Reproducibility starts at the source: R, Python, and Julia Packages for retrieving USGS hydrologic data
Timothy O. Hodson, Laura A. DeCicco, Jayaram Athreya Hariharan, Lee Stanish, Scott Black, J. S. Horsburgh
2023, Water (15)
Much of modern science takes place in a computational environment, and, increasingly, that environment is programmed using R, Python, or Julia. Furthermore, most scientific data now live on the cloud, so the first step in many workflows is to query a cloud database and load the response into a...
Mapping high marsh and salt pannes/flats along the northern Gulf of Mexico coast
Nicholas Enwright, Wyatt Charles Cheney, Kristine O. Evans, Hana R. Thurman, Mark S. Woodrey, Auriel Fournier, Jena A. Moon, Heather E. Levy, James A. Cox, Peter J. Kappes, John A. Nyman, Jonathan L. Pitchford
2023, Geocarto International (38)
Coastal wetlands are predicted to undergo extensive transformation due to climate and land use change. Baseline maps of coastal wetlands can be used to help assess changes. Found in the upper portion of the estuarine zone, high marsh and salt pannes/flats provide ecosystem goods and services and are particularly important...
Satellite telemetry reveals space use of diamondback terrapins
Margaret Lamont, Melissa E. Price, Daniel J. Catizone
2023, Animal Biotelemetry (11)
Movement and space use information of exploited and imperiled coastal species is critical to management and conservation actions. While satellite telemetry has been successfully used to document movements of marine turtles, the large tag sizes available have limited use on smaller turtle species. We used small...
Range-wide trends in tiger conservation landscapes, 2001 - 2020
Eric W. Sanderson, Dale G. Miquelle, Kim Fisher, Abishek Harihar, Chris Clark, Jesse Moy, Peter V. Potapov, Nathaniel P. Robinson, Lucinda Royte, Dustin Sampson, Jamie S Sanderlin, Charles B. Yackulic, Michael Belecky, Urs Breitenmoser, Christine Breitenmoser-Wursten, Pranav Chanchani, Stuart Chapman, Arpit Deomurari, Somphot Duangchantrasiri, Elisa Facchini, Thomas N.E. Gray, John Goodrich, Luke Hunter, Matthew Linkie, Willy Marthy, Akchousanh Rasphone, Sogoto Roy, Detrit Sittibal, Tshering Tempa, Mayuree Umponjan, Karen Wood
2023, Frontiers in Conservation Science (4)
Of all the ways human beings have modified the planet over the last 10,000 years, habitat loss is the most important for other species. To address this most critical threat to biodiversity, governments, non-governmental actors, and the public need to know, in near real-time, where and when habitat loss...
Site occupancy of focal shorebird species at Whiskey Island and Caminada Headland, Louisiana 2012–2020
J. Hardin Waddle, Wylie Barrow, Clint W Jeske, Jessica Schulz, Robert C. Dobbs, Delaina LeBlanc, Amanda Nicole Anderson, Brock Greary, Theodore J. Zenzal Jr., Nicholas Enwright, Thurman. Hana, Darin L. Lee
2023, Report, Evaluation of restoration for avian species at Caminada Headland and Whiskey Island in Louisiana
Coastal restoration through island construction and augmentation is an increasingly common management method in the northern Gulf of Mexico, but evaluating the impacts to shorebird species is difficult. Shorebirds are mostly migratory and many aspects of their life history, including reproduction in some species, occur in other places. In addition,...
Understanding fatality patterns and sex ratios of Brazilian free-tailed bats (Tadarida brasiliensis) at wind energy facilities in western California and Texas
Sarah Licari, Amanda Hale, Sara Weaver, Sarah R. Fritts, Todd E. Katzner, David H. Nelson, Dean Williams
2023, PeerJ Life & Environment (11)
BackgroundOperation of wind turbines has resulted in collision fatalities for several bat species, and one proven method to reduce these fatalities is to limit wind turbine blade rotation (i.e., curtail turbines) when fatalities are expected to be highest. Implementation of curtailment can potentially be optimized by targeting times when...
Nisqually River Delta—Humans and nature benefiting together
Kristin B. Byrd, Isa Woo, Glynnis Nakai, Debbie Preston, Shonte Jenkins
2023, General Information Product 228
IntroductionThis is a brochure created in partnership with the U.S. Geological Survey (USGS), the Nisqually Indian Tribe, and the Billy Frank Jr. Nisqually National Wildlife Refuge. Designed for a public audience, the brochure describes the history of the Nisqually Indian Tribe, the ecology of the delta, the resources and recreational...
Conclusions of evaluation of restoration for avian species at Caminada Headland and Whiskey Island, Louisiana
Darin L. Lee, Amanda Nicole Anderson, Paul Leberg, Nicholas Enwright, J. Hardin Waddle, Delaina LeBlanc, Theodore J. Zenzal Jr.
2023, Report, Evaluation of Restoration for Avian Species at Caminada Headland and Whiskey Island in Louisiana
We conducted various analyses to determine the impact of coastal restoration on several focal avian species at Caminada Headland and Whiskey Island, Louisiana. We assessed if restoration affected avian use of restored sites by determining overall habitat changes, occupancy trends, and impacts of construction activities. Here, we summarize our findings...
Mapping habitats and shorelines pre-, during, and post-restoration on Caminada Headland and Whiskey Island, Louisiana, 2012–2020
Hana R. Thurman, Nicholas Enwright, Wyatt C Cheney, Jason Dugas, Darin M. Lee, William Jones
2023, Report, Evaluation of Restoration for Avian Species at Caminada Headland and Whiskey Island in Louisiana
Barrier islands and headlands provide ecological services that are integral to economic and environmental interests. Adaptive management may help in ensuring their resilience and the continued provision of ecosystems goods and services over time. The dynamic nature of these environments makes evaluating the impacts from restoration and extreme events an...
An introduction to the evaluation of restoration for avian species at Caminada Headland and Whiskey Island in Louisiana
Delaina LeBlanc, Amanda Nicole Anderson, Paul Leberg, Hardin Waddle, Nicholas Enwright, Hana R. Thurman, Theodore J. Zenzal Jr.
2023, Report, Evaluation of Restoration for Avian Species at Caminada Headland and Whiskey Island in Louisiana
Barrier islands are crucial for protecting Louisiana’s coastal communities and ecosystems as they reduce coastal erosion and help safeguard native flora and fauna. Along the Louisiana shoreline, these islands are mostly long and thin, running parallel to the shoreline. The islands typically consist of the following components: 1) a sandy...
Differential heat shock protein responses in two species of Pacific salmon and their utility in identifying heat stress
Vanessa R. von Biela, Amy M. Regish, Lizabeth Bowen, Ashley E. Stanek, Shannon C. Waters-Dynes, Michael P. Carey, Christian E. Zimmerman, Jonathon Gerken, Daniel Rinella, Stephen D. McCormick
2023, Conservation Physiology (11)
Rapid and accelerating warming of salmon habitat has the potential to lower productivity of Pacific salmon (Oncorhynchus species) populations. Heat stress biomarkers can indicate where warming is most likely affecting fish populations; however, we often lack clear classifications that separate individuals with and without heat stress needed to make these...
Oil and gas reclamation—Operations, monitoring methods, and standards
Randi C. Lupardus, Janna Simonsen, Gordon Toevs, Barbara Sterling, Zachary H. Bowen, Zoe Davidson, Steve E. Hanser, Emily Kachergis, Alexander Laurence-Traynor, Nika Lepak, Rebecca K. Mann, Aleta Nafus, David S. Pilliod, Michael C. Duniway
2023, Techniques and Methods 18-A1
This publication provides broad guidance for surface management of oil and gas development with a focus on promoting successful reclamation. Successful reclamation depends on sound best management practices, clear standards and expectations, defensible monitoring for effectiveness, and management of production facilities to minimize surface disturbance. This publication provides specific guidelines...
Competition between dissolved organic matter and freshwater plankton control methylmercury isotope fractionation during uptake and photochemical demethylation
Grace Jane Armstrong, Sarah E. Janssen, Brett A. Poulin, Michael T. Tate, David P. Krabbenhoft, James P. Hurley
2023, ACS Earth and Space Chemistry (7) 2382-2392
Isotope fractionation related to photochemical reactions and planktonic uptake at the base of the food web is a major uncertainty in the biological application of mercury (Hg) stable isotopes. In freshwater systems, it is unclear how competitive interactions among methylmercury (MeHg), dissolved organic matter (DOM), and phytoplankton govern the magnitude...
Chromosome-level genome assembly of the blacktail brush lizard, Urosaurus nigricaudus, reveals dosage compensation in an endemic lizard
Elizabeth Davalos-Dehullu, Sarah M. Baty, Robert N. Fisher, Peter A. Scott, Greer A. Dolby, Adrian Munguia-Vega, Diego Cortez
2023, Genome Biology and Evolution (15)
Urosaurus nigricaudus is a phrynosomatid lizard endemic to the Baja California Peninsula in Mexico. This work presents a chromosome-level genome assembly and annotation from a male individual. We used PacBio long reads and HiRise scaffolding to generate a high-quality genomic assembly of 1.87 Gb distributed in 327 scaffolds, with an N50...
Reservoir stratification modulates the influence of impoundments on fish mercury concentrations along an arid land river system
James Willacker, Collin A. Eagles-Smith, Jim Chandler, Jesse Naymik, Ralph Myers, David P. Krabbenhoft
2023, Environmental Science & Technology (57) 21313-21326
Impoundment is among the most common hydrologic alterations with impacts on aquatic ecosystems that can include effects on mercury (Hg) cycling. However, landscape-scale differences in Hg bioaccumulation between reservoirs and other habitats are not well characterized nor are the processes driving these differences. We examined total Hg (THg) concentrations of...
Surficial geologic map of the Owlshead Mountains 30' x 60' quadrangle, Inyo and San Bernardino Counties, California
Christopher M. Menges, Pamela M. Cossette
2023, Scientific Investigations Map 3496
The surficial geologic map of the Owlshead Mountains 30' x 60' quadrangle depicts the distribution and characteristics of surficial-deposit materials and neotectonic deformation for an area of approximately 5,000 square kilometers (km2) located in the western Basin and Range Province of eastern California. The map represents a new compilation of...
A review of natural and managed revegetation responses in two de-watered reservoirs after large dam removals on the Elwha River, Washington, USA
Joshua Chenoweth, Patrick B. Shafroth, Rebecca L. Brown, James M. Helfield, Jenise M. Bauman, Sara Cendejas-Zarelli, Chhaya M. Werner, Jarrett L. Schuster, Olivia A. Morgan
2023, Frontiers in Ecology and Evolution (11)
Large dam removals are increasing in frequency and the response of natural and managed revegetation is a critical consideration for managed restoration of dewatered reservoir landscapes post dam removal. The removal of two large dams on the Elwha River in 2011-2014 provides insight into reservoir revegetation. We review literature...
Selection of microhabitats, plants, and plant parts eaten by a threatened tortoise: Observations during a superbloom
W. Bryan Jennings, Kristin H. Berry
2023, Frontiers in Amphibian and Reptile Science (1)
Populations of the threatened desert tortoise (Gopherus agassizii) continue to decline throughout the geographic range, in part because of degraded and fragmented habitats in the Mojave and western Sonoran deserts. The species is herbivorous and highly selective in choice of plant species. To increase options for recovery, we analyzed behaviors,...
On the relationship between aquatic CO2 concentration and ecosystem fluxes in some of the world’s key wetland types
Jessica L. Richardson, Ankur R. Desai, Jonathon Thom, Kim Lindgren, Hjalmar Laudon, Matthias Peichl, Mats B. Nilsson, Audrey Campeau, Jarvi Jarveoja, Peter Hawman, Deepak R. Mishra, Dontrece Smith, Brenda D’Acunha, Sara H. Knox, Darian Ng, Mark S. Johnson, Joshua M. Blackstock, Sparkle L. Malone, Steve F. Oberbauer, Matteo Detto, Kimberly Wickland, Inke Forbrich, Nathaniel B Weston, Jacqueline K.Y. Hung, Colin W. Edgar, Eugenie S. Euskirchen, Syndonia Bret-Harte, Jason Dobkowski, George Kling, Evan S. Kane, Pascal Badiou, Matthew Bogard, Gil Bohrer, Thomas O'Halloran, Jonny Ritson, Ariane Arias-Otriz, Dennis Baldocchi, Patty Oikawa, Julie Shahan, Maiyah Matsumura
2023, Wetlands (44)
To understand patterns in CO2 partial pressure (PCO2) over time in wetlands’ surface water and porewater, we examined the relationship between PCO2 and land–atmosphere flux of CO2 at the ecosystem scale at 22 Northern Hemisphere wetland sites synthesized through an open call. Sites spanned 6 major wetland types (tidal,...
Paranannizziopsis spp. infections in wild snakes and a qPCR assay for detection of the fungus
Jeffrey M. Lorch, Megan Winzeler, Julia S. Lankton, Stephen Raverty, Heindrich N Snyman, Helen M. Schwantje, Caeley Thacker, Susan Knowles, Hugh Y Cai, Daniel A. Grear
2023, Frontiers in Microbiology (14)
The emergence of ophidiomycosis (or snake fungal disease) in snakes has prompted increased awareness of the potential effects of fungal infections on wild reptile populations. Yet, aside from Ophidiomyces ophidiicola, little is known about other mycoses affecting wild reptiles. The closely related genus Paranannizziopsis has been associated with dermatomycosis in snakes...
An interoperability strategy for the next generation of SEEA accounting
Ferdinando Villa, Stefano Balbi, Kenneth J. Bagstad, Alessio Bulckaen
2023, Report
The System of Environmental-Economic Accounting (SEEA) is a set of international environmental-economic standards, adopted by the UN Statistical Commission in 2012 (SEEA Central Framework) and 2021 (SEEA Ecosystem Accounting); the latter in particular requires the integration of large and diverse data streams. These include geospatial and other data sources, which...
Proximity to roads does not modify inorganic nitrogen deposition in a topographically complex, high traffic, subalpine forest
Katherine S. Rocci, M. Francesca Catrufo, Jill Baron
2023, Water, Air, Soil Pollution (234)
Vehicles are an important source for N deposition that may negatively impact roadside ecosystems. While elevated roadside N deposition has been found in many locations, it is not yet known if vehicle emissions cause measurable increases of N deposition in complex, mountainous terrain adjacent to roads....
Monitoring interdecadal coastal change along dissipative beaches via satellite imagery at regional scale
Marcan Graffin, Mohsen Taherkhani, Meredith Leung, Sean Vitousek, George Kaminsky, Peter Ruggiero
2023, Coastal Futures (1)
Coastal morphological changes can be assessed using shoreline position observations from space. However, satellite-derived waterline (SDW) and shoreline (SDS; SDW corrected for hydrodynamic contributions and outliers) detection methods are subject to several sources of uncertainty and inaccuracy. We extracted high-spatiotemporal-resolution (~50 m-monthly) time series of mean high water...
Groundwater flow model investigation of the vulnerability of water resources at Chaco Culture National Historical Park related to unconventional oil and gas development
Zachary M. Shephard, Andre B. Ritchie, Benjamin S. Linhoff, John Joseph Lunzer
2023, Scientific Investigations Report 2023-5097
Chaco Culture National Historical Park (CCNHP), located in northwestern New Mexico, protects the greatest concentration of Chacoan historical sites in the American Southwest. Geologically, CCNHP is located within the San Juan structural basin, which consists in part of complex Cretaceous stratigraphy and hosts a variety of energy resources. As part...
Long-term mercury loading and trapping dynamics in a Western North America reservoir
Eric D. Morway, Robert M. Hirsch, Angela Paul, Mark C. Marvin-DiPasquale, Carl E Thodal
2023, Journal of Hydrology: Regional Studies (50)
Study RegionThe Carson River including Lahontan Reservoir in Northwestern Nevada, USAStudy FocusThe discovery, mining, and processing of silver and gold from the Comstock Lode in northwestern Nevada heavily contaminated the Carson River system with mercury (Hg). The river now...
