Publications

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Author Title Type [ Year(Asc)]
In Press
Nichols, A. L., Lusardi R. A., & Willis A. D. (In Press).  Seasonal macrophyte growth constrains extent, but improves quality, of cold-water habitat in a spring-fed river. PDF icon Nichols_et_al-2020-Hydrological_Processes.pdf (2.24 MB)
2020
Jeffres, C., Holmes E., Sommer T., & Katz J. V. E. (2020).  Detrital food web contributes to aquatic ecosystem productivity and rapid salmon growth in a managed floodplain. PLoS. 15(9), PDF icon Jeffres et al. 2020.pdf (2.26 MB)
Colombano, D., Manfree A. D., O'Rear T., Durand J. R., & Moyle P. B. (2020).  Estuarine-terrestrial habitat gradients enhance nursery function for resident and transient fishes in the San Francisco Estuary. Marine Ecology Progress Series. 637,
Young, M., Howe E., O'Rear T., Berridge K., & Moyle P. (2020).  Food Web Fuel Differs Across Habitats and Seasons of a Tidal Freshwater Estuary. Estuaries and Coasts. 188,
Yarnell, S. M., Stein E. D., Webb J.A., Grantham T. E., Lusardi R. A., Zimmerman J., et al. (2020).  A functional flows approach to selecting ecologically relevant flow metrics for environmental flow applications. River Research and Applications. 36(2), 318–324.PDF icon Yarnell et al. 2020 RRA (759.84 KB)
Durand, J. R., Jasper C., Williamson B., Kruger A., O'Rear T., & Holleman R. (2020).  North Delta Arc Study 2019 annual report: Cache and Lindsey Slough water quality, productivity, and fisheries. PDF icon 2019 North Delta Arc Annual Report Final.pdf (5.72 MB)
O'Rear, T., Moyle P. B., & Durand J. R. (2020).  Suisun Marsh Fish Study: trends in fish and invertebrate populations of Suisun Marsh January 2018 - December 2018. PDF icon Suisun Marsh Fish Report 2018 Final.pdf (3.16 MB)
Colombano, D., Donovan J. M., Ayers D. E., O'Rear T., & Moyle P. B. (2020).  Tidal effects on marsh habitat use by three fishes in the San Francisco Estuary. Environmental Biology of Fishes.
2019
Willis, A. D., & Holmes E. (2019).  Eye in the Sky: Using UAV Imagery of Seasonal Riverine Canopy Growth to Model Water Temperature. Hydrology. 6(1), 
Peek, R. A., Bedwell M., O'Rourke S. M., Goldberg C., Wengert G. M., & Miller M. R. (2019).  Hybridization between two parapatric ranid frog species in the northern Sierra Nevada, California, USA. Molecular ecology. 28, 4636–4647.
Yarnell, S. M., Peek R. A., Keung N., Todd B. D., Lawler S., & Brown C. (2019).  A lentic breeder in lotic waters: Sierra Nevada Yellow-Legged Frog (Rana sierrae) habitat suitability in northern Sierra Nevada streams. Copeia.
Lukk, A., Vasquez-Housely P., Lusardi R., & Willis A. D. (2019).  Little Shasta River 2017-2019: Pre-Project Assessment of the Proposition 1 Ecosystem Restoration Grant Activities. PDF icon LS_Pre-ProjectReport2019.pdf (3.97 MB)
Walden, G. K., Darin G. M. S., Grewell B., Kratville D., Mauldin J., O'Brien J., et al. (2019).  Noteworthy collections, California (Alternanthera philoxeroides). Madrono. 66(1), 
Jeffres, C. A., & Adams C. (2019).  Novel life history tactic observed in fall-run Chinook Salmon. Ecology. 100(10), 
Pinter, N., Brasington J., Gurnell A., Kondolf G. Matthias, Tockner K., Wharton G., et al. (2019).  River research and applications across borders. River Research and Applications. early view online,
Feyrer, F., Whitman G., Young M., & Johnson RC. (2019).  Strontium isotopes reveal ephemeral streams used for spawning and rearing by an imperilled potamodromous cyprinid Clear Lake hitch Lavinia exilicauda chi. Marine and Freshwater Research. https://doi.org/10.1071/MF18264,
O'Rear, T., Moyle P. B., & Durand J. R. (2019).  Suisun Marsh Fish Study: trends in fish and invertebrate populations of Suisun Marsh January 2017 - December 2017. PDF icon Suisun Marsh Fish Report 2017 Final - No Appendix (low res).pdf (2 MB)PDF icon Suisun Marsh Fish Report 2017 Final - Appendix (low res).pdf (398.3 KB)
Munsch, S. H., Greene C. M., Johnson R. C., Satterthwaite W. H., Imaki H., & Brandes P. L. (2019).  Warm, dry winters truncate timing and size distribution of seaward‐migrating salmon across a large, regulated watershed. Ecological Application. https://esajournals.onlinelibrary.wiley.com/doi/epdf/10.1002/eap.1880,
2018
Steel, A. E., Peek R. A., Lusardi R. A., & Yarnell S. M. (2018).  Associating metrics of hydrologic variability with benthic macroinvertebrate communities in regulated and unregulated snowmelt-dominated rivers. Freshwater Biology. 63(8), 844-858.
O'Rear, T. (2018).  Delta Smelt and Salmon Habitats Beyond the Estuary. (Moyle, P. B., & Durand J. R., Ed.). PDF icon Delta Smelt Salmon Beyond Estuary (BDSC) - 1 of 2.pdf (1.68 MB)PDF icon Delta Smelt Salmon Beyond Estuary (BDSC) - 2 of 2.pdf (1.6 MB)PDF icon Delta Smelt and Salmon Beyond the Estuary - Abstract.pdf (95.01 KB)
Moyle, P. B., Hobbs J., & Durand J. R. (2018).  Delta Smelt and the Politics of Water in California. Fisheries. 43,
Milner, V., Yarnell S. M., & Peek R. A. (2018).  The ecological importance of unregulated tributaries to macroinvertebrate diversity and community composition in a regulated river. Hydrobiologia. 829, 291-305.
Phillis, C.C., Sturrock A.M., Johnson RC., & Weber P.K. (2018).  Endangered winter-run Chinook salmon rely on diverse rearing habitats in a highly altered landscape.. Biological Conservation. 217, PDF icon Phillis_et_al_2017_Biological_Conservation.pdf (907.84 KB)
Baumsteiger, J., O'Rear T., Cook J., Manfree A., & Moyle P. B. (2018).  Factors affecting distribution and abundance of jellyfish medusae in a temperate estuary: a multi-decadal study. Biological Invasions.
Willmes, M., Hobbs J. A., Sturrock A.M., Bess Z., Lewis L.S., Glessner JG., et al. (2018).  Fishery collapse, recovery, and the cryptic decline of wild salmon on a major California River. Canadian Journal of Fisheries and Aquatic Sciences. PDF icon cjfas-2017-0273.pdf (7.7 MB)
Howard, J. K., Fesenmyer K., Grantham T. E., Viers J. H., Ode P., Moyle P. B., et al. (2018).  A Freshwater Conservation Blueprint for California: Prioritizing Watersheds for Freshwater Biodiversity. Freshwater Science. 37(2), 
Morais, P., Dias E., Cerveira I., Carlson S.M., Johnson R.C., & Sturrock A.M. (2018).  How Scientists Reveal The Secret Migrations of Fish. Frontiers for Young Minds. 6(67), PDF icon Morais et al 2018 secret migrations of fish frym-06-00067_small.pdf (536.93 KB)
Whipple, A. (2018).  Managing flow regimes and landscapes together: Hydrospatial analysis for evaluating spatiotemporal floodplain inundation patterns with restoration and climate change implications. Hydrologic Sciences. Doctor of Philosophy, 255.PDF icon Whipple_Dissertation_2018.pdf (10.15 MB)
Herbold, B. (2018).  Managing for salmon resilience in California’s variable and changing climate. (Carlson, SM., Henery R., Johnson RC., Mantua N., Moyle P. B., & Sommer T., Ed.).San Francisco Estuary and Watershed Sciences. 16(2), PDF icon SFEWS_Herbold_0818_final.pdf (6.85 MB)
Willis, A. (2018).  South Fork Scott River: Preliminary Assessment of Bouvier Ranch for Coho Recovery. PDF icon Preliminary Assessment of Bouvier Ranch for Coho Recovery_FINAL_8-1-2018.pdf (1.43 MB)
Lusardi, R. A., Jeffres C. A., & Moyle P. B. (2018).  Stream macrophytes increase invertebrate production and fish habitat utilization in a California stream. River Research and Applications. PDF icon Lusardietal2018.pdf (548.37 KB)
O'Rear, T., Durand J. R., & Moyle P. (2018).  Suisun Marsh Fish Study: trends in fish and invertebrate populations of Suisun Marsh January 2016 - December 2016. PDF icon Suisun Marsh Fish Report 2016 Final.pdf (1.77 MB)
2017
Baumsteiger, J., & Moyle P. B. (2017).  Assessing Extinction. Bioscience. 67,
Kopf, R.K., Nimmo D.G., Humphries P., Baumsteiger J., Bode M., Bond N.R., et al. (2017).  Confronting the risks of large-scale invasive species control. Nature Ecology & Evolution. 1,
Adams, L., Lund J. R., Moyle P. B., Quiñones R. M., Herman J., & O'Rear T. (2017).  Environmental hedging: Theory and method for reconciling reservoir operations for downstream ecology and water supply. Water Resources Research.
Hobbs, J. A., Moyle P. B., Fangue N., & Connon R.E. (2017).  Is extinction inevitable for Delta Smelt and Longfin Smelt? An opinion and recommendations for recovery.. San Francisco Estuary and Watershed Science . 15(2), 
Whipple, A., Viers J. H., & Dahlke H. (2017).  Flood regime typology for floodplain ecosystem management as applied to the unregulated Cosumnes River of California, United States. Ecohydrology. 10(e1817), 
Katz, J., Jeffres C., Conrad L., Sommer T., Martinex J., Brumbaugh S., et al. (2017).  Floodplain farm fields provide novel rearing habitat for Chinook salmon. PLoS ONE. 12(6), 
Opperman, J.J., Moyle P. B., Larsen E.W., Florsheim J.L., & Manfree A. D. (2017).  Floodplains: Processes and Management for Ecosystem Services. 258.
Baumsteiger, J., Moyle P. B., S.A. A., O'Rourke S. M., & Miller M. R. (2017).  Genomics Clarifies Taxonomic Boundaries in a Difficult Species Complex.. PLoS ONE. 12(12), 
Young, M., Berridge K., O'Rear T., Moyle P. B., & Durand J. R. (2017).  Habitat partitioning by native and non-native fishes and decapods in novel habitats of the upper San Francisco Estuary. Biological Invasions.
Heublein, J., Bellmer R., Chase RD., Doukakis P., Gingras M., Hampton D., et al. (2017).  Improved fisheries management through life stage monitoring: the case for the Southern Distinct Population Segment of North American Green Sturgeon and the Sacramento-San Joaquin River White Sturgeon. NOAA Technical Memorandum . NMFS-SWFSC-588, PDF icon NOAA-TM-NMFS-SWFSC-588.pdf (1.53 MB)
Heublein, J., Bellmer R., Chase RD., Doukakis P., Gingras M., Hampton D., et al. (2017).  Life history and current monitoring inventory of San Francisco Estuary sturgeon. NOAA Technical Memorandum . NMFS-SWFSC-589, PDF icon NOAA-TM-NMFS-SWFSC-589.pdf (420.07 KB)
Nichols, A. L., Lusardi R. A., & Willis A. (2017).  Little Shasta River Aquatic Habitat Assessment 2016. PDF icon Little Shasta River Aquatic Habitat Assessment 2016.pdf (2.15 MB)
Baumsteiger, J., Schroeter R., O'Rear T., Cook J., & Moyle P. B. (2017).  Long-term surveys show invasive overbite clams (Potamocorbula amurensis) are spatially limited in Suisun Marsh. San Francisco Estuary and Watershed Science. 15(1), 
Mount, JF., Gray B., Chappelle C., Gartrell G., Grantham T. E., Moyle P. B., et al. (2017).  Managing California's Freshwater Ecosystems: Lessons from the 2012-16 Drought.. Public Policy Institute of California.
Nichols, A. L., & Viers J. H. (2017).  Not all breaks are equal: Variable hydrologic and geomorphic responses to intentional levee breaches along the lower Cosumnes River, California. River Research and Applications. PDF icon rra3159.pdf (6.52 MB)
Lund, J. R., Hui R., Escriva-Bou A., Porse E., Adams L., Connaughton J., et al. (2017).  Reservoir Operation Design. The Handbook of Applied Hydrology.
Johnson, RC., Windell S., Brandes P., Conrad JL., Ferguson J., Goertler PAL., et al. (2017).  Science advancements key to increasing management value of life stage monitoring networks for endangered Sacramento River Winter run Chinook salmon in California. San Francisco Estuary and Watershed Science. 13(3), PDF icon Johnson_2017_SFEWS.pdf (3.55 MB)
Windell, S., Brandes PL., Conrad JL., Ferguson JW., Goertler PAL., Harvey BN., et al. (2017).  Scientific framework for assessing factors influencing endangered Sacramento River winter-run Chinook (Oncorhynchus tshawytscha) across the life cycle. NOAA Technical Memorandum . NMFS-SWFSC-586, PDF icon NOAA-TM-NMFS-SWFSC-586_Final.pdf (1.62 MB)