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Publications

This list of publications includes peer-review journal articles, official USGS publications series, reports and more authored by scientists in the Ecosystems Mission Area. A database of all USGS publications, with advanced search features, can be accessed at the USGS Publications Warehouse.  

Filter Total Items: 42704

Distribution and abundance of Southwestern Willow Flycatchers (Empidonax traillii extimus) on the upper San Luis Rey River, San Diego County, California—2022 data summary Distribution and abundance of Southwestern Willow Flycatchers (Empidonax traillii extimus) on the upper San Luis Rey River, San Diego County, California—2022 data summary

Executive Summary We surveyed for Southwestern Willow Flycatchers (Empidonax traillii extimus; flycatcher) along the upper San Luis Rey River near Lake Henshaw in Santa Ysabel, California, in 2022. Surveys were completed at four locations: three downstream from Lake Henshaw, where surveys occurred from 2015 to 2021 (Rey River Ranch [RRR], Cleveland National Forest [CNF], Vista Irrigation...
Authors
Scarlett L. Howell, Barbara E. Kus

Ambrosia beetles (Coleoptera: Curculionidae) can directly transmit the fungal pathogens responsible for Rapid ʻŌhiʻa Death Ambrosia beetles (Coleoptera: Curculionidae) can directly transmit the fungal pathogens responsible for Rapid ʻŌhiʻa Death

The ecologically and culturally vital tree species, ʻōhiʻa lehua (Metrosideros polymorpha), is threatened by the fungal pathogens Ceratocystis lukuohia and Ceratocystis huliohia, the causal agents of the disease complex called Rapid ʻŌhiʻa Death (ROD). Four invasive ambrosia beetle (Coleoptera: Curculionidae: Scolytinae) species in the Xyleborini tribe colonize ROD Ceratocystis-infested...
Authors
Kylle Roy, Kelly Jaenecke, Ellen Dunkle, Dan Mikros, Robert W. Peck

A novel assembly pipeline and functional annotations for targeted sequencing: A case study on the globally threatened Margaritiferidae (Bivalvia: Unionida) A novel assembly pipeline and functional annotations for targeted sequencing: A case study on the globally threatened Margaritiferidae (Bivalvia: Unionida)

The proliferation of genomic sequencing approaches has significantly impacted the field of phylogenetics. Target capture approaches provide a cost-effective, fast and easily applied strategy for phylogenetic inference of non-model organisms. However, several existing target capture processing pipelines are incapable of incorporating whole genome sequencing (WGS). Here, we develop a new...
Authors
André Gomes-dos-Santos, Elsa Froufe, John M. Pfeiffer, Nathan Johnson, Chase H. Smith, Andre M. Machado, L. Filipe C. Castro, Van Tu Do, Akimasa Hattori, Nicole Garrison, Nathan V. Whelan, Ivan N. Bolotov, Ilya V. Vikhrev, Alexander V. Kondakov, Mohamed Ghamizi, Vincent Prie, Arthur E. Bogan, Manuel Lopes Lima

Exploring the relevance of the multidimensionality of wildlife recreationists to conservation behaviors: A case study in Virginia Exploring the relevance of the multidimensionality of wildlife recreationists to conservation behaviors: A case study in Virginia

Wildlife recreationists' participation in conservation behaviors could provide key support to the conservation efforts of state fish and wildlife agencies. However, little is known about how identifying with multiple forms of wildlife recreation (i.e., hunters, anglers, birders, wildlife viewers) may influence participation in conservation behaviors, specifically for supporting state...
Authors
Bennett Grooms, Ashley A. Dayer, Jessica Barnes, Ashley Peele, Jonathan D. Rutter, Nicholas W. Cole

Estimating the impact of climate and vegetation changes on runoff risk across the Hawaiian landscape Estimating the impact of climate and vegetation changes on runoff risk across the Hawaiian landscape

In Hawai’i, ecosystem conservation practitioners are increasingly considering the potential ecohydrological benefits from applied conservation action to mitigate the degrading impacts of runoff on native and restored ecosystems. One determinant of runoff is excess rainfall events where rainfall rates exceed the infiltration capacity of soils. To help understand runoff risks, we...
Authors
Lucas Fortini, Lauren R. Kaiser, Kimberlie Perkins, Lulin Xue, Yaping Wang

The energy–water limitation threshold explains divergent drought responses in tree growth, needle length, and stable isotope ratios The energy–water limitation threshold explains divergent drought responses in tree growth, needle length, and stable isotope ratios

Predicted increases in extreme droughts will likely cause major shifts in carbon sequestration and forest composition. Although growth declines during drought are widely documented, an increasing number of studies have reported both positive and negative responses to the same drought. These divergent growth patterns may reflect thresholds (i.e., nonlinear responses) promoted by changes...
Authors
Joan Dudney, Andrew M. Latimer, Phillip J. van Mantgem, Harold S. Zald, Claire E Willing, Jonathan Nesmith, Jennifer E Cribbs, Elizabeth R. Milano

Quantifying uncertainty in coastal salinity regime for biological application using quantile regression Quantifying uncertainty in coastal salinity regime for biological application using quantile regression

Salinity regimes in coastal ecosystems are highly dynamic and driven by complex geomorphic and hydrological processes. Estuarine biota are generally adapted to salinity fluctuation, but are vulnerable to salinity extremes. Characterizing coastal salinity regime for ecological studies therefore requires representing extremes of salinity ranges at time scales relevant to ecology (e.g...
Authors
Simeon Yurek, Micheal S Allen, Mitchell J. Eaton, David Chagaris, Nathan Reaver, Julien Martin, Peter C Frederick, Mark Dehaven

The effects of management practices on grassland birds—Dickcissel (Spiza americana) The effects of management practices on grassland birds—Dickcissel (Spiza americana)

Keys to Dickcissel (Spiza americana) management include providing dense, moderate-to-tall vegetation, particularly with a well-developed forb component, and moderately deep litter. Dickcissels have been reported to use grassland habitats with 4–166 centimeters (cm) average vegetation height, 6–85 cm visual obstruction reading, 11–68 percent grass cover, 1–86 percent forb cover, less than...
Authors
Jill A. Shaffer, Lawrence D. Igl, Douglas H. Johnson, Marriah L. Sondreal, Christopher M. Goldade, Amy L. Zimmerman, Betty R. Euliss

Modeling impacts of saltwater intrusion on methane and nitrous oxide emissions in tidal forested wetlands Modeling impacts of saltwater intrusion on methane and nitrous oxide emissions in tidal forested wetlands

Emissions of methane (CH4) and nitrous oxide (N2O) from soils to the atmosphere can offset the benefits of carbon sequestration for climate change mitigation. While past study has suggested that both CH4 and N2O emissions from tidal freshwater forested wetlands (TFFW) are generally low, the impacts of coastal droughts and drought-induced saltwater intrusion on CH4 and N2O emissions...
Authors
Hongqing Wang, Zhaohua Dai, Ken Krauss, Carl C. Trettin, Gregory E. Noe, Andrew J. Burton, Eric Ward

The effects of management practices on grassland birds—Golden Eagle (Aquila chrysaetos) The effects of management practices on grassland birds—Golden Eagle (Aquila chrysaetos)

Keys to Golden Eagle (Aquila chrysaetos) management in western North America’s grasslands, particularly those of the Great Plains region, include maintaining open, mostly undeveloped landscapes that sustain at least modest population levels of suitable prey (most typically rabbits [Leporidae] and prairie dogs or ground squirrels [Sciuridae]); safeguarding nesting territories (that is...
Authors
Robert K. Murphy, John P. DeLong, Lawrence D. Igl, Jill A. Shaffer

Haliaeetus leucocephalus (bald eagle) and Aquila chrysaetos (golden eagle) mortality and exposure to lead, mercury, and anticoagulant rodenticides in eight western and midwestern States, 2014–17 Haliaeetus leucocephalus (bald eagle) and Aquila chrysaetos (golden eagle) mortality and exposure to lead, mercury, and anticoagulant rodenticides in eight western and midwestern States, 2014–17

The U.S. Geological Survey National Wildlife Health Center measured environmental contaminants in Haliaeetus leucocephalus (bald eagles) and Aquila chrysaetos (golden eagles) to evaluate dietary exposure to lead, mercury, and anticoagulant rodenticides (AR), all of which were identified by U.S. Fish and Wildlife Service as a priority issue of concern for Mountain Prairie Region 6. Data...
Authors
Barbara L. Bodenstein, Julia S. Lankton, Robin E. Russell, Matthew S. Schwarz

Characterization of maternal immunity following vaccination of broodstock against IHNV or Flavobacterium psychrophilum in rainbow trout (Oncorhynchus mykiss) Characterization of maternal immunity following vaccination of broodstock against IHNV or Flavobacterium psychrophilum in rainbow trout (Oncorhynchus mykiss)

Infectious hematopoietic necrosis (IHN) is a significant viral disease affecting salmonids, whereas Flavobacterium psychrophilum (Fp), the causative agent of bacterial coldwater disease (BCWD), remains one of the most significant bacterial pathogens of salmonids. We explored maternal immunity in the context of IHN and BCWD management in rainbow trout (Oncorhynchus mykiss) aquaculture...
Authors
Jie Ma, Jesse T. Trushenski, Evan M. Jones, Timothy J. Bruce, Doug G. McKenney, Gael Kurath, Kenneth D. Cain
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