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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: 42789

Responding to ecosystem transformation: Resist, accept, or direct? Responding to ecosystem transformation: Resist, accept, or direct?

Ecosystem transformation can be defined as the emergence of a self‐organizing, self‐sustaining, ecological or social–ecological system that deviates from prior ecosystem structure and function. These transformations are occurring across the globe; consequently, a static view of ecosystem processes is likely no longer sufficient for managing fish, wildlife, and other species. We present a...
Authors
Laura Thompson, Abigail J. Lynch, Erik A. Beever, Agustin C. Engman, Jeffrey A. Falke, Stephen Jackson, Trevor J. Krabbenhoft, David J Lawrence, Douglas Limpinsel, Robert T. Magill, Tracy A. Melvin, John M. Morton, Robert A. Newman, Jay Peterson, Mark T. Porath, Frank J. Rahel, Suresh Sethi, Jennifer L. Wilkening

A manipulative thermal challenge protocol for adult salmonids in remote field settings A manipulative thermal challenge protocol for adult salmonids in remote field settings

Manipulative experiments provide stronger evidence for identifying cause-and-effect relationships than correlative studies, but protocols for implementing temperature manipulations are lacking for large species in remote settings. We developed an experimental protocol for holding adult Chinook salmon (Oncorhynchus tshawytscha) and exposing them to elevated temperature treatments. The...
Authors
Daniel S. Donnelly, Vanessa R. von Biela, Stephen D. McCormick, Sarah M. Laske, Michael P. Carey, Shannon C. Waters-Dynes, Lizabeth Bowen, Randy J Brown, Sean Larson, Christian E. Zimmerman

Comparison of anadromous and landlocked Atlantic salmon genomes reveals signatures of parallel and relaxed selection across the northern hemisphere Comparison of anadromous and landlocked Atlantic salmon genomes reveals signatures of parallel and relaxed selection across the northern hemisphere

Most Atlantic salmon (Salmo salar L.) populations follow an anadromous life cycle, spending early life in freshwater, migrating to the sea for feeding and returning to rivers to spawn. At the end of the last ice age ~10,000 years ago, several populations of Atlantic salmon became landlocked. Comparing their genomes to their anadromous counterparts can help identify genetic variation...
Authors
Erik Kjaerner-Semb, Rolf B Edvardsen, Fernando Ayllon, Petra Vogelsang, Tomasz Furmanek, Carl Johan Rubin, Alexey E. Vaselov, Tom Ole Nilsen, Stephen D. McCormick, Craig R Primmer, Anna Wargelius

Habitat suitability and ecological associations of two non-native ungulate species on the Hawaiian island of Lanai Habitat suitability and ecological associations of two non-native ungulate species on the Hawaiian island of Lanai

The ability to effectively manage game species for specific conservation objectives is often limited by the scientific understanding of their distribution and abundance. This is especially true in Hawai‘i where introduced game mammals are poorly studied and have low value relative to native species in other states. We modeled the habitat suitability and ecological associations of...
Authors
Steve C. Hess, Lucas Fortini, Christina Leopold, Jacob Muise, Jonathan Sprague

Testing a new passive acoustic recording unit to monitor wolves Testing a new passive acoustic recording unit to monitor wolves

As part of a broader trial of noninvasive methods to research wild wolves (Canis lupus) in Minnesota, USA, we explored whether wolves could be remotely monitored using a new, inexpensive, remotely deployable, noninvasive, passive acoustic recording device, the AudioMoth. We tested the efficacy of AudioMoths in detecting wolf howls and factors influencing detection by placing them at set...
Authors
Shannon Barber-Meyer, Vicente Palacios, Barbara Marti‐Domken, Lori Schmidt

What are the effects of climate variability and change on ungulate life-histories, population dynamics, and migration in western North America? A systematic map protocol What are the effects of climate variability and change on ungulate life-histories, population dynamics, and migration in western North America? A systematic map protocol

Climate is an important driver of ungulate life-histories, population dynamics, and migratory behaviors, and can affect the growth, development, fecundity, dispersal, and demographic trends of populations. Changes in temperature and precipitation, and resulting shifts in plant phenology, winter severity, drought and wildfire conditions, invasive species distribution and abundance...
Authors
Kate Malpeli, Sarah R. Weiskopf, Laura Thompson, Amanda R. Hardy

Transcriptomic response to elevated water temperatures in adult migrating Yukon River Chinook salmon (Oncorhynchus tshawytscha) Transcriptomic response to elevated water temperatures in adult migrating Yukon River Chinook salmon (Oncorhynchus tshawytscha)

Chinook salmon (Oncorhynchus tshawytscha) declines are widespread and may be attributed, at least in part, to warming river temperatures. Water temperatures in the Yukon River and tributaries often exceed 18°C, a threshold commonly associated with heat stress and elevated mortality in Pacific salmon. Untangling the complex web of direct and indirect physiological effects of heat stress...
Authors
Lizabeth Bowen, Vanessa R. von Biela, Stephen D. McCormick, Amy M. Regish, Shannon C. Waters-Dynes, Blythe Durbin-Johnson, Monica Britton, Matt Settles, Daniel S. Donnelly, Sarah M. Laske, Michael P. Carey, Randy J Brown, Christian E. Zimmerman

Impacts of periodic dredging on macroinvertebrate prey availability for benthic foraging fishes in central San Francisco Bay, California Impacts of periodic dredging on macroinvertebrate prey availability for benthic foraging fishes in central San Francisco Bay, California

Background Because of its importance for species covered under Federal Fishery Management Plans (FMPs), the San Francisco Bay (SFB) estuary has been designated as Essential Fish Habitat (EFH) under the Magnuson-Stevens Fishery Conservation and Management Act (MSA; 16 United States Code §18559b). Within this estuary, benthic macroinvertebrate communities provide important prey resources...
Authors
Susan E. W. De La Cruz, Isa Woo, Laurie Hall, Alison Flanagan, Hannah Mittelstaedt

Keystone predators govern the pathway and pace of climate impacts in a subarctic marine ecosystem Keystone predators govern the pathway and pace of climate impacts in a subarctic marine ecosystem

Predator loss and climate change are hallmarks of the Anthropocene yet their interactive effects are largely unknown. Here, we show that massive calcareous reefs, built slowly by the alga Clathromorphum nereostratum over centuries to millennia, are now declining because of the emerging interplay between these two processes. Such reefs, the structural base of Aleutian kelp forests, are...
Authors
Douglas B Rasher, Robert S Stenek, Jochen Halfar, Kristy J Kroeker, Justin B. Ries, M. Tim Tinker, Phoebe T W Chan, J Fietzke, Nicolas Kamenos, Brenda H. Konar, Jonathan S. Lefcheck, Christopher J D Norley, Ben Weitzman, Isaac T Westfield, James A. Estes

Latitudinal patterns of alien plant invasions Latitudinal patterns of alien plant invasions

Latitudinal patterns of biodiversity have long been a central topic in ecology and evolutionary biology. However, while most previous studies have focused on native species, little effort has been devoted to latitudinal patterns of plant invasions (with a few exceptions based on data from sparse locations). Using the most up‐to‐date worldwide native and alien plant distribution data from...
Authors
Qinfeng Guo, Brian S. Cade, Wayne Dawson, Franz Essl, Holger Kreft, Jan Pergl, Mark van Kleunen, Patrick Weigelt, Marten Winter, Petr Pyšek

Relative toxicity and sublethal effects of NaCl and energy-related saline wastewaters on prairie amphibians Relative toxicity and sublethal effects of NaCl and energy-related saline wastewaters on prairie amphibians

Increasing salinity in freshwater environments is a growing problem due both to the negative influences of salts on ecosystems and their accumulation and persistence in environments. Two major sources of increased salinity from sodium chloride salts (NaCl) are saline wastewaters co-produced during energy production (herein, wastewaters) and road salts. Effects of road salts have received...
Authors
Brian J. Tornabene, Creagh W Breuner, Blake R. Hossack

Spatial and vertical bias in down-looking ship-based acoustic estimates of fish density in Lake Superior: Lessons learned from multi-directional acoustics Spatial and vertical bias in down-looking ship-based acoustic estimates of fish density in Lake Superior: Lessons learned from multi-directional acoustics

Hydroacoustic surveys using hull-mounted down-looking transducers are useful for estimating pelagic fish densities; however, this method may miss shallow fish owing to the acoustic surface dead zone and vessel avoidance. Our objective was to compare pelagic fish density estimates acquired by a traditional down-looking acoustic survey to estimates obtained by a new multi-directional-towed...
Authors
Ryan C Grow, Thomas R. Hrabik, Daniel Yule, Bryan G. Matthias, Jared T. Myers, Chad Abel
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