2016-2017 Publications

Journal Articles:

Becker EA, Forney KA, Thayre BJ, Debich AJ, Campbell GS, et al. 2017. Habitat-Based Density Models for Three Cetacean Species off Southern California Illustrate Pronounced Seasonal Differences. Frontiers in Marine Science.

Cavole L-CM, Demko AM, Diner RE, Giddings A, Koester I, et al. 2016. Biological Impacts of the 2013-2015 Warm-Water Anomaly in the Northeast Pacific. Oceanography 29: 273-85.

Chao Y, Farrara JD, Zhang H, Armenta KJ, Centurioni L, et al. 2017. Development, implementation, and validation of a California coastal ocean modeling, data assimilation, and forecasting system. Deep Sea Research Part II: Topical Studies in Oceanography.

Checkley Jr DM, Asch RG, Rykaczewski RR. 2017. Climate, Anchovy, and Sardine. Annual Review of Marine Science 9: 469-93. 

Dakos V, Glaser SM, Hsieh CH, Sugihara G. 2017. Elevated nonlinearity as an indicator of shifts in the dynamics of populations under stress. Journal of The Royal Society Interface 14.

Davison PC, Sydeman WJ, Thayre BJ. 2017. Are there temporal or spatial gaps in recent estimates of anchovy off California? California Cooperative Oceanic Fisheries Investigations Reports 58.

Demer DA, Zwolinski JP. 2017. A Method to Consistently Approach the Target Total Fishing Fraction of Pacific Sardine and Other Internationally Exploited Fish Stocks. North American Journal of Fisheries Management 37: 284-93.

Everett JD, Baird M, Buchanan P, al. e. 2017. Modeling what we sample and sampling what we model: challenges for zooplankton model assessment. Frontiers in Marine Science 4.

Franklin MP, Chabot CL, Allen LG. 2016. A Baseline Investigation into the Population Structure of White Seabass, Atractoscion nobilis, in California and Mexican Waters Using Microsatellite DNA Analysis. Bulletin Southern California Academy of Sciences 115: 126-35.

García-Reyes M, Sydeman WJ. 2016. California Multivariate Ocean Climate Indicator (MOCI) and marine ecosystem dynamics. Ecological Indicators 72: 521-29.

Gómez-Ocampo E, Gaxiola-Castro G, Durazo R, Beier E. 2017. Effects of the 2013-2016 warm anomalies on the California Current phytoplankton. Deep Sea Research Part II: Topical Studies in Oceanography.

Hodgson EE, Essington TE, Kaplan IC. 2016. Extending Vulnerability Assessment to Include Life Stages Considerations. PloS One 11: 1-22.

Jacox MG, Hazen EL, Bograd SJ. 2016. Optimal Environmental Conditions and Anomalous Ecosystem Responses: Constraining Bottom-up Controls of Phytoplankton Biomass in the California Current System. Scientific Reports 6: 27612.

Jacox MG, Hazen EL, Zaba KD, Rudnick DL, Edwards CA, et al. 2016. Impacts of the 2015–2016 El Niño on the California Current System: Early assessment and comparison to past events. Geophysical Research Letters 43: 7072-80.

Javor BJ, Dorval E. 2016. Stability of trace elements in otoliths of juvenile Pacific sardine Sardinops sagax. California Cooperative Oceanic Fisheries Investigations Reports 57: 109-23.

Jones WA, Checkley DM. 2017. Classification of otoliths of fishes common in the Santa Barbara Basin based on morphology and chemical composition. Canadian Journal of Fisheries and Aquatic Sciences: 1-13.

Kaplan IC, Koehn LE, Hodgson EE, Marshall KN, Essington TE. 2017, In Press. Modeling food web effects of low sardine and anchovy abundance in the California Current. Ecological Modelling.

Koslow JA, McMonagle H, Watson W. 2017. Influence of climate on the biodiversity and community structure of fishes in the southern California Current. Marine Ecology Progress Series 571: 193-206.

Kurle CM, McWhorter JK. 2017. Spatial and temporal variability within marine isoscapes: implications for interpreting stable isotope data from marine systems. Marine Ecology Progress Series 568: 31-45.

Lavaniegos BE. 2016. Changes in composition of summer hyperiid amphipods from a subtropical region of the California current during 2002–2008. Journal of Marine Systems 165: 13-26.

Leung D, Allen LG. 2016. Year-class strength predicts commercial catch 11 years later for white seabass, Atractoscion nobilis, off southern California. California Fish and Game 102: 175-82.

Lindegren M, Checkley DM, Ohman MD, Koslow JA, Goericke R. 2016. Resilience and stability of a pelagic marine ecosystem. Proceedings of the Royal Society of London B: Biological Sciences 283. 

Marshall KN, Kaplan IC, Hodgson EE, Hermann A, Busch DS, et al. 2017. Risks of ocean acidification in the California Current food web and fisheries: ecosystem model projections. Global Change Biology 23: 1525-39.

Mattern JP, Edwards CA. 2017. Simple parameter estimation for complex models — Testing evolutionary techniques on 3-dimensional biogeochemical ocean models. Journal of Marine Systems 165: 139-52.

Mattern JP, Song H, Edwards CA, Moore AM, Fiechter J. 2017. Data assimilation of physical and chlorophyll a observations in the California Current System using two biogeochemical models. Ocean Modelling 109: 55-71.

McClatchie S, Goericke R, Leising A, Auth TD, Bjorkstedt E, et al. 2016. State of the California Current 2015-16: Comparisons with the 1997-98 El Nino. California Cooperative Oceanic Fisheries Investigations Reports 57: 5-61.

McClatchie S, Hendy IL, Thompson AR, Watson W. 2017. Collapse and recovery of forage fish populations prior to commercial exploitation. Geophysical Research Letters 44: 1877-85.

McClatchie S, Thompson AR, Alin SR, Siedlecki S, Watson W, Bograd SJ. 2016. The influence of Pacific Equatorial Water on fish diversity in the southern California Current System. Journal of Geophysical Research: Oceans 121: 6121-36.

Perretti CT, Sedarat M. 2016. The influence of the El Nino Southern Oscillation on paralarval market squid (Doryteuthis opalescens). Fisheries Oceanography 25: 491-99.
Poloczanska ES, Burrows MT, Brown CJ, García Molinos J, Halpern BS, et al. 2016. Responses of Marine Organisms to Climate Change across Oceans. Frontiers in Marine Science 3 (62).

Pozo Buil M, Di Lorenzo E. 2017. Decadal dynamics and predictability of oxygen and subsurface tracers in the California Current System. Geophysical Research Letters. 

Pribyl AL, Hyde JR, Robertson L, Vetter R. 2016. Defining an ideal temperature range for the northern subpopulation of Pacific sardine, Sardinops sagax caeruleus. Environmental Biology of Fishes 99: 275-91.

Punt AE, MacCall AD, Essington TE, Francis TB, Hurtado-Ferro F, et al. 2016. Exploring the implications of the harvest control rule for Pacific sardine, accounting for predator dynamics: A MICE model. Ecological Modelling 337: 79-95.

Ramirez-Rodriguez M. 2017. A Profitability Analysis of Catch Quotas for the Pacific Hake Fishery in the Gulf of California. North American Journal of Fisheries Management 37: 23-29.

Renault L, Deutsch C, McWilliams JC, Frenzel H, Liang J-H, Colas F. 2016. Partial decoupling of primary productivity from upwelling in the California Current system. Nature Geoscience 9: 505.

Rudnick DL, Zaba KD, Todd RE, Davis RE. 2017. A climatology of the California Current System from a network of underwater gliders. Progress in Oceanography. 

Sakuma KM, Field JC, Mantua NJ, Ralston S, Marinovic BB, Carrion CN. 2016. Anomalous epipelagic micronekton assemblage patterns in the neritic waters of the California Current in spring 2015 during a period of extreme ocean conditions. California Cooperative Oceanic Fisheries Investigations Reports 57: 163-83.

Santora JA, Sydeman WJ, Schroeder ID, Field JC, Miller RR, Wells BK. 2017. Persistence of trophic hotspots and relation to human impacts within an upwelling marine ecosystem. Ecological Applications 27: 560-74.

Sato KN, Levin LA, Schiff K. 2017. Habitat compression and expansion of sea urchins in response to changing climate conditions on the California continental shelf and slope (1994–2013). Deep Sea Research Part II: Topical Studies in Oceanography 137: 377-89.

Scales K, Hazen EL, Maxwell S, Dewar H, Kohin S, et al. 2016, In Press. Fit to predict? Ecoinformatics for modeling dynamic habitat suitability for highly migratory marine species. Ecological Applications.

Siegelman-Charbit L, Koslow JA, Jacox MG, Hazen EL, Bograd SJ, et al. 2016, In Press. Physical forcing on fish population dynamics in the southern California Current System. Fisheries Oceanography.

Song H, Edwards CA, Moore AM, Fiech.ter J. 2016. Data assimilation in a coupled physical-biogeochemical model of the California current system using an incremental lognormal 4-dimensional variational approach: Part 3-Assimilation in a realistic context using satellite and in situ observations. Ocean Modelling 106: 159-72. 

Song H, Edwards CA, Moore AM, Fiechter J. 2016. Data assimilation in a coupled physical-biogeochemical model of the California Current System using an incremental lognormal 4-dimensional variational approach: Part 1-Model formulation and biological data assimilation twin experiments. Ocean Modelling 106: 131-45. 

Song H, Edwards CA, Moore AM, Fiechter J. 2016. Data assimilation in a coupled physical-biogeochemical model of the California Current System using an incremental lognormal 4-dimensional variational approach: Part 2-Joint physical and biological data assimilation twin experiments. Ocean Modelling 106: 146-58. 

Storch LS, Glaser SM, Ye H, Rosenberg AA. 2017. Stock assessment and end-to-end ecosystem models alter dynamics of fisheries data. PLOS ONE 12.

Stukel MR, Aluwihare LI, Barbeau KA, Chekalyuk AM, Goericke R, et al. 2017. Mesoscale ocean fronts enhance carbon export due to gravitational sinking and subduction. Proceedings of the National Academy of Sciences of the United States of America 114: 1252-57.

Thayer JA, MacCall AD, Davison PC, Sydeman WJ. 2017. California Anchovy Population Remains Low, 2012-2016. California Cooperative Oceanic Fisheries Investigations Reports 58.

Tommasi D, Stock CA, Pegion K, Vecchi GA, Methot RD, et al. 2017. Improved management of small pelagic fisheries through seasonal climate prediction. Ecological Applications 27: 378-88.

Urmy SS, Horne JK. 2016. Multi-scale responses of scattering layers to environmental variability in Monterey Bay, California. Deep Sea Research Part I: Oceanographic Research Papers 113: 22-32.

Valentine DL, Fisher GB, Pizarro O, Kaiser CL, Yoerger D, et al. 2016. Autonomous Marine Robotic Technology Reveals an Expansive Benthic Bacterial Community Relevant to Regional Nitrogen Biogeochemistry. Environmental Science & Technology 50: 11057-65.

Valle-Rodríguez J, Trasviña-Castro A. 2017. Poleward currents from coastal altimetry: The west coast of Southern Baja California, Mexico. Advances in Space Research 59: 2313-24.

Wheeler SG, Anderson TW, Bell TW, Morgan SG, Hobbs JA. 2017. Regional productivity predicts individual growth and recruitment of rockfishes in a northern California upwelling system. Limnology and Oceanography 62: 754-67.

Books/Articles-in-Books:

Brander K. 2017. Plankton and Fisheries  In Marine Plankton: A Practical Guide to Ecology, Methodology, and Taxonomy ed. C Castellani, pp. 81-88. Plymouth, UK: Oxford University Press.

Ph.D. Dissertations:

Chen D. 2017: Larval rockfish diversity abundance dynamics in association with a marine protected area in the Southern California Bight. University of San Diego, San Diego, CA.

Hogle SL. 2016: Indicators of Iron Metabolism in Marine Microbial Genomes and Ecosystems. University of California San Diego. 270 pp.

Submitted and In Press:

Moore AM, Jacox MG, Crawford W, Laughlin B, Edwards CA, Fiechter J. 2016, In Press. The impact of the ocean observing system on estimates of the California Current circulation spanning three decades. Submitted to Progress in Oceanography.