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Moyle, P. B. (1996).  Status of aquatic habitat types. Sierra Nevada Ecosystem Project: Final report to Congress Vol. II, assessments, commissioned reports, and background information. 2, 945-952.
Hetbold, B., Jassby A.D., & Moyle P. B. (1992).  Status and trends report on aquatic resources in the San Francisco Estuary. 257.
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., Brown L. R., Chase S. D., & Quiñones R. M. (2009).  Status and conservation of lampreys in California.
Moyle, P. B., Quiñones R. M., & Brown L. R. (2010).  Status and conservation of lampreys in California.
Moyle, P. B., Lusardi R. A., Samuel P., & Katz J. V. E. (2017).  State of the Salmonids: Status of California's Emblematic Fishes 2017. PDF icon State of the Salmonids 2017 (8.35 MB)
Vondracek, B., Baltz D. M., Brown L. R., & Moyle P. B. (1989).  Spatial, seasonal and diel distribution of fishes in a California reservoir dominated by native fishes. Fisheries Research. 7(1-2), 31 - 53.
Marchetti, M. P., & Moyle P. B. (2000).  Spatial and Temporal Ecology of Native and Introduced Fish Larvae in Lower Putah Creek, California. Environmental Biology of Fishes. 58(1), 75-87.
Thompson, L. C., Voss J. L., Larsen R. E., Tietje W. D., Cooper R. A., & Moyle P. B. (2012).  Southern Steelhead, Hard Woody Debris, and Temperature in a California Central Coast Watershed. Transactions of the American Fisheries Society. 141(2), 275-284.
Adans, J.R., & Moyle P. B. (1975).  Some effects of impoundments on populations of stream fish. (Moyle, P. B., & Koch D.L., Ed.).Symposium on Trout/Nongame Fish Relationships in Streams. 17, 31-40.
Adans, J.R., & Moyle P. B. (1975).  Some effects of impoundments on populations of stream fish. (Moyle, P. B., & Koch D.L., Ed.).Symposium on Trout/Nongame Fish Relationships in Streams. 17, 31-40.
Moyle, P. B. (1976).  Some effects of channelization on the fishes and invertebrates of Rush Creek, Modoc County, California. California Fish and Game. 62, 179–186.
Moyle, P. B. (1980).  Sixteen species accounts of California endemic fishes. (Lee, D.S., Ed.).Atlas of North American Freshwater Fishes. 123, 164, 199, 200, 209, 345, 346, 347, 384, 385, 391, 582, 777, 803, 815, 819.
Moyle, P. B. (2008).  Serpentine haiku. California Coast and Ocean. 24(2), 40.
Baltz, D. M., & Moyle P. B. (1984).  Segregation by species and size classes of rainbow trout, Salmo gairdneri, and Sacramento sucker, Catostomus occidentalis, in three California streams. Environmental Biology of Fishes. 10(1-2), 101-110.
Baltz, D. M., Vondracek B., Brown L. R., & Moyle P. B. (1991).  Seasonal Changes in Microhabitat Selection by Rainbow Trout in a Small Stream. Transactions of the American Fisheries Society. 120(2), 166-176.
Hanak, E., Phillips C., Lund J. R., Durand J. R., Mount JF., & Moyle P. B. (2013).  Scientist and Stakeholder Views on the Delta Ecosystem. 106.
Moyle, P. B. (1993).  Saving California's salmon: The legacy of Ishi. Trout. Summer, 14-17.
Durand, J. R., & Moyle P. B. (2015).  San Francisco Estuary: Time for a Reconciliation Approach to Species Conservation.
Merz, J. E., & Moyle P. B. (2006).  Salmon, Wildlife, and Wine: Marine-Derived Nutrients in Human-Dominated Ecosystems of Central California. Ecological Applications. 16(3), 999-1009.
Moyle, P. B., Israel JA., & Purdy SE. (2008).  Salmon, steelhead, and trout in California: status of an emblematic fauna. 316.
Moyle, P. B., Israel J. A., & Purdy S. (2008).  Salmon, Steelhead and Trout in California: Status of an Emblematic Fauna.
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Herbold, B., Baltz D. M., Brown L. R., Grossinger R., Kimmerer W., Lehman P., et al. (2014).  The role of tidal marsh restoration in fish management in the San Francisco Estuary. San Francisco Estuary and Watershed Science. 12(1), 
Thompson, L. C., Voss J. L., Larsen R. E., Tietje W. D., Cooper R. A., & Moyle P. B. (2008).  Role of hardwood in forming habitat for southern California steelhead. Proceedings of the sixth California oak symposium: today's challenges, tomorrow's opportunities. USDA Forest Service General Technical Report PSW-GTR-217. 307-319.
Moyle, P. B., & Yoshiyama R. M. (1997).  The role of adaptive management in restoring chinook salmon to the Tuolumne River. (Wang, S. S. Y., & Carstens T., Ed.).Environmental and Coastal Hydraulics: Protecting the Aquatic Habitat. 557-562.
E., G-B., & Moyle P. B. (2011).  Rivers. (D., S., & M. R., Ed.).Encyclopedia of invasive introduced species. 609-612.
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. (1984).  Review of W. N. Eschmeyer and E. S. Herald, A Field Guide to Pacific Coast Fishes of North America from the Gulf of Alaska to Baja California. The Quarterly Review of Biology. 59, p. 85.
Moyle, P. B. (2004).  Review of Snakehead: fish out of water by Jay Dolan. CoCopeia . 710-711.
Moyle, P. B. (1991).  Review of Robert J. Wooton, Ecology of Teleost Fishes. Chapman and Hall, New York.. Quarterly Review of Biology . 66, 404pp.
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. (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. (2006).  Review of Freshwater Fishes of Mexico by Robert Rush Miller. (Miller, R. Rush, Ed.).Quarterly Review of Biology . 81,
Moyle, P. B. (1998).  Review of “Fisheries Conservation and Management” by M. R. Ross. Copeia .
Moyle, P. B. (1981).  Review of E. K. Balon (Editor), Charrs, salmonid fishes of the Genus Salvelinus. Transactions of the American Fisheries Society . 110, 313-316.
Moyle, P. B. (1980).  Review of D. L. Soltz and R. J. Naiman, The Natural History of Native Fishes in the Death Valley System. Natural History Museum of Los Angeles County Science Series 30. . Environmental Biology of Fishes . 5(1), 96.
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. (2003).  Review of Candiru: life and legend of bloodsucking catfishes by Stephen Spotte. Fisheries . 28(1), 
Moyle, P. B. (1987).  Review of C. H. Hocutt and E. O. Wiley, The Zoogeography of North American Freshwater Fishes. Aquaculture . 62, 171-172.
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. (2012).  Review of An entirely synthetic fish: how rainbow trout beguiled America and overran the world by Anders Halverson. Quarterly Review of Biology . 87(168), 
Moyle, P. B., Smith J. J., & Baltz D. M. (1982).  A Review. (Moyle, P. B., Ed.).Distribution and Ecology of Stream Fishes of the Sacramento-San Joaquin Drainage System, California. Publications in Zoology . 115, 255-256.
Moyle, P. B., Smith J. J., & Baltz D. M. (1982).  A Review. (Moyle, P. B., Ed.).Distribution and Ecology of Stream Fishes of the Sacramento-San Joaquin Drainage System, California. Publications in Zoology . 115, 255-256.
Kiernan, J. D., Moyle P. B., & Crain P. K. (2012).  Restoring native fish assemblages to a regulated California stream using the natural flow regime concept. Ecological Applications. 22(5), 10.PDF icon Kiernan et al. 2012, Ecological Applications (560.77 KB)
Moyle, P. B. (2000).  Restoring aquatic ecosystems is a matter of values. California Agriculture. 54(2), 16–25.
Crain, P. K., Moyle P. B., Woodley C., Cech J. J., Schwartz R., & May B. (2007).  Restoration of Sacramento perch to the San Francisco Estuary.
Moyle, P. B., Vondracek B., & Grossman G. D. (1983).  Responses of Fish Populations in the North Fork of the Feather River, California, to Treatments with Fish Toxicants. North American Journal of Fisheries Management. 3(1), 48-60.
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., & 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., 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.