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: 42702
Effects of tidally varying river flow on entrainment of juvenile salmon into Sutter and Steamboat Sloughs Effects of tidally varying river flow on entrainment of juvenile salmon into Sutter and Steamboat Sloughs
Survival of juvenile salmonids in the Sacramento–San Joaquin Delta (Delta) varies by migration route, and thus the proportion of fish that use each route affects overall survival through the Delta. Understanding factors that drive routing at channel junctions along the Sacramento River is therefore critical to devising management strategies that maximize survival. Here, we examine...
Authors
Jason G. Romine, Russell Perry, Paul Stumpner, Aaron R. Blake, Jon R. Burau
Processing coastal imagery with Agisoft Metashape Professional Edition, version 1.6—Structure from motion workflow documentation Processing coastal imagery with Agisoft Metashape Professional Edition, version 1.6—Structure from motion workflow documentation
Introduction Structure from motion (SFM) has become an integral technique in coastal change assessment; the U.S. Geological Survey (USGS) used Agisoft Metashape Professional Edition photogrammetry software to develop a workflow that processes coastline aerial imagery collected in response to storms since Hurricane Florence in 2018. This report details step-by-step instructions to create...
Authors
Jin-Si R. Over, Andrew C. Ritchie, Christine J. Kranenburg, Jenna A. Brown, Daniel D. Buscombe, Tom Noble, Christopher R. Sherwood, Jonathan A. Warrick, Phillipe A. Wernette
By
Ecosystems Mission Area, Natural Hazards Mission Area, Coastal and Marine Hazards and Resources Program, Maryland-Delaware-D.C. Water Science Center, Pacific Coastal and Marine Science Center, Southwest Biological Science Center, St. Petersburg Coastal and Marine Science Center, Woods Hole Coastal and Marine Science Center, Hurricane Florence, Hurricanes
Seasonal controls on sediment delivery and hydrodynamics in a vegetated tidally influenced interdistributary island Seasonal controls on sediment delivery and hydrodynamics in a vegetated tidally influenced interdistributary island
River deltas are maintained by a continuous supply of terrestrial sediments that provide critical land building material to help sustain and protect vulnerable ecological communities and serve as natural storm protection barriers. Local hydrodynamics are important in determining the degree to which fluvial sediments are removed from the water column and retained on the delta complex...
Authors
Richard Styles, Gregg Snedden, S. Jarrell Smith, Duncan B. Bryant, Brandon M. Boyd, Joseph Z. Gailani, Brady Couvillion, Edward Race
Spatial Gaussian processes improve multi-species occupancy models when range boundaries are uncertain and nonoverlapping Spatial Gaussian processes improve multi-species occupancy models when range boundaries are uncertain and nonoverlapping
Species distribution models enable practitioners to analyze large datasets of encounter records and make predictions about species occurrence at unsurveyed locations. In omnibus surveys that record data on multiple species simultaneously, species ranges are often nonoverlapping and misaligned with the administrative unit defining the spatial domain of interest (e.g., a state or province)
Authors
Wilson Wright, Kathryn M. Irvine, Tom Rodhouse, Andrea R. Litt
Identifying metabolic alterations associated with coral growth anomalies using 1H NMR metabolomics Identifying metabolic alterations associated with coral growth anomalies using 1H NMR metabolomics
Coral growth anomalies (GAs) are tumor-like protrusions that are detrimental to coral health, affecting both the coral skeleton and soft tissues. These lesions are increasingly found throughout the tropics and are commonly associated with high human population density, yet little is known about the molecular pathology of the disease. Here, we investigate the metabolic impacts of GAs...
Authors
Erik R. Andersson, Rusty D. Day, Thierry M. Work, Paul E. Anderson, Cheryl M. Woodley, Tracey B. Schock
Response of fish assemblages to restoration of rapids habitat in a Great Lakes connecting channel Response of fish assemblages to restoration of rapids habitat in a Great Lakes connecting channel
Rapids habitats are critical spawning and nursery grounds for multiple Laurentian Great Lakes fishes of ecological importance such as lake sturgeon, walleye, and salmonids. However, river modifications have destroyed important rapids habitat in connecting channels by modifying flow profiles and removing large quantities of cobble and gravel that are preferred spawning substrates of...
Authors
A. Molina-Moctezuma, N. Godby, K. Kapuscinski, Edward F. Roseman, K. Skubik, A. Moerke
Integrating thermal infrared stream temperature imagery and spatial stream network models to understand natural spatial thermal variability in streams Integrating thermal infrared stream temperature imagery and spatial stream network models to understand natural spatial thermal variability in streams
Under a warmer future climate, thermal refuges could facilitate the persistence of species relying on cold-water habitat. Often these refuges are small and easily missed or smoothed out by averaging in models. Thermal infrared (TIR) imagery can provide empirical water surface temperatures that capture these features at a high spatial resolution (
Authors
Matthew R. Fuller, Joseph L. Ebersole, Naomi Detenbeck, Rochelle Labisoa, Peter Leinenbach, Christian E. Torgersen
Cohort strength and body size in co-occurring salmonids in a small stream network: Variation in space and time Cohort strength and body size in co-occurring salmonids in a small stream network: Variation in space and time
Trout and salmon commonly coexist in stream networks. Exploring similarities and differences among species can help explain coexistence and invasive ability. Here, we describe spatial distribution, cohort strengths and size-at-age of three co-occurring species in a small stream network. Spatial distributions varied dramatically among species; native brook trout occupied all stream...
Authors
Benjamin Letcher, Keith H. Nislow, Matthew O’Donnell, Andrew R. Whiteley, Jason A. Coombs, Todd L. Dubreuil
Experimental warming differentially affects vegetative and reproductive phenology of tundra plants Experimental warming differentially affects vegetative and reproductive phenology of tundra plants
Rapid climate warming is altering Arctic and alpine tundra ecosystem structure and function, including shifts in plant phenology. While the advancement of green up and flowering are well-documented, it remains unclear whether all phenophases, particularly those later in the season, will shift in unison or respond divergently to warming. Here, we present the largest synthesis to our...
Authors
Courtney G. Collins, Sarah Claire Elmendorf, Robert D. Hollister, Greg Henry, Karin Clark, Anne Bjorkman, Isla H. Myers-Smith, Janet S. Prevey, Isabel Ashton, Jakob J. Assmann, Juha Alatalo, Michele Carbognani, Chelsea Chisholm, Elisabeth J. Cooper, Chiara, Ingibjorg Svala Jonsdottir, Kari Klanderud, Christopher Kopp, Carolyn Livensperger, Marguerite Mauritz, Jeremy May, Ulf Molau, Steven F. Oberbaeur, Emily Ogburn, Zoe Panchen, Alessandro Petraglia, Eric Post, Christian Rixen, Heidi Rodenhizer, Ted Schuur, Phillip Semenchuk, Jane G. Smith, Heidi Steltzer, Ørjan Totland, Marilyn Walker, Jeffrey Welker, Katharine N. Suding
Abundance of Gulf Coast Waterdogs (Necturus beyeri) along Bayou Lacombe, Saint Tammany Parish, Louisiana Abundance of Gulf Coast Waterdogs (Necturus beyeri) along Bayou Lacombe, Saint Tammany Parish, Louisiana
Few ecological studies have been conducted on Gulf Coast Waterdogs (Necturus beyeri), and published studies have focused on relatively small stream sections of 125 m to 1.75 km. In 2015, we sampled 25 sites along a 13.4-km stretch of Bayou Lacombe (Saint Tammany Parish, Louisiana, USA) to better understand factors that may influence the distribution of Gulf Coast Waterdogs within streams...
Authors
Brad Glorioso, Hardin Waddle, Lindy J. Muse, Sidney T Godfrey
Population estimates and trends of three Maui Island-endemic Hawaiian Honeycreepers Population estimates and trends of three Maui Island-endemic Hawaiian Honeycreepers
Population monitoring is critical for informing the management and conservation of rare Hawaiian forest birds. In 2017, we used point-transect distance sampling methods to estimate population densities of birds on Haleakalā Volcano on east Maui island. We estimated the populations and ranges of three island-endemic Hawaiian honeycreepers, including the endangered ‘Ākohekohe (Palmeria...
Authors
Seth Judge, Christopher C Warren, Richard J. Camp, Laura K Berthold, Hanna L. Mounce, Patrick J. Hart, Ryan J. Monello
Identification of Aphanomyces invadans, the cause of epizootic ulcerative syndrome, in smallmouth bass (Micropterus dolomieu) from the Cheat River, West Virginia, USA Identification of Aphanomyces invadans, the cause of epizootic ulcerative syndrome, in smallmouth bass (Micropterus dolomieu) from the Cheat River, West Virginia, USA
The oomycete Aphanomyces invadans (Saprolegniales, Oomycetes), the cause of epizootic ulcerative syndrome (EUS), is an OIE (World Organization for Animal Health) reportable pathogen, capable of infecting many fish species worldwide in both freshwater and estuarine environments (Iberahim et al. 2018). Since the discovery of EUS in Japan in 1971 (Egusa and Masuda 1971), it has spread...
Authors
Heather L. Walsh, Vicki S. Blazer, Patricia M. Mazik