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Distribution and abundance of molluscs in a freshwater environment. Journal of the Minnesota Academy of Science. 35, 82–85.(1969).
Decline of the Native Fish Fauna of the Sierra Nevada Foothills, Central California. American Midland Naturalist. 92(1), 72-83.(1974).
Desert fishes. Review of R. J. Naiman and D. L. Soltz (Editors), Fishes in North American Deserts. Environmental Biology of Fishes. 7, 395-397.(1982).
On the design of preserves to protect native fishes.. (Minckley, W. L., & Deacon J. E., Ed.).Battle against extinction: native fish management in the American West. 155-169.(1991).
Distribution, ecology, and status of the fishes of the San Joaquin River drainage, California. California Fish and Game. 79(3), 96–114.(1993).
The Decline of Anadromous Fishes in California. Conservation Biology. 8(3), 869-870.(1994).
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.(2003).
On developing prescriptions for freshwater flows to sustain desirable fishes in the Sacramento-San Joaquin Delta. 46.(2010).
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.(2011).
Dam removal and anadromous salmonid (Oncorhynchus spp.) conservation in California. Reviews in Fish Biology and Fisheries.(2014).
Dam removal and anadromous salmonid (Oncorhynchus spp.) conservation in California. Reviews in Fish Biology and Fisheries. 25(1), 195-215.(2015).
Delta Smelt: Life History and Decline of a Once Abundant Species in the San Francisco Estuary. San Francisco Estuary and Watershed Science.(2016).
Delta Smelt and the Politics of Water in California. Fisheries. 43,(2018).