Aasen, G. 2011. Fish Salvage at the State Water Project’s and Central Valley Project’s Fish Facilities during the 2010 Water Year. IEP Newsletter. Vol. 24, Number 1, Spring.
Aasen, G. 2012. Fish Salvage at the State Water Project’s and Central Valley Project’s Fish Facilities during the 2011 Water Year. IEP Newsletter. Vol. 25, Number 1, Fall/Winter.
Adams, P. B., C. B. Grimes, J. E. Hightower, S. T. Lindley, and M. L. Moser. 2002. Status Review for North American Green Sturgeon, Acipenser medirostris. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Adams_etal_2002_Status_Review_for_North_American_Green_Sturgeon_Ac.pdf?csf=1&web=1&e=4gQWFW</a >
Adams, P. B., C. B. Grimes, J. E. Hightower, S. T. Lindley, M. L. Moser, and M. J. Parsley. 2007. Population Status of North American Green Sturgeon, Acipenser medirostris. Environmental Biology of Fishes 79:339–356. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Adams_etal_2007_GreenSturgeonPopulationStatus.pdf?csf=1&web=1&e=I5way8</a >
Ahearn, D. S., J. H. Viers, J. F. Mount, and R. A. Dahlgren. 2006. Priming the Productivity Pump: Flood Pulse Driven Trends in Suspended Algal Biomass Distribution Across a Restored Floodplain. Freshwater Biology 51:1417–1433. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Ahearn_2006_Priming%20the%20Productivity%20Pump.pdf?csf=1&web=1&e=EfPYM6</a >
Ainsley, S., J. Pombo, T. Wright, and E. Loury. 2013. Pilot Study: The Feasibility of Using Fyke Traps in the Lower San Joaquin River to Capture Adult Striped Bass. FISHBIO, Oakdale, CA. July. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Ainsley_et_al_2013_Pilot%20Study%20The%20Feasibility%20of%20Using%20Fyke%20Traps%20in%20the%20Lower%20San%20Joaquin%20River%20to%20Capture%20Adult%20Striped%20Bass.pdf?csf=1&web=1&e=RCe90T</a >
Anderson, J. 2018. Using River Temperature to Optimize Fish Incubation Metabolism and Survival: A Case for Mechanistic Models. Researchgate Preprint. 10.1101/257154. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Anderson_2018_Using%20River%20Temperature%20to%20Optimize%20Fish%20Incubation%20Metabolism%20and%20Survival.pdf?csf=1&web=1&e=z7J2Mm</a >
Azat, J. 2012. Grandtab 2012.04.23: California Central Valley Chinook Population Database Report. California Department of Fish and Game, Sacramento, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Azat_2012_GrandTab.2023.06.26.pdf?csf=1&web=1&e=11fiSC</a >
Baerwald, M. R., B. M. Schreier, G. Schumer, and B. May. 2012. Detection of Threatened Delta Smelt in the Gut Contents of the Invasive Mississippi Silverside in the San Francisco Estuary using TaqMan Assays. Transactions of the American Fisheries Society 141(6):1600–1607. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Baerwald_et_al_2012_Detection%20of%20Threatened%20Delta%20Smelt%20in%20the%20Gut%20Contents%20of%20the%20Invasive%20Mississippi%20Silverside%20in%20the%20San%20Francisco%20Estuary%20using%20TaqMan%20Assays.pdf?csf=1&web=1&e=oqHpLE</a >
Barnett-Johnson, R., C. B. Grimes, C. F. Royer, and C. J. Donohoe. 2007. Identifying the Contribution of Wild and Hatchery Chinook Salmon (Oncorhynchus tshawytscha) to the Ocean Fishery Using Otolith Microstructure as Natural Tags. Canadian Journal of Fisheries and Aquatic Sciences 64(12):1683–1692. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Barnett-Johnson_etal_2007_Identifying%20the%20Contribution%20of%20Wild%20and%20Hatchery%20Chinook%20Salmon%20(Oncorhynchus%20tshawytscha)%20to%20the%20Ocean%20Fishery%20Using%20Otolith%20Microstructure%20as%20Natural%20Tags.pdf?csf=1&web=1&e=kYuCkd</a >
Baumsteiger, J., and P. B. Moyle. 2019. A Reappraisal of the California Roach/Hitch (Cypriniformes, Cyprinidae, Hesperoleucus/Lavinia) Species Complex. Zootaxa 4543(2):221–240. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Baumsteiger_Moyle_2019_A%20Reappraisal%20of%20the%20California%20Roach%20Hitch%20(Cypriniformes,%20Cyprinidae,%20HesperoleucusLavinia)%20Species%20Complex.pdf?csf=1&web=1&e=e2RT0Z</a >
Baxter, J. L. 1967. Summary of Biological Information on the Northern Anchovy Engraulis mordax Girard. California Cooperative Oceanic Fisheries Investigations Reports 11:110–116.t https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Baxter_1967_Summary%20of%20Biological%20Information%20on%20the%20Northern%20Anchovy%20Engraulis%20mordax%20Girard.pdf?csf=1&web=1&e=H0Aqbf</a >
Baxter, R. D. 1999. Status of Splittail in California. California Fish and Game 85:28–30.
Baxter, R., K. Hieb, S. DeLeón, K. Fleming, and J. Orsi. 1999. Report on the 1980-1995 Fish, Shrimp, and Crab Sampling in the San Francisco Estuary, California. Interagency Ecological Program for the Sacramento-San Joaquin Estuary, Technical Report 63, California Department of Fish and Game, Stockton, CA, 503 pp.
Baxter, R., R. Breuer, L. Brown, L. Conroy, F. Feyrer, S. Fong, K. Gehrts, L. Grimaldo, B. Herbold, P. Hrodey, A. Mueller-Solger, T. Sommer, and K. Souza. 2010. Pelagic Organism Decline Work Plan and Synthesis of Results. Interagency Ecological Program for the San Francisco Estuary. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Baxter_et_al_2010_Pelagic%20Organism%20Decline%20Work%20Plan%20and%20Synthesis%20of%20Results.pdf?csf=1&web=1&e=acNMSy</a >
Beamesderfer, R., M. Simpson, and G. Kopp. 2007. Use of Life History Information in a Population Model for Sacramento Green Sturgeon. Environmental Biology of Fishes 79:315–337. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Beamesderfer_etal_2007_Use%20of%20Life%20History%20Information%20in%20a%20Population%20Model%20for%20Sacramento%20Green%20Sturgeon.pdf?csf=1&web=1&e=dLLF1Y</a >
Beamish, R. J. 1980. Adult Biology of the River Lamprey (Lampetra ayresi) and the Pacific Lamprey (Lampetra tridentata) from the Pacific Coast of Canada. Canadian Journal of Fish and Aquatic Science 53:2898–2908. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Beamish_1980_Adult%20Biology%20of%20the%20River%20Lamprey%20(Lampetra%20ayresi)%20and%20the%20Pacific%20Lamprey%20(Lampetra%20tridentata)%20from%20the%20Pacific%20Coast%20of%20Canada.pdf?csf=1&web=1&e=f2Rb0L</a >
Bell, M. C. 1986. Fisheries Handbook of Engineering Requirements and Biological Criteria. U.S. Army Corps of Engineers, Fish Passage Development and Evaluation Program, Sacramento, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bell_1986_Fisheries%20Handbook%20of%20Engineering%20Requirements%20and%20Biological%20Criteria.pdf?csf=1&web=1&e=erNfBY</a >
Bennett, W. A. 2005. Critical Assessment of the Delta Smelt Population in the San Francisco Estuary, California. San Francisco Estuary and Watershed Science 3(2). Available: https://escholarship.org/uc/item/0725n5vk</a >.
Bennett, W. A., and J. R. Burau. 2015. Riders on the Storm: Selective Tidal Movements Facilitate the Spawning Migration of Threatened Delta Smelt in the San Francisco Estuary. Estuaries and Coasts 38(3):826–835. doi: http://dx.doi.org/10.1007/s12237-014-9877-3</a >. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bennett_Burau_2015_Riders%20on%20the%20Storm.pdf?csf=1&web=1&e=Dr1vwJ</a >
Bennett, W. A., and P. B. Moyle. 1996. Where Have All The Fishes Gone? Interactive Factors Producing Fish Declines in the Sacramento-San Joaquin Estuary. In San Francisco Bay: the Ecosystem, ed. J. T. Hollibaugh, 519–542. American Association for the Advancement of Science, Pacific Division, San Francisco, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/bennett_moyle_1996_where%20have%20all%20the%20fish%20gone.pdf?csf=1&web=1&e=7Z9KYy</a >
Bennett, W. A., W. J. Kimmerer, and J. R. Burau. 2002. Plasticity in Vertical Migration by Native and Exotic Estuarine Fishes in a Dynamic Low-Salinity Zone. Limnology and Oceanography 47(5):1496–1507. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bennett_etal_2002_Plasticity%20in%20vertical%20migration%20by%20native%20and%20exotic%20estuarine%20fishes%20in%20a.pdf?csf=1&web=1&e=vP8G71</a >
Benson, R. L., S. Turo, and B. W. McCovey. 2007. Migration and Movement Patterns of Green Sturgeon (Acipenser medirostris) in the Klamath and Trinity Rivers, California, USA. Environmental Biology of Fishes 79:269–279. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Benson_etal_2007_MigrationmovementsofGreenSturgeonintheKlamathandTrinity.pdf?csf=1&web=1&e=lkfj3Q</a >
Bergen, D. R., and L. D. Jacobson. 2001. Northern Anchovy. In California’s Living Marine Resources: A Status Report, edited by W. S. Leet, C. M. Dewees, R. Klingbeil, and E. J. Larson, 303–305. California Department of Fish and Game. Publication SG01-11. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bergen_Jacobson_2001_Northern%20Anchovy_In%20California%E2%80%99s%20Living%20Marine%20Resources%20A%20Status%20Report.pdf?csf=1&web=1&e=Ip6DuY</a >
Bever, A. J., M. L. MacWilliams, B. Herbold, L. R. Brown and F. V. Feyrer. 2016. Linking Hydrodynamic Complexity to Delta Smelt (Hypomesus transpacificus) Distribution in the San Francisco Estuary, USA. San Francisco Estuary and Watershed Science 14(1). Available: https://escholarship.org/uc/item/2x91q0fr</a >.
Bever, A. J., M. L. MacWilliams, and D. K. Fullerton. 2018. Influence of an Observed Decadal Decline in Wind Speed on Turbidity in the San Francisco Estuary. Estuaries and Coasts 41:1943–1967. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bever_et_al_2018_Influence%20of%20an%20Observed%20Decadal%20Decline%20in%20Wind%20Speed%20on%20Turbidity%20in%20the%20San%20Francisco%20Estuary.pdf?csf=1&web=1&e=5vfqDo</a >
Blackburn, S. E., M. L. Gingras, J. DuBois, Z. J. Jackson, and M. C. Quist. 2019. Population Dynamics and Evaluation of Management Scenarios for White Sturgeon in the Sacramento–San Joaquin River Basin. North American Journal of Fisheries Management 39(5):896–912. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Blackburn_etal_2019_Population%20Dynamics%20and%20Evaluation%20of%20Management%20Scenarios%20for%20White%20Sturgeon%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20River%20Basin.pdf?csf=1&web=1&e=0MBlq7</a >
Bottom, D. L., K. K. Jones, and M. J. Herring. 1984. Fishes of the Columbia River Estuary. Columbia River Estuary Data Development Program. Oregon Department of Fish and Wildlife, Portland, OR. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bottom_etal_1984_Fishes%20of%20the%20Columbia%20River%20Estuary.pdf?csf=1&web=1&e=X7abl0</a >
Boughton, D. A. and A. S. Pike. 2013. Floodplain Rehabilitation as a Hedge against Hydroclimatic Uncertainty in a Migration Corridor of Threatened Steelhead. Conservation Biology 27(6):1158–1168. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Boughton_Pike_2013_Floodplain%20Rehabilitation%20as%20a%20Hedge%20against%20Hydroclimatic%20Uncertainty%20in%20a%20Migration%20Corridor%20of%20Threatened%20Steelhead.pdf?csf=1&web=1&e=HDFrYY</a >
Bouley, P., and W. J. Kimmerer. 2006. Ecology of a Highly Abundant, Introduced Cyclopoid Copepod in a Temperate Estuary. Marine Ecology Progress Series 324:219–228. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bouley_Kimmerer_2006_Ecology%20of%20a%20Highly%20Abundant,%20Introduced%20Cyclopoid%20Copepod%20in%20a%20Temperate%20Estuary.pdf?csf=1&web=1&e=8ZckLu</a >
Bourez, W. 2011. Subject: Relating Delta Smelt Index to X2 position, Delta Flows, and Water Use. Memorandum from MBK Engineers to the Northern California Water Association. December 15 https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bourez_2011_Subject%20Relating%20Delta%20Smelt%20Index%20to%20X2%20position,%20Delta%20Flows,%20and%20Water%20Use.pdf?csf=1&web=1&e=as0uKb</a >
Bowen, M., S. Siegfried, C. Liston, L. Hess, and C. Karp. 1998. Fish Collections and Secondary Louver Efficiency at the Tracy Fish Collection Facility, October 1993 to September 1995. Tracy Fish Collection Facility Studies, Volume 7. Bureau of Reclamation. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Bowen_etal_1998_Fish%20Collections%20and%20Secondary%20Louver%20Efficiency%20at%20the%20Tracy%20Fish%20Collection%20Facility,%20October%201993%20to%20September%201995.pdf?csf=1&web=1&e=vKTZbW</a >
Brandes, P. L., and J. S. McLain. 2001. Juvenile Chinook Salmon Abundance, Distribution, and Survival in the Sacramento-San Joaquin Estuary. In Fish Bulletin 179(2): Contributions to the Biology of the Central Valley Salmonids, edited by R. L. Brown, 39–136. Sacramento, CA: California Department of Fish and Game. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Brandes_McLain_2001_Juvenile%20Chinook%20Salmon%20Abundance,%20Distribution,%20and%20Survival%20in%20the%20Sacramento-San%20Joaquin%20Estuary.pdf?csf=1&web=1&e=aKJubq</a >
Brooks, M., E. Fleishman, L. Brown, P. Lehman, I. Werner, N. Scholz, C. Mitchelmore, J. Lovvorn, M. Johnson, D. Schlenk, S. van Drunick, J. Drever, D. Stoms, A. Parker, and R. Dugdale. 2012. Life Histories, Salinity Zones, and Sublethal Contributions of Contaminants to Pelagic Fish Declines Illustrated with a Case Study of San Francisco Estuary, California, USA. Estuaries and Coasts 35(2):603–621. doi: http://dx.doi.org/10.1007/s12237-011-9459-6</a >. Copyright protected. See introduction for more information. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/BrooksEtAl_2012_LifeHist-sal-zones.pdf?csf=1&web=1&e=VQgAww</a >
Brown, L. R. 2000. Fish Communities and Their Associations with Environmental Variables, Lower San Joaquin River Drainage, California. Environmental Biology of Fishes 57(3):251–269. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Brown_2000_Fish%20Communities%20and%20Their%20Associations%20with%20Environmental%20Variables,%20Lower%20San%20Joaquin%20River%20Drainage,%20California.pdf?csf=1&web=1&e=u8uDjI</a >
Brown, K. 2007. Evidence of Spawning by Green Sturgeon, Acipenser medirostris, in the Upper Sacramento River, California. Environmental Biology of Fishes 79:297–303. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Brown_2007_Evidence%20of%20Spawning%20by%20Green%20Sturgeon,%20Acipenser%20medirostris,%20in%20the%20Upper%20Sacramento%20River,%20California.pdf?csf=1&web=1&e=ZewlrT</a >
Brown, L. R. and D. Michniuk. 2007. Littoral Fish Assemblages of the Alien dominated Sacramento–San Joaquin Delta, California 1980–1983 and 2001–2003. Estuaries and Coasts 30:186–200. Copyright protected. See introduction for more information https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Brown%26Michniuk_2007_LittoralFish.pdf?csf=1&web=1&e=bqHZfQ</a >
Brown, L. R., and P. B. Moyle. 1993. Distribution, Ecology, and Status of Fishes of the San Joaquin River Drainage, California. California Fish and Game 79:96–113. Copyright protected. See introduction for more information
Brown, L. R., W. A. Bennett, R. W. Wagner, T. Morgan-King, N. Knowles, F. Feyrer, D. H. Schoelhamer, M.T. Stacey, and M. Dettinger. 2013. Implications for future survival of delta smelt from four climate change scenarios for the Sacramento-San Joaquin Delta, California. Estuaries and Coasts. DOI 10.1007/s12237-013-9585-4. Available : https://www.researchgate.net/publication/236626912_Implications_for_Future_Survival_of_Delta_Smelt_from_Four_Climate_Change_Scenarios_for_the_Sacramento–San_Joaquin_Delta_California
Brown L. R., L. M. Komoroske, R. W. Wagner, T. Morgan–King, J. T. May, R. E. Connon, N. A. Fangue. 2016. Coupled Downscaled Climate Models and Ecophysiological Metrics Forecast Habitat Compression for an Endangered Estuarine Fish: PLOS ONE 11(1):e0146724. doi: http://dx.doi.org/10.1371/journal.pone.0146724</a >.
Buchanan, R. A., J. R. Skalski, P. L. Brandes, and A. Fuller. 2013. Route Use and Survival of Juvenile Chinook Salmon through the San Joaquin River Delta. North American Journal of Fisheries Management 33(1):216-229. https://www.baydeltalive.com/assets/c5f67c17ca965d44d6e39c3bc257f5c8/application/pdf/Buchanan_et_al._2013_online.pdf Copyright protected. See introduction for more information.
Buchanan, R., P. Brandes, M. Marshall, J. S. Foott, J. Ingram, D. LaPlante, and J. Israel. 2015. 2012 South Delta Chinook Salmon Survival Study. Ed: P. Brandes, U.S. Fish and Wildlife Service. 145 p. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Buchanan_etal_2015_2012%20South%20Delta%20Chinook%20Salmon%20Survival%20Study.pdf?csf=1&web=1&e=C3fBDW</a >
Buchanan R. A., P. L. Brandes, and J. R. Skalski. 2018. Survival of Juvenile Fall-Run Chinook Salmon through the San Joaquin River Delta, California, 2010–2015. North American Journal of Fisheries Management 38(3):663–679. Available: https://doi.org/10.1002/nafm.10063</a >.. Copyright protected. See introduction for more information.
Buchanan, R. A., and J. R. Skalski. 2020. Relating Survival of Fall-Run Chinook Salmon through the San Joaquin Delta to River Flow. Environmental Biology of Fishes. doi: https://doi.org/10.1007/s10641-019-00918-y</a >. Copyright protected. See introduction for more information.
California Department of Fish and Game. 1980. California Trout, Salmon, and Warmwater Fish Production and Costs, 1978–79. Inland Fisheries Administrative Report No. 80-1. Inland Fisheries.
California Department of Fish and Game. 1986. Instream Flow Requirements of the Fish and Wildlife Resources of the Lower American River, Sacramento County, California. California Department of Fish and Game Stream Evaluation Report No. 86-1. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_1986_Instream%20Flow%20Requirements%20of%20the%20Fish%20and%20Wildlife%20Resources%20of%20the%20Lower%20American%20River,%20Sacramento%20County,%20California.pdf?csf=1&web=1&e=uUtHxe</a >
California Department of Fish and Game. 1998. A Status Review of the Spring-Run Chinook Salmon (Oncorhynchus tshawytscha) in the Sacramento River Drainage. Candidate Species Status Report 98-01. Fish and Game Commission, Sacramento, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_1998_A%20Status%20Review%20of%20the%20Spring-Run%20Chinook%20Salmon%20(Oncorhynchus%20tshawytscha)%20in%20the%20Sacramento%20River%20Drainage.pdf?csf=1&web=1&e=wbVMyO</a >
California Department of Fish and Game. 2001. Factors Affecting Anchovy Production Are Mostly Natural Influences, Such as Ocean Temperature. https://sitesreservoirproject.riptideweb.com/references/REF23/Volume%202/App11A_Aquatic_Spp_Life_Hist/CDFG_2001_Status%20Report_Northern%20Anchovy.pdf?csf=1&web=1&e=PaK8lB</a >
California Department of Fish and Game. 2002. California Department of Fish and Game Comments to NMFS Regarding Green Sturgeon Listing. Available: https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/deltaflow/docs/exhibits/nmfs/spprt_docs/nmfs_exh4_dfg_2002.pdf</a >.
California Department of Fish and Game. 2004. Sacramento River Winter-run Chinook Salmon. Biennial Report 2002 – 2003. Prepared for the Fish and Game Commission. June 2004. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2004_Sacramento%20River%20Winter-run%20Chinook%20Salmon.%20Biennial%20Report%202002%20%E2%80%93%202003.pdf?csf=1&web=1&e=UFaYMz</a >
California Department of Fish and Game. 2008. 2007 Sturgeon Fishing Report Card: Preliminary Data Report. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2009%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=pGUobZ</a >
California Department of Fish and Game. 2009a. A Status Review of the Longfin Smelt (Spirinchus thaleichthys) in California. Report to the Fish and Game Commission. January 23. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2009a_A%20Status%20Review%20of%20the%20Longfin%20Smelt%20(Spirinchus%20thaleichthys)%20in%20California.pdf?csf=1&web=1&e=Bxg39U</a >
California Department of Fish and Game. 2009b. 2008 Sturgeon Fishing Report Card: Preliminary Data Report. June 17. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2009%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=rdPfDv</a >
California Department of Fish and Game. 2010. 2009 Sturgeon Fishing Report Card: Preliminary Data Report. March 29. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2010%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=LUPl71</a >
California Department of Fish and Game. 2011. 2010 Sturgeon Fishing Report Card: Preliminary Data Report. April 20. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2011%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=EPVNxE</a >
California Department of Fish and Game. 2012a. Central Valley Chinook Salmon In-River Escapement Monitoring Plan. Fisheries Branch Administrative Report Number: 2012-1. January. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFG_2012a_Central%20Valley%20Chinook%20Salmon%20In-River%20Escapement.pdf?csf=1&web=1&e=xMAelW</a >
California Department of Fish and Game. 2012b. 2011 Sturgeon Fishing Report Card: Preliminary Data Report. March 23. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFW_2012%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=A50zAK</a >
California Department of Fish and Wildlife. 2013. 2012 Sturgeon Fishing Report Card: Preliminary Data Report. July 12. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFW_2012%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=vm8hvq</a >
California Department of Fish and Wildlife. 2014. 2013 Sturgeon Fishing Report Card: Preliminary Data Report. May 8. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDFW_2013%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=Syxi4U</a >
California Department of Fish and Wildlife. 2018a. Monthly Abundance Indices.
California Department of Fish and Wildlife. 2018b. Grand Tab 2018.04.09: California Central Valley Chinook Population Database Report. Compiled 9 April 2018. Available: https://nrm.dfg.ca.gov/FileHandler.ashx?DocumentID=156333&inline=1</a >.
California Department of Fish and Wildlife. 2018c. Historical Anadromous Fish Releases from CDFW Hatcheries. Available: https://nrm.dfg.ca.gov/FileHandler.ashx?DocumentID=156895</a >.
California Department of Fish and Wildlife. n.d. Spring Kodiak Survey: Egg Stages—Classification of Male Delta Smelt According to Mager (1996) and Mager (Personal Communication) and Classification of Female Delta Smelt According to Mager (1996) and Mager (Personal Communication). Available: https://wildlife.ca.gov/Conservation/Delta/Spring-Kodiak-Trawl/Egg-Stages</a >.
California Department of Water Resources. 2003. Fish Distribution in the Feather River downstream of Thermalito diversion dam to the Confluence with the Sacramento River. SP-F3.2 Task 1 and F21 Task 2. Draft Report. Oroville Facilities Relicensing FERC Project No. 2100.
California Department of Water Resources. 2004. Relationship Assessment of Fish/Wildlife Management and Recreation. Final. R-4. Oroville Facilities Relicensing FERC Project No. 2100. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDWR_2004_Relationship%20Assessment%20of%20FishWildlife%20Management%20and%20Recreation.pdf?csf=1&web=1&e=vKetg3</a >
California Department of Water Resources. 2007. Oroville Facilities Relicensing FERC Project No. 2100 Draft Environmental Impact Report. May. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDWR_2007_Oroville.pdf?csf=1&web=1&e=bHKBHX</a >
California Department of Water Resources, Bureau of Reclamation, U.S. Fish and Wildlife Service, and National Marine Fisheries Service. 2013. Environmental Impact Report/ Environmental Impact Statement for the Bay Delta Conservation Plan. Draft. December. </span >https://sitesreservoirproject.sharepoint.com/EnvPlanning/Administrative%20Record/Forms/AllItems.aspx?csf=1&web=1&e=nNmuqU&cid=9f984cda%2Dda35%2D4103%2Dabc6%2Db37553d72fdd&FolderCTID=0x0120005384B2454F47314B8E22DFB6DF2CA61F&id=%2FEnvPlanning%2FAdministrative%20Record%2F%5FFinal%20Admin%20Record%2FD%5FFinal%20EIR%2DEIS%2F03%2E0%5F%20Final%20EIR%2DEIS%20%20Documents%20Cited%2FVolume%202%2FApp11A%5FAquatic%5FSpp%5FLife%5FHist%2FCDWR%20et%20al%5FBDCP%5F2013%5FDraft%20EIR%2DEIS%2F2013%20BDCP%20EIR%2DEIS&viewid=5cafacb6%2Dd81e%2D4a85%2Db733%2D0a8459610d4b</a >
California Department of Water Resources. 2019. Incidental Take Permit Application for Long-term Operation of the California State Water Project. December. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDWR_2019_Incidental%20Take%20Permit%20Application%20for%20Long-term%20Operation%20of%20the%20California%20State%20Water%20Project.pdf?csf=1&web=1&e=NYGuwn</a >
California Department of Water Resources. 2020. Final Environmental Impact Report for Long-term Operation of the California State Water Project. State Clearinghouse No. 2019049121. March.
California Department of Water Resources and Bureau of Reclamation. 2012. Yolo Bypass Salmonid Habitat Restoration and Fish Passage Implementation Plan, Long-Term Operation of the Central Valley Project and State Water Project Biological Opinion Reasonable and Prudent Alternative Actions I.6.1 and I.7. Pages 1–140. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/CDWR_BoR_2012_Yolo%20Bypass%20Salmonid%20Habitat%20Restoration%20and%20Fish%20Passage%20Implementation%20Plan,%20Long-Term%20Operation%20of%20the%20Central%20Valley%20Project%20and%20State%20Water%20Project%20Biological%20Opinion%20Reasonable%20and%20Prudent%20Alternative%20Actions.pdf?csf=1&web=1&e=OHpjiX</a >
California Department of Water Resources and Bureau of Reclamation. 2017. Yolo Bypass Salmonid Habitat Restoration and Fish Passage. Draft Environmental Impact Statement/Environmental Impact Report. December. https://www.usbr.gov/mp/nepa/nepa_project_details.php?Project_ID=30484</a >
California Hatchery Scientific Review Group. 2012. California Hatchery Review Report. Prepared for the U.S. Fish and Wildlife Service and Pacific States Marine Fisheries Commission. June. https://swfsc-publications.fisheries.noaa.gov/publications/CR/2012/2012California.pdf
Carlson, S. M., and W. H. Satterthwaite. 2011. Weakened Portfolio Effect in a Collapsed Salmon Population Complex. Canadian Journal of Fisheries and Aquatic Sciences 68(9):1579–589. https://sitesreservoirproject.sharepoint.com/:b:/r/EnvPlanning/Administrative Record/_Final Admin Record/D_Final EIR-EIS/06.0_2021 RDEIR-SDEIS Documents Cited/Appx_11A_AquaticSpeciesLifeHistories/Carlson_Satterthwaite_2011_Weakened Portfolio Effect in a Collapsed Salmon Population Complex.pdf?csf=1&web=1&e=lZqgJU
Cavallo, B., P. Gaskill, J. Melgo, and S. C. Zeug. 2015. Predicting Juvenile Chinook Salmon Routing in Riverine and Tidal Channels of a Freshwater Estuary. Environmental Biology of Fishes 98(6):1571–1582. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Cavallo_2015_Predicting%20Juvenile%20Chinook%20Salmon%20Routing%20in%20Riverine%20and%20Tidal%20Channels%20of%20a%20Freshwater%20Estuary.pdf?csf=1&web=1&e=sucGCL</a >
Cayan D. R., M. Tyree, M. D. Dettinger, H. Hidalgo, T. Das, E. Maurer, P. D. Bromirski, N. Graham, and R. E. Flick. 2009. Climate Change Scenarios and Sea Level Rise Estimates for California – 2008 Climate Change Scenarios Assessment – Final Report. California Energy Commission, PIER Report CEC500-2009-014-F https://escholarship.org/content/qt8vh4m2qz/qt8vh4m2qz.pdf</a >
Cech, J. J., S. J. Mitchell, and T. E. Wragg. 1984. Comparative Growth of Juvenile White Sturgeon and Striped Bass: Effects of Temperature and Hypoxia. Estuaries 7:12–18. Copyright protected. See introduction for more information
Chapman, E. D., E. A. Miller, G. P. Singer, A. R. Hearn, M. J. Thomas, W. N. Brostoff, P. E. LaCivita, and A. P. Klimley. 2019. Spatiotemporal Occurrence of Green Sturgeon at Dredging and Placement Sites in the San Francisco Estuary. Environmental Biology of Fishes 102:27–40. https://www.researchgate.net/publication/330106995_Spatiotemporal_occurrence_of_green_sturgeon_at_dredging_and_placement_sites_in_the_San_Francisco_estuary</a >
Clark, F. N., and J. B. Phillips 1952. The Northern Anchovy (Engraulis mordax) in the California fishery. California Fish and Game 38(2):189–207. https://escholarship.org/content/qt1536j1nz/qt1536j1nz.pdf?t=lnqwjp</a > Copyright protected. See introduction for more information
Clear Creek Technical Team. 2018. Annual Report for the Coordinated Long-Term Operations Biological Opinion. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626314.pdf</a >
Clemens, B. J., M. G. Mesa, R. J. Magie, D. A. Young, and C. B. Schreck. 2012. Pre-spawning Migration of Adult Pacific Lamprey, Entosphenus Tridentatus, in the Willamette River, Oregon, U.S.A. Environmental Biology of Fishes 93:245–254. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Clemens_etal_2012_Pre-spawning%20Migration%20of%20Adult%20Pacific%20Lamprey,%20Entosphenus%20Tridentatus,%20in%20the%20Willamette%20River,%20Oregon,%20U.S.A..pdf?csf=1&web=1&e=bBxA0Y</a >
Cloern, J. E., Morinaka, N. Brown, R. L., Cayan, D., Dettinger, M. D., Morgan, T. L., Schoellhammer, D. H., Stacey, M. T., van der Wegen, M., Wagner, R. W., and A. D. Jassby. 2011. Projected Evolution of California’s San Francisco Bay-Delta-River System in a Century of Climate Change. PLOS ONE 6(9):e24465. DOI: 10.371/journal.pone.0024465. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Cloern_etal_2011_Projected%20Evolution%20of%20California%E2%80%99s%20San%20Francisco%20Bay-Delta-River%20System%20in%20a%20Century%20of%20Climate%20Change.pdf?csf=1&web=1&e=PusyH1</a >
Columbia Basin Research, University of Washington (CBR UW). (2020). SacPAS CDFW GrandTab Adult Escapement. Available: http://www.cbr.washington.edu/sacramento/data/query_adult_grandtab.html</a >.
Conrad, J. L., A. J. Bibian, K. L. Weinersmith, D. De Carion, M. J. Young, P. Crain, E. L. Hestir, M. J. Santos, and A. Sih. 2016. Novel Species Interactions in a Highly Modified Estuary: Association of Largemouth Bass with Brazilian Waterweed Egeria densa. Transactions of the American Fisheries Society 145(2):249–263. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Conrad_etal_2016_Novel_Species_Interactions-LMBass-Egeria.pdf?csf=1&web=1&e=P6AOH9</a >
Cordoleani, F., J. Notch, A. S. McHuron, A. J. Ammann, and C. J. Michel. 2018. Movement and Survival of Wild Chinook Salmon Smolts from Butte Creek During Their Out‐Migration to the Ocean: Comparison of a Dry Year versus a Wet Year. Transactions of the American Fisheries Society 147(1):171–184. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Cordoleani_etal_2018_Movement%20and%20Survival%20of%20Wild%20Chinook%20Salmon%20Smolts%20from%20Butte%20Creek%20During%20Their%20Out%E2%80%90Migration%20to%20the%20Ocean.pdf?csf=1&web=1&e=ZYIwul</a >
Cordoleani, F., J. Notch, A. S. McHuron, C. J. Michel, and A. J. Ammann. 2019. Movement and Survival Rates of Butte Creek Spring-Run Chinook Salmon Smolts from the Sutter Bypass to the Golden Gate Bridge in 2015, 2016, and 2017. NOAA Technical Memorandum NMFS-SWFSC-618. National Oceanic and Atmospheric Administration, National Marine Fisheries Service, Southwest Fisheries Science Center, Santa Cruz, CA. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Cordoleani_etal_2019_Movement%20and%20Survival%20Rates%20of%20Butte%20Creek%20Spring-Run%20Chinook%20Salmon%20Smolts%20from%20the%20Sutter%20Bypass%20to%20the%20Golden%20Gate%20Bridge%20in%202015,%202016,%20and%202017.pdf?csf=1&web=1&e=OmILhB</a >
Crain, P. K., and P. B. Moyle. 2011. Biology, History, Status and Conservation of Sacramento Perch, Archoplites interruptus: A Review. San Francisco Estuary and Watershed Science 9(1). Available: https://escholarship.org/uc/item/8st5g6df</a >.
Damon, L. J., S. B. Slater, R. D. Baxter, and R. W. Fujimura. 2016. Fecundity and Reproductive Potential of Wild Female Delta Smelt in the Upper San Francisco Estuary, California. California Fish and Game 102(4):188–210. Available: https://nrm.dfg.ca.gov/FileHandler.ashx?DocumentID=141865&inline</a >.
del Rosario, R. B., Y. J. Redler, K. Newman, P. L. Brandes, T. Sommer, K. Reece, and R. Vincik. 2013. Migration Patterns of Juvenile Winter-Run-Sized Chinook Salmon (Oncorhynchus tshawytscha) through the Sacramento–San Joaquin Delta. San Francisco Estuary and Watershed Science 11(1). Available: https://escholarship.org/uc/item/36d88128</a >.
Demetras, N. J., D. D. Huff, C. J. Michel, J. M. Smith, G. R. Cutter, S. A. Hayes, and S. T. Lindley. 2016. Development of Underwater Recorders to Quantify Predation of Juvenile Chinook Salmon (Oncorhynchus tshawytscha) in a River Environment. Fishery Bulletin (114):179–185. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Demetras_etal_2016_Development%20of%20Underwater%20Recorders%20to%20Quantify%20Predation%20of%20Juvenile%20Chinook%20Salmon%20(Oncorhynchus%20tshawytscha).pdf?csf=1&web=1&e=d8Mgxb</a >
Demetras, N. J., B. A. Helwig, and A. S. McHuron. 2020. Reported Vessel Strike as a Source of Mortality of White Sturgeon in San Francisco Bay. California Fish and Wildlife 106(1):59–65. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Demetras_etal_2020_ReportedvesselstrikeasasourceofmortalityofWhiteSturgeon.pdf?csf=1&web=1&e=wnerN9</a >
Dettinger, M. D. 2005. From Climate-Change Spaghetti to Climate-Change Distributions for 21st Century California. San Francisco Estuary and Watershed Science 3(1). Available: https://escholarship.org/uc/item/2pg6c039</a >.
Di Lorenzo, E., K. M. Cobb, J. C. Furtado, N. Schneider, B. T. Anderson, A. Bracco, M. A. Alexander, and D. J. Vimont. 2010. Central Pacific El Nino and Decadal Climate Change in the North Pacific Ocean. Nature Geoscience, 3(11):762. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/DiLorenzo_etal_2010_Central%20Pacific%20El%20Nino%20and%20Decadal%20Climate%20Change%20in%20the%20North%20Pacific%20Ocean.pdf?csf=1&web=1&e=slhojF</a >
Dill, W. A., and A. J. Cordone. 1997. Fish Bulletin 178: History and Status of Introduced Fishes in California, 1871–1996. Sacramento, CA: California Department of Fish and Game, Inland Fisheries Division. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Dill_Cordone_1997_Fish%20Bulletin%20178%20History%20and%20Status%20of%20Introduced%20Fishes%20in%20California,%201871%E2%80%931996.pdf?csf=1&web=1&e=7WfrQU</a >
DuBois, J., Harris, M. D. 2015. 2014 Sturgeon Fishing Report Card: preliminary data report. California Department of Fish and Wildlife. Stockton, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/DuBois_Harris_2014%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=dw4Aql</a >
DuBois, J., Harris, M. D. 2016. 2015 Sturgeon Fishing Report Card: preliminary data report. California Department of Fish and Wildlife. Stockton, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/DuBois_Harris_2015%20Sturgeon%20Card%20Complete%20Draft%20Version%201.pdf?csf=1&web=1&e=ayHNZE</a >
DuBois, J., Danos, A. 2017. 2016 Sturgeon Fishing Report Card: preliminary data report. California Department of Fish and Wildlife. Stockton, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/DuBois_Harris_2016%20Sturgeon%20Card%20Preliminary%20Data%20Report.pdf?csf=1&web=1&e=VMWt4E</a >
DuBois, J., Danos, A. 2018. 2017 Sturgeon Fishing Report Card: preliminary data report. California Department of Fish and Wildlife. Stockton, CA https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/DuBois_Harris_2017%20Sturgeon%20Card%20Preliminary%20Data%20Report.pdf?csf=1&web=1&e=US8Mrz</a >
Dudley, P. N. 2018. A Salmonid Individual-Based Model as a Proposed Decision Support Tool for Management of a Large Regulated River. Ecosphere 9(1):e02074. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Dudley_2018_A%20salmonid%20individual%E2%80%90based%20model%20as%20a%20proposed%20decision%20support%20tool%20for%20management%20of%20a%20large.pdf?csf=1&web=1&e=KF4I1X</a >
Dudley, P. N. 2019. Insights from an Individual Based Model of a Fish Population on a Large Regulated River. Environmental Biology of Fishes 102(8):1069–1095. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/DuBois_Harris_2016%20Sturgeon%20Card%20Preliminary%20Data%20Report.pdf?csf=1&web=1&e=zwdH5j</a >
Earley, J. T., D. J. Colby, and M. R. Brown. 2013. Juvenile Salmonid Monitoring in Sacramento River tributaries, California, from October 2009 through September 2010. U.S. Fish and Wildlife Service, Red Bluff Fish and Wildlife Office, Red Bluff, CA. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/california_waterfix/exhibits/docs/petitioners_exhibit/dwr/part2/DWR-1133%20Poytress%20et%20al.%202014.%20Juvenile%20Anadromous%20Fish%20Monitoring%20Compendium%20Report%20(2002-2012).pdf</a >
Emmett, R. L., S. L. Stone, S. A. Hinton, and M. E. Monaco. 1991. Distribution and Abundance of Fishes and Invertebrates in West Coast Estuaries, Volume II: Species Life History Summaries. ELMR Rep. No. 8. NOOAA/NOS strategic Environmental Assessments division, Rockville, MD, 329 p. https://repository.library.noaa.gov/view/noaa/2871
Erickson, D. L., J. A. North, J. E. Hightower, J. Weber, and L. Lauck. 2002. Movement and Habitat Use of Green Sturgeon Acipenser medirostris in the Rogue River, Oregon, USA. Journal of Applied Ichthyology 18:565–569. https://onlinelibrary.wiley.com/doi/abs/10.1046/j.1439-0426.2002.00403.x Copyright protected. See introduction for more information
Farley, T. C. 1966. Striped Bass, Roccus Saxatilis, Spawning in the Sacramento–San Joaquin River Systems during 1963 and 1964. In Fish Bulletin 136: Ecological Studies of the Sacramento–San Joaquin Estuary, Part II—Fishes of the Delta, edited by J. L. Turner and D. W. Kelley, 28–43. Sacramento, CA: California Department of Fish and Game. </span >https://sitesreservoirproject.sharepoint.com/EnvPlanning/Administrative%20Record/_Final%20Admin%20Record/D_Final%20EIR-EIS/06.0_2021%20RDEIR-SDEIS%20Documents%20Cited/Appx_11A_AquaticSpeciesLifeHistories/Farley_1966_Striped%20Bass,%20Roccus%20Saxatilis,%20Spawning%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20River%20Systems%20during%201963%20and%201964.pdf</a >
Federal Energy Regulatory Commission. 2007. Final Environmental Impact Statement for Hydropower License, Oroville Facilities. FERC Project No. 2100-052, California. https://catalog.gpo.gov/F/?func=direct&doc_number=000601828&format=999</a >
Ferrari, M. C. O., L. Ranåker, K. L. Weinersmith, M. J. Young, A. Sih, and J. L. Conrad. 2014. Effects of Turbidity and an Invasive Waterweed on Predation by Introduced Largemouth Bass. Environmental Biology of Fishes 97(1):79–90. Copyright protected. See introduction for more information
Feyrer, F., B. Herbold, S. A. Matern, and P. B. Moyle. 2003. Dietary Shifts in a Stressed Fish Assemblage: Consequences of a Bivalve Invasion in the San Francisco Estuary. Environmental Biology of Fishes 67:277–288. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/FeyrerEtAl_2003_dietaryshiftsstressedfish.pdf?csf=1&web=1&e=pM8EYI</a >
Feyrer, F., K. Newman, M. Nobriga, and T. Sommer. 2011. Modeling the Effects of Future Outflow on the Abiotic Habitat of an Imperiled Estuarine Fish. Estuaries and Coasts 34:120–128. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/FeyrerEtAl_2011_Modeling_effects.pdf?csf=1&web=1&e=kNRykS</a >
Feyrer, F., M. L. Nobriga, and T. R. Sommer. 2007. Multi-Decadal Trends for Three Declining Fish Species: Habitat Patterns and Mechanisms in the San Francisco Estuary, California, USA. Canadian Journal of Fisheries and Aquatic Sciences 64:723–734. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/FeyrerEtAl_2007_Multi-decadal.pdf?csf=1&web=1&e=Aegj8a</a >
Feyrer, F., Portz, D., Odum, D., Newman, K.B., Sommer, T., Contreras, D., Baxter, R., Slater, S.B., Sereno, D. and E. Van Nieuwenhuyse, 2013. SmeltCam: Underwater Video Codend for Trawled Nets with an Application to the Distribution of the Imperiled Delta Smelt. PLOS ONE, 8(7)
Feyrer, R., T. R. Sommer, and R. D. Baxter. 2005. Spatial-Temporal Distribution and Habitat 28 Associations of Age-0 Splittail in the Lower San Francisco Watershed. Copeia 2005(1):159–168. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/FeyrerEtAl_2005_SpatialTemporal.pdf?csf=1&web=1&e=io9qHQ</a >
Feyrer, F., T. Sommer, and W. Harrell. 2006. Managing Floodplain Inundation for Native Fish: Production Dynamics of Age-0 Splittail (Pogonichthys macrolepidotus) in California’s Yolo Bypass. Hydrobiologia 573:213–226. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/FeyrerEtAl_2006a_ManagingFloodplain.pdf?csf=1&web=1&e=jy7abe</a >
Feyrer, F., T. Sommer, and S. B. Slater. 2009. Old School vs. New School: Status of Threadfin Shad (Dorosoma petenense) Five Decades after Its Introduction to the Sacramento–San Joaquin Delta. San Francisco Estuary and Watershed Science, 7(1). Available: https://escholarship.org/uc/item/4dt6p4bv</a >.
Finger, A. J., G. Schumer, A. Benjamin, and S. Blankenship. 2017. Evaluation and Interpretation of Genetic Effective Population Size of Delta Smelt from 2011–2014. San Francisco Estuary and Watershed Science 15(2). https://escholarship.org/uc/item/4109064c</a >
Fisch, K. M., J. A. Ivy, R. S. Burton, and B. May. 2013. Evaluating the Performance of Captive Breeding Techniques for Conservation Hatcheries: A Case Study of the Delta Smelt Captive Breeding Program. Journal of Heredity 104(1):92–104. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Fisch_etal_2013_Evaluating%20the%20Performance%20of%20Captive%20Breeding%20Techniques%20for%20Conservation%20Hatcheries.pdf?csf=1&web=1&e=HvTrB8</a >
Fish, M. A. 2010. A White Sturgeon Year-Class Index for the San Francisco Estuary and Its Relation to Delta Outflow. IEP Newsletter 23(2):80–84. Spring. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwjQ-aPkhrqBAxVLLUQIHdT3BNYQFnoECA4QAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentId%3D26542&usg=AOvVaw0rXeUH_hNrwudvMOQ1hA_v&opi=89978449</a >
FISHBIO Environmental, LLC. 2007. 2007 Stanislaus River Data Report. Final Data. http://www.tuolumnerivertac.com/Documents/2007-4%20RST.pdf</a >
FISHBIO Environmental, LLC. 2010. FISHBIO Fall-Run Chinook Salmon Update. Posted on the FISHBIO blog on December 15, 2010. Available: http://fishbio.com/field-notes/population-dynamics/fishbio-fall-run-chinook-salmon-update-2</a >.
Fong, S., S. Louie, I. Werner, J. Davis, and R. E. Connon. 2016. Contaminant Effects on California Bay–Delta Species and Human Health. San Francisco Estuary and Watershed Science 14(4). https://escholarship.org/uc/item/52m780xj</a >
Friedman, W. R., B. T. Martin, B. K. Wells, P. Warzybok, C. J. Michel, E. M. Danner, and S. T. Lindley. 2019. Modeling composite effects of marine and freshwater processes on migratory species. Ecosphere 10(7):e02743. https://repository.library.noaa.gov/view/noaa/24309</a >
Fry, D. H., Jr. 1961. King Salmon Spawning Stocks of the California Central Valley, 1940–1959. California Fish and Game 47(1):55–71. http://www.krisweb.com/biblio/ccv_cdfg_fry_1960_kingstock.pdf</a >
Gard, M. 2013. Flow-Habitat Relationships for Juvenile Spring-Run and Fall-Run Chinook Salmon and Steelhead/Rainbow Trout Rearing in Clear Creek between Clear Creek and the Sacramento River. U.S. Fish and Wildlife Service, Sacramento, CA.
Garwood, R. S. 2017. Historic and Contemporary Distribution of Longfin Smelt (Spirinchus thaleichthys) along the California Coast. California Fish and Game 103(3):96–117. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwid2tKVhbqBAxX9J0QIHV1SCXkQFnoECBcQAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentID%3D152480&usg=AOvVaw1X8HuYMiNxPw4AFVhOvo4k&opi=89978449</a >
Ger, K. A., S. J. Teh, D. V. Baxa, S. Lesmeister, and C. R. Goldman. 2010. The Effects of Dietary Microcystis aeruginosa and microcystin on the Copepods of the Upper San Francisco Estuary. Freshwater Biology 55:1548–1559. https://www.researchgate.net/publication/275024095_The_effects_of_dietary_Microcystis_aeruginosa_and_microcystin_on_the_copepods_of_the_upper_San_Francisco_Estuary</a >
Goals Project. 2000. Baylands Ecosystem Species and Community Profiles: Life Histories and Environmental Requirements of Key Plants, Fish and Wildlife. Prepared by the San Francisco Bay Area Wetlands Ecosystem Goals Project. P.R. Olofson, editor. San Francisco Bay Regional Water Quality Control Board, Oakland, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Goals%20Project_2000_Baylands%20Ecosystem%20Species%20and%20Community%20Profiles.pdf?csf=1&web=1&e=W4zadX</a >
Goertler, P., K. Jones, J. Cordell, B. Schreier, and T. Sommer. 2018a. Effects of Extreme Hydrologic Regimes on Juvenile Chinook Salmon Prey Resources and Diet Composition in a Large River Floodplain. Transactions of the American Fisheries Society 147(2):287–299. https://afspubs.onlinelibrary.wiley.com/doi/full/10.1002/tafs.10028</a >
Goertler, P. A. L., T. R. Sommer, W. H. Satterthwaite, and B. M. Schreier. 2018b. Seasonal Floodplain-Tidal Slough Complex Supports Size Variation for Juvenile Chinook Salmon (Oncorhynchus tshawytscha). Ecology of Freshwater Fish 27:580–593. https://onlinelibrary.wiley.com/doi/pdf/10.1111/eff.12372</a >
Goertler, P. A., A. W. Shakya, A. M. Seesholtz, B. M. Schreier, S. Z. Matica, and K. S. Holley. 2019. Lamprey (Entosphenus sp. and Lampetra sp.) Estuarine Occupancy Is Regionally Variable and Constrained by Remperature. Journal of Fish Biology 96(2):527–532. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7028102/</a >
Goodman, D. H., S. B. Reid, N. A. Som, and W. R. Poytress. 2015. The Punctuated Seaward Migration of Pacific Lamprey (Entosphenus tridentatus): Environmental Cues and Implications for Streamflow Management. Canadian Journal of Fisheries and Aquatic Sciences 72(12):1817–1828. https://www.researchgate.net/publication/283015008_The_punctuated_seaward_migration_of_Pacific_lamprey_Entosphenus_tridentatus_Environmental_cues_and_implications_for_streamflow_management</a >
Gould, A. L., and W. J. Kimmerer. 2010. Development, Growth, and Reproduction of the Cyclopoid Copepod Limnoithona tetraspina in the Upper San Francisco Estuary. Marine Ecology Progress Series 412:163–177. https://www.researchgate.net/publication/250219580_Development_growth_and_reproduction_of_the_cyclopoid_copepod_Limnoithona_tetraspina_in_the_upper_San_Francisco_Estuary</a >
Greenfield, B. K., S. J. Teh, J. R. M. Ross, J. Hunt, G. H. Zhang, J. A. Davis, G. Ichikawa, D. Crane, S. O. Hung, D. F. Deng, F. C. Teh, and P. G. Green. 2008. Contaminant Concentrations and Histopathological Effects in Sacramento Splittail (Pogonichthys macrolepidotus). Environmental Contamination & Toxicology 55(2):270–281. https://pubmed.ncbi.nlm.nih.gov/18185947/</a >
Gregory, R. S., and C. D. Levings. 1998. Turbidity Reduces Predation on Migrating Juvenile Pacific Salmon. Transactions of the American Fisheries Society 127(2):275–285. https://olis.oregonlegislature.gov/liz/2017R1/Downloads/CommitteeMeetingDocument/96038</a >
Grimaldo, L. 2018. Written Testimony of Lenny Grimaldo, Expert Witness for California Department of Water Resources. Exhibit DWR-1222. Part 2 of Hearing in the matter of California Department of Water Resources and United States Bureau of Reclamation Request for a Change in Point of Diversion for California WaterFix Before the California State Water Resources Control Board. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Grimaldo_2018_Written%20Testimony%20of%20Lenny%20Grimaldo,%20Expert%20Witness%20for%20California%20Department%20of%20Water%20Resources.pdf?csf=1&web=1&e=VXcbO5</a >
Grimaldo, L. F., R. E. Miller, C. M. Peregrin, and Z. P. Hymanson. 2004. Spatial and Temporal Distribution of Ichthyoplankton in Three Habitat Types of the Sacramento–San Joaquin Delta. Pages 81–96 in F. Feyrer, L. R. Brown, R. L. Brown, and J. J. Orsi, editors. Early Life History of Fishes in the San Francisco Estuary and Watershed. Bethesda, MD: American Fisheries Society. https://emp.baydeltalive.com/assets/06942155460a79991fdf1b57f641b1b4/application/pdf/Symposium_39_81-96_Spatial1.pdf</a >
Grimaldo, L., F. Feyrer, J. Burns, and D. Maniscalco. 2017. Sampling Uncharted Waters: Examining Rearing Habitat of Larval Longfin Smelt (Spirinchus thaleichthys) in the Upper San Francisco Estuary. Estuaries and Coasts 40(6):1771–1784. https://www.researchgate.net/publication/317747953_Sampling_Uncharted_Waters_Examining_Rearing_Habitat_of_Larval_Longfin_Smelt_Spirinchus_thaleichthys_in_the_Upper_San_Francisco_Estuary
Grimaldo, L., J. Burns, R. E. Miller, A. Kalmbach, A. Smith, J. Hassrick, and C. Brennan. 2020. Forage Fish Larvae Distribution and Habitat Use During Contrasting Years of Low and High Freshwater Flow in the San Francisco Estuary. San Francisco Estuary and Watershed Science 18(3). https://escholarship.org/uc/item/0jc956v6</a >
Grimaldo, L. F., T. Sommer, N. Van Ark, G. Jones, E. Holland, P. B. Moyle, P. Smith, and B. Herbold. 2009. Factors Affecting Fish Entrainment into Massive Water Diversions in a Freshwater Tidal Estuary: Can Fish Losses Be Managed? North American Journal of Fisheries Management 29(5):1253–1270. https://www.researchgate.net/publication/317747953_Sampling_Uncharted_Waters_Examining_Rearing_Habitat_of_Larval_Longfin_Smelt_Spirinchus_thaleichthys_in_the_Upper_San_Francisco_Estuary
Grossman, G. D. 2016. Predation on Fishes in the Sacramento–San Joaquin Delta: Current Knowledge and Future Directions. San Francisco Estuary and Watershed Science 14(2). Available: https://escholarship.org/uc/item/9rw9b5tj</a >.
Gruber, J. J, Z. J. Jackson, and J.P. Van Eenennaam. 2012. 2011 San Joaquin River Sturgeon Spawning Survey. First Annual Report. Lodi Fish and Wildlife Office, Anadromous Fish Restoration Program, U.S. Fish and Wildlife Service, Stockton, CA https://www.researchgate.net/publication/306012747_2012_San_Joaquin_River_Sturgeon_Spawning_Survey</a > .
Gunckel, S. L., K. K. Jones, and S. E. Jacobs. 2009. Spawning Distribution and Habitat Use of Adult Pacific and Western Brook Lampreys in Smith River, Oregon. In Biology, Management, and Conservation of Lampreys in North America: American Fisheries Society Symposium 72, edited by L. R. Brown, S. D. Chase, M. G. Mesa, R. J. Beamish, and P. B. Moyle, 173–189. Bethesda, MD: American Fisheries Society. https://odfw-static.forestry.oregonstate.edu/freshwater/inventory/pdffiles/Gunckel_173-190.pdf</a >
Haertel, L., and C. Osterberg. 1967. Ecology of Zooplankton, Benthos and Fishes in the Columbia River Estuary. Ecology 48:459–472. https://www.jstor.org/stable/1936889</a >
Hallock, R. J. 1989. Upper Sacramento River Steelhead, Oncorhynchus mykiss, 1952–1988. Report to the U.S. Fish and Wildlife Service, Red Bluff Fish and Wildlife Office, Red Bluff, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hallock_1989_Upper%20Sacramento%20River%20Steelhead,%20Oncorhynchus%20mykiss,%201952%E2%80%931988.pdf?csf=1&web=1&e=uQFx3M</a >
Hallock, R. J., and W. F. Van Woert. 1959. A Survey of Anadromous Fish Losses in Irrigation Diversions from the Sacramento and San Joaquin Rivers. California Fish and Game 45(4):227–296. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hallock_Woert_1959_A%20Survey%20of%20Anadromous%20Fish%20Losses%20in%20Irrigation%20Diversions%20from%20the%20Sacramento%20and%20San%20Joaquin%20Rivers.%20California.pdf?csf=1&web=1&e=JJocp6</a >
Hamilton, S. A., and D. D. Murphy. 2018. Analysis of limiting factors across the life cycle of delta smelt (Hypomesus transpacificus). Environmental Management 62:365–382. Available: https://doi.org/10.1007/s00267-018-1014-9</a >.
Hamilton, S. A., and D. D. Murphy. 2020. Use of Affinity Analysis to Guide Habitat Restoration and Enhancement for the Imperiled Delta Smelt. Endangered Species Research 43:103–120. https://www.int-res.com/articles/esr2020/43/n043p103.pdf</a >
Hamilton, S., S. Bartell, J. Pierson, and D. Murphy. 2020. Factors controlling calanoid copepod biomass and distribution in the Upper San Francisco Estuary and implications for managing the imperiled delta smelt (Hypomesus transpacificus). Environmental Management 65:587–601. Available: https://doi.org/10.1007/s00267-020-01267-8</a >.
Hammock, B. G., S. P. Moose, S. S. Solis, E. Goharian, and S. J. Teh. 2019a. Hydrodynamic Modeling Coupled with Long-Term Field Data Provide Evidence for Suppression of Phytoplankton by Invasive Clams and Freshwater Exports in the San Francisco Estuary. Environmental Management 63:703–717. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hammock_etal_2019a_Hydrodynamic%20Modeling%20Coupled%20with%20Long-Term%20Field%20Data%20Provide%20Evidence%20for%20Suppression%20of%20Phytoplankton%20by%20Invasive%20Clams%20and%20Freshwater%20Exports%20in%20the%20San%20Francisco%20Estuary.pdf?csf=1&web=1&e=9F7zdE</a >
Hammock, B. G., R. Hartman, S. B. Slater, A. Hennessy, and S. J. Teh. 2019b. Tidal Wetlands Associated with Foraging Success of Delta Smelt. Estuaries and Coasts 42(3):857–867. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hammock_etal_2019b_Tidal%20Wetlands%20Associated%20with%20Foraging%20Success%20of%20Delta%20Smelt.pdf?csf=1&web=1&e=TCTza0</a >
Hance, D. J., R. W. Perry, J. R. Burau, A. Blake, P. Stumpner, X. Wang, and A. Pope. 2020. Combining Models of the Critical Streakline and the Cross-Sectional Distribution of Juvenile Salmon to Predict Fish Routing at River Junctions. San Francisco Estuary and Watershed Science 18(1). Available: https://escholarship.org/uc/item/1wr2f87f</a >.
Hanni, J., B. Poytress, and H. N. Blalock-Herod. 2006. Spatial and Temporal Distribution Patterns of Pacific and River Lamprey in the Sacramento and San Joaquin Rivers and Delta. Poster. U.S. Fish and Wildlife Service. https://www.usbr.gov/mp/nepa/includes/documentShow.php?Doc_ID=22410</a >
Hannon, J., and B. Deason. 2008. American River Steelhead Spawning 2001–2007. Bureau of Reclamation. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626372.pdf</a >
Hanson, M. B., R. W. Baird, J. K. B. Ford, J. A. Hempelmann, D. M. Van Doornik, J. R. Candy, C. K. Emmons, G. S. Schorr, B. Gisborne, K. L. Ayres, S. K. Wasser, K. C. Balcomb, K. Balcomb-Bartok, J. G. Sneva, and M. J. Ford. 2010. Species and Stock Identification of Prey Consumed by Endangered Southern Resident Killer Whales in Their Summer Range. Endangered Species Research 11:69–82. Available: https://doi.org/10.3354/esr00263</a >.
Hart, J. L. 1973. Pacific Fishes of Canada, Bulletin 180. Ottawa, Canada: Fisheries Resource Board of Canada. Copyright protected. See introduction for more information
Harvey, B. N., D. P. Jacobson, and M. A. Banks. 2014. Quantifying the Uncertainty of a Juvenile Chinook Salmon Race Identification Method for a Mixed-Race Stock. North American Journal of Fisheries Management 34(6):1177–1186. https://www.researchgate.net/publication/270704306_Quantifying_the_Uncertainty_of_a_Juvenile_Chinook_Salmon_Race_Identification_Method_for_a_Mixed-Race_Stock</a >
Hassler, T. J. 1988. Species Profiles: Life Histories and Environmental Requirements of Coastal Fishes and Invertebrates (Pacific Southwest)—Striped Bass. U.S. Fish and Wildlife Service Biological Report 82(11.82). U.S. Army Corps of Engineers, TR EL-82-4. https://www.govinfo.gov/content/pkg/GOVPUB-I49-PURL-LPS73959/pdf/GOVPUB-I49-PURL-LPS73959.pdf</a >
Hassrick, J. L., M. J. Henderson, D. D. Huff, W. J. Sydeman, M. C. Sabal, J. A. Harding, A. J. Ammann, E. D. Crandall, E. P. Bjorkstedt, J. C. Garza, and S. A. Hayes. 2016. Early ocean distribution of juvenile Chinook salmon in an upwelling ecosystem. Fisheries Oceanography 25(2):133–146. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hassrick_et_al_2016_EarlyoceandistributionofjuvenileChinooksalmoninanupwellingsystem_Fish_Oceanog.pdf?csf=1&web=1&e=50eNLN</a >
Haugen, C. W., J. D. Messersmith, and R. H. Wickwire. 1969. Progress Report on Anchovy Tagging off California and Baja California, March 1966 through May 1969. In Fish Bulletin 147: The Northern Anchovy (Engraulis mordax) and Its Fishery (1965–1968), edited by J. D. Messersmith, 75–89. Sacramento, CA: California Department of Fish and Game. https://escholarship.org/content/qt1536j1nz/qt1536j1nz.pdf?t=lnqwjp</a >
Healey, M. C. 1991. Life History of Chinook Salmon (Oncorhynchus tshawytscha). In Pacific Salmon Life Histories, edited by C. Groot and L. Margolis. Vancouver, Canada: University of British Columbia Press. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626401-1.pdf</a >
Hennessy, A. 2010. Zooplankton Monitoring, 2009. Interagency Ecological Program Newsletter 23(2):15–22. Copyright protected. See introduction for more information
Herbold, B., C. Armor, R. Baxter, M. Chotkowski, P. Coulston, M. Nobriga, and T. Sommer. 2005. Historical Patterns in Salvage Data. CALFED Science Program. http://www.science.calwater.ca.gov/pdf/workshops/POD/CDFG_POD_Historical_Patterns_in_Salvage_Data.pdf</a >
Hestir, E. L., D. H. Schoellhamer, J. Greenberg, T. Morgan-King, and S. L. Ustin. 2016. The Effect of Submerged Aquatic Vegetation Expansion on a Declining Turbidity Trend in the Sacramento–San Joaquin River Delta. Estuaries and Coasts 39(4):1100–1112. https://link.springer.com/article/10.1007/s12237-015-0055-z</a >
Heublein, J. C. 2006. Migration of Green Sturgeon, Acipenser medirostris in the Sacramento River. Master’s thesis. California State University, San Francisco, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Heublein_2006_Migration%20of%20Green%20Sturgeon,%20Acipenser%20medirostris%20in%20the%20Sacramento%20River..pdf?csf=1&web=1&e=HsyMjG</a >
Heublein, J. C., J. T. Kelly, C. E. Crocker, A. P. Klimley, and S. T. Lindley. 2009. Migration of Green Sturgeon, Acipenser medirostris in the Sacramento River. Environmental Biology of Fishes 84(3): 245–258. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626160.pdf</a >
Heublein, J., R. Bellmer, R. D. Chase, P. Doukakis, M. Gingras, D. Hampton, J. A. Israel, Z. J. Jackson, R. C. Johnson, O. P. Langness, S. Luis, E. Mora, M. L. Moser, L. Rohrbach, A. M. Seesholtz, T. Sommer, and J. Stuart. 2017a. Life History and Current Monitoring Inventory of San Francisco Estuary Sturgeon. September. NOAA-TM-NMFS-SWFSC-589. National Marine Fisheries Service, Southwest Fisheries Science Center, Santa Cruz, CA. https://swfsc-publications.fisheries.noaa.gov/publications/TM/SWFSC/NOAA-TM-NMFS-SWFSC-588.pdf</a >
Heublein, J., R. Bellmer, R. D. Chase, P. Doukakis, M. Gingras, D. Hampton, J. A. Israel, Z. J. Jackson, R. C. Johnson, O. P. Langness, S. Luis, E. Mora, M. L. Moser, L. Rohrbach, A. M. Seesholtz, and T. Sommer. 2017b. Improved Fisheries Management through Life Stage Monitoring: The Case for the Southern Distinct Population Segment of North American Green Sturgeon and the Sacramento–San Joaquin River White Sturgeon. September. NOAA-TM-NMFS-SWFSC-588. National Marine Fisheries Service, Southwest Fisheries Science Center, Santa Cruz, CA. https://swfsc-publications.fisheries.noaa.gov/publications/TM/SWFSC/NOAA-TM-NMFS-SWFSC-588.pdf</a >
Hieb, K., and R. Baxter. 1993. Delta Outflow/San Francisco Bay. In 1991 Annual Report, Interagency Ecological Studies Program for the Sacramento–San Joaquin Estuary, edited by P.L. Herrgesell. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/docs/cmnt081712/sldmwa/kimmerer2004sfewsopenwaterprocessesofsfestuary.pdf</a >
Hilborn, R., S. P. Cox, F. M. D. Gulland, D. G. Hankin, N. T. Hobbs, D. E. Schindler, and A. W. Trites. 2012. The Effects of Salmon Fisheries on Southern Resident Killer Whales: Final Report of the Independent Science Panel. November 30. Prepared for National Marine Fisheries Service and Fisheries and Oceans Canada. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626726.pdf</a >
Hildebrand, L. R., A. Drauch Schreier, K. Lepla, S. O. McAdam, J. McLellan, M. J. Parsley, V. L. Paragamian, and S. P. Young. 2016. Status of White Sturgeon (Acipenser transmontanus Richardson, 1863) throughout the Species Range, Threats to Survival, and Prognosis for the Future. Journal of Applied Ichthyology 32(S1):261–312.
Hobbs, J. A., W. A. Bennett, and J. E. Burton. 2006. Assessing Nursery Habitat Quality for Native Smelts (Osmeridae) in the Low-Salinity Zone of the San Francisco Estuary. Journal of Fish Biology 69(3):907–922. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hobbs_etal_2006_Assessing%20Nursery%20Habitat%20Quality%20for%20Native%20Smelts%20(Osmeridae)%20in%20the%20Low-Salinity%20Zone%20of%20the%20San%20Francisco%20Estuary.pdf?csf=1&web=1&e=2hRtBQ</a >
Hobbs, J. A., J. Cook, P. Crain, M. Bisson, and C. Parker. 2015. Longfin Smelt Distribution, Abundance and Evidence of Spawning in San Francisco Bay Tributaries. Poster presented at: Interagency Ecological Program Workshop, 2015 March 18–20, Folsom, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hobbs_etal_2015_The%20Distribution%20and%20Abundance%20of%20Larval%20and%20Adult%201%20Longfin%20Smelt%20in%20San%20Francisco%20Bay%20Tributaries%20Year%201%20Pilot%20Study.pdf?csf=1&web=1&e=6Qcpxk</a >
Hobbs, J. A., C. Parker, J. Cook, P. Crain, and M. Bisson, and C. Parker. 2015. The Distribution and Abundance of Larval and Adult 1 Longfin Smelt in San Francisco Bay Tributaries Year 1: Pilot Study. Prepared for California Department of Water Resources and the IEP Longfin Smelt Project Work Team. Davis, CA: Department of Wildlife, Fish and Conservation Biology. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hobbs_etal_2015_The%20Distribution%20and%20Abundance%20of%20Larval%20and%20Adult%201%20Longfin%20Smelt%20in%20San%20Francisco%20Bay%20Tributaries%20Year%201%20Pilot%20Study.pdf?csf=1&web=1&e=FgEada</a >
Hobbs, J. A., L. S. Lewis, N. Ikemiyagi, T. Sommer, and R. D. Baxter. 2010. The Use of Otolith Strontium Isotopes (87Sr/86Sr) to Identify Nursery Habitat for a Threatened Estuarine Fish. Environmental Biology of Fishes 89(3):557–569. https://escholarship.org/uc/item/7500107h</a >
Hobbs, J. A., L. S. Lewis, M. Willmes, C. Denney, and E. Bush. 2019. Complex Life Histories Discovered in a Critically Endangered Fish. Scientific Reports 9(1):1–12. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Hobbs_etal_2019_Complex%20life%20histories.pdf?csf=1&web=1&e=W4xBkC</a >
Huber, E. R., and S. M. Carlson. 2015. Temporal Trends in Hatchery Releases of Fall-Run Chinook Salmon in California’s Central Valley. San Francisco Estuary and Watershed Science 13(2). Available: https://escholarship.org/uc/item/7237t9xn</a >.
ICF International. 2016a. Biological Assessment for the California WaterFix. July. (ICF 00237.15.) Sacramento, CA. Prepared for the United States Department of the Interior, Bureau of Reclamation, Sacramento, CA. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626661.pdf</a >
ICF International. 2016b. State Incidental Take Permit Application for the Construction and Operation of Dual Conveyance Facilities of the State Water Project. Draft. October. (ICF 00443.12.) Sacramento, CA. Prepared for the California Department of Water Resources, Sacramento, CA. https://water.ca.gov/-/media/DWR-Website/Web-Pages/Programs/State-Water-Project/Files/ITP-for-Long-Term-SWP-Operations.pdf</a >
Independent Science Panel and ESSA Technologies. 2012. The Effects of Salmon Fisheries on Southern Resident Killer Whales. Final Report of the Independent Science Panel. Prepared for National Marine Fisheries Service and Fisheries and Oceans Canada. November 30. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626726.pdf</a >
Interagency Ecological Program, Management, Analysis, and Synthesis Team. 2015. An Updated Conceptual Model of Delta Smelt Biology: Our Evolving Understanding of an Estuarine Fish. January. Technical Report 90. Interagency Ecological Program for the San Francisco Bay/Delta Estuary. Available: https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/california_waterfix/exhibits/docs/petitioners_exhibit/dwr/part2/DWR-1089%20IEP_MAST_Team_2015_Delta_Smelt_MAST_Synthesis_Report_January%202015.pdf</a >.
Israel, J. 2006. Determining Spawning Population Estimates for Green Sturgeon with Microsatellite DNA. Presentation at the 2006 CALFED Science Conference. Sacramento, California. As cited in Department of Water Resources, Programmatic Biological Assessment for the 2013-17 Temporary Barriers Project for National Marine Fisheries Service-Managed Species, October 2012.
Israel, J. A.; Cordes, J. F.; Blumberg, M. A.; May, B., 2004: Geographic patterns of genetic differentiation among collections of green sturgeon. N. Am. J. Fish. Manage. 24, 922–931. https://gvl.ucdavis.edu/sites/g/files/dgvnsk6021/files/inline-files/israel_2004.pdf</a >
Israel J. A., and B. May. 2010. Characterization and evaluation of polymorphic microsatellite markers in the anadromous fish Spirinchus thaleichthys. Conservation Genetic Resources 2:227–230 https://link.springer.com/article/10.1007/s12686-010-9244-z</a >
Israel, J. A., and A. P. Klimley. 2008. Life History Conceptual Model for North American Green Sturgeon (Acipenser medirostris). December. University of California, Davis. Prepared for California Department of Fish and Game, Delta Regional Ecosystem Restoration and Implementation Program, Sacramento, CA. https://swfsc-publications.fisheries.noaa.gov/publications/TM/SWFSC/NOAA-TM-NMFS-SWFSC-589.pdf</a >
Israel, J., A. Drauch, and M. Gingras. 2008. Life History Conceptual Model for White Sturgeon (Acipenser transmontanus). University of California, Davis, and California Department of Fish and Game, Stockton, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Israel_etal_2008_Life%20History%20Conceptual%20Model%20for%20White%20Sturgeon%20(Acipenser%20transmontanus).pdf?csf=1&web=1&e=uc1bvu</a >
Jackson, Z. 2013. San Joaquin River Sturgeon Investigations—2011/12 Season Summary. Interagency Ecological Program Quarterly Highlights. Interagency Ecological Program Newsletter Vol. 26(1):4–6. https://www.researchgate.net/publication/306012841_2013_San_Joaquin_River_Sturgeon_Spawning_Survey</a >
Jackson, Z. J., and J. P. Van Eenennaam. 2013. 2012 San Joaquin River Sturgeon Spawning Survey. U.S. Fish and Wildlife Service, Anadromous Fish Restoration Program, Stockton Fish and Wildlife Office, Stockton, CA. https://www.researchgate.net/publication/306012841_2013_San_Joaquin_River_Sturgeon_Spawning_Survey</a >
Jassby, A. D., W. J. Kimmerer, S. G. Monismith, C. Armor, J. E. Cloern, T. M. Powell, J. R. Schubel, and T. J. Vendlinski. 1995. Isohaline Position as a Habitat Indicator for Estuarine Populations. Ecological Applications 5(1):272–289. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/deltaflow/docs/exhibits/dwr/dwr_exh10.pdf</a >
Jeffries, K. M., R. E. Connon, B. E. Davis, L. M. Komoroske, M. T. Britton, T. Sommer, A. E. Todgham, and N. A. Fangue. 2016. Effects of High Temperatures on Threatened Estuarine Fishes during Periods of Extreme Drought. Journal of Experimental Biology 219(11):1705–1716. https://pubmed.ncbi.nlm.nih.gov/27252456/</a >
Jeffres, C. A., J. J. Opperman, and P. B. Moyle. 2008. Ephemeral Floodplain Habitats Provide Best Growth Conditions for Juvenile Chinook Salmon in a California River. Environmental Biology of Fishes 83:449–458. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626574.pdf</a >
Johnston, M. E., A. E. Steel, M. Espe, T. Sommer, A. P. Klimley, P. Sandstrom, and D. Smith. 2018. Survival of Juvenile Chinook Salmon in the Yolo Bypass and the Lower Sacramento River, California. San Francisco Estuary and Watershed Science 16(2). Available: https://escholarship.org/uc/item/8bq7t7rr</a >.
Katz J. V. E., Jeffres C., Conrad J. L., Sommer T. R., Martinez J., Brumbaugh S., Corline, N., and P. B. Moyle. 2017. Floodplain Farm Fields Provide Novel Rearing Habitat for Chinook Salmon. PLOS ONE 12(6):e0177409. Available: https://doi.org/10.1371/journal.pone.0177409</a >.
Kelly, J. T., A. P. Klimley, and C. E. Crocker. 2007. Movements of Green Sturgeon, Acipenser medirostris, in the San Francisco Bay Estuary, California. Environmental Biology of Fishes 79:281–295. https://www.researchgate.net/publication/226959462_Movements_of_green_sturgeon_Acipenser_medirostris_in_the_San_Francisco_Bay_estuary_California</a >
Kennedy, T., and T. Cannon. 2005. Stanislaus River Salmonid Density and Distribution Survey Report (2002–2004). Final Draft. Prepared for the Bureau of Reclamation by the Fishery Foundation of California. October.
Kimmerer, W. J. 2002. Effects of Freshwater Flow on Abundance of Estuarine Organisms: Physical Effects or Trophic Linkages? Marine Ecology Progress Series 243:39–55. https://www.int-res.com/articles/meps2002/243/m243p039.pdf</a >
Kimmerer, W. J. 2004. Open Water Processes of the San Francisco Estuary: From Physical Forcing to Biological Processes. San Francisco Estuary and Watershed Science 2(1). Available: https://escholarship.org/uc/item/9bp499mv</a >.
Kimmerer, W. J. 2006. Response of Anchovies Dampens Effects of the Invasive Bivalve Corbula amurensis on the San Francisco Estuary foodweb. Marine Ecology Progress Series 324:207–218. doi:10.3354/meps324207. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/california_waterfix/exhibits/docs/petitioners_exhibit/dwr/dwr_1163.pdf</a >
Kimmerer, W. J. 2008. Losses of Sacramento River Chinook Salmon and Delta Smelt to Entrainment in Water Diversions in the Sacramento–San Joaquin Delta. San Francisco Estuary and Watershed Science 6(2). Available: https://escholarship.org/uc/item/7v92h6fs</a >.
Kimmerer, W. J. 2011. Modeling Delta Smelt Losses at the South Delta Export Facilities. San Francisco Estuary and Watershed Science 9(1). Available: https://escholarship.org/uc/item/0rd2n5vb</a >.
Kimmerer, W. J., J. H. Cowan, L. W. Miller, and K. A. Rose. 2000. Analysis of an Estuarine Striped Bass (Morone saxatilis) Population: Influence of Density-Dependent Mortality between Metamorphosis and Recruitment. Canadian Journal of Fisheries and Aquatic Sciences 57(2):478–486. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/kimmerer_etal_2000_Analysis%20of%20an%20Estuarine%20Striped%20Bass%20(Morone%20saxatilis)%20Population%20Influence%20of%20Density-Dependent%20Mortality%20between%20Metamorphosis%20and%20Recruitment.pdf?csf=1&web=1&e=dwJdFW</a >
Kimmerer, W. J., J. H. Cowan, Jr., L. W. Miller, and K. A. Rose. 2001. Analysis of an Estuarine Striped Bass Population: Effects of Environmental Conditions during Early Life. Estuaries 24(4):557–575. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/deltaflow/docs/exhibits/sfwc/spprt_docs/sfwc_exh3_kimmerer_analysis_of_estuarine_striped_bass.pdf</a >
Kimmerer, W. J., E. Gartside, and J. J. Orsi. 1994. Predation by an Introduced Clam as the Likely Cause of Substantial Declines in Zooplankton of San Francisco Bay. Marine Ecology Progress Series 113:81–93. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/wq_control_plans/1995wqcp/admin_records/part05/371.pdf</a >
Kimmerer, W. J., E. S. Gross, and M. L. MacWilliams. 2009. Is the Response of Estuarine Nekton to Freshwater Flow in the San Francisco Estuary Explained by Variation in Habitat Volume? Estuaries and Coasts 32(2):375–389. Copyright protected. See introduction for more information
Kimmerer, W. J., E. S. Gross, A. M. Slaughter, and J. R. Durand. 2019. Spatial Subsidies and Mortality of an Estuarine Copepod Revealed Using a Box Model. Estuaries and Coasts 42(1):218–236. https://escholarship.org/content/qt4b1433j7/qt4b1433j7.pdf</a >
Kimmerer, W. J., T. R. Ignoffo, K. R. Kayfetz, and A. M. Slaughter. 2018. Effects of Freshwater Flow and Phytoplankton Biomass on Growth, Reproduction, and Spatial Subsidies of the Estuarine Copepod Pseudodiaptomus forbesi. Hydrobiologia 807:113–130. https://www.researchgate.net/publication/320683411_Effects_of_freshwater_flow_and_phytoplankton_biomass_on_growth_reproduction_and_spatial_subsidies_of_the_estuarine_copepod_Pseudodiaptomus_forbesi</a >
Kimmerer, W. J., and M. L. Nobriga. 2008. Investigating Particle Transport and Fate in the Sacramento–San Joaquin Delta Using a Particle Tracking Model. San Francisco Estuary and Watershed Science 6(1). Available: http://escholarship.org/uc/item/547917gn</a >.
Kimmerer, W., J. Stillman, and L. Sullivan. 2011. Zooplankton and Clam Analyses in Support of the Interagency Ecological Program’s Work Plan on Pelagic Organism Declines (POD). Final Report to the POD Management Team. Romberg Tiburon Center for Environmental Studies, San Francisco State University.
Kimmerer, W. J., and K. A. Rose. 2018. Individual‐Based Modeling of Delta Smelt Population Dynamics in the Upper San Francisco Estuary III. Effects of Entrainment Mortality and Changes in Prey. Transactions of the American Fisheries Society 147(1):223–243. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Kimmerer_Rose_2018_Individual%E2%80%90Based%20Modeling%20of%20Delta%20Smelt%20Population%20Dynamics%20in%20the%20Upper%20San%20Francisco%20Estuary%20III.pdf?csf=1&web=1&e=9Ed1jV</a >
Klimley, A. P., T. V. Agosta, A. J. Ammann, R. D. Battleson, M. D. Pagel, and M. J. Thomas. 2017. Real-Time Nodes Permit Adaptive Management of Endangered Species of Fishes. Animal Biotelemetry 5(1):22. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Klimley_etal_2017_Real-Time%20Nodes%20Permit%20Adaptive%20Management%20of%20Endangered%20Species%20of%20Fishes.pdf?csf=1&web=1&e=z8WnyV</a >
Knowles, N. and D. R. Cayan. 2002. Potential Effects of Global Warming on the Sacramento/San Joaquin Watershed and the San Francisco Estuary. Geophysical Research Letters 29(18)38-1–39-4. doi: http://dx.doi.org/10.1029/2001GL014339</a >.
Kogut, N. 2008. Overbite Clam, Corbula amurensis, Defecated Alive by White Sturgeon, Acipenser transmontanus. California Fish and Game 94:143–149. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Kogut_2008_Overbite%20Clam,%20Corbula%20amurensis,%20Defecated%20Alive%20by%20White%20Sturgeon,%20Acipenser%20transmontanus.pdf?csf=1&web=1&e=lQwQFn</a >
Kohlhorst, D. W. 1976. Sturgeon Spawning in the Sacramento River, as Determined by Distribution of Larvae. California Fish and Game Bulletin 62:32–40.
Kohlhorst, D. W., L. W. Botsford, J. S. Brennan, and G. M. Cailliet. 1991. Aspects of the Structure and Dynamics of an Exploited Central California Population of White Sturgeon (Acipenser transmontanus). Pages 277–293. In Acipenser: actes du Premier Colloque International sur l’Esturgeon [Acipenser: proceedings of the First International Colloquium on Sturgeon], edited by P. Williot, Bordeaux, France: Centre d’Etudes du Machinisme Agricole, du Rural, des Eaux et Foreˆts.
Komoroske, L. M., R. E. Connon, J. Lindberg, B. S. Cheng, G. Castillo, M. Hasenbein, and N. A. Fangue. 2014. Ontogeny Influences Sensitivity to Climate Change Stressors in an Endangered Fish. Conservation Physiology 2(1):cou008. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4806739/
Komoroske, M., K. M. Jeffries, R. E. Connon, J. Dexter, M. Hasenbein, C. Verhille and N. A. Fangue. 2016. Sublethal Salinity Stress Contributes to Habitat Limitation in an Endangered Estuarine Fish. Evolutionary Applications. doi: http://dx.doi.org/10.1111/eva.12385</a >.
Kurobe, T., M. O. Park, A. Javidmehr, F.-C. Teh, S. C. Acuña, C. J. Corbin, A. J. Conley, W. A. Bennett, and S. J. Teh. 2016. Assessing Oocyte Development and Maturation in the Threatened Delta Smelt, Hypomesus transpacificus. Environmental Biology of Fishes 99(4):423–432. https://nrm.dfg.ca.gov/FileHandler.ashx?DocumentID=200748&inline Copyright protected. See introduction for more information
Kynard, B., E. Parker, and T. Parker. 2005. Behavior of Early Life Intervals of Klamath River Green Sturgeon, Acipenser medirostris, with a Note on Body Color. Environmental Biology of Fishes 72:85–97. https://www.researchgate.net/publication/248774425_Behavior_of_early_life_intervals_of_Klamath_River_green_sturgeon_Acipenser_medirostris_with_a_note_on_body_color</a >
Lampman, R. T. 2011. Passage, Migration, Behavior, and Autoecology of Adult Pacific Lamprey at Winchester Dam and within the North Umpqua River Basin, Oregon. Master’s thesis. Oregon State University, Department of Fisheries and Wildlife, Corvallis. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Lampman_2011_Passage,%20Migration,%20Behavior,%20and%20Autoecology%20of%20Adult%20Pacific%20Lamprey%20at%20Winchester%20Dam%20and%20within%20the%20North%20Umpqua%20River%20Basin,%20Oregon.%20Master%E2%80%99s%20thesis.pdf?csf=1&web=1&e=fNkFMR</a >
Larson, Z. S., and M. R. Belchik. 1998. A Preliminary Status Review of Eulachon and Pacific Lamprey in the Klamath River Basin. April. Yurok Tribal Fisheries Program, Klamath, CA. https://www.krisweb.com/aqualife/klam_yurok_eulachon_2000.pdf</a >
Lasker, R. 1975. Field Criteria for Survival of Anchovy Larvae: The Relation between Inshore Chlorophyll Maximum Layers and Successful First Feeding. Fishery Bulletin 73(3):453–462. https://spo.nmfs.noaa.gov/sites/default/files/pdf-content/1975/733/lasker.pdf</a >
Latour, R. J. 2016. Explaining Patterns of Pelagic Fish Abundance in the Sacramento–San Joaquin Delta. Estuaries and Coasts 39(1):233–247. doi: http://dx.doi.org/10.1007/s12237-015-9968-9</a >. Available: https://www.researchgate.net/publication/276103376_Explaining_Patterns_of_Pelagic_Fish_Abundance_in_the_Sacramento-San_Joaquin_Delta Copyright protected. See introduction for more information.
Lee, D. P., and J. Chilton. 2007. Hatchery and Genetic Management Plan for Nimbus Fish Hatchery Winter-Run Steelhead Program. Draft Report. Prepared by CDFG under Contract 03CS200006 Modification 0004 with Bureau of Reclamation, Folsom, CA, and Nimbus Fish Hatchery, Rancho Cordova, CA. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626514.pdf</a >
Lee, D. S., C. R. Gilbert, C. H. Hocutt, R. E. Jenkins, D. E. McAllister, and J. R. Stauffer, Jr. 1980. Atlas of North American Freshwater Fishes. North Carolina Biological Survey No. 1980–12. North Carolina State Museum of Natural History, Raleigh, NC. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Lee_etal_1980_Atlas%20of%20North%20American%20Freshwater%20Fishes.pdf?csf=1&web=1&e=bikNRs</a >
Leggett, W. C. 1973. The Migrations of the Shad. Scientific American 228(3):92–100. https://scholarworks.wm.edu/cgi/viewcontent.cgi?article=3098&context=etd</a > Copyright protected. See introduction for more information
Leggett, W. C. and R. R. Whitney. 1972. Water Temperature and the Migration of American Shad. U.S. Fish and Wildlife Services Fishery Bulletin 70(3):659–670. https://spo.nmfs.noaa.gov/sites/default/files/pdf-content/1972/703/leggett.pdf</a >
Lehman, B. M., M. P. Gary, N. Demetras, and C. J. Michel. 2019. Where Predators and Prey Meet: Anthropogenic Contact Points Between Fishes in a Freshwater Estuary. San Francisco Estuary and Watershed Science 17(4). Available: https://escholarship.org/uc/item/2dg499z4</a >.
Lehman, P., T. Kurobe, and S. Teh. 2020. Impact of Extreme Wet and Dry Years on the Persistence of Microcystis Harmful Algal Blooms in San Francisco Estuary. Quaternary International. doi: https://doi.org/10.1016/j.quaint.2019.12.003</a >.
Leidy, R. A. 1984. Distribution and ecology of stream fishes in the San Francisco Bay drainage. Hilgardia 52(8): 1-175. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Leidy_1984_Distribution%20and%20ecology%20of%20stream%20fishes%20in%20the%20San%20Francisco%20Bay%20drainage.pdf?csf=1&web=1&e=gKJmIr</a >
Leidy, R. A. 2007. Ecology, Assemblage Structure, Distribution, and Status of Fishes in Stream Tributary to the San Francisco Estuary, California. SFEI Contribution #530. San Francisco Estuary Institute, Oakland, CA. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/docs/cmnt091412/sldmwa/leidy_sfei_2007.pdf</a >
Leidy, R. A., G. S. Becker, and B. N. Harvey. 2005. Historical Distribution and Current Status of Steelhead/Rainbow Trout (Oncorhynchus mykiss) in Streams of the San Francisco Estuary, California. Center for Ecosystem Management and Restoration, Oakland, CA. http://www.cemar.org/pdf/wholedoc2.pdf</a >
Leising, A. W., I. D. Schroeder, S. J. Bograd, J. Abell, R. Durazo, G. Gaxiola-Castro, E. P. Bjorkstedt, J. Field, K. Sakuma, R. R. Robertson, R. Goericke, W. T. Peterson, R. Brodeur, C. Barcelo, T. D. Auth, E. A. Daly, R. M. Suryan, A. J. Gladics, J. M. Porquez, S. McClatchie, E. D. Weber, W. Watson, J. A. Santora, W. J. Sydeman, S. R. Melin, F. P. Chavez, R. T. Golightly, S. R. Schneider, J. Fisher, C. Morgan, R. Bradley, and P. Warybok. 2015. State of the California Current 2014–15: Impacts of the Warm-Water “Blob.” California Cooperative Oceanic Fisheries Investigations Reports 56:31–68. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Leising_etal_2015.%20State%20of%20the%20California%20Current%202014%E2%80%9315%20Impacts%20of%20the%20Warm-Water%20%E2%80%9CBlob.%E2%80%9D.pdf?csf=1&web=1&e=w8dITe</a >
Lewis, L. S., M. Willmes, A. Barros, P. K. Crain, and J. A. Hobbs. 2020. Newly Discovered Spawning and Recruitment of Threatened Longfin Smelt in Restored and Under‐Explored Tidal Wetlands. Ecology 101(1), e02868:1–4. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9285352/</a >
Lindberg, J. C., G. Tigan, L. Ellison, T. Rettinghouse, M. M. Nagel, and K. M. Fisch. 2013. Aquaculture Methods for a Genetically Managed Population of endangered Delta Smelt. North American Journal of Aquaculture 75(2):186–196. doi: http://dx.doi.org/10.1080/15222055.2012.751942</a >. Copyright protected. See introduction for more information.
Lindberg, J. C., Y.-J. J. Tsai, B. D. Kammerer, B. Baskerville-Bridges, and T.-C. Hung. 2020. Spawning Microhabitat Selection in Wild-Caught Delta Smelt Hypomesus transpacificus under Laboratory Conditions. Estuaries and Coasts 43:174–181. https://link.springer.com/article/10.1007/s12237-021-01030-0</a >
Lindley, S. T., C. B. Grimes, M. S. Mohr, W. Peterson, J. Stein, J. T. Anderson, C. A. Busack, L. W. Botsford, T. K. Collier, D. L. Bottom, J. C. Garza, A. M. Grover, D. G. Hankin, R. G. Kope, P.W. Lawson, A. Low, J. Ferguson, R. B. MacFarlane, M. Palmer-Zwahlen, F. B. Schwing, J. Smith, C. Tracy, R. Webb, and B. K. Wells. 2009. What Caused the Sacramento River Fall Chinook Salmon Stock Collapse? NOAA, Tech. Memo., NMFS-SWFSC-447. Southwest Fisheries Science Center. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Lindley_etal_2009_What%20Caused%20the%20Sacramento%20River%20Fall%20Chinook%20Salmon%20Stock%20Collapse.pdf?csf=1&web=1&e=BAViJi</a >
Lindley, S. T., M. L. Moser, D. L. Erickson, M. Belchik, D. W. Welch, E. L. Rechisky, J. T. Kelly, J. Heublein, and A. P. Klimley. 2008. Marine Migration of North American Green Sturgeon. Transactions of the American Fisheries Society 137(1):182–194. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626706.pdf</a >
Lindley, S. T., R. Schick, B. P. May, J. J. Anderson, S. Greene, C. Hanson, A. Low, D. McEwan, R. B. MacFarlane, C. Swanson, and J. G. Williams. 2004. Population Structure of Threatened and Endangered Chinook Salmon ESU in California’s Central Valley Basin. Public Review Draft. NOAA Technical Memorandum NMFS, Southwest Science Center, Santa Cruz, CA. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Lindley_etal_2004_Population%20Structure%20of%20Threatened%20and%20Endangered%20Chinook%20Salmon%20ESU%20in%20California%E2%80%99s%20Central%20Valley%20Basin.pdf?csf=1&web=1&e=DT8z2l</a >
Lindley, S. T., R. Schick, E. Mora, P. B. Adams, J. J. Anderson, S. Greene, C. Hanson, B. P. May, D. R. McEwan, R. B. MacFarlane, C. Swanson, and J. G. Williams. 2007. Framework for Assessing Viability of Threatened and Endangered Chinook Salmon and Steelhead in the Sacramento–San Joaquin Basin. San Francisco Estuary and Watershed Science 5(1):26. https://swfsc-publications.fisheries.noaa.gov/publications/CR/2007/2007Lin.pdf
Loboschefsky, E., G. Benigno, T. Sommer, K. Rose, T. Ginn, A. Massoudieh, and F. Loge. 2012. Individual-Level and Population-Level Historical Prey Demand of San Francisco Estuary Striped Bass Using a Bioenergetics Model. San Francisco Estuary and Watershed Science 10(1). Available: https://escholarship.org/uc/item/1c788451</a >.
Lott, J. 1998. Feeding Habits of Juvenile and Adult Delta Smelt from the Sacramento–San Joaquin River Estuary. Interagency Ecological Program for the Sacramento–San Joaquin Estuary Newsletter 11(1):14–19. http://iep.water.ca.gov/report/newsletter/</a > .
Lower American River Task Force. 2002. River Corridor Management Plan (RCMP) for the Lower American River. 116 pages + 4 Appendices.
Mac Nally, R., J. R. Thomson, W. J. Kimmerer, F. Feyrer, K. B. Newman, A. Sih, W. A. Bennett, L. Brown, E. Fleishman, S. D. Culberson, and G. Castillo. 2010. Analysis of Pelagic Species Decline in the Upper San Francisco Estuary Using Multivariate Autoregressive Modeling (MAR). Ecological Applications 20(5):1417–1430. https://www.jstor.org/stable/25680387</a >
MacFarlane, R. B., and E. C. Norton. 2002. Physiological Ecology of Juvenile Chinook Salmon (Oncorhynchus tshawytscha) at the Southern End of Their Distribution, the San Francisco Estuary and Gulf of the Farallones, California. Fishery Bulletin 100(2), 244–257. https://spo.nmfs.noaa.gov/sites/default/files/pdf-content/2002/1002/macfar.pdf</a >
MacKenzie, C., L. S. Weiss-Glanz, and J. R. Moring. 1985. Species Profiles: Life Histories and Environmental Requirements of Coast Fishes and Invertebrates (Mid-Atlantic) – American Shad. U.S. Fish and Wildlife Service Biological Report 82(11.37). U.S. Army Corps of Engineers, TR EL-82-4. https://njscuba.net/wp-content/uploads/biology/pdf/usfws_american_shad_0156.pdf</a >
MacWilliams, M., A. J. Bever, and E. Foresman. 2016. 3-D Simulations of the San Francisco Estuary with Subgrid Bathymetry to Explore Long-Term Trends in Salinity Distribution and Fish Abundance. San Francisco Estuary and Watershed Science 14(2). Available: https://escholarship.org/uc/item/5qj0k0m6</a >.
Mager, R. C. 1996. Gametogenesis, Reproduction and Artificial Propogation of Delta Smelt, Hypomesus transpacificus. PhD dissertation. University of California, Davis, Davis, CA.
Mahardja B., M. J. Young, B. Schreier, and T. Sommer. 2017. Understanding Imperfect Detection in a San Francisco Estuary Long-Term Larval and Juvenile Fish Monitoring Programme. Fisheries Management and Ecology 24(6):488–503. https://onlinelibrary.wiley.com/doi/full/10.1111/fme.12257</a >
Manly, B. F., J. D. Fullerton, A. N. Hendrix, K. P. Burnham. 2015. Comments on Feyrer et al. Modeling the Effects of Future Outflow on the Abiotic Habitat of an Imperiled Estuarine Fish. Estuaries and Coasts 38(5):1815–1820. https://www.researchgate.net/publication/270516736_Comments_on_Feyrer_et_al_Modeling_the_Effects_of_Future_Outflow_on_the_Abiotic_Habitat_of_an_Imperiled_Estuarine_Fish</a >
Marston, D., C. Mesick, A. Hubbard, D. Stanton, S. Fortmann-Roe, S. Tsao, and T. Heyne. 2012. Delta Flow Factors Influencing Stray Rate of Escaping Adult San Joaquin River Fall-Run Chinook Salmon (Oncorhynchus tshawytscha). San Francisco Estuary and Watershed Science 10(4). Available: https://escholarship.org/uc/item/6f88q6pf</a >.
Martin, C. D., P. D. Gaines, and R. R. Johnson. 2001. Estimating the Abundance of Sacramento River Winter Chinook Salmon with Comparisons to Adult Escapement. Red Bluff Research Pumping Plant Report Series, Volume 5. U.S. Fish and Wildlife Service. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626441.pdf</a >
Martin, B. T., A. Pike, S. N. John, N. Hamda, J. Roberts, S. T. Lindley, and E. M. Danner. 2017. Phenomenological vs. Biophysical Models of Thermal Stress in Aquatic Eggs. Ecology Letters 20(1):50–59. https://onlinelibrary.wiley.com/doi/full/10.1111/ele.12705</a >
Maunder, M. N., and R. B. Deriso. 2011. A State-Space Multistage Life Cycle Model to Evaluate Population Impacts in the Presence of Density Dependence: Illustrated with Application to Delta Smelt (Hyposmesus transpacificus). Canadian Journal of Fisheries and Aquatic Science 68(7):1285–1306. Available: https://doi.org/10.1139/f2011-071</a >.
Maunder, M. N., R. B. Deriso, and C. H. Hanson. 2015. Use of State-Space Population Dynamics Models in Hypothesis Testing: Advantages over Simple Log-Linear Regressions for Modeling Survival, Illustrated with Application to Longfin Smelt (Spirinchus thaleichthys). Fisheries Research 164:102–111. https://www.sciencedirect.com/science/article/pii/S0165783614003105</a >
McAllister, D. E. 1963. A Revision of the Smelt Family, Osmeridae. National Museum of Canada, Biological Series 71, Bulletin No. 191:1–53. Copyright protected. See introduction for more information
McCabe, G. T., and C. A. Tracy. 1994. Spawning and Early-Life History of White Sturgeon, Acipenser transmontanus, in the Lower Columbia River. Fishery Bulletin 92(4):760–772. https://spo.nmfs.noaa.gov/sites/default/files/pdf-content/1994/924/mccabe.pdf</a >
McCrae, J. 1994. Oregon Developmental Species, Pacific Sardine. Oregon Department of Fisheries and Wildlife.
McEnroe, M., and J. J. Cech, Jr. 1985. Osmoregulation in Juvenile and Adult White Sturgeon, Acipenser transmontanus. Environmental Biology of Fishes 14:23–30. Copyright protected. See introduction for more information
McEwan, D. 2001. Central Valley Steelhead. In Fish Bulletin 179(1): Contributions to the Biology of Central Valley Salmonids, edited by R. L. Brown, 1–44. Sacramento, CA: California Department of Fish and Game. https://escholarship.org/uc/item/6sd4z5b2</a >
McEwan, D. R., and T. Jackson. 1996. Steelhead Restoration and Management Plan for California. 22 February. California Department of Fish and Game, Sacramento, CA. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwiG8vOBy7mBAxVrJkQIHWnmAsQQFnoECBEQAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentID%3D3490&usg=AOvVaw0yVl5vHEj6cLxDeUdgDr3c&opi=89978449</a >
Meng, L. and P. B. Moyle. 1995. Status of Splittail in the Sacramento–San Joaquin Estuary. Transactions of the American Fisheries Society 124(4):538–549. https://www.researchgate.net/publication/254329121_Status_of_Splittail_in_the_Sacramento-San_Joaquin_Estuary</a >
Merz, J., P. S. Bergman, J. F. Melgo, and S. Hamilton. 2013. Longfin Smelt: Spatial Dynamics and Ontogeny in the San Francisco Estuary, California. California Fish and Game 99(3):122–148. file:///C:/Users/msavage/Downloads/Pages%20from%2099-3,%20122%20to%20148%20smelt.pdf</a >
Merz, J. E., S. Hamilton, P. S. Bergman, and B. Cavallo. 2011. Spatial Perspective for Delta Smelt: A Summary of Contemporary Survey Data. California Fish and Game 97(4):164–189. Available: https://www.baydeltalive.com/assets/06942155460a79991fdf1b57f641b1b4/application/pdf/CFG_097-4_2011-2-DeltaSmelt1.pdf</a >.
Mesick, C. 2001. The Effects of San Joaquin River Flows and Delta Export Rates during October on the Number of Adult San Joaquin Chinook Salmon that Stray. In Fish Bulletin 179(2): Contributions to the Biology of Central Valley Salmonids, edited by R. L. Brown, 139–161. Sacramento, CA: California Department of Fish and Game. http://www.sjrdotmdl.org/concept_model/phys-chem_model/documents/300001864.pdf
Michel, C. J. 2019. Decoupling outmigration from marine survival indicates outsized influence of streamflow on cohort success for California’s Chinook salmon populations. Canadian Journal of Fisheries and Aquatic Sciences 76:1398–1410. https://cdnsciencepub.com/doi/full/10.1139/cjfas-2018-0140</a >
Michel, C. J., A. J. Ammann, E. D. Chapman, P. T. Sandstrom, H. E. Fish, M. J. Thomas, A. P. Klimley, and R. B. MacFarlane. 2012. The Effects of Environmental Factors on the Migratory Movement Patterns of Sacramento River Yearling Late-Fall Run Chinook Salmon (Oncorhynchus tshawytscha). Environmental Biology of Fishes 96:257–271.
Michel, C. J., J. M. Smith, N. J. Demetras, D. D. Huff, and S. A. Hayes. 2018. Non-Native Fish Predator Density and Molecular-Based Diet Estimates Suggest Differing Impacts of Predator Species on Juvenile Salmon in the San Joaquin River, California. San Francisco Estuary and Watershed Science 16(4). Available: https://escholarship.org/uc/item/9cb0v4fz</a >.
Miller W.J. 2011. Revisiting Assumptions that Underlie Estimates of Proportional Entrainment of Delta Smelt by State and Federal Water Diversions from the Sacramento-San Joaquin Delta. San Francisco Estuary and Watershed Science 9(1). https://escholarship.org/uc/item/5941x1h8</a >
Miller, D. J., and R. N. Lea. 1972. Fish Bulletin 157: Guide to the Coastal Marine Fishes of California. Sacramento, CA: California Department of Fish and Game. http://www.nativefishlab.net/library/textpdf/15272.pdf</a >
Miller, W. J., B. F. J. Manly, D. D. Murphy, D. Fullerton, and R. R. Ramey. 2012. An Investigation of Factors Affecting the Decline of Delta Smelt (Hypomesus transpacificus) in the Sacramento–San Joaquin Estuary. Reviews in Fisheries Science 20(1):1–19. https://www.researchgate.net/publication/233229927_An_Investigation_of_Factors_Affecting_the_Decline_of_Delta_Smelt_Hypomesus_transpacificus_in_the_Sacramento-San_Joaquin_Estuary</a >
Mitchell, L., K. Newman, and R. Baxter. 2017. A Covered Cod End and Tow-Path Evaluation of Midwater Trawl Gear Efficiency for Catching Delta Smelt (Hypomesus transpacificus). San Francisco Estuary and Watershed Science 15(4). Available: https://escholarship.org/uc/item/4wj0979x</a >.
Moffett, J. 1949. The First Four Years of King Salmon Maintenance below Shasta Dam, Sacramento River, California. California Fish and Game 35(2):77–102.
Mora, E. A., R. D. Battleson, S. T. Lindley, M. J. Thomas, R. Bellmer, L. J. Zarri, and A. P. Klimley. 2018. Estimating the Annual Spawning Run Size and Population Size of the Southern Distinct Population Segment of Green Sturgeon. Transactions of the American Fisheries Society 147(1):195–203. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Mora_etal_2018_Estimating_the_annual_spawning_run-size_and_popula.pdf?csf=1&web=1&e=4mWe7V</a >
Mount, J., W. Fleenor, B. Gray, B. Herbold, and W. Kimmerer. 2013. Panel Review of the Draft Bay-Delta Conservation Plan. Prepared for the Nature Conservancy and American Rivers. September. Saracino & Mount, LLC, Sacramento, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Mount_etal_2013_Panel%20Review%20of%20the%20Draft%20Bay-Delta%20Conservation%20Plan.pdf?csf=1&web=1&e=RXFppu</a >
Moyle, P. B. 1976. Inland Fishes of California. Berkeley, CA: University of California Press. Copyright protected. See introduction for more information
Moyle, P. B. 2002. Inland Fishes of California. Revised and expanded. Berkeley, CA: University of California Press. Copyright protected. See introduction for more information
Moyle, P. B., and W. A. Bennett. 2008. The Future of the Delta Ecosystem and Its Fish: Technical Appendix D. An appendix to Comparing Futures for the Sacramento–San Joaquin Delta. Public Policy Institute of California. Available: https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/docs/cmnt081712/sldmwa/moyleandbennett2008.pdf</a >.
Moyle, P. B., R. D. Baxter, T. Sommer, T. C. Foin, and S. A. Matern. 2004. Biology and Population Dynamics of Sacramento Splittail (Pogonichthys macrolepidotus) in the San Francisco Estuary: A Review. San Francisco Estuary and Watershed Science 2(2). Available: https://escholarship.org/uc/item/61r48686</a >.
Moyle, P. B., L. R. Brown, S. D. Chase, and R. M. Quiñones. 2009. Status and Conservation of Lampreys in California. In Biology, Management, and Conservation of Lampreys in North America: American Fisheries Society Symposium 72, edited by L. R. Brown, S. D. Chase, M. G. Mesa, R. J. Beamish, and P. B. Moyle, 279–292. Bethesda, MD: American Fisheries Society. Copyright protected. See introduction for more information
Moyle, P. B., L. R. Brown and J. R. Durand. 2016. Delta Smelt: Life History and Decline of a Once Abundant Species in the San Francisco Estuary. San Francisco Estuary and Watershed Science 14(2). Available: http://escholarship.org/uc/item/09k9f76s</a >.
Moyle, P. B., B. Herbold, D. E. Stevens, and L. W. Miller. 1992. Life History and Status of Delta Smelt in the Sacramento–San Joaquin Estuary, California. Transactions of the American Fisheries Society 121(1):67–77. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Moyle_etal_1992_Life%20History%20and%20Status%20of%20Delta%20Smelt%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20Estuary,%20California.pdf?csf=1&web=1&e=vYbNgU</a >
Moyle, P. B., R. M. Quiñones, J. V. Katz, and J. Weaver. 2015. Fish Species of Special Concern in California. Sacramento: California Department of Fish and Wildlife. Available: https://nrm.dfg.ca.gov/FileHandler.ashx?DocumentID=104282&inline</a >.
Moyle, P. B., R. M. Yoshiyama, J. E. Williams, and E. D. Wikramanayake. 1995. Fish Species of Special Concern in California. Second edition. Davis, CA: Department of Wildlife and Fisheries Biology, University of California, Davis. Prepared for the California Department of Fish and Game, Rancho Cordova, CA. https://www.biologicaldiversity.org/species/fish/North_American_green_sturgeon/pdfs/fish_ssc.pdf
Mueller Solger, A., C. Hall, A. Jassby, and C. Goldman. 2006. Food Resources for Zooplankton in the Sacramento–San Joaquin River Delta. Final Report. May 2006. CALFED Project ERP-01-N50/CALFED 2001-K221.
Murphy, D. D., and S. A. Hamilton. 2013. Eastern Migration or Marshward Dispersal: Exercising Survey Data to Elicit an Understanding of Seasonal Movement of Delta Smelt. San Francisco Estuary and Watershed Science 11(3). Available: https://escholarship.org/uc/item/4jf862qz</a >.
Murphy, D. D., and P. S. Weiland. 2019. The Low-Salinity Zone in the San Francisco Estuary as a Proxy for Delta Smelt Habitat: A Case Study in the Misuse of Surrogates in Conservation Planning. Ecological Indicators 105:29–35 https://www.sciencedirect.com/science/article/pii/S1470160X1930398X</a >.
Myrick, C. A. and J. J. Cech. 2004. Temperature Effects on Juvenile Anadromous Salmonids in California’s Central Valley: What Don’t We Know? Reviews in Fish Biology and Fisheries 14(1):113–123. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/Myrick%20and%20Cech%20%282004%29.pdf</a >
National Marine Fisheries Service. 2005. Green Sturgeon (Acipenser medirostris) Status Review Update, February 2005. Biological review team, Santa Cruz Laboratory, Southwest Fisheries Science Center. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/NMFS_2005_Green%20Sturgeon%20(Acipenser%20medirostris)%20Status%20Review%20Update,%20February%202005.pdf?csf=1&web=1&e=Qg4r79</a >
National Marine Fisheries Service. 2008. Recovery Plan for Southern Resident Killer Whales (Orcinus orca). National Marine Fisheries Service, Northwest Region, Seattle, WA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/NMFS_2008_Recovery%20Plan%20for%20Southern%20Resident%20Killer%20Whales%20(Orcinus%20orca).pdf?csf=1&web=1&e=fdlihO</a >
National Marine Fisheries Service. 2009b. Biological Opinion and Conference Opinion on the Long-Term Operations of the Central Valley Project and State Water Project. National Oceanic and Atmospheric Administration, National Marine Fisheries Service, Southwest Region, Long Beach, CA. https://www.fisheries.noaa.gov/resource/document/biological-opinion-and-conference-opinion-long-term-operations-central-valley</a >
National Marine Fisheries Service. 2012. Final Recovery Plan for Central California Coast coho salmon Evolutionarily Significant Unit. National Marine Fisheries Service, Southwest Region, Santa Rosa, California. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/NMFS_2012_Recovery%20plan%20for%20the%20evolutionarily%20significant%20unit%20of%20Central%20California%20Coast%20coho%20salmon.pdf?csf=1&web=1&e=av4jXw</a >
National Marine Fisheries Service. 2014. Recovery Plan for the Evolutionarily Significant Units of Sacramento River Winter-Run Chinook Salmon and Central Valley Spring-Run Chinook Salmon and the Distinct Population Segment of California Central Valley Steelhead. July 2014. California Central Valley Area Office, Sacramento, CA. https://www.fisheries.noaa.gov/resource/document/recovery-plan-evolutionarily-significant-units-sacramento-river-winter-run</a >
National Marine Fisheries Service. 2015. Southern Distinct Population Segment of the North American Green Sturgeon (Acipenser medirostris) 5-Year Review: Summary and Evaluation. National Marine Fisheries Service, West Coast Region, Long Beach, CA. https://www.fisheries.noaa.gov/resource/document/southern-distinct-population-segment-north-american-green-sturgeon-acipenser</a >
National Marine Fisheries Service. 2016. 5-Year Review: Summary and Evaluation of Central Valley Spring-Run Chinook Salmon. National Marine Fisheries Service, West Coast Region. Sacramento, CA.
National Marine Fisheries Service. 2018. Draft Recovery Plan for the Southern Distinct Population Segment of North American Green Sturgeon (Acipenser medirostris). January. National Marine Fisheries Service, West Coast Region, Sacramento, CA. Available at: < https://www.fisheries.noaa.gov/resource/document/final-recovery-plan-southern-distinct-population-segment-north-american-green</a >>
National Marine Fisheries Service. 2019. Biological Opinion on Long-Term Operation of the Central Valley Project and the State Water Project. WCRO-2016-00069. October. West Coast Region, Sacramento, CA https://www.fisheries.noaa.gov/resource/document/biological-opinion-reinitiation-consultation-long-term-operation-central-valley</a >.
National Marine Fisheries Service, Bureau of Reclamation, and California Department of Fish and Wildlife. 2017. Hatchery and Genetics Management Plan for Trinity River Hatchery Coho Salmon. December. Arcata, CA.
National Marine Fisheries Service, West Coast Region and Washington Department of Fish and Wildlife. 2018. Southern Resident Killer Whale Priority Chinook Stocks Report. June 22. https://media.fisheries.noaa.gov/dam-migration/srkw_priority_chinook_stocks_conceptual_model_report___list_22june2018.pdf</a >
National Oceanic and Atmospheric Administration Fisheries. 2020a. Researchers Probe Deaths of Central Valley Chinook, with Possible Ties to Ocean Changes. Last updated by West Coast Regional Office on 12/1/2020. Available: https://www.fisheries.noaa.gov/feature-story/researchers-probe-deaths-central-valley-chinook-possible-ties-ocean-changes</a >.
National Oceanic and Atmospheric Administration Fisheries. 2020b. San Joaquin River Restoration Program. Last updated by West Coast Regional Office on 01/15/2020. Available: https://www.fisheries.noaa.gov/west-coast/habitat-conservation/san-joaquin-river-restoration#san-joaquin-river-spring-run-chinook-salmon-reintroduction</a >.
National Park Service. 1999. Whiskeytown-Shasta-Trinity National Recreation Area General Management Plan and Environmental Impact Statement. June. Pacific West Region. Available: http://www.nps.gov/whis/parkmgmt/upload/GMPfinal.pdf</a > Copyright protected. See introduction for more information
Newcomb, J. and L. Pierce. 2010. Low Dissolved Oxygen Levels in the Stockton Deep Water Shipping Channel: Adverse Effects on Salmon and Steelhead and Potential Beneficial Effects of Raising Dissolved Oxygen Levels with the Aeration Facility. Fish Passage Improvement Program, FloodSAFE Environmental Stewardship and Statewide Resources Office, Department of Water Resources. 28 pp. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Newcomb_Pierce_2010_Low%20Dissolved%20Oxygen%20Levels%20in%20the%20Stockton%20Deep%20Water%20Shipping%20Channel.pdf?csf=1&web=1&e=6Sgmfe</a >
Newman, K. B., and P. L. Brandes. 2010. Hierarchical Modeling of Juvenile Chinook Salmon Survival as a Function of Sacramento–San Joaquin Delta Water Exports. North American Journal of Fisheries Management 30(1):157–169. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626199.pdf</a >
Newman, K. B., and J. Rice. 2002. Modeling the Survival of Chinook Salmon Smolts Outmigrating Through the Lower Sacramento River System. Journal of the American Statistical Association 97(460):983–993. https://www.jstor.org/stable/3085820</a >
Nielsen, J. L., S. A. Pavey, T. Wiacek, and I. Williams. 2005. Genetics of Central Valley O. mykiss populations: Drainage and Watershed Scale Analysis. San Francisco Estuary and Watershed Science 3(2). Available: https://escholarship.org/uc/item/6sc3905g</a >.
Nobriga, M. L. 2002. Larval Delta Smelt Diet Composition and Feeding Incidence: Environmental and Ontogenetic Influences. California Fish and Game 88(4):149–164. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Nobriga_2002_Larval%20Delta%20Smelt%20Diet%20Composition%20and%20Feeding%20Incidence%20Environmental%20and%20Ontogenetic%20Influences.pdf?csf=1&web=1&e=7CKkYE</a >
Nobriga, M. L., and P. Cadrett. 2001. Differences Among Hatchery and Wild Steelhead: Evidence from Delta Fish Monitoring Programs. IEP Newsletter 14(3):30–38. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Nobriga_Cadrett_2001_Differences%20Among%20Hatchery%20and%20Wild%20Steelhead.pdf?csf=1&web=1&e=xfAHBM</a >
Nobriga, M. L., and F. Feyrer. 2007. Shallow-Water Piscivore-Prey Dynamics in California’s Sacramento–San Joaquin Delta. San Francisco Estuary and Watershed Science 5(2). Available: http://escholarship.org/uc/item/387603c0</a >.
Nobriga M. L., F. Feyrer, R. D. Baxter, and M. Chotkowski. 2005. Fish Community Ecology in an Altered River Delta: Spatial Patterns in Species Composition, Life History Strategies, and Biomass. Estuaries 28(5):776–785. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/NobrigaEtAl_2005_fish-comm-ecology-altered.pdf?csf=1&web=1&e=ygbHRP</a >
Nobriga, M. L., Loboschefsky, E., & Feyrer, F. 2013. Common Predator, Rare Prey: Exploring Juvenile Striped Bass Predation on Delta Smelt in California’s San Francisco Estuary. Transactions of the American Fisheries Society 142(6):1563–1575. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Nobriga_etal_2013_Common%20Predator,%20Rare%20Prey%20Exploring%20Juvenile%20Striped%20Bass%20Predation%20on%20Delta%20Smelt%20in%20California%E2%80%99s%20San%20Francisco%20Estuary.pdf?csf=1&web=1&e=lG02WO</a >
Nobriga, M. L., and J. A. Rosenfield. 2016. Population Dynamics of an Estuarine Forage Fish: Disaggregating Forces Driving Long-Term Decline of Longfin Smelt in California’s San Francisco Estuary. Transactions of the American Fisheries Society 145(1):44–58. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Nobriga_Rosenfield_2016_PopulationDynamicsEstuarineForageFish.pdf?csf=1&web=1&e=5RdetZ</a >
Nobriga, M. L., T. R. Sommer, F. Feyrer, and K. Fleming. 2008. Long-Term Trends in Summertime Habitat Suitability for Delta Smelt. San Francisco Estuary and Watershed Science 6(1). Available: http://escholarship.org/uc/item/5xd3q8tx</a >.
Nobriga, M. L., and W. E. Smith. 2020. Did a Shifting Ecological Baseline Mask the Predatory Effect of Striped Bass on Delta Smelt? San Francisco Estuary and Watershed Science 18(1). Available: https://escholarship.org/uc/item/46f3j55m</a >.
Notch, J. J., A. S. McHuron, C. J. Michel, F. Cordoleani, M. Johnson, M. J. Henderson, and A. J. Ammann. 2020. Outmigration Survival of Wild Chinook Salmon Smolts through the Sacramento River during Historic Drought and High Water Conditions. Environmental Biology of Fishes 103:561–576. DOI: https://doi.org/10.1007/s10641-020-00952-1</a >.
Orcutt, H. G. 1950. Fish Bulletin 78: The Life History of the Starry Flounder, Platichthys stellatus (Pallas). California Department of Fish and Game. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Nobriga_Rosenfield_2016_PopulationDynamicsEstuarineForageFish.pdf?csf=1&web=1&e=sAIHlt</a >
Orsi, J., and W. L. Mecum. 1986. Zooplankton Distribution and Abundance in the Sacramento–San Joaquin Delta in Relation to Certain Environmental Factors. Estuaries 9(4B):326–339. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Orsi%26Mecum_1986_Zooplankton.pdf?csf=1&web=1&e=vdsoT5</a >
SPPacific States Marine Fisheries Commission 2014. Juvenile Salmonid Emigration Monitoring in the Lower American River, California January – June 2013. Unpublished Report prepared for the U.S. Fish and Wildlife Service and California Department of Fish and Wildlife, Sacramento, California. 54 pp. https://www.calfish.org/Portals/2/Programs/CentralValley/LAR_RST/docs/2014%20LAR%20RST%20Emigration%20Monitoring.pdf</a >
Painter, R. L., L. Wixom, and L. Meinz. 1979. American Shad Management Plan for the Sacramento River Drainage. Anadromous Fish Conservation Act Project AFS-17, Job 5. California Department of Fish and Game, Sacramento, CA.
Palmer-Zwahlen, M., V. Gusman, and B. Kormos. 2018. Recovery of Coded-Wire Tags from Chinook Salmon in California’s Central Valley Escapement, Inland Harvest, and Ocean Harvest in 2013. Joint Pacific States Marine Fisheries Commission and California Department of Fish and Wildlife Report. October 2018. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Palmer-Zwahlen_etal_2018_Recovery%20of%20Coded-Wire%20Tags%20from%20Chinook%20Salmon%20in%20California%E2%80%99s%20Central%20Valley%20Escapement,%20Inland%20Harvest,%20and%20Ocean%20Harvest%20in%202013.pdf?csf=1&web=1&e=jwtJIr</a >
Pearson, D. E. 1989. Survey of Fishes and Water Properties of South San Francisco Bay, California, 1973–82. NOAA-NMFS Technical Report 78. August. U.S. Department of Commerce. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Pearson_1989_Survey%20of%20Fishes%20and%20Water%20Properties%20of%20South%20San%20Francisco%20Bay,%20California,%201973%E2%80%9382.pdf?csf=1&web=1&e=GRA6bA</a >
Perry, R. W., P. L. Brandes, J. R. Burau, A. P. Klimley, B. MacFarlane, C. J. Michel, and J. R. Skalski. 2013. Sensitivity of Survival to Migration Routes Used by Juvenile Chinook Salmon to Negotiate the Sacramento–San Joaquin River Delta. Environmental Biology of Fishes 96:381–392. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Perry_etal_2013_Sensitivity%20of%20Survival%20to%20Migration%20Routes%20Used%20by%20Juvenile%20Chinook%20Salmon%20to%20Negotiate%20the%20Sacramento%E2%80%93San%20Joaquin%20River%20Delta.pdf?csf=1&web=1&e=DiPk2B</a >
Perry, R. W., P. L. Brandes, P. T. Sandstrom, A. P. Klimley, A. Ammann, and B. MacFarlane. 2010. Estimating Survival and Migration Route Probabilities of Juvenile Chinook Salmon in the Sacramento–San Joaquin River Delta. North American Journal of Fisheries Management 30(1):142–156. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Perry_etal_2010_Estimating%20Survival%20and%20Migration%20Route%20Probabilities%20of%20Juvenile%20Chinook%20Salmon%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20River%20Delta.pdf?csf=1&web=1&e=G3cXFw</a >
Perry, R. W., A. C. Pope, J. G. Romine, P. L. Brandes, J. R. Burau, A. R. Blake, A. J. Ammann, C. J. Michel. 2018. Flow-Mediated Effects on Travel Time, Routing, and Survival of Juvenile Chinook Salmon in a Spatially Complex, Tidally Forced River Delta. Canadian Journal of Fisheries and Aquatic Sciences 75(11):1886–1901. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Perry_et_al_2018_Flow-mediated_effects_travel_time.pdf?csf=1&web=1&e=t61S3z</a >
Perry, R. W., J. G. Romine, S. J. Brewer, P. E. LaCivita, W. N. Brostoff, and E. D. Chapman. 2012. Survival and Migration Route Probabilities of Juvenile Chinook Salmon in the Sacramento–San Joaquin River Delta During the Winter of 2009–10. U.S. Geological Survey Open-File Report 2012-1200. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Perry_etal_2012_Survival%20and%20Migration%20Route%20Probabilities%20of%20Juvenile%20Chinook%20Salmon%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20River%20Delta%20During%20the%20Winter%20of%202009%E2%80%9310.pdf?csf=1&web=1&e=kM3DqY</a >
Petersen, J. H., and J. F. Kitchell. 2001. Climate Regimes and Water Temperature Changes in the Columbia River: Bioenergetic Implications for Predators of Juvenile Salmon. Canadian Journal of Fisheries and Aquatic Sciences 58(9):1831–1841. Copyright protected. See introduction for more information
Petersen Lewis, R. 2009. Yurok and Karuk traditional ecological knowledge: insights into Pacific lamprey populations of the Lower Klamath Basin. Pages 1-39 in L. R. Brown, S. D. Chase, M. G. Mesa, R. J. Beamish, and P. B. Moyle, editors. Biology, management, and conservation of lampreys in North America. American Fisheries Society, Symposium 72, Bethesda, Maryland. Copyright protected. See introduction for more information
Peterson, J. T., and M. F. Barajas. 2018. An Evaluation of Three Fish Surveys in the San Francisco Estuary, 1995–2015. San Francisco Estuary and Watershed Science 16(4). https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Peterson_Barajas_2018_An%20Evaluation%20of%20Three%20Fish%20Surveys%20in%20the%20San%20Francisco%20Estuary,%201995%E2%80%932015.pdf?csf=1&web=1&e=pwQM8r</a >
Peterson, M. L., A. N. Fuller, and D. Demko. 2017. Environmental Factors Associated with the Upstream Migration of Fall-Run Chinook Salmon in a Regulated River. North American Journal of Fisheries Management 37(1):78–93. Copyright protected. See introduction for more information
Phillis, C. C., A. M. Sturrock, R. C. Johnson, P. K. Weber. 2018. Endangered Winter-Run Chinook Salmon Rely on Diverse Rearing Habitats in a Highly Altered Landscape. January. Biological Conservation 217:358–362. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Phillis_etal_2018_Endangered%20Winter-Run%20Chinook%20Salmon%20Rely%20on%20Diverse%20Rearing%20Habitats%20in%20a%20Highly%20Altered%20Landscape.pdf?csf=1&web=1&e=yPyWKZ</a >
Pickard, A., A. Grover, and F. Hall. 1982. An Evaluation of Predator Composition at Three Locations on the Sacramento River. Technical Report No. 2. Interagency Ecological Study Program for the Sacramento–San Joaquin Estuary. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Pickard_etal_1982_An%20Evaluation%20of%20Predator%20Composition%20at%20Three%20Locations%20on%20the%20Sacramento%20River.pdf?csf=1&web=1&e=9Kpakw</a >
Pinnix, W. D., T. A. Shaw, and N. J. Hetrick. 2004. Fish Communities in Eelgrass, Oyster Culture, and Mud Flat Habitat of North Humboldt Bay, California Progress Report. U.S. Fish and Wildlife Service. Arcata Fisheries Technical Report Number AFWO-F-07-04. Arcata, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Pinnix_etal_2004.%20Fish%20Communities%20in%20Eelgrass,%20Oyster%20Culture,%20and%20Mud%20Flat%20Habitat%20of%20North%20Humboldt%20Bay,%20California%20Progress%20Report.pdf?csf=1&web=1&e=8S9t5y</a >
Polansky, L., L. Mitchell, and K. B. Newman. 2019. Using Multistage Design-Based Methods to Construct Abundance Indices and Uncertainty Measures for Delta Smelt. Transactions of the American Fisheries Society 148(4):710–724. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Polansky_etal_2019.%20Using%20Multistage%20Design-Based%20Methods%20to%20Construct%20Abundance%20Indices%20and%20Uncertainty%20Measures%20for%20Delta%20Smelt.pdf?csf=1&web=1&e=NvfE3W</a >
Polansky, L., K. B. Newman and M. L. Nobriga and L. Mitchell. 2018. Spatiotemporal Models of an Estuarine Fish Species to Identify Patterns and Factors Impacting Their Distribution and Abundance. Estuaries and Coasts 41(2):572–581. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Polansky_etal_2018.%20Spatiotemporal%20Models%20of%20an%20Estuarine%20Fish%20Species%20to%20Identify%20Patterns%20and%20Factors%20Impacting%20Their%20Distribution%20and%20Abundance.pdf?csf=1&web=1&e=rZF9Hl</a >
Pope, A. C., R. W. Perry, D. J. Hance, and H. C. Hansel. 2018. Survival, Travel Time, and Utilization of Yolo Bypass, California, by Outmigrating Acoustic-Tagged Late-Fall Chinook Salmon. U.S. Geological Survey Open-File Report 2018-1118. Reston, VA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Pope_etal_2018.%20Survival,%20Travel%20Time,%20and%20Utilization%20of%20Yolo%20Bypass,%20California,%20by%20Outmigrating%20Acoustic-Tagged%20Late-Fall%20Chinook%20Salmon.pdf?csf=1&web=1&e=SjDgX8</a >
Poytress, W. R., J. J. Gruber, C. E. Praetorius, and J. P. Van Eenennaam. 2013. 2012 Upper Sacramento River Green Sturgeon Spawning Habitat and Young-of-the-Year Migration Surveys. Annual Report of U.S. Fish and Wildlife Service to U.S. Bureau of Reclamation. Red Bluff, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Poytress_etal_2013.%202012%20Upper%20Sacramento%20River%20Green%20Sturgeon%20Spawning%20Habitat%20and%20Young-of-the-Year%20Migration%20Surveys.pdf?csf=1&web=1&e=vJC5Mg</a >
Provins, S. S., and C. D. Chamberlain. 2019. Distribution and Abundance of Rainbow Trout/Steelhead and Late-Fall Run Chinook Salmon Redds in Clear Creek, Winter 2011 to Spring 2012. U.S. Fish and Wildlife Service, Red Bluff Fish and Wildlife Office, Red Bluff, CA. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626331.pdf</a >
Purkey, D. R., B. Joyce, S. Vicuna, M. W. Hanemann, L. L. Dale, D. Yates, and J. A. Dracup. 2008. Robust Analysis of Future Climate Change Impacts on Water for Agriculture and Other Sectors: A Case Study in the Sacramento Valley. Climatic Change 87(1):109–122. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Purkey_etal_2008.%20Robust%20Analysis%20of%20Future%20Climate%20Change%20Impacts%20on%20Water%20for%20Agriculture%20and%20Other%20Sectors.pdf?csf=1&web=1&e=eRrHGW</a >
Radtke, L. D. 1966. Distribution of Smelt, Juvenile Sturgeon, and Starry Flounder in the Sacramento–San Joaquin Delta with Observations on Food of Sturgeon. In Fish Bulletin 136: Ecological Studies of the Sacramento–San Joaquin Delta, Part II—Fishes of the Delta, edited by S. L. Turner and D. W. Kelley, 115–129. Sacramento, CA: California Department of Fish and Game. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Radtke_1966.%20Distribution%20of%20Smelt,%20Juvenile%20Sturgeon,%20and%20Starry%20Flounder%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20Delta%20with%20Observations%20on%20Food%20of%20Sturgeon.pdf?csf=1&web=1&e=6ITgvO</a >
Reis-Santos, P., S. D. McCormick, and J. M. Wilson. 2008. Ionoregulatory Changes during Metamorphosis and Salinity Exposure of Juvenile Sea Lamprey (Petromyzon marinus L.). The Journal of Experimental Biology 211:978–988. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Reis-Santos_etal_2008.%20Ionoregulatory%20Changes%20during%20Metamorphosis%20and%20Salinity%20Exposure%20of%20Juvenile%20Sea%20Lamprey%20(Petromyzon%20marinus%20L.).pdf?csf=1&web=1&e=t3NFfe</a >
Robinson, T. C., and J. M Bayer. 2005. Upstream Migration of Pacific Lampreys in the John Day River, Oregon: Behavior, Timing, and Habitat Use. Northwest Science 79(2&3):106–119. https://www.researchgate.net/publication/236558648_Upstream_Migration_of_Pacific_Lampreys_in_the_John_Day_River_Behavior_Timing_and_Habitat_Use_Annual_Report_2000 Copyright protected. See introduction for more information
Rose, K. A., W. J. Kimmerer, K. P. Edwards and W. A. Bennett. 2013a. Individual-Based Modeling of Delta Smelt Population Dynamics in the Upper San Francisco Estuary: I. Model Description and Baseline Results. Transactions of the American Fisheries Society 142(5):1238–1259. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Rose_etal_2013a.%20Individual-Based%20Modeling%20of%20Delta%20Smelt%20Population%20Dynamics%20in%20the%20Upper%20San%20Francisco%20Estuary%20I.pdf?csf=1&web=1&e=1v5wqI</a >
Rose, K. A., W. J. Kimmerer, K. P. Edwards and W. A. Bennett. 2013b. Individual-Based Modeling of Delta Smelt Population Dynamics in the Upper San Francisco Estuary: II. Alternative Baselines and Good versus Bad Years. Transactions of the American Fisheries Society 142(5):1260–1272. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Rose_etal_2013b.%20Individual-Based%20Modeling%20of%20Delta%20Smelt%20Population%20Dynamics%20in%20the%20Upper%20San%20Francisco%20Estuary%20II.pdf?csf=1&web=1&e=fB4i45</a >
Rosenfield, J. A. 2010. Life History Conceptual Model and Sub-Models for Longfin Smelt, San Francisco Estuary Population for the Delta Regional Ecosystem Restoration Implementation Plan. May. Sacramento, CA. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Rosenfield_2010.%20Life%20History%20Conceptual%20Model%20and%20Sub-Models%20for%20Longfin%20Smelt,%20San%20Francisco%20Estuary%20Population%20for%20the%20Delta%20Regional%20Ecosystem%20Restoration%20Implementation%20Plan.pdf?csf=1&web=1&e=HhZfJh</a >
Rosenfield, J. A., and R. D. Baxter. 2007. Population Dynamics and Distribution Patterns of Longfin Smelt in the San Francisco Estuary. Transactions of the American Fisheries Society 136(6):1577–1592. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Rosenfield%26Baxter_2007_PopDyn-distri-patterns-LFS.pdf?csf=1&web=1&e=wW8lVR</a >
Rutter, C. 1908. The Fishes of the Sacramento–San Joaquin Basin, with a Study of Their Distribution and Variation. Document No. 637. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Rutter_1908_The%20Fishes%20of%20the%20Sacramento%E2%80%93San%20Joaquin%20Basin,%20with%20a%20Study%20of%20Their%20Distribution%20and%20Variation.pdf?csf=1&web=1&e=bUaM81</a >
Sabal, M. C., E. L. Hazen, S. J. Bograd, R. B. MacFarlane, I. D. Schroeder, S. A. Hayes, J. A. Harding, K. L. Scales, P. I. Miller, and A. J. Ammann. 2020. California Current Seascape Influences Juvenile Salmon Foraging Ecology at Multiple Scales. Marine Ecology Progress Series 634:159–173. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Sabal_etal_2020.%20California%20Current%20Seascape%20Influences%20Juvenile%20Salmon%20Foraging%20Ecology%20at%20Multiple%20Scales.pdf?csf=1&web=1&e=JwpXeD</a >
Sabal, M. C., C. J. Michel, J. M. Smith, A. Hampton, and S. A. Hayes. 2019. Seasonal Movement Patterns of Striped Bass (Morone saxatilis) in Their Nonnative Range. Estuaries and Coasts 42:567–579. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Sabal_etal_2019.%20Seasonal%20Movement%20Patterns%20of%20Striped%20Bass%20(Morone%20saxatilis)%20in%20Their%20Nonnative%20Range.pdf?csf=1&web=1&e=NXUHbB</a >
Saiki, M. K. 1984. Environmental Conditions and Fish Faunas in Low Elevation Rivers on the Irrigated San Joaquin Valley Floor, California. California Fish and Game 70:145–157 Copyright protected. See introduction for more information
Salmonid Scoping Team (SST). 2017. Effects of Water Project Operations on Juvenile Salmonid Migration and Survival in the South Delta. Volume 1: Findings and Recommendations. Prepared for Collaborative Adaptive Management Team. January.
San Joaquin River Group Authority. 2010. 2009 Annual Technical Report on Implementation and Monitoring of the San Joaquin River Agreement and the Vernalis Adaptive Management Plan (VAMP). Prepared for the California Water Resources Control Board in compliance with D-1641. San Joaquin River Group Authority.
San Joaquin River Group Authority. 2011. 2010 Annual Technical Report on Implementation and Monitoring of the San Joaquin River Agreement and the Vernalis Adaptive Management Plan (VAMP). Prepared for the California Water Resources Control Board in compliance with D-1641. San Joaquin River Group Authority.
San Joaquin River Group Authority. 2013. 2011 Annual Technical Report on Implementation and Monitoring of the San Joaquin River Agreement and the Vernalis Adaptive Management Plan. Prepared for the California Water Resource Control Board in compliance with D-1641. February. San Joaquin River Group Authority.
Satterthwaite, W. H., F. Cordoleani, M. R. O’Farrell. 2018. Central Valley Spring-Run Chinook Salmon and Ocean Fisheries: Data Availability and Management Possibilities. San Francisco Estuary and Watershed Science 16(1). Available: https://escholarship.org/uc/item/1258q4ms</a >.
Schaffter, R. 1997. White Sturgeon Spawning Migrations and Location of Spawning Habitat in the Sacramento River, California. California Department of Fish and Game 83:1–20. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/california_waterfix/exhibits/docs/petitioners_exhibit/dwr/part2/DWR-1112%20Shaffter_et_al_1997_white_sturgeon_spwaning_SacR.pdf</a > Copyright protected. See introduction for more information
Schick, R. S., A. L. Edsall, and S. T. Lindley. 2005. Historical and Current Distribution of Pacific Salmonids in the Central Valley, CA. Technical Memorandum 369. National Marine Fisheries Service, Santa Cruz, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/SchickEtAl_2005_hist-current-dist-pac-salmonids.PDF?csf=1&web=1&e=4lUolI</a >
Schraml, C. M., J. T. Earley, and C. D. Chamberlain. 2018. Brood Year 2011 Juvenile Salmonid Monitoring in Clear Creek, California. USFWS Report. U.S. Fish and Wildlife Service, Red Bluff Fish and Wildlife Office, Red Bluff, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Schraml_etal_2018.%20Brood%20Year%202011%20Juvenile%20Salmonid%20Monitoring%20in%20Clear%20Creek,%20California.pdf?csf=1&web=1&e=pJwHed</a >
Schreier, B. M., M. R. Baerwald, J. L. Conrad, G. Schumer, and B. May. 2016. Examination of Predation on Early Life Stage Delta Smelt in the San Francisco Estuary Using DNA Diet Analysis. Transactions of the American Fisheries Society 145(4):723–733. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/SchreierEtAl_2016_Examination.pdf?csf=1&web=1&e=bR6h7H</a >
Schultz, L., M. Mayfield, G. Sheoships, L. Wyss, B. Clemens, B. Chasco, and C. Schreck. 2014. The Distribution and Relative Abundance of Spawning and Larval Pacific Lamprey in the Willamette River Basin. Final Report to the Columbia Inter-Tribal Fish Commission for Project Years 2011–2014. May 2014. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Schulz_etal_2014.%20The%20Distribution%20and%20Relative%20Abundance%20of%20Spawning%20and%20Larval%20Pacific%20Lamprey%20in%20the%20Willamette%20River%20Basin.%20Final%20Report%20to%20the%20Columbia%20Inter-Tribal%20Fish%20Commission%20for%20Project%20Years%202011%E2%80%932014.pdf?csf=1&web=1&e=rvqORY</a >
Seesholtz, A. and M. Manuel. 2012. Preliminary Report: Passage, Abundance, Distribution and Potential Spawning Areas of Adult Green Sturgeon in the Lower Feather River during 2011 and 2012. California Department of Water Resources, West Sacramento, CA.
Seesholtz A., B. J. Cavallo, J. Kindopp, and R. Kurth. 2004. Juvenile Fishes of the Lower Feather River: Distribution, Emigration Patterns, and Associations with Environmental Variables. In Early Life History of Fishes in the San Francisco Estuary and Watershed: American Fisheries Society Symposium 39, edited by F. Feyrer, L. R. Brown, R. L. Brown, and J. J. Orsi, 141–168. Bethesda, MD: American Fisheries Society.
Seesholtz, A. M., M. J. Manuel, and J. P. Van Eenennaam. 2015. First Documented Spawning and Associated Habitat Conditions for Green Sturgeon in the Feather River, California. Environmental Biology of Fishes 98(3):905–912. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Seesholtz_et_al_2015_Green_sturgeon_Feather_river.pdf?csf=1&web=1&e=0Q5BKd</a >
Skinner, J. E. 1962. An Historical Review of the Fish and Wildlife Resources of the San Francisco Bay Area. Water Projects Branch Report No. 1. California Department of Fish and Game. Sacramento, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Skinner_1962_An%20Historical%20Review%20of%20the%20Fish%20and%20Wildlife%20Resources%20of%20the%20San%20Francisco%20Bay%20Area.pdf?csf=1&web=1&e=cZrCkr</a >
Slater, S. B. 2008. Feeding Habits of Longfin Smelt in the Upper San Francisco Estuary. Poster Session, 2008 CALFED Science Conference. Available: https://nrm.dfg.ca.gov/FileHandler.ashx?DocumentID=98374</a >. Copyright protected. See introduction for more information
Slater, S. B., and R. D. Baxter. 2014. Diet, Prey Selection, and Body Condition of Age-0 Delta Smelt, in the Upper San Francisco Estuary. San Francisco Estuary Watershed Science 12(3). doi: http://dx.doi.org/10.15447/sfews.2014v12iss3art1</a >.
Slater, S. B., A. Schultz, B.G. Hammock, A. Hennessy, and C. Burdi. 2019. Chapter 1: Patterns of Zooplankton Consumption by Juvenile and Adult Delta Smelt (Hypomesus transpacificus). Pages 9–54 in A. A. Schultz (ed.), Directed Outflow Project: Technical Report 1. U.S. Bureau of Reclamation, Bay-Delta Office, Mid-Pacific Region, Sacramento, CA. November 2019. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Slater_etal_2019_Chap_1_Delta_Smelt.pdf?csf=1&web=1&e=snZvuZ</a >
Smith, W. E. 2019. Integration of Transport, Survival, and Sampling Efficiency in a Model of South Delta Entrainment. San Francisco Estuary and Watershed Science 17(4). Available: https://escholarship.org/uc/item/893826f3</a >.
Smith, W. E., K. B. Newman, and L. Mitchell. 2020. A Bayesian Hierarchical Model of Postlarval Delta Smelt Entrainment: Integrating Transport, Length Composition, and Sampling Efficiency in Estimates of Loss. Canadian Journal of Fisheries and Aquatic Sciences 77:789–813. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Smith_etal_%202020.%20A%20Bayesian%20Hierarchical%20Model%20of%20Postlarval%20Delta%20Smelt%20Entrainment.pdf?csf=1&web=1&e=YJxSuU</a >
Smith, S. E., and S. Kato. 1979. The Fisheries of San Francisco Bay: Past, Present, and Future. In San Francisco Bay: The Urbanized Estuary, edited by T. J. Conomos, 445–468. Pacific Division, American Association for the Advancement of Science, San Francisco, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Smith_Kato_1979_FisheriesofSanFranciscoBay.PDF?csf=1&web=1&e=n4dJfD</a >
Smith, S. G., W. D. Muir, and J. G. Willams. 2002. Factors Associated with Travel Time and Survival of Migrant Yearling Chinook Salmon and Steelhead in the Lower Snake River. North American Journal of Fisheries Management 22(2):385–405. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Smith_etal_2002.%20Factors%20Associated%20with%20Travel%20Time%20and%20Survival%20of%20Migrant%20Yearling%20Chinook%20Salmon%20and%20Steelhead%20in%20the%20Lower%20Snake%20River.pdf?csf=1&web=1&e=CAd6Zc</a >
Snider, B. and R. G. Titus. 1995. Lower American River Emigration Survey November 1993-July 1994. Calif. Dept. Fish Game, Environmental Services Division, unpublished report. 102 pp.
Snider, B. R. and R. G. Titus, 2000. Timing, Composition, and Abundance of Juvenile Anadromous Salmonid Emigration in the Sacramento River Near Knights Landing. October 1997-September 1998. December. California Department of Fish and Game, Habitat Conservation Division, Native Anadromous Fish and Watershed Branch, Stream Evaluation Program. </span >https://sitesreservoirproject.sharepoint.com/:b:/r/EnvPlanning/Administrative Record/_Final Admin Record/D_Final EIR-EIS/06.0_2021 RDEIR-SDEIS Documents Cited/Appx_11A_AquaticSpeciesLifeHistories/Snider_Titus_2000_Timing, Composition, and Abundance of Juvenile Anadromous Salmonid Emigration in the Sacramento River Near Knights Landing.pdf?csf=1&web=1&e=MkB1DK</a >
Snider, B. and R. Titus. 2002. Lower American River Emigration Survey October 1998–September 1999. California Department of Fish and Game, Habitat Conservation Division, Stream Evaluation Program.
Sommer, T. 2007. The Decline of Pelagic Fishes in the San Francisco Estuary: An Update. Presented to the California State Water Resources Control Board, Sacramento, CA, March 22, 2007. Available: https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/pelagic_organism/docs/dwr_032207sommer.pdf</a >.
Sommer, T. and F. Mejia. 2013. A Place to Call Home: A Synthesis of Delta Smelt Habitat in the Upper San Francisco Estuary. San Francisco Estuary and Watershed Science 11(2). Available: https://escholarship.org/uc/item/32c8t244</a >.
Sommer, T. R., R. Baxter, B. Herbold. 1997. Resilience of Splittail in the Sacramento–San Joaquin Estuary. Transactions of the American Fisheries Society 126(6):961–976. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/SommerEtAl_2007_CollapsePelagic.pdf?csf=1&web=1&e=RNK4Ru</a >
Sommer, T., C. Armor, R. Baxter, R. Breuer, L. Brown, M. Chotkowski, S. Culberson, F. Feyrer, M. Gingras, B. Herbold, W. Kimmerer, A. Mueller-Solger, M. Nobriga, and K. Souza. 2007. The Collapse of Pelagic Fishes in the Upper San Francisco Estuary. Fisheries 32(6):270–277. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Sommer_2007_The%20Decline%20of%20Pelagic%20Fishes%20in%20the%20San%20Francisco%20Estuary%20An%20Update.pdf?csf=1&web=1&e=234ona</a >
Sommer, T. R., W. C. Harrell, and F. Feyrer. 2014. Large-Bodied Fish Migration and Residency in a Flood Basin of the Sacramento River, California, USA. Ecology of Freshwater Fish 23(3):414–423. https://www.researchgate.net/publication/264453764_Large-bodied_fish_migration_and_residency_in_a_flood_basin_of_the_Sacramento_River_California_USA
Sommer, T. R., W. C. Harrell, Z. Matica, and F. Feyrer. 2008. Habitat Associations and Behavior of Adult and Juvenile Splittail (Cyprinidae: Pogonichthys macrolepidotus) in a Managed Seasonal Floodplain Wetland. San Francisco Estuary and Watershed Science 6(2). Available: http://www.escholarship.org/uc/item/85r15611</a >.
Sommer, T. C., Mejia, F., Nobriga, M. L., Feyrer, F., and L. Grimaldo. 2011. The Spawning Migration of Delta Smelt in the Upper San Francisco Estuary. San Francisco Estuary and Watershed Science, 9(2). San Francisco Estuary and Watershed Science, John Muir Institute of the Environment, UC Davis. Available: http://escholarship.org/uc/item/86m0g5sz</a >.
Sommer, T. R., M. L. Nobriga, W. C. Harrell, W. Batham, and W. J. Kimmerer. 2001. Floodplain Rearing of Juvenile Chinook Salmon: Evidence of Enhanced Growth and Survival. Canadian Journal of Fisheries and Aquatic Sciences 58(2):325–333. https://www.researchgate.net/publication/264453764_Large-bodied_fish_migration_and_residency_in_a_flood_basin_of_the_Sacramento_River_California_USA</a >
Sopher, T. R. 1974. A Trawl Survey of the Fishes of Arcata Bay, California. Master’s thesis, Humboldt State University, Arcata, CA. 103 pp.
Speegle, J., J. Kirsch, and J. Ingram. 2013. Annual Report: Juvenile Fish Monitoring During the 2010 and 2011 Field Seasons within the San Francisco Estuary, California. January. U.S. Fish and Wildlife Service, Stockton Fish and Wildlife Office, Lodi, CA. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Speegle_etal_2013_Annual%20Report%20Juvenile%20Fish%20Monitoring%20During%20the%202010%20and%202011%20Field%20Seasons%20within%20the%20San%20Francisco%20Estuary,%20California.pdf?csf=1&web=1&e=EteHCl</a >
Stanislaus River Fish Group. 2003. A Plan to Restore Anadromous Fish Habitat in the Lower Stanislaus River. Review Draft. May 31.
Stanislaus River Fish Group. 2004. A Summary of Fisheries Research in the Lower Stanislaus River. Working Draft. March 10.
Stanley S. E., P. B. Moyle, and H. B. Shaffer. 1995. Allozyme Analysis of Delta Smelt, Hypomesus transpacificus, and Longfin Smelt, Spirinchus thaleichthys, in the Sacramento-San Joaquin Estuary, California. Copeia 2:390–396 Copyright protected. See introduction for more information
State Water Resources Control Board. 2015. Response from U.S. Bureau of Reclamation on New Melones Operations. E-mail from Ronald Milligan (Reclamation) to Tom Howard (SWRCB) with attachments. April 8. Available: http://www.waterboards.ca.gov/waterrights/water_issues/programs/drought/tucp/index.shtml</a >.
Steel, A., M. Thomas, and A. Klimley. 2019. Reach Specific Use of Spawning Habitat by Adult Green Sturgeon (Acipenser medirostris) under Different Operation Schedules at Red Bluff Diversion Dam. Journal of Applied Ichthyology 35(1):22–29. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Steel_etal_2019.%20Reach%20Specific%20Use%20of%20Spawning%20Habitat%20by%20Adult%20Green%20Sturgeon%20(Acipenser%20medirostris)%20under%20Different%20Operation%20Schedules%20at%20Red%20Bluff%20Diversion%20Dam.pdf?csf=1&web=1&e=KqcW90</a >
Stevens, D. E. 1966. Distribution and Food Habits of the American Shad, Alosa Sapidissima, in the Sacramento–San Joaquin Delta. In Ecological Studies of the Sacramento–San Joaquin Delta, Part II: Fishes of the Delta, edited by J. L. Turner and D. W. Kelley, 97–107. Sacramento, CA: California Department of Fish and Game. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Stevens_1966_Distribution%20and%20Food%20Habits%20of%20the%20American%20Shad,%20Alosa%20Sapidissima,%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20Delta.%20In%20Ecological%20Studies%20of%20the%20Sacramento%E2%80%93San%20Joaquin%20Delta,%20Part%20II%20Fishes%20of%20the%20Delta.pdf?csf=1&web=1&e=ftbL3P</a >
Stevens, D. E., and L. W. Miller. 1970. Distribution of Sturgeon Larvae in the Sacramento–San Joaquin River System. California Fish and Game 56:80–86.
Stevens, D. E., H. K. Chadwick, and R. E. Painter. 1987. American Shad and Striped Bass in California’s Sacramento–San Joaquin River system. American Fisheries Society Symposium 1:66–78. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Stevens_etal_1987.%20American%20Shad%20and%20Striped%20Bass%20in%20California%E2%80%99s%20Sacramento%E2%80%93San%20Joaquin%20River%20system.pdf?csf=1&web=1&e=58dTFS</a >
Stevens, D. E., D. W. Kohlhorst, L. W. Miller, and D. W. Kelley. 1985. The Decline of Striped Bass in the Sacramento–San Joaquin Estuary, California. Transactions of the American Fisheries Society 114(1):12–30. https://cawaterlibrary.net/document/the-decline-of-striped-bass-in-the-sacramento-san-joaquin-estuary-california/</a >
Stewart, A. R., S. N. Luoma, C. E. Schlekat, M. A. Doblin, and K. A Hieb. 2004. Food Web Pathway Determines How Selenium Affects Aquatic Ecosystems: A San Francisco Bay Case Study. Environmental Science and Technology 38:4519–4526. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626651.pdf</a > Copyright protected. See introduction for more information
Stompe, D. K., P. B. Moyle, A. Kruger, and J. R. Durand. 2020. Comparing and Integrating Fish Surveys in the San Francisco Estuary: Why Diverse Long-Term Monitoring Programs are Important. San Francisco Estuary and Watershed Science 18(2). https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Stompe_etal_2020.%20Comparing%20and%20Integrating%20Fish%20Surveys%20in%20the%20San%20Francisco%20Estuary.pdf?csf=1&web=1&e=gUvEHe</a >
Strange, E. 2020. 2020 (January 2020 – December 2020) Technical Memorandum Regarding the Accounting of San Joaquin River Spring-Run Chinook Salmon at the Central Valley Project and State Water Project Sacramento–San Joaquin Delta Fish Collection Facilities. 15 January. California Central Valley Office, West Coast Region, National Marine Fisheries Service, Sacramento, CA. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Strange_2020_2020%20(January%202020%20%E2%80%93%20December%202020)%20Technical%20Memorandum%20Regarding%20the%20Accounting%20of%20San%20Joaquin%20River%20Spring-Run%20Chinook%20Salmon%20at%20the%20Central.pdf?csf=1&web=1&e=ivhDJN</a >
Strong, A. L., M. M. Mills, I. B. Huang, G. L. van Dijken, S. E. Driscoll, G. Berg, R. M. Kudela, S. G. Monismith, C. A. Francis, and K. R. Arrigo. 2021. Response of Lower Sacramento River phytoplankton to high-ammonium wastewater effluent. Elementa: Science of the Anthropocene 9(1). https://online.ucpress.edu/elementa/article/9/1/040/116040/Response-of-Lower-Sacramento-River-phytoplankton</a >
Sturrock, A. M., W. H. Satterthwaite, K. M. Cervantes-Yoshida, E. R. Huber, H. J. W. Sturrock, S. Nusslé, and S. M. Carlson. 2019. Eight Decades of Hatchery Salmon Releases in the California Central Valley: Factors Influencing Straying and Resilience. Fisheries 44(9):433–444. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Sturrock_etal_.%202019.%20Eight%20Decades%20of%20Hatchery%20Salmon%20Releases%20in%20the%20California%20Central%20Valley.pdf?csf=1&web=1&e=9OQAW2</a >
Sturrock, A. M, J. D. Wikert, T. Heyne, C. Mesick, A. E. Hubbard, T. M. Hinkelman, P. K. Weber, G. E. Whitman, J. J. Glessner, and R. C. Johnson. 2015. Reconstructing the Migratory Behavior and Long-Term Survivorship of Juvenile Chinook Salmon under Contrasting Hydrologic Regimes. PLOS ONE 10(5):e0122380. doi:10.1371/journal.pone.012238. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Sturrock_etal_2015.%20Reconstructing%20the%20Migratory%20Behavior%20and%20Long-Term%20Survivorship%20of%20Juvenile%20Chinook%20Salmon%20under%20Contrasting%20Hydrologic%20Regimes.pdf?csf=1&web=1&e=NcHzJB</a >
Surface Water Resources, Inc. 2001. Aquatic Resources of the Lower American River: Baseline Report. Draft Report. Prepared for the Lower American River Fisheries and Instream Habitat (FISH) Working Group. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626214.pdf</a >
Swanson, C., T. Reid, P. S. Young, J. J. Cech, Jr. 2000. Comparative Environmental Tolerances of Threatened Delta Smelt (Hypomesus transpacificus) and Introduced Wakasagi (H. nipponensis) in an Altered California Estuary. Oecologia 123:384–390. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Swanson_etal_2000_Comparative%20Environmental%20Tolerances%20of%20Threatened%20Delta%20Smelt%20(Hypomesus%20transpacificus)%20and%20Introduced%20Wakasagi%20(H.%20nipponensis)%20in%20an%20Altered%20California%20Estuary.pdf?csf=1&web=1&e=cs5GOS</a >
Swanson, C., P. S. Young, and J. J. Cech Jr. 1998. Swimming Performance of Delta Smelt: Maximum Performance and Behavioral and Kinematic Limitations of Swimming at Submaximal Velocities. Journal of Experimental Biology 201:333–345. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Swanson_etal_1998.%20Swimming%20Performance%20of%20Delta%20Smelt.pdf?csf=1&web=1&e=32FAqN</a >
Sweetnam, D. A. 1999. Status of Delta Smelt in the Sacramento–San Joaquin Estuary. California Fish and Game 85(1):22–27. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Sweetnam_1999.%20Status%20of%20Delta%20Smelt%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20Estuary.pdf?csf=1&web=1&e=UZdfrH</a >
Tehama-Colusa Canal Authority. 2008. Fishery Resources, Appendix B. In Fish Passage Improvement Project at the Red Bluff Diversion Dam EIS/EIR. Prepared by CH2M HILL, State Clearinghouse No. 2002-042-075. Willows, CA: Tehama-Colusa Canal Authority.
The Bay Institute (Bay Institute), Center for Biological Diversity, and the Natural Resources Defense Council. 2007. Petition to the State of California Fish and Game Commission and Supporting Information for Listing the Delta Smelt (Hypomesus transpacificus) as an Endangered Species under the California Endangered Species Act. February 7. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/TBI_etal_2007_Petition%20to%20the%20State%20of%20California%20Fish%20and%20Game%20Commission%20and%20Supporting%20Information%20for%20Listing%20the%20Delta%20Smelt%20(Hypomesus%20transpacificus.pdf?csf=1&web=1&e=d6Kjas</a >
Thomas, J. L. 1967. The Diet of Juvenile and Adult Striped Bass, Roccus saxatilis, in the Sacramento–San Joaquin River System. California Fish and Game 53(1):49–62. https://www.baydeltalive.com/assets/06942155460a79991fdf1b57f641b1b4/application/pdf/135761.pdf</a > Copyright protected. See introduction for more information
Thomas, M. J., M. L. Peterson, E. D. Chapman, N. A. Fangue, and A. P. Klimley. 2019. Individual Habitat Use and Behavior of Acoustically-Tagged Juvenile Green Sturgeon in the Sacramento–San Joaquin Delta. Environmental Biology of Fishes 102:1025–1037. https://link.springer.com/article/10.1007/s10641-019-00888-1</a >
Thompson, L. C., N. A. Fangue, J. J. Cech, Jr., D. E. Cocherell, and R. C. Kaufman. 2012. Juvenile and Adult Hardhead Thermal Tolerances and Preferences: Temperature Preference, Critical Thermal Limits, Active and Resting Metabolism, and Blood-Oxygen Equilibria. Center for Aquatic Biology and Aquaculture Technical Report, University of California, Davis. Davis, CA. Copyright protected. See introduction for more information
Thomson, J. R., W. J. Kimmerer, L. R. Brown, K. B. Newman, R. Mac Nally, W. A. Bennett, F. Feyrer, and E. Fleishman. 2010. Bayesian Change Point Analysis of Abundance Trends for Pelagic Fishes in the Upper San Francisco Estuary. Ecological Applications 20(5):1431–1448. https://esajournals.onlinelibrary.wiley.com/doi/abs/10.1890/09-0998.1</a >
Tobias, V. 2021. Simulated Fishing to Untangle Catchability and Availability in Fish Abundance Monitoring. Preprints 2020, 2020020177. Available: https://doi.org/10.20944/preprints202002.0177.v2</a >.
Tucker, M. E., C. M. Williams, and R. R. Johnson. 1998. Abundance, Food Habits, and Life History Aspects of Sacramento Squawfish and Striped Bass at the Red Bluff Diversion Complex, Including the Research Pumping Plant, Sacramento River, California, 1994-1996: Annual Report. U.S. Fish and Wildlife Service, Red Bluff, CA. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Tucker_etal_1998.%20Abundance,%20Food%20Habits,%20and%20Life%20History%20Aspects%20of%20Sacramento%20Squawfish%20and%20Striped%20Bass%20at%20the%20Red%20Bluff%20Diversion%20Complex,%20Including%20the%20Research%20Pumping%20Plant,%20Sacramento%20River,%20California,%201994-1996.pdf?csf=1&web=1&e=wbr1iO</a >
Turner, J. L. 1966. Distribution of Threadfin Shad, Dorosoma petenense; Tule Perch, Hysterocarpus traski; Sculpin Spp. and Crayfish Spp. in the Sacramento–San Joaquin Delta. In Fish Bulletin 136: Ecological Studies of the Sacramento–San Joaquin Estuary: Part II—Fishes of the Delta, edited by J. L. Turner and D. W. Kelley, 160–168. Sacramento, CA: California Department of Fish and Game. </span >https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/Turner_1966_Distribution%20of%20Threadfin%20Shad,%20Dorosoma%20petenense;%20Tule%20Perch,%20Hysterocarpus%20traski%20Sculpin%20Spp.%20and%20Crayfish%20Spp.%20in%20the%20Sacramento%E2%80%93San%20Joaquin%20Delta.pdf?csf=1&web=1&e=8ycZCv</a >
University of California, Agriculture and Natural Resources. 2019a. California Fish Website. Smallmouth Bass.
University of California, Agriculture and Natural Resources. 2019b. California Fish Website. Spotted Bass.
U.S. Bureau of Reclamation. 2008. Biological Assessment on the Continued Long-Term Operations of the Central Valley Project and the State Water Project. Sacramento, CA: Mid-Pacific Region. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/USBR_2008.%20Biological%20Assessment%20on%20the%20Continued%20Long-Term%20Operations%20of%20the%20Central%20Valley%20Project%20and%20the%20State%20Water%20Project.pdf?csf=1&web=1&e=5HvNK3</a >
U.S. Bureau of Reclamation. 2012. Stanislaus River Focus Group Meeting October 10, 2012, Handouts. https://sitesproject.org/wp-content/uploads/references/REF21/Appx_11A_AquaticSpeciesLifeHistories/USBR_2012.%20Stanislaus%20River%20Focus%20Group%20Meeting%20October%2010,%202012,%20Handouts.pdf?csf=1&web=1&e=Rc0Pec</a >
U.S. Bureau of Reclamation. 2014. Upper San Joaquin River Basin Storage Investigation, Draft Environmental Impact Statement. https://www.usbr.gov/mp/nepa/nepa_project_details.php?Project_ID=821</a >
U.S. Bureau of Reclamation. 2019. Reinitiation of Consultation on the Coordinated Long-Term Operation of the Central Valley Project and State Water Project. Final Biological Assessment. January. Mid-Pacific Region, U.S. Bureau of Reclamation. https://www.usbr.gov/mp/bdo/docs/ba-final-biological-assessment.pdf</a >
U.S. Bureau of Reclamation and California Department of Water Resources. 2015. Biological Review for Endangered Species Act Compliance with the WY 2015 Drought Contingency Plan April through September Project Description. Prepared for State Water Resources Control Board. Available: http://www.waterboards.ca.gov/waterrights/water_issues/programs/drought/docs/tucp/2015/apr2015_req032415.pdf</a >.
U.S. Bureau of Reclamation and Trinity County. 2006. Indian Creek Rehabilitation Site: Trinity River Mile 93.7 to 96.5. Revised Environmental Assessment/Recirculated Partial Draft Environmental Impact Report. November 14. Copyright protected. See introduction for more information
U.S. Fish and Wildlife Service. 1967. Biology and Management of the American Shad and Status of the Fisheries, Atlantic Coast of the U.S.
U.S. Fish and Wildlife Service. 1995. Working Paper: Habitat Restoration Actions to Double Natural Production of Anadromous Fish in the Central Valley of California. Volume 2. May 9, 1995. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/california_waterfix/exhibits/docs/petitioners_exhibit/dwr/part2/DWR-1107%20USFWS_1995_AFRPWorkingPaper_v1.pdf</a >
U.S. Fish and Wildlife Service. 2001. Abundance and Survival of Juvenile Chinook Salmon in the Sacramento–San Joaquin Estuary: 1997 and 1998. Annual Progress Report Sacramento–San Joaquin Estuary. https://calisphere.org/item/ark:/86086/n2hd7tnv/</a >
U.S. Fish and Wildlife Service. 2002. Stanislaus River Anadromous Fish Surveys 2000-2001. Snorkel Survey. Anadromous Fish Restoration Program. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwiy39XFxbeBAxV5NEQIHUhZC4IQFnoECBsQAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentID%3D32807&usg=AOvVaw08E-uPN0fwF8h8cqCuUDqX&opi=89978449</a >
U.S. Fish and Wildlife Service. 2008. Biological Opinion on the Effects of Long Term Coordinated Operations of the Central Valley (CVP) and State Water Project (SWP) on Delta Smelt and Its Designated Critical Habitat. December.
U.S. Fish and Wildlife Service. 2010. Endangered and Threatened Wildlife and Plants; 12-Month Finding on a Petition to Reclassify the Delta Smelt from Threatened to Endangered Throughout Its Range. Federal Register 75:17667–17680. https://www.gpo.gov/fdsys/pkg/FR-2010-04-07/pdf/2010-7904.pdf</a >.
U.S. Fish and Wildlife Service. 2012. Endangered and Threatened Wildlife and Plants; 12-Month Finding on a Petition to List the San Francisco Bay-Delta Population of the Longfin Smelt as Endangered or Threatened. Federal Register 77:17756–17797. Federal Register :: Endangered and Threatened Wildlife and Plants; 12-Month Finding on a Petition to List the San Francisco Bay-Delta Population of the Longfin Smelt as Endangered or Threatened</a >
U.S. Fish and Wildlife Service. 2019. Biological Opinion for the Reinitiation of Consultation on the Long Term Operation of the Central Valley Project and State Water Project. USFWS Pacific Southwest Region. Sacramento, CA. https://repository.library.noaa.gov/view/noaa/22046</a >
U.S. Fish and Wildlife Service. 2020. 700 Winter-Run Chinook Salmon Return to Battle Creek. October 22.
Van Eenennaam, J. P., J. Linares-Casenave, X. Deng, and S. I. Doroshov. 2005. Effect of Incubation Temperature on Green Sturgeon Embryos, Acipenser medirostris. Environmental Biology of Fishes 72:145–154. https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/california_waterfix/exhibits/docs/petitioners_exhibit/dwr/part2/DWR-1102%20Van%20Eenennaam%20et%20al.%202005.pdf</a >
Van Eenennaam, J. P., M. A. H. Webb, X. Deng, S. I. Doroshov, R. B. Mayfield, J. J. Cech Jr, D. C. Hillemeier, and T. E. Willson. 2001. Artificial Spawning and Larval Rearing of Klamath River Green Sturgeon. Transactions of the American Fisheries Society 130(1):159–165. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626131.pdf</a >
Vladykov, V. D., and W. I. Follett. 1958. Redescription of Lampetra ayersii (Gunther) of Western North America, a Species of Lamprey (Petromyzontidae) Distinct from Lampetra fluviatilis (Linnaeus) of Europe. Journal of the Fisheries Research Board of Canada 15(1):47–77. Copyright protected. See introduction for more information
Vogel, D. A. 2008. Evaluation of Adult Sturgeon Migration at the Glenn-Colusa Irrigation District Gradient Facility on the Sacramento River. https://www.noaa.gov/sites/default/files/legacy/document/2020/Oct/07354626423.pdf</a >
Vogel, D. 2011. Insights into the Problems, Progress, and Potential Solutions for Sacramento River Basin Native Anadromous Fish Restoration. Prepared for Northern California Water Association and Sacramento Valley Water Users. April. Natural Resource Scientists, Inc., Red Bluff, CA. https://www.norcalwater.org/wp-content/uploads/2011/07/vogel-final-report-apr2011.pdf</a >
Vogel, D. A., and K. R. Marine. 1991. Guide to Upper Sacramento Chinook Salmon Life History. Report to U.S. Bureau of Reclamation, Central Valley Project. CH2M Hill, Inc., Redding, CA. 55 pp.
Wagner, R. W., M. Stacey, L. R. Brown, and M. Dettinger. 2011. Statistical Models of Temperature in the Sacramento–San Joaquin Delta under Climate-Change Scenarios and Ecological Implications. Estuaries and Coasts 34(3):544–556. https://link.springer.com/article/10.1007/s12237-010-9369-z</a >
Wang, J. C. S. 2010. Fishes of the Sacramento–San Joaquin Estuary and Adjacent Waters, California: A Guide to the Early Life Histories. Interagency Ecological Study Program for the Sacramento–San Joaquin Estuary, Technical Report 9. Stockton, CA. https://www.usbr.gov/mp/TFFIP/docs/tracy-reports/other-ttr-2010-no9-fishes-sac-sj-estuary.pdf</a >
Water Forum. 2005. Lower American River, State of the River Report. April. Available: http://www.waterforum.org./wp-content/uploads/2015/09/State-of-the-River-2005.pdf</a >.
Watry, C. B., A. Gray, R. Cuthbert, B. Pyper, and K. Arendt. 2007. Out-Migrant Abundance Estimates and Coded Wire Tagging Pilot Study for Juvenile Chinook Salmon at Caswell Memorial State Park in the Lower Stanislaus River, California. 2007 Annual Data Report. Prepared by Cramer Fish Sciences for U.S. Fish and Wildlife Service Anadromous Fish Restoration Program. Grant No. 813326G008. 45 pp.
Watry, C. B., A. Gray, K. Jones, K. Sellheim, and J. Merz. 2012. Juvenile Salmonid Out-Migration Monitoring at Caswell Memorial State Park in the Lower Stanislaus River, California. 2010–2011 Biannual Report. Prepared by Cramer Fish Sciences for U.S. Fish and Wildlife Service’s Comprehensive Assessment and Monitoring Program. Grant No. 813326G008. 48 pp.
White, J. 2019. Fall Midwater Trawl 2018 Annual Fish Abundance Summary. Memorandum to Gregg Erickson, Regional Manager, California Department of Fish and Wildlife, Bay Delta Region. 2 January. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwiSzLb1wLeBAxWUIUQIHQNhCwgQFnoECBcQAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentId%3D164097&usg=AOvVaw1V86tpiNYDCg3o1LXg6kDv&opi=89978449</a >
Williams, J. G., 2001. Chinook Salmon in the Lower American River, California’s Largest Urban Stream. In Fish Bulletin 179(2): Contributions to the Biology of the Central Valley Salmonids, edited by R. L. Brown, 1–38. Sacramento, CA: California Department of Fish and Game. http://www.sjrdotmdl.org/concept_model/phys-chem_model/documents/300001450.pdf</a >
Williams, J. G., 2006. Central Valley Salmon: A Perspective on Chinook and Steelhead in the Central Valley of California. San Francisco Estuary and Watershed Science 4(3). Available: https://escholarship.org/uc/item/21v9x1t7</a >.
Williams, J. G. 2010. Life History Conceptual Model for Chinook Salmon and Steelhead. DRERIP Delta Conceptual Model. Sacramento, CA: Delta Regional Ecosystem Restoration Implementation Plan. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwii-8eHwLeBAxURJkQIHSa5CNIQFnoECBUQAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentID%3D28422&usg=AOvVaw3uYG40st_w2JTNeg1GrkGE&opi=89978449</a >
Williams, T. H., J. C. Garza, N. Hetrick, S. T. Lindley, M. S. Mohr, J. M. Myers, M. R. O’Farrell, R. M. Quiñones, and D. J. Teel. 2011. Upper Klamath and Trinity River Chinook Salmon Biological Review Team Report. National Marine Fisheries Service, Southwest Region. https://repository.library.noaa.gov/view/noaa/4366</a >
Williams, T. H., B. C. Spence, D. A. Boughton, R. C. Johnson, L. Crozier, N. Mantua, M. O’Farrell, and S. T. Lindley. 2016. Viability Assessment for Pacific Salmon and Steelhead Listed under the Endangered Species Act: Southwest. 2 February 2016 Report to National Marine Fisheries Service, West Coast Region from Southwest Fisheries Science Center. https://swfsc-publications.fisheries.noaa.gov/publications/TM/SWFSC/NOAA-TM-NMFS-SWFSC-564.pdf</a >
Winder, M., and A. D. Jassby. 2011. Shifts in Zooplankton Community Structure: Implications for Food Web Processes in the Upper San Francisco Estuary. Estuaries and Coasts 34(4):675–690. https://link.springer.com/article/10.1007/s12237-010-9342-x</a >
Wood, S. A., P. T. Holland, L. MacKenzie. 2011. Development of Solid Phase Adsorption Toxin Tracking (SPATT) for Monitoring Anatoxin-a and Homoanatoxin-a in river water. Chemosphere 82(6):888–894. Copyright protected. See introduction for more information
Wulff, M. L., J. T. May, and L. R. Brown. 2012. Upper Clear Creek Watershed Aquatic Chemistry and Biota Surveys, 2004–5, Whiskeytown National Recreation Area, Shasta County, California: U.S. Geological Survey Open-File Report 2012–1173. 8 pp. https://pubs.usgs.gov/of/2012/1173/</a >
Wydoski, R. S., and R. R. Whitney. 1979. Inland Fishes of Washington. Seattle, WA: University of Washington Press. 220 pp. Copyright protected. See introduction for more information
Yoshiyama, R. M., F. W. Fisher, P. B. Moyle. 1998. Historical Abundance and Decline of Chinook Salmon in the Central Valley Region of California. North American Journal of Fisheries Management 18:487–521. https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&ved=2ahUKEwjbkefrvreBAxUwI0QIHXfvAaQQFnoECBAQAQ&url=https%3A%2F%2Fnrm.dfg.ca.gov%2FFileHandler.ashx%3FDocumentID%3D3563&usg=AOvVaw2ymOVkyG-Rl_-ctTks5zjF&opi=89978449</a >
Yoshiyama, R. M., E. R. Gerstung, F. W. Fisher, and P. B. Moyle. 1996. Historical and Present Distribution of Chinook Salmon in the Central Valley Drainage of California. In Sierra Nevada Ecosystem Project: Final Report to Congress, Vol. III, Assessments, Commissioned Reports, and Background Information. Davis, CA: University of California, Davis, Centers for Water and Wildland Resources. https://sitesproject.org/wp-content/uploads/references/REF21/_Ch11_AquaticBiologicalResources/YoshiyamaEtAl_1996_hist-present-dist-CHN-CV-drainage.PDF?csf=1&web=1&e=sTXutO</a >
Yoshiyama, R. M., E. R. Gerstung, F. W. Fisher, and P. B. Moyle. 2001. Historical and Present Distribution of Chinook Salmon in the Central Valley Drainage of California. In Fish Bulletin 179(1): Contributions to the Biology of Central Valley Salmonids, edited by R. L. Brown, 71–176. Sacramento, CA: California Department of Fish and Game. https://sitesproject.org/wp-content/uploads/references/REF21/_Ch11_AquaticBiologicalResources/YoshiyamaEtAl2001_histandpresent-dist-CHN_CV-drainage-CA.pdf?csf=1&web=1&e=aiO0Oj</a >
Zabel, R. W., J. J. Anderson, and P. A. Shaw. 1998. A Multiple-Reach Model Describing the Migratory Behavior of the Snake River Yearling Chinook Salmon (Oncorhynchus tshawytscha). Canadian Journal of Fisheries and Aquatic Sciences 55(3):658–667. https://www.researchgate.net/publication/233844689_A_multiple-reach_model_describing_the_migratory_behavior_of_Snake_River_yearling_Chinook_salmon_Oncorhynchus_tshawytscha</a >
Zeug, S. C., K. Sellheim, C. Watry, J. D. Wikert, and J. Merz. 2014. Response of Juvenile Chinook Salmon to Managed Flow: Lessons Learned from a Population at the Southern Extent of their Range in North America. Fisheries Management and Ecology 21(2):155–168. https://sitesproject.org/wp-content/uploads/references/REF21/_Ch11_AquaticBiologicalResources/Zeug%20and%20Cavallo_2013_Influence%20of%20estuary%20conditions%20on%20the%20recovery%20rate%20of%20coded-wire-tagged%20Chinook%20salmon%20in%20an%20ocean%20fishery_Ecol_FW_Fish.pdf?csf=1&web=1&e=hxceQT</a >
Zimmerman, C. E., G. W. Edwards, and K. Perry. 2009. Maternal Origin and Migratory History of Steelhead and Rainbow Trout Captured in Rivers of the Central Valley, California. Transactions of the American Fisheries Society 138(2):280–291.