere position, drumming, and stridulation differed among some groups, but also show variation within groups. This preliminary trait information may contribute toward future studies of trait evolution. Despite greater taxon sampling within Stenopelmatoidea than previous efforts, some relationships among the families examined continue to remain elusive.

Zootaxa↗

USGS2011

Stochastic population dynamics in populations of western terrestrial garter snakes with divergent life histories

Comparative evaluations of population dynamics in species with temporal and spatial variation in life‐history traits are rare because they require long‐term demographic time series from multiple populations. We present such an analysis using demographic data collected during the interval 1978–1996 for six populations of western terrestrial garter snakes ( Thamnophis elegans ) from two evolutionarily divergent ecotypes. Three replicate populations from a slow‐living ecotype, found in mountain meadows of northeastern California, were characterized by individuals that develop slowly, mature late, reproduce infrequently with small reproductive effort, and live longer than individuals of three populations of a fast‐living ecotype found at lakeshore locales. We constructed matrix population models for each of the populations based on 8–13 years of data per population and analyzed both deterministic dynamics based on mean annual vital rates and stochastic dynamics incorporating annual variation in vital rates. (1) Contributions of highly variable vital rates to fitness (λ s ) were buffered against the negative effects of stochastic variation, and this relationship was consistent with differences between the meadow (M‐slow) and lakeshore (L‐fast) ecotypes. (2) Annual variation in the proportion of gravid females had the greatest negative effect among all vital rates on λ s . The magnitude of variation in the proportion of gravid females and its effect on λ s was greater in M‐slow than L‐fast populations. (3) Variation in the proportion of gravid females, in turn, depended on annual variation in prey availability, and its effect on λ s was 4–23 times greater in M‐slow than L‐fast populations. In addition to differences in stochastic dynamics between ecotypes, we also found higher mean mortality rates across all age classes in the L‐fast populations. Our results suggest that both deterministic and stochastic selective forces have affected the evolution of divergent life‐history traits in the two ecotypes, which, in turn, affect population dynamics. M‐slow populations have evolved life‐history traits that buffer fitness against direct effects of variation in reproduction and that spread lifetime reproduction across a greater number of reproductive bouts. These results highlight the importance of long‐term demographic and environmental monitoring and of incorporating temporal dynamics into empirical studies of life‐history evolution.

California↗

USGS2003

Importance of a stochastic distribution of floods and erosion thresholds in the bedrock river incision problem

Fluvial erosion of bedrock occurs during occasional flood events when boundary shear stress exceeds a critical threshold to initiate incision. Therefore efforts to model the evolution of topography over long timescales should include an erosion threshold and should be driven by a stochastic distribution of erosive events. However, most bedrock incision models ignore the threshold as a second‐order detail. In addition, climate is poorly represented in most landscape evolution models, so the quantitative relationship between erosion rate and measurable climatic variables has been elusive. Here we show that the presence of an erosion threshold, when combined with a well‐constrained, probabilistic model of storm and flood occurrence, has first‐order implications for the dynamics of river incision in tectonically active areas. First, we make a direct calculation of the critical shear stress required to pluck bedrock blocks for a field site in New York. Second, we apply a recently proposed stochastic, threshold, bedrock incision model to a series of streams in California, with known tectonic and climatic forcing. Previous work in the area has identified a weak relationship between channel gradient or relief and rock uplift rate that is not easily explained by simpler detachment‐limited models. The results with the stochastic threshold model show that even low erosion thresholds, which are exceeded in steep channels during high‐frequency flood events, fundamentally affect the predicted relationship between gradient and uplift rate in steady state rivers, in a manner consistent with the observed topography. This correspondence between theory and data is, however, nonunique; models in which a thin alluvial cover may act to inhibit channel incision in the low uplift rate zone also provide plausible explanations for the observed topography. Third, we explore the broader implications of the stochastic threshold model to the development of fluvial topography in active tectonic settings. We suggest that continued field applications of geomorphic models, including physically meaningful thresholds and stochastic climate distributions, are required to advance our knowledge of interactions among surficial, climatic, and crustal processes.

California↗

USGS2021

Identifying mismatches between conservation area networks and vulnerable populations using spatial randomization

Grassland birds are among the most globally threatened bird groups due to substantial degradation of native grassland habitats. However, the current network of grassland conservation areas may not be adequate for halting population declines and biodiversity loss. Here, we evaluate a network of grassland conservation areas within Wisconsin, U.S.A., that includes both large Focal Landscapes and smaller targeted conservation areas (e.g., Grassland Bird Conservation Areas, GBCAs) established within them. To date, this conservation network has lacked baseline information to assess whether the current placement of these conservation areas aligns with population hot spots of grassland-dependent taxa. To do so, we fitted data from thousands of avian point-count surveys collected by citizen scientists as part of Wisconsin's Breeding Bird Atlas II with multinomial N -mixture models to estimate habitat–abundance relationships, develop spatially explicit predictions of abundance, and establish ecological baselines within priority conservation areas for a suite of obligate grassland songbirds. Next, we developed spatial randomization tests to evaluate the placement of this conservation network relative to randomly placed conservation networks. Overall, less than 20% of species statewide populations were found within the current grassland conservation network. Spatial tests demonstrated a high representation of this bird assemblage within the entire conservation network, but with a bias toward birds associated with moderately tallgrasses relative to those associated with shortgrasses or tallgrasses. We also found that GBCAs had higher representation at Focal Landscape rather than statewide scales. Here, we demonstrated how combining citizen science data with hierarchical modeling is a powerful tool for estimating ecological baselines and conducting large-scale evaluations of an existing conservation network for multiple grassland birds. Our flexible spatial randomization approach offers the potential to be applied to other protected area networks and serves as a complementary tool for conservation planning efforts globally.

Wisconsin↗

USGS2020

Genotyping-by-sequencing illuminates high levels of divergence among sympatric forms of coregonines in the Laurentian Great Lakes

Effective resource management depends on our ability to partition diversity into biologically meaningful units. Recent evolutionary divergence, however, can often lead to ambiguity in morphological and genetic differentiation, complicating the delineation of valid conservation units. Such is the case with the "coregonine problem," where recent postglacial radiations of coregonines into lacustrine habitats resulted in the evolution of numerous species flocks, often with ambiguous taxonomy. The application of genomics methods is beginning to shed light on this problem and the evolutionary mechanisms underlying divergence in these ecologically and economically important fishes. Here, we used restriction site-associated DNA (RAD) sequencing to examine genetic diversity and differentiation among sympatric forms in the Coregonus artedi complex in the Apostle Islands of Lake Superior, the largest lake in the Laurentian Great Lakes. Using 29,068 SNPs, we were able to clearly distinguish among the three most common forms for the first time, as well as identify putative hybrids and potentially misidentified specimens. Population assignment rates for these forms using our RAD data were 93%-100% with the only mis-assignments arising from putative hybrids, an improvement from 62% to 77% using microsatellites. Estimates of pairwise differentiation ( F ST : 0.045-0.056) were large given the detection of hybrids, suggesting that reduced fitness of hybrid individuals may be a potential mechanism for the maintenance of differentiation. We also used a newly built C. artedi linkage map to look for islands of genetic divergence among forms and found widespread differentiation across the genome, a pattern indicative of long-term drift, suggesting that these forms have been reproductively isolated for a substantial amount of time. The results of this study provide valuable information that can be applied to develop well-informed management strategies and stress the importance of re-evaluating conservation units with genomic tools to ensure they accurately reflect species diversity.

Wisconsin↗

USGS2015

Geochemical, modal, and geochronologic data for 1.4 Ga A-type granitoid intrusions of the conterminous United States

Introduction The purpose of this report is to present available geochemical, modal, and geochronologic data for approximately 1.4 billion year (Ga) A-type granitoid intrusions of the United States and to make those data available to ongoing petrogenetic investigations of these rocks. A-type granites, as originally defined by Loiselle and Wones (1979), are iron-enriched granitoids (synonymous with the ferroan granitoids of Frost and Frost, 2011) that occur in an anorogenic, within-continent setting. Relative to other granitic rocks, A-type granites have high FeO*/(FeO*+MgO), high K 2 O and K 2 O/Na 2 O, are metaluminous to weakly peraluminous, and are enriched in incompatible trace elements. Loiselle and Wones (1979) further suggested that A-type granites are relatively anhydrous. Anderson (1983) provides an early compilation of data for the products of 1.4 Ga magmatism in North America and notes the spatial and temporal association of a trio of rock types, which includes gabbro to anorthosite, intermediate composition mangerite, and granitic rapakivi rocks. In North America, the majority of known A-type intrusions were emplaced between 1.5 and 1.3 Ga and are predominantly of the granitic variety (Anderson, 1983). This report addresses the broadly Mesoproterozoic-age granitic rocks of the conterminous United States. Constituents of this group of intrusive rocks were defined using a variety of spatial, compositional, and geochronologic metrics. Thomas and others (2012) provided an updated synthesis, largely based on new isotopic and geochronologic data (for example, Fisher and others, 2010), for the large-scale geologic and tectonic evolution of the eastern United States. Their findings suggest that the basement rocks of the central and southern Appalachian region are allochthonous relative to the remainder of Laurentia and were accreted along the Grenville front between 1.25 and 1.0 Ga. Accordingly, Mesoproterozoic rocks east of the Grenville front and south of the approximate latitude of New York City do not represent North American magmatism. Consequently, geochemical, modal, and geochronologic data for these rocks are not included in the compilation described herein. Further, the structural styles and compositions of granitoid rocks east of the Grenville front, mostly highly deformed gneissic rocks, are dissimilar to those characteristic of the A-type granitoid rocks described herein. A variety of compositional and age information further characterizes the 1.4 Ga A-type granitoid rocks in the conterminous United States. Most samples included in this compilation have felsic compositions, although some extend to intermediate compositions. SiO2 contents range from 56 to almost 78 weight percent, and median and mean SiO2 contents are 72.0 and 71.1 weight percent, respectively. The majority of these rocks for which modal data are available are composed of monzogranite (Streckeisen, 1976), although the dataset also contains many samples composed of granodiorite and syenogranite. A smaller group of the granitoid rocks in this dataset are composed of quartz monzodiorite and quartz monzonite, and a very small subset of samples is composed of alkali-feldspar granite, tonalite, alkali-feldspar quartz syenite, and quartz syenite (fig. 1). Many of the 1.4 Ga granitoid rocks are further characterized by medium- to coarse-grain size and are also conspicuously porphyritic; alkali feldspar phenocrysts or megacrysts (2–10 cm), often with rapakivi overgrowths, are a common feature of many of these rocks (Anderson, 1983; Anderson and Bender, 1989; Anderson and Cullers, 1978; Condie and Budding, 1979). The age of A-type magmatism in North America ranges from about 1.8 to 1.0 Ga, although Anderson (1983) suggests that more than 70 percent (by volume) of A-type magmatism in this region occurred between 1.49 and 1.41 Ga. In the conterminous United States, ages of A-type granitoid rocks are restricted to the period between about 1.49 and 1.33 Ga (Anderson, 1983; Bauer and Pollock, 1993; Bickford and Mose, 1975; Bickford, Harrower, and others, 1981; Bickford and others, 1989; Dewane and Van Schmus, 2007; Hoppe and others, 1983; Peterman and Hedge, 1968; Van Schmus and Bickford, 1981; Van Schmus and others, 1975). Using these recognition criteria, we identified A-type granitoid intrusions of the conterminous United States; for those intrusions, we compiled available geochemical, modal, isotopic (Sr and Nd) and geochronologic data for inclusion in the databases described herein. The significance of 1.4 Ga granitoid rocks relative to the geologic evolution of the conterminous United States remains unclear, despite Anderson’s (1983) compilation and synthesis of compositional data pertinent to these rocks. The large-volume magmatic events indicated by these rocks, as well as their broad geographic distribution, tectonic significance, and association with mineral deposits, underscore their importance. The broad distribution of these rocks, from the northern mid-continent to the southwestern United States (in New Mexico, Arizona, California, and southernmost Nevada), throughout the Rocky Mountains in New Mexico and Colorado (and sporadically in southern Wyoming and central Idaho), and beneath much of the Plains region (as indicated by drilling), has led to the large-scale tectonic and magmatic processes responsible for genesis of the associated magmas being actively studied. In addition, Kisvarsanyi (1972) suggests that iron-copper deposits in the St. Francois Mountains of southeastern Missouri are petrogenetically associated with 1.4 Ga A-type granitoids that occur in that region. Similarly, Dall’Agnol and others (2012) summarize important global associations between A-type granitoid rocks and a variety of important ore deposit types, particularly tin, high-field-strength elements (Zr, Hf, Nb, Ta), rare-earth elements, and iron oxide-copper-gold deposits. Consequently, the need to better understand relations between A-type granitoid rocks, tectonic setting, and magma petrogenesis, as well as their genetic associations with important types of ore deposits, suggests that developing a definitive geochemical, modal, and geochronologic database for these rocks in the conterminous United States is of considerable value.

Data Series↗

USGS2015

Geology of Joshua Tree National Park geodatabase

The database in this Open-File Report describes the geology of Joshua Tree National Park and was completed in support of the National Cooperative Geologic Mapping Program of the U.S. Geological Survey (USGS) and in cooperation with the National Park Service (NPS). The geologic observations and interpretations represented in the database are relevant to both the ongoing scientific interests of the USGS in southern California and the management requirements of NPS, specifically of Joshua Tree National Park (JOTR). Joshua Tree National Park is situated within the eastern part of California’s Transverse Ranges province and straddles the transition between the Mojave and Sonoran deserts. The geologically diverse terrain that underlies JOTR reveals a rich and varied geologic evolution, one that spans nearly two billion years of Earth history. The Park’s landscape is the current expression of this evolution, its varied landforms reflecting the differing origins of underlying rock types and their differing responses to subsequent geologic events. Crystalline basement in the Park consists of Proterozoic plutonic and metamorphic rocks intruded by a composite Mesozoic batholith of Triassic through Late Cretaceous plutons arrayed in northwest-trending lithodemic belts. The basement was exhumed during the Cenozoic and underwent differential deep weathering beneath a low-relief erosion surface, with the deepest weathering profiles forming on quartz-rich, biotite-bearing granitoid rocks. Disruption of the basement terrain by faults of the San Andreas system began ca. 20 Ma and the JOTR sinistral domain, preceded by basalt eruptions, began perhaps as early as ca. 7 Ma, but no later than 5 Ma. Uplift of the mountain blocks during this interval led to erosional stripping of the thick zones of weathered quartz-rich granitoid rocks to form etchplains dotted by bouldery tors—the iconic landscape of the Park. The stripped debris filled basins along the fault zones. Mountain ranges and basins in the Park exhibit an east-west physiographic grain controlled by left-lateral fault zones that form a sinistral domain within the broad zone of dextral shear along the transform boundary between the North American and Pacific plates. Geologic and geophysical evidence reveal that movement on the sinistral faults zones has resulted in left steps along the zones, resulting in the development of sub-basins beneath Pinto Basin and Shavers and Chuckwalla Valleys. The sinistral fault zones connect the Mojave Desert dextral faults of the Eastern California Shear Zone to the north and east with the Coachella Valley strands of the southern San Andreas Fault Zone to the west. Quaternary surficial deposits accumulated in alluvial washes and playas and lakes along the valley floors; in alluvial fans, washes, and sheet wash aprons along piedmonts flanking the mountain ranges; and in eolian dunes and sand sheets that span the transition from valley floor to piedmont slope. Sequences of Quaternary pediments are planed into piedmonts flanking valley-floor and upland basins, each pediment in turn overlain by successively younger residual and alluvial surficial deposits.

California↗

USGS2007

Southern California Bight 2003 Regional Monitoring Program: V. water quality

More than $30 million is expended annually on environmental monitoring in the Southern California Bight (SCB), yet only 5% of the Bight is monitored on an ongoing basis. Therefore, environmental managers in the SCB decided to expand their monitoring program and, starting in 1994, decided to conduct periodic regional assessments of ecosystem condition and assess the overall health of the SCB. Sixty-five different organizations collaborated in 2003 to create the third SCB Regional Monitoring Program (Bight '03). Bight '03 was designed to be integrated regional monitoring program that encompasses regulatory, academic, and non-governmental agencies. Bight '03 had three components: Coastal Ecology, Shoreline Microbiology, and Water Quality. This report addresses the purpose, approach, findings, and recommendations from the Water Quality component, which focused on contamination-laden stormwater runoff, in particularly its variability in time and space as well as its short-term ecological impacts. Specifically, the Bight '03 Water Quality component had three primary goals, the first of which was to described the temporal evolution of stormwater plumes produced by the major southern California rivers. Specifically, the study was intended to determine how far offshore the plumes extended, how rapidly they advected, how long before the plumes dispersed and how these properties differed among storms and river systems. The second goal was to describe how the physical properties (e.g., turbidity, temperature, salinity) of the plume related to biogeochemical and ecological properties that are of more direct concern to the water quality management community. Accomplished primarily through ship-based sampling of water quality parameters, this second goal was to describe how far offshore, and for how ;long after the storm, elevated bacterial concentrations, toxicity, and nutrients could be detected. Similar to the fist goal, the study also addressed how these answers differed among storms and river systems. The final goal was to determine whether relationships between environmental indicators derived from coincident satellite remote sensing and in situ data sets are sufficiently robust for remote sensing to become a routine water quality monitoring programs. Remote sensing data potentially provide coastal managers with synoptic near-real time regional information about prevailing ocean conditions and hazards that would complement existing field-based sampling protocols, but only if there is a thorough understanding of how to interpret and utilize the proxy measures, such as ocean color. The understanding of these priorities through Bight '03 sampling is intended to provide the basis for developing more efficient, widespread and coast-effective coastal ocean monitoring techniques. Water quality data were collected across eight major river systems within four geographic regions of southern California. Field measurements included the primary contaminants of interest, i.e., bacterial concentrations, water toxicity, and nutrients, as well as related parameters such as temperatures, salinity, total suspended solids, transmissivity, chlorophyll, and colored dissolved organic material (CDOM) concentrations. For each of the four major regions, i.e., Santa Clara/Ventura Rivers, Ballona Creek/Santa Monica Bay, San Pedro Shelf, and the San Diego, Tijuana Rivers, two stormwater events were sampled for up to three days by ship resulting in 574 water column CTD+ profiles and 705 discrete water samples during 36 ship-days. These data were analyzed in combination with MODIS ocean color satellite remote sensing, buoy meteorological observations, drifters, and HF radar current measurements to evaluate the dispersal patterns, dynamics, and impacts of the freshwater runoff plumes. Based on these data and resulting analyses, the principal conclusions were as follow: - Stormwater runoff turbidity plumes were found to be spatially extensive, covering up to 2500 km 2 within the Southern California Bight nearshore zone, and persisting over the entire duration of the post-storm sampling period (at least 3 days). - The spatial and temporal extent of the portion of the plume with contaminants was far less than that of the turbidity plume, typically representing <10% of its area (30-70% off Tijuana); however, with contaminant impacts generally greatly reduced or absent by the third or fourth day of sampling - Pseudo-nitzschia , a harmful algae that produces domoic acid, was found to be more abundant than previously reported. - Accurately describing stormwater runoff plumes requires a combination of in situ and remote sensing assessment tools, with satellite data providing valuable synoptic information. From these conclusions, the following recommendations are provided: - Future studies designed to describe stormwater plumes should include a combination of ship - and remote sensing-based methods. - CDOM is a good proxy of the freshwater runoff plume and should be added as a standard measurement parameter on water quality instrument packages. - Investigations are needed that assess on a local basis the spatial extent of ecological effects of stormwater plumes early in the storm, ideally accompanied by airborne imagery to provide improved temporal & spatial resolution, to fill in knowledge gaps. The next Bight regional monitoring program should focus on quantifying nutrient loadings and dynamics in association with stormwater runoff and other sources, and characterize their attendant ecosystem impacts such as phytoplankton blooms.

California↗

USGS2007

Genetic studies of freshwater turtle and tortoises: a review of the past 70 years

Powerful molecular techniques have been developed over many decades for resolving genetic relationships, population genetic structure, patterns of gene flow, mating systems, and the amount of genetic diversity in animals. Genetic studies of turtles were among the earliest and the rapid application of new genetic tools and analytical techniques is still apparent in the literature on turtles. At present, of the 198 freshwater turtles and tortoises that are listed as not extinct by the IUCN Red List, 69 species worldwide are listed as endangered or critically endangered, and an additional 56 species are listed as vulnerable. Of the ca. 300 species of the freshwater turtles and tortoises in the world, ca. 42% are considered to be facing a high risk extinction, and there is a need to focus intense conservation attention on these species. This includes a need to (i) assess our current state of knowledge regarding the application of genetics to studies of freshwater turtles and tortoises and (ii) determine future research directions. Here, we review all available published studies for the past 70 years that were written in English and used genetic markers (e.g. karyotypes, allozymes, DNA loci) to better understand the biology of freshwater turtles and tortoises. We review the types of studies conducted in relation to the species studied and quantify the countries where the studies were performed. We rack the changing use of different genetic markers through time and report on studies focused on aspects of molecular evolution within turtle genomes. We address the usefulness of particular genetic markers to answer phylogenetic questions and present data comparing population genetic structure and mating systems across species. We draw specific attention to whether authors have considered issues to turtle conservation in their research or provided new insights that have been translated into recommendations for conservation management.

Conference Paper↗

USGS2023

Construction and modification of debris-flow alluvial fans as captured in the geomorphic and sedimentary record: Examples from the western Sangre de Cristo Mountains, south-central Colorado

Debris-flow alluvial fans are iconic features of dynamic landscapes and are hypothesized to record tectonic and climatic change. Here, we highlight their complex formation and evolution through an exemplary suite of Quaternary debris-flow alluvial fans emanating from the western range front of the Sangre de Cristo Mountains in south-central Colorado, USA. To evaluate the constructive and modifying processes that produce fan form and the associated sedimentary signatures, we applied a combined geomorphologic and sedimentologic approach using sedimentary facies analysis, soils mapping, high-resolution topographic data, and luminescence geochronology to document timing of fan construction and modification. We explored two subsets of fans in the study area: a southern set sourced from the extensively glaciated drainages of the Blanca Peak massif, and a northern set from the unglaciated drainages south of Great Sand Dunes National Park. Both sets of fans have: (1) active and successively abandoned surfaces that show evolving degradation of primary features through modification by secondary processes, (2) associated facies that display distinct characteristics representative of primary depositional and secondary modifying sedimentary processes, and (3) evidence of primary debris flow with subsequent modification by secondary processes. We found that surface geomorphology and facies assemblages in exposed alluvial-fan deposits represent sediment transport processes on both active and abandoned lobes. The link between fan surface morphologies and the sedimentary facies of their deposits provides a basis for an evolutionary process–based interpretation of debris-flow alluvial-fan geomorphology and provides a better understanding of complexities in buried paleosurfaces (intraformational progressive unconformities), surficial deformation, and landform development as recorded in debris-flow fan deposits in the sedimentary record.

Colorado↗

USGS2022

Identifying shared priorities for a bioregional approach to restoration in the Northern Gulf of Mexico

Natural resource management is often challenged with a mismatch between the scale of decision-making and the scale of the biological, ecological, and physical processes that control a system. Bioregional approaches to adaptive management have emerged as an approach to inform natural resource management at ecologically relevant scales and across multi-level governance structures. The implementation of adaptive management requires the determination of ecological and social priorities that can inform a desired system state across multiple governing bodies. We use the Northern Gulf of Mexico, United States, as a case study for a bioregional approach to adaptive management and illustrate a method for developing objectives and management priorities across programs and jurisdictions. Through this synthesis, using qualitative coding methods to develop a shared vocabulary across the diverse dataset, we identified commonalities and differences in ecological and human community priorities across the five states which line the Northern Gulf of Mexico. Using these shared priorities, we conceptualize a network of priority-focused objectives as a starting point for further stakeholder engagement and effectively monitoring and evaluating progress across boundaries. This approach serves as a framework for cross-program adaptive management by illustrating a desired system state that reflects the shared priorities among decision-making authorities in this region and offering individual programs or projects a method to articulate their contributions to the broader set of shared priorities Gulf-wide. This method can be used by restoration managers in any region of the world to align project objectives within cross-jurisdictional boundaries and illustrate the value of a bioregional approach to restoration.

Gulf of Mexico↗

USGS2003

Current controlled deposition on the Wilkes Land continental rise, Antarctica

Turbidite, contourite and hemipelagic deposition are the main components of Wilkes Land continental rise sedimentation above the regional unconformity WL2. On the continental shelf, unconformity WL2 marks the start of shelf progradation, which is interpreted to correspond with the onset of glacial conditions in this segment of the east Antarctic margin. Unusually large (i.e. up to 900 m relief and 18 km between levee crests) channel-levee deposits, and high relief (up to 490 m) mounded contourite-style deposits develop above unconformity WLlb. Unconformity WLlb overlies unconformity WL2 and is interpreted to have formed under a fully continental glacial regime where ice streams reached the palaeo-continental shelf edge. Based on an analysis of multichannel seismic profiles and sediment cores, we differentiate three phases in the development of the sedimentary unit between WLlb and the present seafloor. From older to younger these are: Phase 1, dominated by turbidite deposition; Phase 2, dominated by turbidite and contourite deposition with significant mound building; and Phase 3, dominated by turbidite and contourite deposition without active mound building. We hypothesize that building of the mounds during Phase 2 corresponded with times of expansion of the Antarctic ice-sheet when vast amounts of sediment were eroded from the continent and continental shelf. The large amount of unsorted glacial sediment supplied to the outer shelf apparently travelled down the slope canyons and rise channels as turbidity current flows to feed the usually large continental rise channel-levee complexes. The suspended fines of the turbidity flows were then entrained in a palaeo-nepheloid layer and carried by the westward flowing palaeo-contour currents until their deposition in the mounds. During Phase 3, sediment supply to the continental rise, although important in volume and capable of turbidite and contour-current deposition, was insufficient to support further building of the mounds. We believe the decrease in sediment supply to the continental rise from Phase 2 to Phase 3 could be the result of a change on sediment depocentres, with most of the sediment supplied to the margin during Phase 3 being trapped on the continental shelf. We believe that ultimately these changes are related to the stage of glacial evolution of the continent.

Geological Society, London, Memoirs↗