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Baumsteiger, J., O'Rear T., Cook J., Manfree A., & Moyle P. B. (2017).  Factors affecting distribution and abundance of jellyfish medusae in a temperate estuary: a multi-decadal study. Biological Invasions.
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), 
Jett, S. C., & Moyle P. B. (1986).  The Exotic Origins of Fishes Depicted on Prehistoric Mimbres Pottery from New Mexico. American Antiquity. 51(4), 688-720.
Moyle, P. B. (1985).  Exotic fishes and vacant niches: Review of W. R. Courtenay, Jr. and J. R. Stauffer, Jr. (Editors), Distribution, Biology, and Management of Exotic Fishes. The Johns Hopkins University Press, Baltimore, Maryland. Environmental Biology of Fishes . 13, 315-317.
Perales, M., Rowan J., & Moyle P. B. (2015).  Evidence of Landlocked Chinook Salmon Populations in California. North American Journal of Fisheries Management. 35(6), PDF icon Perales_Salmon.pdf (498.87 KB)
Moyle, P. B., & Randall P. J. (1998).  Evaluating the Biotic Integrity of Watersheds in the Sierra Nevada, California. Conservation Biology. 12(6), 1318–1326.
Tippets, W. E., & Moyle P. B. (1978).  Epibenthic Feeding by Rainbow Trout (Salmo gairdneri) in the McCloud River, California. Journal of Animal Ecology. 47(2), 549-559.
Jeffres, C., Opperman J.J., & Moyle P. B. (2008).  Ephemeral floodplain habitats provide best growth conditions for juvenile Chinook salmon in a California river. Environmental Biology of Fishes. 83(4), 
Durand, J. R., Lusardi R. A., Nover D., Suddeth R., Carmona-Catot G., Connell-Buck C., et al. (2011).  Environmental heterogeneity and community structure of the Kobuk River, Alaska, in response to climate change. Ecosphere. 2(4),  1-19.
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.
Lusardi, R. A., Bogan MT., Moyle P. B., & Dahlgren RA. (2016).  Environment shapes invertebrate assemblage structure differences between volcanic spring-fed and runoff rivers in northern California. Freshwater Science. 35(3), PDF icon Lusardietal2016.pdf (886.52 KB)
Moyle, P. B., & Holzhauser N. J. (1978).  Effects of the Introduction of Mississippi Silverside (Menidia audens) and Florida Largemouth Bass (Micropterus salmoides floridanus) on the Feeding Habits of Young-of-year Largemouth Bass in Clear Lake, California. Transactions of the American Fisheries Society. 107(4), 574-582.
Moyle, P. B. (1973).  Effects of Introduced Bullfrogs, Rana catesbeiana, on the Native Frogs of the San Joaquin Valley, California. Copeia. 1973(No. 1), 18-22.PDF icon SJ Frogs 1973.pdf (208.64 KB)
Marchetti, M. P., & Moyle P. B. (2001).  Effects of Flow Regime on Fish Assemblages in a Regulated California Stream. Ecological Applications. 11(2), 530-539.
Li, H. W., Moyle P. B., & Garrett R. L. (1976).  Effect of the Introduction of the Mississippi Silverside (Menidia audens) on the Growth of Black Crappie (Pomoxis nigromaculatus) and White Crappie (P. annularis) in Clear Lake, California. Transactions of the American Fisheries Society. 105(3), 404-408.
Moyle, P. B., & Nichols R. D. (1973).  Ecology of Some Native and Introduced Fishes of the Sierra Nevada Foothills in Central California. Copeia. 1973(3), 478-490.
Wikramanayake, E. D., & Moyle P. B. (1989).  Ecological structure of tropical fish assemblages in wet-zone streams of Sri Lanka. Journal of Zoology. 218(3), 503–526.
Moyle, P. B. (1973).  Ecological Segregation Among Three Species of Minnows (Cyprinidae) in a Minnesota Lake. Transactions of the American Fisheries Society. 102(4), 794-805.
Wintzer, A. P., Meek M. H., Moyle P. B., & May B. (2010).  Ecological insights into the polyp stage of non-native hydrozoans in the San Francisco Estuary. Aquatic Ecology. 45(2), 151-161.
Li, H. W., & Moyle P. B. (1981).  Ecological Analysis of Species Introductions into Aquatic Systems. Transactions of the American Fisheries Society. 110(6), 772-782.
Moyle, P. B. (2003).  Eagle Lake rainbow trout: survivors in a troubled habitat. Streamkeepers Log . 104,
Brown, L. R., & Moyle P. B. (1993).  Distribution, ecology, and status of the fishes of the San Joaquin River drainage, California. California Fish and Game. 79(3), 96–114.
Kershner, JL., Snider WM., Turner DM., & Moyle P. B. (1992).  Distribution and sequencing of mesohabitats: are there differences at the reach scale?. Rivers. 3, 179–190.
Moyle, P. B., & Bacon J. (1969).  Distribution and abundance of molluscs in a freshwater environment. Journal of the Minnesota Academy of Science. 35, 82–85.
O’Rear, T., & Moyle P. B. (2015).  Diets of two alien predators - adult striped bass and white catfish - in Suisun Marsh. PDF icon ORear CA NV AFS Presentation Striped Bass White Catfish Diets2015.pdf (2.89 MB)
Feyrer, F., Herbold B., Matern S. A., & Moyle P. B. (2003).  Dietary shifts in a stressed fish assemblage: Consequences of a bivalve invasion in the San Francisco Estuary. Environmental Biology of Fishes. 67(3), 277-288.
Aparicio, E., Carmona-Catot G., Moyle P. B., & García-Berthou E. (2011).  Development and evaluation of a fish-based index to assess biological integrity of Mediterranean streams. Aquatic Conservation: Marine and Freshwater Ecosystems. 21(4), 324–337.
Moyle, P. B. (1982).  Desert fishes. Review of R. J. Naiman and D. L. Soltz (Editors), Fishes in North American Deserts. Environmental Biology of Fishes. 7, 395-397.
Moyle, P. B., Brown L. R., Durand J. R., & Hobbs J. A. (2016).  Delta Smelt: Life History and Decline of a Once Abundant Species in the San Francisco Estuary. San Francisco Estuary and Watershed Science.
Moyle, P. B., Hobbs J., & Durand J. R. (2018).  Delta Smelt and the Politics of Water in California. Fisheries. 43,
Moyle, P. B., & Nichols R. D. (1974).  Decline of the Native Fish Fauna of the Sierra Nevada Foothills, Central California. American Midland Naturalist. 92(1), 72-83.
Moyle, P. B. (1994).  The Decline of Anadromous Fishes in California. Conservation Biology. 8(3), 869-870.
Quiñones, R. M., Grantham T. E., Harvey B. N., Kiernan J. D., Klasson M., Wintzer A. P., et al. (2014).  Dam removal and anadromous salmonid (Oncorhynchus spp.) conservation in California. Reviews in Fish Biology and Fisheries. PDF icon Dam removal and anadromous salmonid (Oncorhynchus spp.) conservation in California (655.17 KB)
Quiñones, R. M., Grantham T. E., Harvey B. N., Kiernan J. D., Klasson M., Wintzer A. P., et al. (2015).  Dam removal and anadromous salmonid (Oncorhynchus spp.) conservation in California. Reviews in Fish Biology and Fisheries. 25(1), 195-215.
Quiñones, R. M., Grantham T. E., Harvey B. N., Kiernan J. D., Klasson M., Wintzer A. P., et al. (2014).  Dam removal and anadromous salmonid (Oncorhynchus spp.) conservation in California. PDF icon Quinones et al 2014 dam removal.pdf (639.53 KB)
Courteney, WR., & Moyle P. B. (1992).  Crimes against biodiversity: the lasting legacy of fish introductions. Transactions of the 57th North American Wildlife and Natural Resource Conference. 57, 365-372.
Medellín-Azuara, J., Durand J. R., Fleenor W. E., Hanak E., Lund J. R., Moyle P. B., et al. (2013).  Costs of Ecosystem Management Actions for the Sacramento-San Joaquin Delta.
Moyle, P. B., & Ellison J. P. (1991).  A conservation-oriented classification system for the inland waters of California. California Fish and Game. 77, 161-180.
Moyle, P. B., & F Senanayake R. (1981).  Conservation of ornamental freshwater fishes in Sri Lanka.. Tigerpaper. 8, 1-3.
Moyle, P. B. (1995).  Conservation of native freshwater fishes in the Mediterranean-type climate of California, USA: A review. Biological Conservation. 72(2), 271 - 279.
F Senanayake, R., & Moyle P. B. (1982).  Conservation of freshwater fishes of Sri Lanka. Biological Conservation. 22(3), 181 - 195.
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,
Opperman, J.J., & Moyle P. B. (2005).  A conceptual model for floodplain restoration. Flood Management Association News . 15(4), 7-10.
Baltz, D. M., Moyle P. B., & Knight N. J. (1982).  Competitive Interactions Between Benthic Stream Fishes, Riffle Sculpin, Cottus gulosus, and Speckled Dace, Rhinichthys osculus. Canadian Journal of Fisheries and Aquatic Sciences. 39(11), 1502-1511.
Brown, L. R., Matern S. A., & Moyle P. B. (1995).  Comparative ecology of prickly sculpin, Cottus asper, and coastrange sculpin, C. aleuticus, in the Eel River, California. Environmental Biology of Fishes. 42(4), 329-343.
Moyle, P. B. (1969).  Comparative Behavior of Young Brook Trout of Domestic and Wild Origin. The Progressive Fish-Culturist. 31(1), 51-56.
Baird, I., Hogan Z., Phylaivanh B., & Moyle P. B. (2001).  A Communal Fishery for the Migratory Catfish Pangasius macronemain the Mekong River. Asian Fisheries Science. 14, 25–41.
Adams, P. B., Botsford L. W., Gobalet K. W., Leidy R. A., McEwan D. R., Moyle P. B., et al. (2007).  Coho Salmon are Native South of San Francisco Bay: A Reexamination of North American Coho Salmon's Southern Range Limit. Fisheries. 32(9), 441-451.
Moyle, P. B., Kiernan J. D., Crain P. K., & Quiñones R. M. (2013).  Climate change vulnerability of native and alien freshwater fishes of California: a systematic assessment approach. PDF icon Moyle et al 2013 fw fishes cc Plos One.pdf (734.37 KB)
Moyle, P. B. (2013).  Climate Change Vulnerability of Native and Alien Freshwater Fishes of California: A Systematic Assessment Approach . (Kiernan, J. D., Crain P. K., & Quiñones R. M., Ed.).PLoS ONE. PDF icon journal.pone_.0063883.pdf (734.37 KB)