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Moyle, P. B. (1976).  Fish introductions in California: History and impact on native fishes. Biological Conservation. 9(2), 101 - 118.
Moyle, P. B., Israel JA., & Purdy SE. (2008).  Salmon, steelhead, and trout in California: status of an emblematic fauna. 316.
Moyle, P. B. (1998).  Review of “Fisheries Conservation and Management” by M. R. Ross. Copeia .
Moyle, P. B., & Yoshiyama R. M. (1992).  Fishes, aquatic diversity management areas, and endangered species: a plan to protect California's native aquatic biota. California Policy Seminar.
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.
Moyle, P. B. (2000).  Restoring aquatic ecosystems is a matter of values. California Agriculture. 54(2), 16–25.
Moyle, P. B. (1982).  Keys to the inland fishes of California. 34, 16pp.
Moyle, P. B. (1989).  Review of P. C. Trotter, Cutthroat: Native Trout of the West, and R. E. Greswell, Status and Management of Interior Stocks of Cutthroat Trout. Copeia . 811-812.
Moyle, P. B., Williams J. E., & Wikramanayake E. D. (1989).  Fish species of special concern in California. 222.
Moyle, P. B., Kiernan J. D., & Williams J. G. (2011).  Improving Environmental Flow Methods Used in California Ferc Licensing.
Moyle, P. B., Herbold B., & Daniels R. A. (1982).  Resource partitioning in a non-coevolved assemblage of estuarine fishes. (Caillet, G.. M., & Simenstad C.. A., Ed.).Proceedings of the Third Pacific Workshop on Fish Food Habit Studies. 178-184.
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)
Moyle, P. B., & E. G-B. (2011).  Fish. (D., S., & M. R., Ed.).Encyclopedia of invasive introduced species. 229-234.
Moyle, P. B., Randall P. J., & Yoshiyama R. M. (1996).  Potential aquatic diversity management areas in the Sierra Nevada. Sierra Nevada Ecosystem Project: Final report to Congress , Vol. III, assessments, commissioned reports, and background information. 3, 409-478.
Moyle, P. B. (1977).  Are coarse fish a curse? . Fly Fisherman, Early Season . 8, 35-39.
Moyle, P. B., & Li H. W. (1979).  Community ecology and predator-prey relations in warmwater streams. (Clepper, H.. W., Ed.).Predator-prey systems in fisheries management. 171–180.
Moyle, P. B., Manfree A. D., & Fiedler P. L. (2013).  The Future of Suisun Marsh as Mitigation Habitat. San Francisco Estuary and Watershed Science. 11(3), 
Moyle, P. B. (2003).  Goose Lake redband trout: high desert survivors. Streamkeepers Log . 103,
Moyle, P. B., Yoshiyama R.. M., Williams J. E., & Wikramanayake E. D. (1995).  Fish species of special concern in California. 272.
Moyle, P. B., Fisher FW., & Li HW. (1974).  Mississippi Silversides and Logperch In Sacramento San-Joaquin River System. California Fish and Game . 60, 144-149.
Moyle, P. B., & Israel J. A. (2005).  Untested assumptions: Effectiveness of Screening Diversions for Conservation of Fish Populations. Fisheries. 30(5), 20-28.
Moyle, P. B. (1991).  Review of R. Pethiyagoda, Freshwater Fishes of Sri Lanka. The Wildlife Heritage Trust of Sri Lanka, Colombo. . Copeia . 1991, 1166-1177.
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. (1966).  Feeding Behavior of the Glaucous-Winged Gull on an Alaskan Salmon Stream. The Wilson Bulletin. 78(2), 175-190.
Moyle, P. B. (1999).  Effects of invading species on freshwater and estuarine ecosystems. Invasive species and biodiversity management. 177-191.
Moyle, P. B., & F Senanayake R. (1981).  Conservation of ornamental freshwater fishes in Sri Lanka.. Tigerpaper. 8, 1-3.
Moyle, P. B. (1986).  Fish Introductions into North America: Patterns and Ecological Impact. (Mooney, H. A., & Drake J. A., Ed.).Ecology of Biological Invasions of North America and Hawaii. 58, 27-43.
Moyle, P. B., Lund J. R., Bennett W. A., & Fleenor W. E. (2010).  Habitat Variability and Complexity in the Upper San Francisco Estuary. San Francisco Estuary and Watershed Science. 8(3), 
Moyle, P. B., & Daniels R. A. (1982).  Fishes of the Pit River System, McCloud River System, and Surprise Valley Region. (Moyle, P. B., Ed.).Distribution and Ecology of Stream Fishes of the Sacramento-San Joaquin Drainage System, California. Publications in Zoology. 115, 1-82.
Moyle, P. B., Brown L. R., Chase S. D., & Quiñones R. M. (2009).  Status and conservation of lampreys in California.
Moyle, P. B. (2008).  Review of: Analysis and interpretation of freshwater fisheries data. (Guy, CS., & Brown ML., Ed.).Quarterly Review of Biology. 83, 203-204.
Moyle, P. B., Yoshiyama R. M., & Knapp R. A. (1996).  Status of fish and fisheries. Sierra Nevada ecosystem project: Final report to Congress Vol. II, assessments, commissioned reports, and background information. 2, 953-973.
Moyle, P. B. (1976).  Inland Fishes of California. 405.
Moyle, P. B., Brown L. R., & Quiñones R. M. (2010).  Status and conservation of lampreys in California. Biology, management, and conservation, of lampreys in North America. 72, 279-292.
Moyle, P. B. (1998).  Review of “Web of Water: Life in Redwood Creek” by M. Khosla. California Coast and Ocean . 14(1), 
Moyle, P. B. (1993).  Fish: an enthusiast's guide. 272.
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.
Moyle, P. B., & Davis L. H. (2001).  A list of freshwater, anadromous, and euryhaline fishes of California. California Fish and Game. 86(4), 244–258.
Moyle, P. B. (1991).  Ballast water introductions. Fisheries. 16, 4–6.
Moyle, P. B., & Williams J. E. (1990).  Biodiversity Loss in the Temperate Zone: Decline of the Native Fish Fauna of California. Conservation Biology. 4(3), pp. 275-284.
Moyle, P. B., & F. Senayake R. (1984).  Resource partitioning among the fishes of rainforest streams in Sri Lanka. Journal of Zoology. 202(2), 195–223.
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)
Moyle, P. B. (2011).  Review of Community ecology of stream fishes: concepts, approaches, and techniques, edited by K.B. Gido and D. A. Jackson. Quarterly Review of Biology . 86(339), 
Moyle, P. B., & Light T.. (1996).  Biological invasions of fresh water: Empirical rules and assembly theory. Biological Conservation. 78(1-2), 149 - 161.
Moyle, P. B. (1977).  More on Nile perch. SFI Bulletin . 281, 7.
Moyle, P. B., Andrews RE., Jenkins RM., Noble R.. L., Saila S.. B., & Wick W.. O. (1979).  Research needs in fisheries. Transactions of the 44th North American Wildlife and Natural Resources Conference. 176-187.
Moyle, P. B., Quiñones R. M., Katz J. V. E., & Weaver J. (2015).  Fish Species of Special Concern in California. Sacramento: California Department of Fish and Wildlife. https://www.wildlife.ca.gov/Conservation/Fishes/Special-Concern,
Moyle, P. B. (2003).  Eagle Lake rainbow trout: survivors in a troubled habitat. Streamkeepers Log . 104,
Moyle, P. B. (1994).  The Decline of Anadromous Fishes in California. Conservation Biology. 8(3), 869-870.
Moyle, P. B. (1974).  Status of the Modoc sucker (Catostomus microps, Pisces: Catostomidae). Cal-Neva Wildlife. 1974, 35–38.