Effective field sampling of rectoanal mucosa-associated lymphoid tissue for antemortem chronic wasting disease testing in white-tailed deer
Marie L. J. Gilbertson, Lindsey J. Long, Heather N. Inzalaco, Wendy Christine Turner, Daniel J. Storm
2024, Journal of Wildlife Diseases (60) 996-1003
Chronic wasting disease (CWD) is a fatal prion disease of cervids that has spread across much of North America. Although gold standard CWD diagnostics involve postmortem testing of medial retropharyngeal lymph nodes or obex (brain stem), a key tissue sample for antemortem testing is rectoanal mucosa–associated lymphoid tissue (RAMALT). However,...
Freshwater biogeochemical hotspots: High primary production and ecosystem respiration in shallow waterbodies
Joseph Rabaey, Meredith Holgerson, David Richardson, Mikkel R. Andersen, Sheel Bansal, Lauren E Bortolotti, James Cotner, Daniel Hornbach, Kenneth T. Martinsen, Eric Moody, Olivia F. Schloegel
2024, Geophysical Research Letters (51)
Ponds, wetlands, and shallow lakes (collectively “shallow waterbodies”) are among the most biogeochemically active freshwater ecosystems. Measurements of gross primary production (GPP), respiration (R), and net ecosystem production (NEP) are rare in shallow waterbodies compared to larger and deeper lakes, which can bias our understanding of lentic ecosystem processes. In...
Modeling rare plant habitat together with public land managers using an iterative, coproduced process to inform decision-making on multiple-use public lands
Catherine S. Jarnevich, Sarah K. Carter, Zoe M. Davidson, Nicole D. MacPhee, Patrick J. Alexander, Brandon Hayes, Pairsa N. Belmaric, Benjamin R Harms
2024, Conservation Science and Practice (6)
Public lands across the United States are managed for multiple uses, resources, and values ranging from energy development to rare plant conservation. Intensified energy development and other land use changes across the Southwestern United States have increased the need for proactive management to mitigate impacts to rare plants. Habitat suitability...
Insights on using solid bitumen reflectance as a thermal maturity proxy in the Bakken Formation, Williston Basin, USA
Paul C. Hackley, Clint Scott, Justin E. Birdwell, Jennifer Nedzweckas, Brett J. Valentine, Tongwei Zhang, Timothy O Nesheim
2024, ACS Omega (9) 33983-33997
To further refine the use of solid bitumen reflectance (BRo in %) as a measurement of thermal maturity in source-rock reservoirs, we examined its relationship to other thermal proxies in the Bakken Formation. Comparisons included criteria from programmed temperature pyrolysis, gas chromatography (GC), and Fourier transform infrared...
Multi-decadal vegetation transformations of a New Mexico ponderosa pine landscape after severe fires and aerial seeding
Andreas Paul Wion, Jens T. Stevens, Kay Beeley, Rebecca Oertel, Ellis Margolis, Craig D. Allen
2024, Ecological Applications (34)
Wildfires and climate change are having transformative effects on vegetation composition and structure, and post-fire management may have long-lasting impacts on ecosystem reorganization. Post-fire aerial seeding treatments are commonly used to reduce runoff and soil erosion, but little is known about how seeding treatments affect native vegetation recovery over long...
Characteristics of the fault damage zone From high-resolution seismic imaging along the Palos Verdes Fault, California
Travis Vincent Alongi, Emily Brodsky, Jared W. Kluesner, Daniel S. Brothers
2024, AGU Advances (5)
The distribution and intensity of fault damage zones provides insight into fault activity and its relationship to fluid flow in the crust. Presently, measures of the in-situ distribution of fault damage remain limited and along-strike studies are rare. This study focuses on an offshore section Palos Verdes Fault damage zone...
Reduction of large vessel traffic improves water quality and alters fish habitat-use throughout a large river
Michael J. Spear, Brandon S. Harris, Taylor A. Bookout, Brian Ickes, Kathi Jo Jankowski, Levi E. Solomon, Kristopher A. Maxson, Andrya L. Whitten Harris, Andrew T. Mathis, Sam J. Schaick, Jesse A. Williams, Jason A. DeBoer, Allison W. Lenaerts, Eric C. Hine, John H. Chick, James T. Lamer
2024, Science of the Total Environment (946)
Rivers are increasingly used as superhighways for the continental-scale transportation of freight goods, but the ecological impact of large vessel traffic on river ecosystems is difficult to study. Recently, the temporary maintenance closure of lock and dam systems on the Illinois Waterway (USA) brought...
An update of the ichthyofauna of West Virginia with notes on historic sportfish stockings
D. A. Cincotta, S.A. Welsh
2024, Northeastern Naturalist (31) 1-48
The management and conservation of faunas at regional scales depend on current data on species diversity and distribution. Relative to the ichthyofauna of West Virginia, few studies have recently documented the richness and distribution of fishes in the state, with even the most comprehensive...
Geographic principles applied to population dynamics: A spatially interpolated integrated population model
Brian G. Prochazka, Peter S. Coates, Shawn T. O’Neil, Shawn P. Espinosa, Cameron L. Aldridge
2024, Methods in Ecology and Evolution (15) 1394-1407
A major impediment to wildlife conservation and management, from a quantitative perspective, is dealing with high degrees of uncertainty associated with population estimates. Integrated population models (IPMs) can help alleviate that challenge, but they are often limited to narrow spatial or temporal windows...
Quantitative microbial risk assessment with microbial source tracking for mixed fecal sources contaminating recreational river waters, Iowa, USA
Tucker R. Burch, Joel P. Stokdyk, Aaron D. Firnstahl, Sarah Opelt, Rachel M. Cook, Joe Heffron, Amanda Brown, Claire E. Hruby, Mark A. Borchardt
2024, Environmental Science & Technology Water (4) 2789-2802
Fecal contamination of surface water can cause acute gastrointestinal illness (AGI) among recreators. AGI risk varies among human, livestock, and wildlife fecal sources, but the prevalence of individual sources is unknown for most recreational sites. We estimated AGI risk for six sites near Des Moines, Iowa,...
Unified 200 kyr paleohydrologic history of the Southern Great Basin: Death Valley, Searles Valley, Owens Valley and the Devils Hole cave
Tim Lowenstein, Kristian Olson, Brian W. Stewart, David McGee, Justin Stroup, Adam M. Hudson, Kathleen Wendt, Mark Peaple, Sarah Feakins, Ronald Spencer, Tripti Bhattacharya, Steven P. Lundblad, Ronald Litwin
2024, Quaternary Science Reviews (336)
We present a hydroclimate synthesis of the southern Great Basin over the last two glacial-interglacial cycles focused on paleolakes in Death Valley (core DV93-1), Searles Valley (core SLAPP-SRLS17), Owens Valley (core OL92), and the Devils Hole cave. There is...
Alaskan glacial dust is an important iron source to surface waters of the Gulf of Alaska
John Crusius, Carsten Lao, Thomas M. Holmes, J. W. Murray
2024, Geophysical Research Letters (51)
This work evaluates glacial dust as a source of sediment, and associated iron (Fe), to the Fe-limited Gulf of Alaska (GoA). A reanalysis of GoA sediment data, using rare earth elements and thorium as provenance tracers, suggests a flux to the ocean surface of Copper River (AK) glacial dust, and...
Solute export patterns across the contiguous USA
Dustin W. Kincaid, Kristen L. Underwood, Scott Douglas Hamshaw, L. Li, Erin C. Seybold, Bryn Stewart, Donna M. Rizzo, Ijaz Ul Haq, Julia N. Perdrial
2024, Hydrological Processes (38)
Understanding controls on solute export to streams is challenging because heterogeneous catchments can respond uniquely to drivers of environmental change. To understand general solute export patterns, we used a large-scale inductive approach to evaluate concentration–discharge (C–Q) metrics across catchments spanning a broad range of catchment attributes and hydroclimatic drivers. We...
Conservation genetics of the endangered California Freshwater Shrimp (Syncaris pacifica): Watershed and stream networks define gene pool boundaries
Abdul M. Ada, Amy G. Vandergast, Robert N. Fisher, Darren Fong, Andrew J. Bohonak
2024, Conservation Genetics (25) 1021-1033
Understanding genetic structure and diversity among remnant populations of rare species can inform conservation and recovery actions. We used a population genetic framework to spatially delineate gene pools and estimate gene flow and effective population sizes for the endangered California Freshwater Shrimp Syncaris pacifica. Tissues of 101...
Evaluation of coal mine drainage and associated precipitates for radium and rare earth element concentrations
Bonnie McDevitt, Charles A. III Cravotta, Ryan J. McAleer, John C Jackson, Aaron M. Jubb, Glenn D. Jolly, Benjamin C. Hedin, Nathaniel R. Warner
2024, Journal of International Coal Geology (289)
Coal mine drainage (CMD) and associated metal-rich precipitates have recently been proposed as unconventional sources of rare earth elements (REEs). However, the potential occurrence of radium (Ra), a known carcinogen, with the REE-bearing phases has not been investigated. We hypothesized...
The development of China’s monopoly over cobalt battery materials
Andrew L. Gulley
2024, Mineral Economics (37) 619-631
While previous resource conflicts have often been linked to fuel minerals such as oil, future resource conflict may revolve around nonfuel minerals that enable strategic emerging technologies. During a 2010 diplomatic dispute, China reportedly blocked exports of rare earth elements to Japan, thereby leveraging China’s near-monopoly to threaten Japanese manufacturers...
Human activity drives establishment, but not invasion, of non-native plants on islands
William G. Pfadenhauer, Graziella Vittoria DiRenzo, Bethany A. Bradley
2024, Ecography
Island ecosystems are particularly susceptible to the impacts of invasive species. Many rare and endangered species that are endemic to islands are negatively affected by invasions. Past studies have shown that the establishment of non-native species on islands is related to native plant richness, habitat heterogeneity, island age, human activity,...
Systematic assessment of long-read RNA-seq methods for transcript identification and quantification
Francisco J. Pardo-Palacios, Dingjie Wang, Fairlie Reese, Mark Diekhans, Silvia Carbonell-Sala, Brian Williams, Jane E. Loveland, Maite De María, Matthew S. Adams, Gabriela Balderrama-Gutierrez, Amit K. Behera, Jose M. Gonzalez Martinez, Toby Hunt, Julien Lagarde, Cindy E. Liang, Haoran Li, Marcus Jerryd Meade, David A. Moraga Amador, Andrey D. Prjibelski, Inanc Birol, Hamed Bostan, Ashley M. Brooks, Muhammed Hasan Celik, Ying Chen, Mei R.M. Du, Colette Felton, Jonathan Goke, Saber Hafezqorani, Ralf Herwig, Hideya Kawaji, Joseph Lee, Jian-Liang Li, Matthias Lienhard, Alla Mikheenko, Dennis Mulligan, Ka Ming Nip, Mihaela Pertea, Matthew E. Ritchie, Andre D. Sim, Alison D. Tang, Yuk Kei Wan, Changqing Wang, Brandon Y. Wong, Chen Yang, If Barnes, Andrew E. Berry, Salvador Capella-Gutierrez, Alyssa Cousineau, Namrita Dhillon, Jose M. Fernandez-Gonzalez, Luis Ferrandez-Peral, Natàlia Garcia-Reyero, Stefan Gotz, Carles Hernandez-Ferrer, Liudmyla Kondratova, Tianyuan Liu, Alessandra Martinez-Martin, Carlos Menor, Jorge Mestre-Tomas, Jonathan M. Mudge, Nedka G. Panayotova, Alejandro Paniagua, Dmitry Repchevsky, Xingjie Ren, Eric Rouchka, Brandon Saint-John, Enrique Sapena, Leon Sheynkman, Melissa Laird Smith, Marie-Marthe Suner, Hazuki Takahashi, Ingrid A. Youngworth, Piero Carninci, Nancy D. Denslow, Roderic Guigo, Margaret Hunter, Rene Maehr, Yin Shen, Hagen U. Tilgner, Barbara J. Wold, Christopher Vollmers, Adam Frankish, Kin Fai Au, Gloria M. Sheynkman, Ali Mortazavi, Ana Conesa, Angela N. Brooks
2024, Nature Methods (21) 1349-1363
The Long-read RNA-Seq Genome Annotation Assessment Project Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. Using different protocols and sequencing platforms, the consortium generated over 427 million long-read sequences from complementary DNA and direct RNA datasets, encompassing human, mouse and manatee species. Developers utilized these...
Turning setbacks into stepping-stones for growth in conservation paleobiology
G. Lynn Wingard, Chris L. Schneider, Gregory P. Dietl, Damien A. Fordham
2024, Frontiers in Ecology and Evolution (12)
Conservation paleobiology is a cross-disciplinary field that utilizes the geohistorical record of past life on Earth to inform present-day decisions in conservation and restoration and assist in planning for future natural resource management. However, information on how past ecosystems and species responded to environmental change over decadal to millennial...
Decomposition of physical processes controlling EASM precipitation changes during the mid-Piacenzian: New insights into data–model integration
Yong Sun, Haibin Wu, Lixin Chen, Christian Stepanek, Yan Zhao, Ning Tan, Baohuang Su, Xiayu Yuan, Wenchao Zhang, Bo Liu, Stephen Hunter, Alan M Haywood, Ayako Abe-Ouchi, Bette Otto-Bliesner, Camille Contoux, Daniel J. Lunt, Aisling M Dolan, Deepak Chandan, Gerrit Lohmann, Harry J. Dowsett, Julia C. Tindall, Michiel Baatsen, W. Richard Peltier, Qiang Li, Ran Feng, Ulrich Salzmann, Wing-Le Chan, Zhongshi Zhang, Charles J. R. Williams, Gilles Ramstein
2024, npj Climate and Atmospheric Science (7)
The mid-Piacenzian warm period (MPWP, ~3.264–3.025 Ma) has gained widespread interest due to its partial analogy with future climate. However, quantitative data–model comparison of East Asian Summer Monsoon (EASM) precipitation during the MPWP is relatively rare, especially due to problems in decoding the imprint of physical processes to climate signals in...
Origins and nature of large explosive eruptions in the lower East Rift Zone of Kīlauea volcano, Hawaii: Insights from ash characterization and geochemistry
Richard W. Hazlett, Johanne Schmith, Allan Lerner, Drew T. Downs, Erin P. Fitch, Carolyn E. Parcheta, Cheryl A. Gansecki, Sarah Spaulding
2024, Journal of Volcanology and Geothermal Research (452)
Several powerful explosive eruptions have taken place in the populated lower East Rift Zone of Kīlauea within the past ∼750 years. These have created distinctive landforms, including a tephra rim enclosing Puʻulena Crater immediately south of the Puna Geothermal Venture power station, a tuff cone at Kapoho Crater near the eastern...
How much trapping effort is needed for early detection of European green crab?
Timothy D. Counihan, Theresa Thom
2024, Management of Biological Invasions (15) 187-200
We present a case study using trapping data and species accumulation theory to assess the sampling effort needed to detect species that are rare in habitats sampled as part of the management of invasive European green crab Carcinus maenas on the coast of Washington State and Salish Sea shorelines, such as is...
Applying local and global sensitivity analysis to inform bigheaded carp management
Richard A. Erickson, Benjamin J. Marcek, Hannah Mann Thompson, Brian Schoenung, John M. Dettmers, Michael N. Fienen
2024, Journal of Fish and Wildlife Managment (15) 112-126
Natural resource managers commonly use population-level models to aid in understanding the status of target populations or the potential implications of management actions. Sensitivity analyses, specifically, local sensitivity analysis (LSA) and global sensitivity analysis (GSA), exist as tools to improve understanding of these models, the importance of specific parameters to...
Lake Ontario August gillnet survey and Lake Trout assessment, 2023
Brian O’Malley, Scott P. Minihkeim, Olivia Margaret Mitchinson, Scott David Stahl, Michael Connerton, Jessica A. Goretzke, Collin Farrell, Dimitry Gorsky
2024, Report
Lake Ontario lake trout (Salvelinus namaycush) rehabilitation has been annually assessed with fishery independent surveys since 1983, to evaluate program benchmarks and compare observations with management objectives. These surveys provide information on the abundance, strain composition, and condition of the adult lake trout stock, as well as information on levels...
A genomic hotspot of diversifying selection and structural change in the hoary bat (Lasiurus cinereus)
Robert S. Cornman
2024, PeerJ (12)
BackgroundPrevious work found that numerous genes positively selected within the hoary bat (Lasiurus cinereus) lineage are physically clustered in regions of conserved synteny. Here I further validate and expand on those finding utilizing an updated L. cinereus genome assembly and additional bat species as well as other tetrapod outgroups.MethodsA chromosome-level...
