NOAA FISHERIES

Spatiotemporal habitat use by breeding sooty shearwaters Puffinus griseus Shaffer, Scott A., Henri Weimerskirch, Darren Scott, David Pinaud, David R. Thompson, Paul M. Sagar, Henrik Moller, Graeme A. Taylor, David G. Foley, Yann Tremblay, and Daniel P. Costa Marine Ecology Progress Series 391:209-220

Tetranucleotide markers from the loggerhead sea turtle (Caretta caretta) and their cross-amplification in other marine turtle speces Shamblin, Brian M., Brant C. Faircloth, Mark G. Dodd, Dean A. Bagley, Llewellyn M. Ehrhart, Peter H. Dutton, Amy Frey, and Campbell J. Nairn Conservation Genetics 10(3):577-580

Sounds of captive rockfishes Sirovic, Ana, and David A. Demer Copeia 2009(3):502-509

Rockfish sounds and their potential use for population monitoring in the Southern California Bight Sirovic, Ana, George R. Cutter, John L. Butler, 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):981-990.

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

Opportunities in social science research Squires, Dale In: Richard J. Beamish and Brian J. Rothschild (eds.), The future of fisheries science in North America, p. 637-696. Springer.

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.

Bioaccumulation of mercury in pelagic sharks from the northeast Pacific Ocean Suk, Seung H., Susan E. Smith, and Darlene A. Ramon CalCOFI Reports 50:172-177

Movements of olive ridley sea turtles Lepidochelys olivacea and associated oceanographic features as determined by improved light-based geolocation Swimmer, Yonat, Lianne McNaughton, David Foley, Lucas Moxey, and Anders Nielsen Endangered Species Research 10:245-254

Marine ecosystems, climate and phenology: introduction Sydeman, William J., and Steven J. Bograd Marine Ecology Progress Series 393:185-188

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.

A worldwide perspective on the population structure and genetic diversity of bottlenose dolphins (Tursiops truncatus) in New Zealand Tezanos-Pinto, Gabriela, Charles Scott Baker, Kirsty Russell, Karen Martien, Robin W. Baird, Alistair Hutt, Gregory Stone, Antonio A. Mignucci-Giannoni, Susana Caballero, Tetusya Endo, Shane Lavery, Marc Oremus, Carlos Olavarria, and Claire Garrigue Journal of Heredity 100(1):11-24

D/H of bone collagen as environmental and trophic indicator [abstract] Topalov, K., A. Schimmelmann, P.D. Polly, P.E. Sauer, and M. Lowry Abstracts of the 19th Annual V.M. Goldschmidt Conference (Davos, Switzerland). Geochimica et Cosmochimica Acta 73(13, suppl. 1):A1340.

AMLR 2008/2009 field season report: objectives, accomplishments and tentative conclusions Van Cise, Amy M. (ed.) U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-445. 83 p. ANTARCTICA - POLAR - ANTARCTIC MARINE LIVING RESOURCES (AMLR) - FIELD SEASON REPORT

Management and research applications of real-time and archival passive acoustic sensors over varying temporal and spatial scales Van Parijs, Sofie M., Chris W. Clark, Renata S. Sousa-Lima, Susan E. Parks, Shannon Rankin, Denise Risch, Ilse C. Van Opzeeland Marine Ecology Progress Series 395:21-36

A central California coastal ocean modeling study: 1. Forward model and the influence of realistic versus climatological forcing Veneziani, M., C.A. Edwards, J.D. Doyle, and D. Foley Journal of Geophysical Research: Oceans 114(C4):C04015 (16 p.)

Identification of the larval and juvenile stages of the Cubera Snapper, Lutjanus cyanopterus, using DNA barcoding Victor, Benjamin C., Robert Hanner, Mahmood Shivji, John Hyde, and Chris Caldow Zootaxa 2215:24-36

Temporal variability of neustonic ichthyoplankton assemblages of the eastern Pacific warm pool: Can community structure be linked to climate variability? Vilchis, L. Ignacio, Lisa T. Ballance, and William Watson Deep-Sea Research I 56(1):125-140

Seasonal movements, aggregations and diving behavior of Atlantic bluefin tuna (Thunnus thynnus) revealed with archival tags Walli, Andreas, Steven L.H. Teo, Andre Boustany, Charles J. Farwell, Tom Williams, Heidi Dewar, Eric Prince, and Barbara A. Block PLoS ONE 4(7):e6151 (18 p.)

Submesoscale distribution of Antarctic krill and its avian and pinniped predators before and after a near gale Warren, Joseph D., Jarrod A. Santora, and David A. Demer Marine Biology 156(3):479-491

rcalcofi: Analysis and visualization of CalCOFI data in R Weber, Edward D., and Sam McClatchie CalCOFI Reports 50:178-185

L'avifaune et l'ecologie des oiseaux marins Weimerskirch, Henri, Matthieu Le Corre, Charles-Andre Bost, Lisa T. Ballance, Robert L. Pitman In: Loic Charpy (ed.), Clipperton, environnement et biodiversite d'un microcosme oceanique, p. 381-392. Museum national d'Histoire naturelle, Paris. Patrimoines naturels no. 68.

A proposed research programme for satellite tagging western gray whales in 2010 Weller, Dave, Robert Brownell Jr., Alexander Burdin, Greg Donovan, Nick Gales, Finn Larsen, Randy Reeves, and Grigory Tsidulko Paper SC/61/BRG31 presented to the International Whaling Commission, Scientific Committee (SC61 meeting, Madeira, Portugal, 2009). 3 p.

Predation on marine mammals Weller, David W. In: William F. Perrin, Bernd Wursig, and J.G.M. Thewissen (eds.), Encyclopedia of marine mammals (2nd ed.), p. 923-932. Academic Press.

Birth-intervals and sex composition of western gray whales summering off Sakhalin Island, Russia Weller, David W., Amanda L. Bradford, Aimee R. Lang, Alexander M. Burdin, and Robert L. Brownell Jr. Paper SC/60/BRG10 presented to the International Whaling Commission, Scientific Committee (SC61 meeting, Madeira, Portugal, 2009). 7 p.

The incidence of killer whale tooth rakes on western gray whales off Sakhalin Island, Russia Weller, David W., Amanda L. Bradford, Alexander M. Burdin, and Robert L. Brownell Jr. Paper SC/61/BRG9 presented to the International Whaling Commission, Scientific Committee (SC61 meeting, Madeira, Portugal, 2009). 7 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

Remote sensing applications to marine resource management Wilson, Cara, Changsheng Chen, Christopher Clark, Paul Fanning, Marie-Helene Forget, Kevin Friedland, Evan Howell, Chuanmin Hu, Kimberly Hyde, Donald Kobayashi, Alan Longhurst, Bruce Monger, Jesus Morales, Daniel Pendleton, Andrew Pershing, Trevor Platt, Jeffrey Polovina, Nicholas Record, Shubha Sathyendranath, Kenneth Sherman, and Linda Woodard In: Marie-Helene Forget, Venetia Stuart, and Trevor Platt (eds.), Remote sensing in fisheries and aquaculture, p. 43-56. International Ocean-Colour Coordinating Group, IOCCG Report no. 8.

History of marine mammal research Wursig, Bernd, William F. Perrin, and J.G.M. Thewissen In: William F. Perrin, Bernd Wursig, and J.G.M. Thewissen (eds.), Encyclopedia of marine mammals (2nd ed.), p. 565-569. Academic Press.

Testing and validation of automated whistle and click detectors using PAMGUARD 1.0 Yack, Tina M., Jay P. Barlow, Shannon Rankin, and Douglas Gillespie U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-443. 55 p.

High levels of persistent organic pollutants measured in blubber of island-associated false killer whales (Pseudorca crassidens) around the main Hawaiian Islands Ylitalo, Gina M., Robin W. Baird, Gladys K. Yanagida, Daniel L. Webster, Susan J. Chivers, Jennie L. Bolton, Gregory S. Schorr, and Daniel J. McSweeney Marine Pollution Bulletin 58(12):1922-1952

The status of the world's land and marine mammals: diversity, threat, and knowledge Schipper, Jan, Janice S. Chanson, Federica Chiozza, Neil A. Cox, Michael Hoffmann, Vineet Katariya, John Lamoreux, Ana S. L. Rodrigues, Simon N. Stuart, Helen J. Temple, Jonathan Baillie, Luigi Boitani, Thomas E. Lacher Jr., Russell A. Mittermeier, Andrew T. Smith, Daniel Absolon, John M. Aguiar, Giovanni Amori, Noura Bakkour, Ricardo Baldi, Richard J. Berridge, Jon Bielby, Patricia Ann Black, J. Julian Blanc, Thomas M. Brooks, James A. Burton, Thomas M. Butynski, Gianluca Catullo, Roselle Chapman, Zoe Cokeliss, Ben Collen, Jim Conroy, Justin G. Cooke, Gustavo A. B. da Fonseca, Andrew E. Derocher, Holly T. Dublin, J. W. Duckworth, Louise Emmons, Richard H. Emslie, Marco Festa-Bianchet, Matt Foster, Sabrina Foster, David L. Garshelis, Cormack Gates, Mariano Gimenez-Dixon, Susana Gonzalez, Jose Fernando Gonzalez-Maya, Tatjana C. Good, Geoffrey Hammerson, Philip S. Hammond, David Happold, Meredith Happold, John Hare, Richard B. Harris, Clare E. Hawkins, Mandy Haywood, Lawrence R. Heaney, Simon Hedges, Kristofer M. Helgen, Craig Hilton-Taylor, Syed Ainul Hussain, Nobuo Ishii, Thomas A. Jefferson, Richard K. B. Jenkins, Charlotte H. Johnston, Mark Keith, Jonathan Kingdon, David H. Knox, Kit M. Kovacs, Penny Langhammer, Kristin Leus, Rebecca Lewison, Gabriela Lichtenstein, Lloyd F. Lowry, Zoe Macavoy, Georgina M. Mace, David P. Mallon, Monica Masi, Meghan W. McKnight, Rodrigo A. Medellin, Patricia Medici, Gus Mills, Patricia D. Moehlman, Sanjay Molur, Arturo Mora, Kristin Nowell, John F. Oates, Wanda Olech, William R. L. Oliver, Monik Oprea, Bruce D. Patterson, William F. Perrin, Beth A. Polidoro, Caroline Pollock, Abigail Powel, Yelizaveta Protas, Paul Racey, Jim Ragle, Pavithra Ramani, Galen Rathbun, Randall R. Reeves, Stephen B. Reilly, John E. Reynolds III, Carlo Rondinini, Ruth Grace Rosell-Ambal, Monica Rulli, Anthony B. Rylands, Simona Savini, Cody J. Schank, Wes Sechrest, Caryn Self-Sullivan, Alan Shoemaker, Claudio Sillero-Zubiri, Naamal De Silva, David E. Smith, Chelmala Srinivasulu, Peter J. Stephenson, Nico van Strien, Bibhab Kumar Talukdar, Barbara L. Taylor, Rob Timmins, Diego G. Tirira, Marcelo F. Tognelli, Katerina Tsytsulina, Liza M. Veiga, Jean-Christophe Vie, Elizabeth A. Williamson, Sarah A. Wyatt, Yan Xie, Bruce E. Young Science 322(5899):225-230

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

Estimation of the detection probability for Yangtze finless porpoises (Neophocaena phocaenoides asiaeorientalis) with a passive acoustic method Akamatsu, T., D. Wang, K. Wang, S. Li, S. Dong, X. Zhao, J. Barlow, B.S. Stewart, and M. Richlen Journal of the Acoustical Society of America 123(6):4403-4411

Bycatch in the artisan Peruvian fisheries: gillnets versus longlines [abstract] Alfaro Shigueto, Joanna, Jeffrey Mangel, Mariela Pajuelo, Celia Maria Caceres Bueno, Jeffrey Seminoff, and Peter Duton In: Alan F. Rees, et al. (eds.), Proceedings of the Twenty-Seventh Annual Symposium on Sea Turtle Biology and Conservation (22-28 February 2007, Myrtle Beach, South Carolina, USA), p. 192. U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SEFSC-569.

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

Genetic diversity and population differentiation in modern and Holocene bowhead whales from the eastern Canadian Arctic Alter, S.E., H.C. Rosenbaum, L.D. Posma, C. Gaines, D. Weber, M.G. Egan, M. Lindsay, G. Amato, L. Dueck, R.L. Brownell, P. Whitridge, and M.P. Heide-Jorgensen Paper SC/60/BRG31 presented to the International Whaling Commission, Scientific Committee (SC60 meeting, Santiago, Chile, 2008)

Why fishing magnifies fluctuations in fish abundance Anderson, Christian N.K., Chih-hao Hsieh, Stuart A. Sandin, Roger Hewitt, Ann Hollowed, John Beddington, Robert M. May, and George Sugihara Nature 452(7189):835-839

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

Satellite tracking reveals distinct movement patterns for Type B and Type C killer whales in the southern Ross Sea, Antarctica Andrews, Russel D., Robert L. Pitman, and Lisa T. Ballance Polar Biology 31(12):1461-1468

Stenella abundance research line transect and ecosystem (STAR-LITE) 2007 cruise report Archer, Frederick I., Annette E. Henry, and Lisa T. Ballance U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-433. 19 p.

Shark productivity and reproductive protection, and a comparison with teleosts Au, David W., Susan E. Smith, and Christina Show Camhi, Merry D., Ellen K. Pikitch, and Elizabeth A. Babcock (eds.), Sharks of the open ocean: biology, fisheries and conservation, p. 298-308. Blackwell Science, Ames, Iowa.

Identifying and comparing phases of movement by leatherback turtles using state-space models Bailey, H., G. Shillinger, D. Palacios, S. Bograd, J. Spotila, F. Paladino, and B. Block Journal of Experimental Marine Biology and Ecology 356:128-135

False killer whales (Pseudorca crassidens) around the main Hawaiian Islands: long-term site fidelity, inter-island movements and association patterns Baird, Robin W., Antoinette M. Gorgone, Daniel J. McSweeney, Daniel L. Webster, Dan R. Salden, Mark H. Deakos, Allan D. Ligon, Gregory S. Schorr, Jay Barlow, and Sabre D. Mahaffy Marine Mammal Science 24(3):591-612

Diel variation in beaked whale diving behavior Baird, Robin W., Daniel L. Webster, Gregory S. Schorr, Daniel J. McSweeney, and Jay Barlow Marine Mammal Science 24(3):630-642

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.)

Cetacean biomass, prey consumption, and primary production requirements in the California Current ecosystem Barlow, J., M. Kahru, and B.G. Mitchell Marine Ecology Progress Series 371:285-295

Marine mammal data collected during the Pacific Islands Cetacean and Ecosystem Assessment Survey (PICEAS) conducted aboard the NOAA ship McArthur II, July-November 2005 Barlow, Jay, Shannon Rankin, Alan Jackson, and Annette Henry U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-420. 27 p.

A guide to constructing hydrophones and hydrophone arrays for monitoring marine mammal vocalizations Barlow, Jay, Shannon Rankin, and Steve Dawson U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-417. 19 p.

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

Director's report to the 59th Tuna Conference on tuna and tuna-related activities at the Southwest Fisheries Science Center for the period May 1, 2007 to April 30, 2008 Bartoo, Norman W. U.S. Department of Commerce, NOAA Southwest Fisheries Science Center, Administrative Report LJ-08-01. 21 p.

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

Oxygen declines and the shoaling of the hypoxic boundary in the California Current Bograd, Steven J., Carmen G. Castro, Emanuele Di Lorenzo, Daniel M. Palacios, Helen Bailey, William Gilly, and Francisco P. Chavez Geophysical Research letters 35:L12607 (6 p.)

The phenology of coastal upwelling in the California Current Bograd, Steven, Daniel Palacios, William Sydeman, Scott Benson, Mark Carr, and Mark Readdie Report to NOAA Fisheries and the Environment (FATE) program, Project 07-07. NOAA National Marine Fisheries Service, Silver Spring, Maryland. 4 p.

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

Forecasting northeastern Pacific ecosystem responses to La Nina Bond, Nicholas A., Harold P. Batchelder, and Steven J. Bograd Eos, Transactions of the American Geophysical Union 89(35):321-322

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

Population abundance and growth rate of western gray whales Eschrichtius robustus Bradford, Amanda L., David W. Weller, Paul R. Wade, Alexander M. Burdin, and Robert L. Brownell Jr. Endangered Species Research 6(1):1-14

Seasonal and annual variation in body condition of western gray whales off northeastern Sakhalin Island, Russia Bradford, Amanda L., David W. Weller, Yulia V. Ivashchenko, Alexander M. Burdin, and Robert L. Brownell Jr. Paper SC/60/BRG16 presented to the International Whaling Commission, Scientific Committee (SC60 meeting, Santiago, Chile, 2008). 12 p.

Historical catch series for Antarctic and pygmy blue whales Branch, T.A., C. Allison, Y.A. Mikhalev, D. Tormosov, and R.L. Brownell Jr. Paper SC/60/SH9 presented to the International Whaling Commission, Scientific Committee (SC60 meeting, Santiago, Chile, 2008). 11 p.

Skin lesions on blue whales off southern Chile Brownell, R.L., C.A. Carlson, B.G. Vernazzani, and E. Cabrera Paper SC/60/SH25 presented to the International Whaling Commission, Scientific Committee (SC60 meeting, Santiago, Chile, 2008)

Hunting cetaceans with sound: a worldwide review Brownell, Robert L. Jr., Douglas P. Nowacek, and Katherine Ralls Journal of Cetacean Research and Management 10(1):81-88

Molecular systematics of South American dolphins Sotalia: sister taxa determination and phylogenetic relationships, with insights into a multi-locus phylogeny of the Delphinidae Caballero, Susana, Jennifer Jackson, Antonio A. Mignucci-Giannoni, Hector Barrios-Garrido, Sandra Beltran-Pedreros, Maria G. Montiel-Villalobos, Kelly M. Robertson, and C. Scott Baker Molecular Phylogenetics and Evolution 46(1):252-268

Report of the CalCOFI Committee CalCOFI Committee (Roger Hewitt, Tony Koslow, and Laura Rogers-Bennett) CalCOFI Reports 49:5-13

Acoustic pingers eliminate beaked whale bycatch in a gill net fishery Carretta, James V., Jay Barlow, and Lyle Enriquez Marine Mammal Science 24(4):956-961

Southern Ocean frontal structures and sea-ice formation rates revealed by elephant seals Charrassin, J.-B., M. Hindell, S.R. Rintoul, F. Roquet, S. Sokolov, M. Biuw, D. Costa, L. Boehme, P. Lovell, R. Coleman, R. Timmermann, A. Meijers, M. Meredith, Y.-H. Park, F. Bailleul, M. Goebel, Y. Tremblay, C.-A. Bost, C.R. McMahon, I.C. Field, M.A. Fedak, and C. Guinet Proceedings of the National Academy of Sciences of the United States of America 105(33):11634-11639

Comparison of the genetics and nesting ecology of two green turtle rookeries Cheng, I.-J., P.H. Dutton, C.-L. Chen, H.-C. Chen, Y-H. Chen, and J.-W. Shea Journal of Zoology 276(4):375-384

Seabird research at Cape Shirreff, Livingston Island, Antarctica, 2007-2008 Chisholm, Sarah E., Kevin W. Pietrzak, Aileen K. Miller, and Wayne Z. Trivelpiece In: Amy M. Van Cise (ed.), AMLR 2007/2008 field season report: objectives, accomplishments and tentative conclusions, p. 114-119. U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-427.

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.

Bioacoustic survey Cossio, Anthony M., and Christian Reiss In: Amy M. Van Cise (ed.), AMLR 2007/2008 field season report: objectives, accomplishments and tentative conclusions, p. 49-58. U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-427.

Histopathology of the alarm reaction in small odontocetes Cowan, D.F., and B.E. Curry Journal of Comparative Pathology 139(1):24-33

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

Declines in reproductive output in two dolphin populations depleted by the yellowfin tuna purse-seine fishery Cramer, Katie L., Wayne L. Perryman, and Tim Gerrodette Marine Ecology Progress Series 369:273-285

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.

California Current Ecosystem Survey 2006 acoustic cruise reports for NOAA FSV Oscar Dyson and NOAA FRV David Starr Jordan Cutter, G. R., Jr., and David A. Demer (eds.) U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-415. 98 p. CALIFORNIA CURRENT ECOSYSTEM SURVEY - ACCOUSTICS - CRUISE REPORTS - SURVEYS - FSV OSCAR DYSON - FRV DAVID STARR JORDAN -

Design and field methods for sighting surveys of cetaceans in coastal and riverine habitats Dawson, Steve, Paul Wade, Elisabeth Slooten, and Jay Barlow Mammal Review 38(1):19-49

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.

Variations in echosounder-transducer performance with water temperature Demer, David A., and Josiah S. Renfree ICES Journal of Marine Science 65(6):1021-1035

Movements and site fidelity of the giant manta ray, Manta birostris, in the Komodo Marine Park, Indonesia Dewar, Heidi, Peter Mous, Michael Domeier, Andreas Muljadi, Jos Pet, and Jeff Whitty Marine Biology 155(2):121-133

North Pacific Gyre Oscillation links ocean climate and ecosystem change Di Lorenzo, E., N. Schneider, K.M. Cobb, P.J.S. Franks, K. Chhak, A.J. Miller, J.C. McWilliams, S.J. Bograd, H. Arango, E. Curchitser, T.M. Powell, and P. Riviere Geophysical Research Letters 35:L08607 (6 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.)

A preliminary note on the unprecedented strandings of 45 deep-diving odontocetes along the UK and Irish coast between January and April 2008 Dolman, Sarah J., Robert J. Reid, Jason P. Barley, Rob Deaville, Paul D. Jepson, Mick O'Connell, Simon Berrow, Ros S. Penrose, Eunice Pinn, Peter T. Stevick, Susannah Calderan, Kevin P. Robinson, Thomas K. Doyle, Robert L. Brownell Jr., and Mark P. Simmonds Paper SC/60/E5 presented to the International Whaling Commission, Scientific Committee (SC60 meeting, Santiago, Chile, 2008). 9 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.

Life or death in the fast lane: dolphin mother-calf separation during tuna purse-seine sets [abstract] Edwards, Elizabeth F. FASEB Journal 22(Meeting Abstracts):1176.10

An introduction to Bayesian statistics without using equations Eguchi, Tomoharu Marine Turtle Newsletter 122:1-5

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

2007-2008 International Whaling Commission-Southern Ocean Whale and Ecosystem Research (IWC-SOWER) Cruise Ensor, Paul, Kiyokuni Minami, Laura Morse, Paula Olson, and Keiko Sekiguchi Paper SC/60/IA1 presented to the International Whaling Commission, Scientific Committee (SC60 meeting, Santiago, Chile, 2008). 51 p.

Zooplankton night/day ratios and the oxygen minimum layer in the eastern Pacific Fiedler, Paul C., and Jaime Färber Lorda U.S. Department of Commerce, NOAA Technical Memorandum NMFS-SWFSC-424. 12 p.

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