N-mix for fish: estimating riverine salmonid habitat selection via N-mixture models
Nicholas A. Som, Russell W. Perry, Edward C. Jones, Kyle De Juilio, Paul Petros, William D. Pinnix, Derek L. Rupert
2018, Canadian Journal of Fisheries and Aquatic Sciences (75) 1048-1058
Models that formulate mathematical linkages between fish use and habitat characteristics are applied for many purposes. For riverine fish, these linkages are often cast as resource selection functions with variables including depth and velocity of water and distance to nearest cover. Ecologists are now recognizing the role that detection plays...
Barrier-island and estuarine-wetland physical-change assessment after Hurricane Sandy
Nathaniel G. Plant, Kathryn Smith, Davina Passeri, Christopher G. Smith, Julie Bernier
2018, Open-File Report 2017-1157
IntroductionThe Nation’s eastern coast is fringed by beaches, dunes, barrier islands, wetlands, and bluffs. These natural coastal barriers provide critical benefits and services, and can mitigate the impact of storms, erosion, and sea-level rise on our coastal communities. Waves and storm surge resulting from Hurricane Sandy, which made landfall along...
Quantifying differences in responses of aquatic insects to trace metal exposure in field studies and short-term stream mesocosm experiments
Yuichi Iwasaki, Travis S. Schmidt, William H. Clements
2018, Environmental Science & Technology (52) 4378-4384
Characterizing macroinvertebrate taxa as either sensitive or tolerant is of critical importance for investigating impacts of anthropogenic stressors in aquatic ecosystems and for inferring causality. However, our understanding of relative sensitivity of aquatic insects to metals in the field and under controlled conditions in the laboratory or mesocosm experiments is...
An epidemiological model of virus transmission in salmonid fishes of the Columbia River Basin
Paige F. B. Ferguson, Rachel Breyta, Ilana L. Brito, Gael Kurath, Shannon L. LaDeau
2018, Ecological Modelling (377) 1-15
We have developed a dynamic epidemiological model informed by records of viral presence and genotypes to evaluate potential transmission routes maintaining a viral pathogen in economically and culturally important anadromous fish populations. In the Columbia River Basin, infectious hematopoietic necrosis virus (IHNV) causes severe disease, predominantly in juvenile steelhead trout...
The aerosphere as a network connector of organisms and their diseases
Jeremy D. Ross, Eli S. Bridge, Diann J. Prosser, John Y. Takekawa
2018, Book chapter, Aeroecology
Aeroecological processes, especially powered flight of animals, can rapidly connect biological communities across the globe. This can have profound consequences for evolutionary diversification, energy and nutrient transfers, and the spread of infectious diseases. The latter is of particular consequence for human populations, since migratory birds are known to host diseases...
Size‐assortative choice and mate availability influences hybridization between red wolves (Canis rufus) and coyotes (Canis latrans)
Joseph W. Hinton, John L. Gittleman, Frank T. van Manen, Michael J. Chamberlain
2018, Ecology and Evolution (8) 3927-3940
Anthropogenic hybridization of historically isolated taxa has become a primary conservation challenge for many imperiled species. Indeed, hybridization between red wolves (Canis rufus) and coyotes (Canis latrans) poses a significant challenge to red wolf recovery. We considered seven hypotheses to assess factors influencing hybridization between red wolves and coyotes via...
Rising synchrony controls western North American ecosystems
Bryan A. Black, Peter van der Sleen, Emanuele Di Lorenzo, Daniel Griffin, William J. Sydeman, Jason B. Dunham, Ryan R. Rykaczewski, Marisol Garcia-Reyes, Mohammad Safeeq, Ivan Arismendi, Steven J. Bograd
2018, Global Change Biology (24) 2305-2314
Along the western margin of North America, the winter expression of the North Pacific High (NPH) strongly influences interannual variability in coastal upwelling, storm track position, precipitation, and river discharge. Coherence among these factors induces covariance among physical and biological processes across adjacent marine and terrestrial ecosystems. Here, we show...
Disentangling the effects of low pH and metal mixture toxicity on macroinvertebrate diversity
Riccardo Fornaroli, Alessio Ippolito, Mari J. Tolkkinen, Heikki Mykra, Timo Muotka, Laurie S. Balistrieri, Travis S. Schmidt
2018, Environmental Pollution (235) 889-898
One of the primary goals of biological assessment of streams is to identify which of a suite of chemical stressors is limiting their ecological potential. Elevated metal concentrations in streams are often associated with low pH, yet the effects of these two potentially limiting factors of freshwater biodiversity are rarely...
The GFDL global atmosphere and land model AM4.0/LM4.0: 1. Simulation characteristics with prescribed SSTs
M. Zhao, J.-C. Golaz, I. M. Held, H. Guo, V. Balaji, R. Benson, J.-H. Chen, X. Chen, L. J. Donner, J. P. Dunne, Krista A. Dunne, J. Durachta, S.-M. Fan, S. M. Freidenreich, S. T. Garner, P. Ginoux, L. M. Harris, L. W. Horowitz, J. P. Krasting, A. R. Langenhorst, Z. Liang, P. Lin, S.-J. Lin, S. L. Malyshev, E. Mason, Paul C.D. Milly, Y. Ming, V. Naik, F. Paulot, D. Paynter, P. Phillipps, A. Radhakrishnan, V. Ramaswamy, T. Robinson, D. Schwarzkopf, C. J. Seman, Elena Shevliakova, Z. Shen, H. Shin, L. Silvers, J. R. Wilson, M. Winton, A. T. Wittenberg, B. Wyman, B. Xiang
2018, Journal of Advances in Modeling Earth Systems (10) 735-769
In this two‐part paper, a description is provided of a version of the AM4.0/LM4.0 atmosphere/land model that will serve as a base for a new set of climate and Earth system models (CM4 and ESM4) under development at NOAA's Geophysical Fluid Dynamics Laboratory (GFDL). This version, with roughly 100 km...
Occupancy in community-level studies
Darryl I. MacKenzie, James D. Nichols, Andy Royle, Kenneth H. Pollock, Larissa L. Bailey, James E. Hines
2018, Book chapter, Occupancy estimation and modeling (Second edition)
Another type of multi-species studies, are those focused on community-level metrics such as species richness. In this chapter we detail how some of the single-species occupancy models described in earlier chapters have been applied, or extended, for use in such studies, while accounting for imperfect detection. We highlight how Bayesian...
Hydrologic assessment and numerical simulation of groundwater flow, San Juan Mine, San Juan County, New Mexico, 2010–13
Anne M. Stewart
2018, Scientific Investigations Report 2017-5155
Coal combustion byproducts (CCBs), which are composed of fly ash, bottom ash, and flue gas desulfurization material, produced at the coal-fired San Juan Generating Station (SJGS), located in San Juan County, New Mexico, have been buried in former surface-mine pits at the San Juan Mine, also referred to as the...
On the sensitivity of annual streamflow to air temperature
Paul C.D. Milly, Jonghun Kam, Krista A. Dunne
2018, Water Resources Research (54) 2624-2641
Although interannual streamflow variability is primarily a result of precipitation variability, temperature also plays a role. The relative weakness of the temperature effect at the annual time scale hinders understanding, but may belie substantial importance on climatic time scales. Here we develop and evaluate a simple theory relating variations of...
Passage survival of juvenile steelhead, coho salmon, and Chinook salmon in Lake Scanewa and at Cowlitz Falls Dam, Cowlitz River, Washington, 2010–16
Theresa L. Liedtke, Tobias J. Kock, William Hurst
2018, Open-File Report 2018-1050
A multi-year evaluation was conducted during 2010–16 to evaluate passage survival of juvenile steelhead (Oncorhynchus mykiss), Chinook salmon (O. tshawytscha), and coho salmon (O. kisutch) in Lake Scanewa, and at Cowlitz Falls Dam in the upper Cowlitz River Basin, Washington. Reservoir passage survival was evaluated in 2010, 2011, and...
Linking animals aloft with the terrestrial landscape
Jeffrey J. Buler, Wylie C. Barrow Jr., Matthew Boone, Deanna K. Dawson, Robert H. Diehl, Frank R. Moore, Lori A. Randall, Timothy Schreckengost, Jaclyn A. Smolinsky
2018, Book chapter, Aeroecology
Despite using the aerosphere for many facets of their life, most flying animals (i.e., birds, bats, some insects) are still bound to terrestrial habitats for resting, feeding, and reproduction. Comprehensive broad-scale observations by weather surveillance radars of animals as they leave terrestrial habitats for migration or feeding flights can be...
Data analysis considerations for pesticides determined by National Water Quality Laboratory schedule 2437
Megan E. Shoda, Lisa H. Nowell, Wesley W. Stone, Mark W. Sandstrom, Laura M. Bexfield
2018, Scientific Investigations Report 2018-5007
In 2013, the U.S. Geological Survey National Water Quality Laboratory (NWQL) made a new method available for the analysis of pesticides in filtered water samples: laboratory schedule 2437. Schedule 2437 is an improvement on previous analytical methods because it determines the concentrations of 225 fungicides, herbicides, insecticides, and associated degradates...
Evaluating micrometeorological estimates of groundwater discharge from Great Basin desert playas
Tracie Jackson, Keith J. Halford, Philip M. Gardner, Amanda Garcia
2018, Ground Water (56) 909-920
Groundwater availability studies in the arid southwestern United States traditionally have assumed that groundwater discharge by evapotranspiration (ETg) from desert playas is a significant component of the groundwater budget. However, desert playa ETg rates are poorly constrained by Bowen Ratio energy budget (BREB) and eddy-covariance (EC) micrometeorological measurement approaches. Best...
Presentation of the Dana Medal of the Mineralogical Society of America for 2017 to Thomas W. Sisson
Charles R. Bacon
2018, American Mineralogist (103) 651-652
I have the pleasure of introducing Thomas W. Sisson, the Mineralogical Society of America Dana Medalist for 2017. Tom is known for his scientific rigor and landmark publications that have contributed to a diverse spectrum of fields closely tied to the mineralogical sciences. He is particularly recognized for his work...
High frequency data exposes nonlinear seasonal controls on dissolved organic matter in a large watershed
Matthew Shultz, Brian A. Pellerin, George Aiken, Joseph W. Martin, Peter Raymond
2018, Environmental Science and Technology (52) 5644-5652
We analyzed a five year, high frequency time series generated by an in situ fluorescent dissolved organic matter (fDOM) sensor installed near the Connecticut River’s mouth, investigating high temporal resolution DOM dynamics in a larger watershed and longer time series than previously addressed. We identified a...
Computational fluid dynamics simulations of the Late Pleistocene Lake Bonneville flood
Jose M. Abril-Hernandez, Raul Perianez, Jim E. O'Connor, Daniel Garcia-Castellanos
2018, Journal of Hydrology (561) 1-15
At approximately 18.0 ka, pluvial Lake Bonneville reached its maximum level. At its northeastern extent it was impounded by alluvium of the Marsh Creek Fan, which breached at some point north of Red Rock Pass (Idaho), leading to one of the largest floods on Earth. About 5320 km3 of water was discharged into...
Phase 1 studies summary of major findings of the South Bay Salt Pond Restoration Project, South San Francisco Bay, California
Laura Valoppi
2018, Open-File Report 2018-1039
Executive SummaryThe South Bay Salt Pond Restoration Project (Project) is one of the largest restoration efforts in the United States. It is located in South San Francisco Bay of California. It is unique not only for its size—more than 15,000 acres—but also for its location adjacent to one of...
Trends and habitat associations of waterbirds using the South Bay Salt Pond Restoration Project, San Francisco Bay, California
Susan E.W. De La Cruz, Lacy M. Smith, Stacy M. Moskal, Cheryl Strong, John Krause, Yiwei Wang, John Y. Takekawa
2018, Open-File Report 2018-1040
Executive SummaryThe aim of the South Bay Salt Pond Restoration Project (hereinafter “Project”) is to restore 50–90 percent of former salt evaporation ponds to tidal marsh in San Francisco Bay (SFB). However, hundreds of thousands of waterbirds use these ponds over winter and during fall and spring migration. To...
Sperm quality biomarkers complement reproductive and endocrine parameters in investigating environmental contaminants in common carp (Cyprinus carpio) from the Lake Mead National Recreation Area
Jill A. Jenkins, Michael R. Rosen, Rassa O. Dale, Kathy R. Echols, Leticia Torres, Carla M. Wieser, Constance A. Kersten, S. Goodbred
2018, Environmental Research (163) 149-164
Lake Mead National Recreational Area (LMNRA) serves as critical habitat for several federally listed species and supplies water for municipal, domestic, and agricultural use in the Southwestern U.S. Contaminant sources and concentrations vary among the sub-basins within LMNRA. To investigate whether exposure to environmental contaminants is associated with alterations in...
Reduced swimming performance repeatedly evolves upon loss of migration in landlocked populations of Alewife
Jonathan P. Velotta, Stephen D. McCormick, Andrew W. Jones, Eric T. Schultz
2018, Physiological and Biochemical Zoology (91) 814-825
Whole-organism performance tasks are accomplished by the integration of morphological traits and physiological functions. Understanding how evolutionary change in morphology and physiology influences whole-organism performance will yield insight into the factors that shape its own evolution. We demonstrate that nonmigratory populations of alewife (Alosa pseudoharengus) have evolved reduced swimming performance...
Common hydraulic fracturing fluid additives alter the structure and function of anaerobic microbial communities
Adam C. Mumford, Denise M. Akob, J. Grace Klinges, Isabelle M. Cozzarelli
2018, Applied and Environmental Microbiology (84) 1-16
The development of unconventional oil and gas (UOG) resources results in the production of large volumes of wastewater containing a complex mixture of hydraulic fracturing chemical additives and components from the formation. The release of these wastewaters into the environment poses potential risks that are poorly understood. Microbial communities in...
Ancient Martian aeolian processes and palaeomorphology reconstructed from the Stimson formation on the lower slope of Aeolis Mons, Gale crater, Mars
Steve G. Banham, Sanjeev Gupta, David M. Rubin, Jessica A. Watkins, Dawn Y. Sumner, Kenneth S. Edgett, John P. Grotzinger, Kevin W. Lewis, Lauren A. Edgar, Kathryn M. Stack, Robert Barnes, James F. Bell III, Mackenzie D. Day, Ryan C. Ewing, Mathieu G.A. Lapotre, Nathan T. Stein, Frances Rivera-Hernandez, Ashwin R. Vasavada
2018, Sedimentology (65) 993-1042
Reconstruction of the palaeoenvironmental context of Martian sedimentary rocks is central to studies of ancient Martian habitability and regional palaeoclimate history. This paper reports the analysis of a distinct aeolian deposit preserved in Gale crater, Mars, and evaluates its palaeomorphology, the processes responsible for its deposition, and its implications for...
