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2007
Jeffres, C., Mount JF., Moyle P. B., Deas M., Buckland E., Hammock B., et al. (2007).  Baseline Assessment of Salmonid Habitat and Aquatic Ecology of the Nelson Ranch, Shasta River, California Water Year 2007. PDF icon Read full report (1.9 MB)
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.
Lund, J. R., Hanak E., Fleenor W. E., Howitt R., Mount JF., & Moyle P. B. (2007).  Envisioning Futures for the Sacramento-San Joaquin Delta. 284.
Moyle, P. B., & Mount JF. (2007).  Homogenous rivers, homogenous faunas. Proceedings of the National Academy of Sciences. 104(14), 5711-5712.
Moyle, P. B., Crain P. K., & Whitener K. (2007).  Patterns In The Use Of A Restored California Floodplain By Native And Alien Fishes. San Francisco Estuary and Watershed Science. 5(3), 
Hanson, C., Landis P., Luce B., McBain S., Mitchell D., Moyle P. B., et al. (2007).  Recommendations on Restoring Spring-run Chinook Salmon to the Upper San Joaquin River. 34.
Mount, JF., Moyle P. B., Lund J. R., & Doremus H. (2007).  Regional Agreements, Adaptation, and Climate Change: New Approaches to FERC Licensing in the Sierra Nevada, California.
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.
2008
Kimmerer, W., Brown L. R., Culberson S.., Moyle P. B., Nobriga M., & Thompson J. (2008).  Aquatic ecosystems. (Healey, M., Dettinger M.., & Norgaard R.., Ed.).The State of Bay-Delta Science 2008. 55-72.
Eagles-Smith, C. A., Suchanek T. H., Colwell A. E., Anderson N. L., & Moyle P. B. (2008).  Changes in fish diets and mercury accumulation in Clear Lake, California: effects of an invasive planktivorous fish. Ecological Applications. 18(8 Supplement), A213-A226.
Lund, J. R., Hanak E., Fleenor W. E., Bennett W. A., Howitt R., Mount JF., et al. (2008).  Comparing Futures for the Sacramento-San Joaquin Delta.
Tanaka, S. K., Connell C. R., Madani K., Lund J. R., Hanak E., Medellín-Azuara J., et al. (2008).  The Economic Costs and Adaptations for Alternative Delta Regulations Technical Appendix F. Comparing Futures for the Sacramento-San Joaquin Delta..
Medellín-Azuara, J., Howitt R., Lund J. R., & Hanak E. (2008).  Economic Effects on Agriculture of Water Export Salinity South of the Sacramento-San Joaquin Delta. (Lund, J. R., Hanak E., Fleenor W. E., Bennett W. A., Howitt R., Mount JF., et al., Ed.).Comparing Futures for the Sacramento-San Joaquin Delta.
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), 
Bennett, W. A., Hanak E., Lund J. R., & Moyle P. B. (2008).  An expert survey on the viability of delta fish populations. Technical Appendix E to Comparing Futures for the Sacramento–San Joaquin Delta. 29.
Moyle, P. B. (2008).  The Future of Fish in Response to Large-Scale Change in the San Francisco Estuary, California. American Fisheries Society Symposium. 64,
Moyle, P. B., & Bennett W. A. (2008).  The future of the delta ecosystem and its fish. Technical Appendix D to Lund, J., et al., Comparing futures for the Sacramento-San Joaquin delta. 38.
Ribeiro, F., Elvira B., Collares-Pereira M. João, & Moyle P. B. (2008).  Life-history traits of non-native fishes in Iberian watersheds across several invasion stages: a first approach. Biological Invasions. 10(1), 89-102.
Kondolf, G.M., Angermeier P. L., Cummins K., Dunne T., Healey M., Kimmerer W., et al. (2008).  Projecting Cumulative Benefits of Multiple River Restoration Projects: An Example from the Sacramento-San Joaquin River System in California. Environmental Management. 42(6), 933-945.
Moyle, P. B. (2008).  Protecting migration routes. Issues in Science and Technology. 24 (summer)(4), 
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.
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., 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.
Moyle, P. B. (2008).  Serpentine haiku. California Coast and Ocean. 24(2), 40.
O'Rear, T., & Moyle P. B. (2008).  Trends in fish populations of Suisun Marsh January 2006 - December 2007.
2009
Jeffres, C., Dahlgren R. A., Kiernan J. D., King A. M., Lusardi R. A., Nichols A., et al. (2009).  Baseline Assessment of Physical and Biological Conditions Within Waterways on Big Springs Ranch, Siskiyou County, California. PDF icon Read full study (9.11 MB)
Hanak, E., Lund J. R., Dinar A., Gray B. E., Howitt R., Mount JF., et al. (2009).  California Water Myths.
Durand, J. R., Lusardi R. A., Suddeth R., Carmona-Catot G., Connell C., Gatzke S., et al. (2009).  Conceptual Ecosystem Model of the Sub-Arctic River Response to Climate Change: Kobuk River, Alaska.
Grimaldo, L. F., Sommer T., Van Ark N., Jones G., Holland E., Moyle P. B., et al. (2009).  Factors Affecting Fish Entrainment into Massive Water Diversions in a Tidal Freshwater Estuary: Can Fish Losses be Managed?. North American Journal of Fisheries Management. 29(5), 1253-1270.
Mosepele, K., Moyle P. B., Merron G. S., Purkey D. R., & Mosepele B. (2009).  Fish, Floods, and Ecosystem Engineers: Aquatic Conservation in the Okavango Delta, Botswana. BioScience. 59(1), 53-64.
Purdy, S., & Moyle P. B. (2009).  Mountain Meadows of the Sierra Nevada: An Integrated Means of Determining Ecological Condition in Mountain Meadows—Protocols and Results from 2006..
Ribeiro, F.., Collares-Pereira M.. J., & Moyle P. B. (2009).  Non-native fish in the fresh waters of Portugal, Azores and Madeira Islands: a growing threat to aquatic biodiversity. Fisheries Management and Ecology. 16(4), 255–264.
Williams, P. B., Andrews E., Opperman J.J.., Bozkurt S., & Moyle P. B. (2009).  Quantifying activated floodplains on a lowland regulated river: its application to floodplain restoration in the Sacramento Valley. San Francisco Estuary and Watershed Science. 7(1), 
Moyle, P. B., Brown L. R., Chase S. D., & Quiñones R. M. (2009).  Status and conservation of lampreys in California.
O'Rear, T., & Moyle P. B. (2009).  Trends in fish populations of Suisun Marsh January 2008 - December 2008.