NOAA FISHERIES

Polyploid microsatellite data reveal stock complexity among estuarine North American green sturgeon (Acipenser medirostris) Israel, Joshua A., K. Jun Bando, Eric C. Anderson, and Bernie May Canadian Journal of Fisheries and Aquatic Sciences 66(9):1491-1504

Model-based assessment of persistence in proposed marine protected area designs Kaplan, David M., Louis W. Botsford, Michael R. O'Farrell, Steven D. Gaines, and Salvador Jorgensen Ecological Applications 19(2):433-448

Ocean abundance projections and prospective harvest levels for Klamath River fall Chinook, 2009 season Klamath River Technical Advisory Team Klamath River Technical Advisory Team. 31 p.

Klamath River fall Chinook age-specific escapement, river harvest, and run size estimates, 2008 run Klamath River Technical Advisory Team Klamath River Technical Advisory Team. 20 p.

Demersal fish and habitat associations from visual surveys on the central California shelf Laidig, Thomas E., Diana L. Watters, and Mary M. Yoklavich Estuarine, Coastal and Shelf Science 83(4):629-637

Climate variability and the collapse of a Chinook salmon stock [abstract] Lindley, S., M. Mohr, W.T. Peterson, C. Grimes, J. Stein, J. Anderson, L.W. Botsford, D. Bottom, C. Busack, T. Collier, J. Ferguson, C. Garza, A. Grover, D. Hankin, R. Kope, P. Lawson, A. Low, B. MacFarlane, K. Moore, M. Palmer-Zwahlen, F.B. Schwing, J. Smith, C. Tracy, R.S. Webb, B. Wells, and T. Williams American Geophysical Union, 2009 Fall Meeting, Abstract NH41A-1230

What caused the Sacramento River fall Chinook stock collapse? Lindley, S.T., C.B. Grimes, M.S. Mohr, W. Peterson, J. Stein, J.T. Anderson, L.W. Botsford, D.L. Bottom, C.A. Busack, T.K. Collier, J. Ferguson, J.C. Garza, A.M. Grover, D.G. Hankin, R.G. Kope, P.W. Lawson, A. Low, R.B. MacFarlane, K. Moore, M. Palmer-Zwahlen, F.B. Schwing, J. Smith, C. Tracy, R. Webb, B.K. Wells, and T.H. Williams Pre-publication report to the Pacific Fishery Management Council, March 18, 2009. 118 p.

What caused the Sacramento River fall Chinook stock collapse? Lindley, S.T., C.B. Grimes, M.S. Mohr, W. Peterson, J. Stein, J.T. Anderson, L.W. Botsford, D.L. Bottom, C.A. Busack, T.K. Collier, J. Ferguson, J.C. Garza, A.M. Grover, D.G. Hankin, R.G. Kope, P.W. Lawson, A. Low, R.B. MacFarlane, K. Moore, M. Palmer-Zwahlen, F.B. Schwing, J. Smith, C. Tracy, R. Webb, B.K. Wells, and T.H. Williams U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-447. 121 p.

Demersal fish assemblages in the Southern California Bight based on visual surveys in deep water Love, Milton S., Mary Yoklavich, and Donna M. Schroeder Environmental Biology of Fishes 84(1):55-68

A short scientific history of the fisheries MacCall, Alec D. In: D. Checkley et al. (eds.), Climate change and small pelagic fish, p. 6-11. Cambridge University Press.

Mechanisms of low-frequency fluctuations in sardine and anchovy populations MacCall, Alec D. In: D. Checkley et al. (eds.), Climate change and small pelagic fish, p. 285-299. Cambridge University Press.

Depletion-corrected average catch: a simple formula for estimating sustainable yields in data-poor situations MacCall, Alec D. ICES Journal of Marine Science 66(10):2267-2271

The state of the California Current, Spring 2008-2009: cold conditions drive regional differences in coastal production McClatchie, Sam, Ralf Goericke, Franklin B. Schwing, Steven J. Bograd, William T. Peterson, Robert Emmett, Richard Charter, William Watson, Nancy Lo, Kevin Hill, Curtis Collins, Mati Kahru, B. Greg Mitchell, J. Anthony Koslow, Jose Gomez-Valdes, Bertha E. Lavaniegos, Gilberto Gaxiola-Castro, Jon Gottschalck, Michelle L'Heureux, Yan Xue, Marlenne Manzano-Sarabia, Eric Bjorkstedt, Stephen Ralston, John Field, Laura Rogers-Bennet, Lisa Munger, Greg Campbell, Karlina Merkens, Dominique Camacho, Andrea Havron, Annie Douglas, and John Hildebrand CalCOFI Reports 50:43-68

Marine reserve networks for species that move within a home range Moffitt, Elizabeth A., Louis W. Botsford, David M. Kaplan, and Michael R. O'Farrell Ecological Applications 19(7):1835-1847

Do impassable dams and flow regulation constrain the distribution of green sturgeon in the Sacramento River, California? Mora, E. A., S. T. Lindley, D. L. Erickson, and A. P. Klimley Journal of Applied Ichthyology 25(Suppl. 2):39-47

Report to Congress: The state of science to support an ecosystem approach to regional fishery management: Pursuant to the Magnuson-Stevens Fishery Conservation and Management Act, Section 406 National Marine Fisheries Service U.S. Department of Commerce, NOAA Technical Memorandum NMFS-F/SPO-96. 17 p.

Scientific and statistical review of Appendix C, Scientific investigation program & monitoring plan, final administrative draft of biological assessment, 2-Gates Fish Protection Demonstration Project Newman, Ken B., Pete Smith, Pete Adams, Randy Baxter, Mike Chotkowski, and Steve Culberson Report to the U.S. Fish and Wildlife Service, Sacramento, California. 15 p.

Assessment of habitat and predator effects on dwarf rockfishes (Sebastes spp.) using multi model inference O'Farrell, Michael R., Mary M. Yoklavich, and Milton S. Love Environmental Biology of Fishes 85(3):239-250

Preseason report I: Stock abundance analysis for 2009 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 100 p.

Preseason report II: Analysis of proposed regulatory options for 2009 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 42 p.

Preseason report III: Analysis of Council adopted management measures for 2009 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 36 p.

Review of 2008 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 325 p.

Using productivity and susceptibility indices to determine stock vulnerability, with example applications to six U.S. fisheries Patrick, W.S., P. Spencer, O. Ormseth, J. Cope, J. Field. D. Kobayashi, T. Gedamke, E. Cortés, K. Bigelow, W. Overholtz, J. Link, and P. Lawson U.S. Department of Commerce, NOAA Technical Memorandum NMFS-F/SPO-101. 90 p.

Multiple paternity increases effective population size Pearse, Devon E., and Eric C. Anderson Molecular Ecology 18(15):3124-3127

Over the falls? Rapid evolution of ecotypic differentiation in steelhead/rainbow trout (Oncorhynchus mykiss) Pearse, Devon E., Sean A. Hayes, Morgan H. Bond, Chad V. Hanson, Eric C. Anderson, R. Bruce MacFarlane, and John Carlos Garza Journal of Heredity 100(5):515-525

Aerial survey methods for Pacific sardine: Report of STAR Panel meeting Punt, André, Owen Hamel, Gary Melvin, Alec MacCall, and Ken Burnham In: June 2009 Briefing Book, agenda item H.2.a, attachment 3. Pacific Fishery Management Council, Portland, Oregon. 14 p.

Pacific mackerel: draft STAR Panel meeting report Punt, André, Owen Hamel, Gary Melvin, Alec MacCall, and Ken Burnham In: Status of the Pacific Coast coastal pelagic species fishery and recommended acceptable biological catches: Stock assessment and fishery evaluation 2009. Appendix 2: 2009 Pacific mackerel stock assessment, Stock Assessment Review Panel report, Scientific and Statistical Committee report, and CPS Management Team and Advisory Subpanel reports. Pacific Fishery Management Council, Portland, Oregon. 17 p.

Greenstriped rockfish STAR Panel report Ralston, Stephen, Richard Methot, Vivian Haist, and J.J. Maguire In: Status of the Pacific coast groundfish fishery through 2009, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 9 p.

Yelloweye rockfish STAR Panel report Ralston, Stephen, Richard Methot, Vivian Haist, and J.J. Maguire In: Status of the Pacific coast groundfish fishery through 2009, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 10 p.

Sound-scattering spectra of steelhead (Oncorhynchus mykiss), coho (O. kisutch), and Chinook (O. Tshawytscha) salmonids Renfree, Josiah S., Sean A. Hayes, and David A. Demer In: David A. Demer and David N. MacLennan (eds.), The ecosystem approach with fisheries acoustics and complementary technologies: Selected papers of an ICES Symposium (Bergen, Norway, 16-20 June 2008). ICES Journal of Marine Science 66(6):1091-1099.

Community-habitat relationships in coastal streams in Big Sur, California, USA: travertine influences macroinvertebrate abundance and community structure Rundio, David E. Hydrobiologia 620(1):91-108

Steelhead life history on California's central coast: insights from a state-dependent model Satterthwaite, William H., Michael P. Beakes, Erin M. Collins, David R. Swank, Joseph E. Merz, Robert G. Titus, Susan M. Sogard, and Marc Mangel Transactions of the American Fisheries Society 138(3):532-548

Inclusion of prey data improves prediction of bluefin tuna (Thunnus thynnus) distribution Schick, R.S., and M.E. Lutcavage Fisheries Oceanography 18(1):77-81

Developing statistically robust IPCC climate model products for estuarine-dependent and anadromous fish stock assessments Schwing, Frank, Eric Danner, Steve Lindley, Roy Mendelssohn, Jim Overland, Steve Ralston, Bruno Sanso, and Muyin Wang Report to NOAA Fisheries and the Environment (FATE) program, Project 08-06. NOAA National Marine Fisheries Service, Silver Spring, Maryland. 5 p.

Seasonal patterns of abundance, growth, and site fidelity of juvenile steelhead in a small coastal California stream Sogard, Susan M., Thomas H. Williams, and Heidi Fish Transactions of the American Fisheries Society 138(3):549-563

Creation of a captive broodstock program for southern coho salmon (Oncorhynchus kisutch): results from the initial rearing and spawning of the first brood year Sturm, Erick A., Elizabeth A. Gilbert-Horvath, John Carlos Garza, and R. Bruce MacFarlane U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-436. 66 p.

Seabirds and climate in the California Current: a synthesis of change Sydeman, William J., Kyra L. Mills, Jarrod A. Santora, Sarah Ann Thompson, Douglas F. Bertram, Ken H. Morgan, J. Mark Hipfner, Brian K. Wells, and Shaye G. Wolf CalCOFI Reports 50:82-104

Integrating indicators: Co-variation, periodicity and amplitude of key biological signals from central Oregon and northern California Sydeman, William, Alec MacCall, Kyra Mills, Frank Schwing, Steven Bograd, Chet Grosch, and Julie Thayer Report to NOAA Fisheries and the Environment (FATE) program, Project 08-07. NOAA National Marine Fisheries Service, Silver Spring, Maryland. 1 p.

Transient population dynamics and viable stage or age distributions for effective conservation and recovery Wiedenmann, John, Masami Fujiwara, and Marc Mangel Biological Conservation 142(12):2990-2996

The distribution of nuclear genetic variation and historical demography of sea otters Aguilar, A., D. A. Jessup, J. Estes, and J. C. Garza Animal Conservation 11(1):35-45

Isolation of 15 single nucleotide polymorphisms from coastal steelhead, Oncorhynchus mykiss (Salmonidae) Aguilar, Andres, and John Carlos Garza Molecular Ecology Resources 8(3):659-662

The importance of incorporating protogynous sex change into stock assessments Alonzo, Suzanne H., Teresa Ish, Meisha Key, Alec D. MacCall, and Marc Mangel Bulletin of Marine Science 83(1):163-179

The influence of family groups on inferences made with the program Structure Anderson, E.C., and K.K. Dunham Molecular Ecology Resources 8(6):1219-1229

Bayesian inference of species hybrids using multilocus dominant genetic markers Anderson, Eric C. Philosophical Transactions of the Royal Society B: Biological Sciences 363(1505):2841-2850

An improved method for predicting the accuracy of genetic stock identification Anderson, Eric C., Robin S. Waples, and Steven T. Kalinowski Canadian Journal of Fisheries and Aquatic Sciences 65(7):1475-1486

Cruise report, NOAA Ship David Starr Jordan DS-07-03, May 4 - June 17, 2007: Rockfish recruitment assessment, Fisheries Ecology Division, NOAA NMFS SWFSC Baltz, Ken National Marine Fisheries Service, Santa Cruz, California. 25 p. (Author not specified in document.)

Tracking natal origins of salmon using isotopes, otoliths, and landscape geology Barnett-Johnson, Rachel, Thomas E. Pearson, Frank C. Ramos, Churchill B. Grimes, and R. Bruce MacFarlane Limnology and Oceanography 53(4):1633-1642

Establishing climate-growth relationships for yelloweye rockfish (Sebastes ruberrimus) in the northeast Pacific using a dendrochronological approach Black, Bryan A., George W. Boehlert, and Mary M. Yoklavich Fisheries Oceanography 17(5):368-379

Marine survival of steelhead (Oncorhynchus mykiss) enhanced by a seasonally closed estuary Bond, Morgan H., Sean A. Hayes, Chad V. Hanson, and R. Bruce MacFarlane Canadian Journal of Fisheries and Aquatic Sciences 65(10):2242-2252

Population characteristics of the mangrove crab Scylla serrata (Decapoda: Portunidae) in Kosrae, Federated States of Micronesia: effects of harvest and implications for management Bonine, Kimberly M., Eric P. Bjorkstedt, Katherine C. Ewel, and Moses Palik Pacific Science 62(1):1-19

The 2005 Coastal Cutthroat Trout Symposium: status, management, biology, and conservation Connolly, P.J., T.H. Williams, and R.E. Gresswell (eds.) American Fisheries Society, Oregon Chapter.

Life history, history, hysteresis, and habitat changes in Louisiana's coastal ecosystem Cowan, James H., Jr., Churchill B. Grimes, and Richard F. Shaw Bulletin of Marine Science 83(1):197-215

Listen to the river: an independent review of the CVPIA fisheries program Cummins, K., C. Furey, S. Lindley, J. Nestler, and J. Shurts Prepared under contract for the U.S. Bureau of Reclamation and the U.S. Fish and Wildlife Service. 84 p.

Temperature management and modeling workshop in support of an Operations Criteria and Plan biological assessment and biological opinion (April 1, 2008) Deas, Michael, Peter Goodwin, Steve Lindley, Christa Woodley, and Thomas Williams Report prepared for Michael Healey, CALFED Lead Scientist. CALFED Science Program. 20 p.

Cowcod rebuilding analysis Dick, E.J., and Stephen Ralston In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 20 p.

Status of cowcod, Sebastes levis, in the Southern California Bight Dick, E.J., Stephen Ralston, and Don Pearson In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. (101 p.)

Influence of water chemistry and migratory distance on ability to distinguish progeny of sympatric resident and anadromous rainbow trout (Oncorhynchus mykiss) Donohoe, Christopher J., Peter B. Adams, and Chantell F. Royer Canadian Journal of Fisheries and Aquatic Sciences 65(6):1060-1075

Blue rockfish STAR Panel report Dorn, Martin, Stephen Ralston, Andre Punt, Thomas Helser, Owen Hamel, Tom Jagielo, and Patrick Cordue In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 14 p.

Southern black rockfish STAR Panel report Dorn, Martin, Stephen Ralston, Andre Punt, Thomas Helser, Owen Hamel, Tom Jagielo, and Patrick Cordue In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 12 p.

Demographics of coastal cutthroat trout Oncorhynchus clarkii clarkii in Prairie Creek, California Duffy, Walter G., and Eric P. Bjorkstedt P.J. Connolly, T.H. Williams, and R.E. Gresswell (eds.), The 2005 Coastal Cutthroat Trout Symposium: status, management, biology, and conservation, p. 100-106. American Fisheries Society, Oregon Chapter.

Otolith chemistry to describe movements and life-history parameters of fishes: hypotheses, assumptions, limitations and inferences Elsdon, Travis S., Brian K. Wells, Steven E. Campana, Bronwyn M. Gillanders, Cynthia M. Jones, Karin E. Limburg, David H. Secor, Simon R. Thorrold, and Benjamin D. Walther Oceanography and Marine Biology: An Annual Review 46:297-330

Jumbo squid (Dosidicus gigas) invasions in the eastern Pacific Ocean [Symposium introduction] Field, John CalCOFI Reports 49:79-81

NMFS Southwest Fisheries Science Center: Agency report to the Technical Subcommittee of the Canada-U.S. Groundfish Committee Field, John (ed.), David Demer, John Hyde, and William Watson In: Report of the Technical Subcommittee of the Canada-United States Groundfish Committee: Forty-ninth annual meeting of the TSC (May 6-7, 2008, Seattle, Washington), p. 230-245. Pacific States Marine Fisheries Commission, Portland, Oregon.

Status of the chilipepper rockfish, Sebastes goodei, in 2007 Field, John C. In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 226 p.

Identifying interactions among salmon populations from observed dynamics Fujiwara, Masami Ecology 89(1):4-11

Effects of an autocorrelated stochastic environment and fisheries on the age at maturity of Chinook salmon Fujiwara, Masami Theoretical Ecology 1(2):89-101

Population genetic structure of Oncorhynchus mykiss in the Santa Ynez River, California Garza, John Carlos, and Anthony Clemento Final report for contract with the Cachuma Conservation Release Board. 55 p.

Population genetic structure of Oncorhynchus mykiss in the California Central Valley Garza, John Carlos, and Devon E. Pearse Final report for California Department of Fish and Game Contract #PO485303 with University of California, Santa Cruz and NOAA Southwest Fisheries Science Center, 110 Shaffer Rd. Santa Cruz, CA 95060. 54 p.

Population genetics of Oncorhynchus mykiss in the Santa Clara Valley Region Garza, John Carlos, and Devon Pearse Final report to the Santa Clara Valley Water District (SCVWD). 53 p.

Genetic population structure of Chinook salmon (Oncorhynchus tshawytscha) in California's Central Valley Garza, John Carlos, Scott M. Blankenship, Christophe Lemaire, and Gregory Charrier Final report for CalFed Project "Comprehensive evaluation of population structure and diversity for Central Valley Chinook salmon". University of California, Santa Cruz, Institute of Marine Sciences, and NOAA Southwest Fisheries Science Center, Santa Cruz, California. 80 p.

Variation of vertebral number in juvenile Oncorhynchus mykiss in relation to upstream distance from the ocean Goin, Jonathan J., Thomas H. Williams, and Christopher J. Donohoe Environmental Biology of Fishes 82(3):207-213

Vertical zoning in marine protected areas: ecological considerations for balancing pelagic fishing with conservation of benthic communities Grober-Dunsmore, Rikki, Lisa Wooninck, John Field, Cameron Ainsworth, Jim Beets, Steve Berkeley, Jim Bohnsack, Rafe Boulon, Richard Brodeur, John Brodziak, Larry Crowder, Danny Gleason, Mark Hixon, Les Kaufman, Bill Lindberg, Marc Miller, Lance Morgan, and Charles Wahle Fisheries 33(12):598-610

Steelhead growth in a small central California watershed: upstream and estuarine rearing patterns. Hayes, S. A., M. H. Bond. C. V. Hanson, E. V. Freund, J. J. Smith, E. C. Anderson, A. J. Ammann, and R. B. MacFarlane. Transactions of the American Fisheries Society 137(1):114-128.

Rebuilding analysis for widow rockfish in 2007 – an update He, Xi, Andre Punt, Alec D. MacCall, and Stephen Ralston In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 17 p.

Status of the widow rockfish resource in 2007: an update He, Xi, Donald E. Pearson, E.J. Dick, John C. Field, Stephen Ralston, and Alec D. MacCall In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 92 p.

The 2007 assessment of blue rockfish (Sebastes mystinus) in California Key, Meisha, Alec D. MacCall, John Field, Debbie Aseltine-Neilson, and Kirk Lynn In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 155 p.

Hybridization between spring- and fall-run Chinook salmon returning to the Trinity River, California Kinziger, Andrew P., Eric J. Loudenslager, David G. Hankin, Eric C. Anderson, and John Carlos Garza North American Journal of Fisheries Management 28(5):1426-1438

Ocean abundance projections and prospective harvest levels for Klamath River fall Chinook, 2008 season Klamath River Technical Advisory Team Klamath River Technical Advisory Team. 28 p.

Klamath River fall Chinook age-specific escapement, river harvest, and run size estimates, 2007 run Klamath River Technical Advisory Team Klamath River Technical Advisory Team. 17 p.

Identification, description, and daily growth of pelagic larval and juvenile squarespot rockfish, Sebastes hopkinsi (Family Sebastidae) Laidig, Thomas E., Keith M. Sakuma, John R. Hyde, William Watson, and Cynthia Taylor Lawley CalCOFI Reports 49:212-221

Marine migration of North American green sturgeon Lindley, S.T., M.L. Moser, D.F. Erickson, M. Belchik, D. Welch, E. Rechiski, J.T. Kelly, J. Heublein, and A.P. Klimley Transactions of the American Fisheries Society 137:182-194

Impact of freshwater and terrestrial ecosystem conditions on estuarine dependent and anadromous fish Lindley, Steve, Steve Ralston, and Eric Danner Report to NOAA Fisheries and the Environment (FATE) program, Project 07-06. NOAA National Marine Fisheries Service, Silver Spring, Maryland. 1 p.

Habitat characteristics of juvenile cowcod, Sebastes levis (Scorpaenidae), in Southern California Love, Milton S., and Mary Yoklavich Environmental Biology of Fishes 82(2):195-202

Bocaccio rebuilding analysis for 2007 MacCall, Alec D. In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 13 p.

Status of bocaccio off California in 2007 MacCall, Alec D. In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 67 p.

Coho and Chinook salmon decline in California during the spawning seasons of 2007/08 MacFarlane, R.B., S. Hayes, and B. Wells 4 p.

GuiLiner: a configurable and extensible graphical user interface for scientific analysis and simulation software Manoukis, Nicholas C., and Eric C. Anderson arXiv:0806.0314v1 [cs.HC], 4 p. URL: http://arxiv.org/abs/0806.0314v1

The state of the California Current, 2007-2008: La Niña conditions and their effects on the ecosystem McClatchie, Sam, Ralf Goericke, J. Anthony Koslow, Franklin B. Schwing, Steven J. Bograd, Richard Charter, William Watson, Nancy Lo, Kevin Hill, Jon Gottschalck, Michelle l'Heureux, Yan Xue, William T. Peterson, Robert Emmett, Curtis Collins, Gilberto Gaxiola-Castro, Reginaldo Durazo, Mati Kahru, B. Greg Mitchell, K. David Hyrenbach, W.J. Sydeman, R.W. Bradley, P. Warzybok, and Eric Bjorkstedt CalCOFI Reports 49:39-76

Evolutionary consequences of habitat loss for Pacific anadromous salmonids McClure, Michelle M., Stephanie M. Carlson, Timothy J. Beechie, George R. Pess, Jeffrey C. Jorgensen, Susan M. Sogard, Sonia E. Sultan, Damon M. Holzer, Joseph Travis, Beth L. Sanderson, Mary E. Power, and Richard W. Carmichael Evolutionary Applications 1(2):300-318

Differentiating salmon populations at broad and fine geographical scales with microsatellites and single nucleotide polymorphisms Narum, S. R., M. Banks, T. D. Beacham, M. R. Bellinger, M. R. Campbell, J. Dekoning, A. Elz, C. M. Guthrie III, C. Kozfkay, K. M. Miller, P. Moran, R. Phillips, L. W. Seeb, C. T. Smith, K. Warheit, S. F. Young, and J. C. Garza Molecular Ecology 17(15):3464-3477

Assessment of factors affecting natural area escapement shortfall of Klamath River fall Chinook salmon in 2004-2006 Pacific Fishery Management Council (Klamath River Fall Chinook Assessment Workgroup) Pacific Fishery Management Council, Portland, Oregon. 76 p.

Preseason report I: Stock abundance analysis for 2008 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 101 p.

Preseason report II: Analysis of proposed regulatory options for 2008 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 54 p.

Preseason report III: Analysis of Council adopted management measures for 2008 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 35 p.

Review of 2007 ocean salmon fisheries Pacific Fishery Management Council (Salmon Technical Team) Pacific Fishery Management Council, Portland, Oregon. 326 p.

Historical baseline for genetic monitoring of coastal California steelhead, Oncorhynchus mykiss Pearse, Devon, and John Carlos Garza Final report to California Department of Fish and Game, Fisheries Restoration Grant Program, Grant #P0510530. NOAA Fisheries Service, Santa Cruz, California. 31 p.

Reliability of California's groundfish landing estimates from 1969-2006 Pearson, Donald E., Brenda Erwin, and Meisha Key U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-431. 133 p. MARINE FISHES - GROUNDFISHES - CALIFORNIA - LANDINGS - ESTIMATES

Santa Cruz Harbor commercial fishing community profile: California Fishing Communities Project Pomeroy, Caroline, and Melissa M. Stevens California Sea Grant, Publication no. T-066. 34 p.

Spatial variation in fishing intensity and its effect on yield Ralston, Stephen, and Michael R. O'Farrell Canadian Journal of Fisheries and Aquatic Sciences 65(4):588-599

Canary rockfish STAR Panel report Ralston, Steve, Patrick Cordue, Devorah Hart, Jim Ianelli, and Paul Medley In: Status of the Pacific coast groundfish fishery through 2008, stock assessment and fishery evaluation: Stock assessments, STAR Panel reports, and rebuilding analyses. Pacific Fishery Management Council, Portland, Oregon. 16 p.