Publications

---

Published Papers (Peer reviewed articles)
Conference Proceedings/Abstracts and Presented Papers
Books, Section-in-Books and Edited Books
Reports
Theses
In Prep, In Press and Submitted

---

 

Published Papers

Aksnes, D. L., M. D. Ohman, and P. Riviere. Optical effect on the nitracline in a coastal upwelling area. Limnol. Oceanogr. 52 (3):1179-1187. (2007).

Alfaro, E. J., A. Gershunov, and D. Cayan. Prediction of summer maximum and minimum temperature over the central and western United States: The role of soil moisture and sea surface temperature. J. Climate. 19 (8):1407-1421. (2006).

Anderson, B. T., H. Kanamaru, and J. O. Roads. Variations in the summertime atmospheric hydrologic cycle associated with seasonal precipitation anomalies over the southwestern US. J. Hydrometeor. 7:788-807. (2006).

Anderson, T. J. and M. M. Yoklavich. Multi-scale habitat associations of deep-water demersal fishes off central California. Fishery Bull. 105:168-179. (2007).

Bales, R. C., N. P. Molotch, T. H. Painter, M. D. Dettinger, R. Rice, and J. Dozier. Mountain hydrology of the western United States. Water Resources Res. 42 (W08432): 13 pp. (2006).

Barocio-Leon, O. A., R. Millan-Nunez, and E. Santamaria-del-Angel. Phytoplankton primary productivity in the euphotic zone of the California Current System estimated from CZCS imagery. Ciencias Marinas. 33 (1):59-72. (2007).

Botsford, L. W., C. A. Lawrence, E. P. Dever, A. Hastings, and J. Largier. Effects of variable winds on biological productivity on continental shelves in coastal upwelling systems. Deep Sea Res. II. 53:3116-3140. (2006).

Boughton, D. A., M. Gibson, R. Yedor, and E. Kelley. Stream temperature and the potential growth and survival of juvenile Oncorhynchus mykiss in a southern California creek. Freshwater Biol. 52:1353-1364. (2007).

Bowen, M. M., P. J. H. Sutton, and D. Roemmich. Wind-driven and steric fluctuations of sea surface height in the southwest Pacific. Geophys. Res. Lett. 33:L14617. (2006).

Camps-Valls, G., L. Gomez-Chova, J. Munoz-Mari, J. Vila-Frances, J. Amoros-Lopez, and J. Calpe-Maravilla. Retrieval of oceanic chlorophyll concentration with relevance vector machines. Rem. Sensing Environ. 105 (1):23-33. (2006).

Carpenter, T. M., J. Wang, S. V. Taylor, E. Shamir, J. A. Sperfslage, and K. P. Georgakakos. Surveying flash flood response in mountain streams. EOS, Trans. Am. Geophys Un. 88:69-70, 72. (2007).

Christy, J. R., W. B. Norris, K. T. Redmond, and K. Gallo. Methodology and Results of Calculating Central California Surface Temperature Trends: Evidence of a Human-Induced Climate Change? J. Climate. 19 (4):548-563. (2006).

Collier, J. C. and G. J. Zhang. Effects of increased horizontal resolution on simulation of the North American Monsoon in the NCAR CAM3: an evaluation based on surface, satellite, and reanalysis data. J. Climate. 20:1851-1869. (2007).

Conover, D. O., L. M. Clarke, S. B. Munch, and G. N. Wagner. Spatial and temporal scales of adaptive divergence in marine fishes and the implications for conservation. J. Fish. Bio. 69 (suppl. C):21-47. (2006).

Dawson, M. N., R. K. Grosberg, and L. W. Botsford. Connectivity in marine protected areas. Science. 313:43-44. (2006).

Dettinger, M. D. A component-resampling approach for estimating probability distributions from small forecast ensembles. Climatic Change:20 pp. (2006).

Dong, D., P. Fang, Y. Bock, F. Webb, L. Prawirodirdjo, S. Kedar, and P. Jamason. Spatiotemporal filtering using principal component analysis and Karhunen-Loeve expansion approaches for regional GPS network analysis. J. Geophys. Res. 111:B03405. (2006).

Douglass, E., D. Roemmich, and D. Stammer. Interannual variability in northeast Pacific circulation. J. Geophys. Res. 111:C04001. (2006).

Duffy, P. B., W. Arritt, J. Coquard, W. Gutowski, J. Han, J. Iorio, J. Kim, L.-R. Leung, J. Roads, and E. Zeledon. Simulations of Present and Future Climates in the Western U.S. with Four Nested Regional Climate Models. J. Climate. 19 (6):873-895. (2006).

Favre, A. and A. Gershunov. Extra-tropical cyclonic/anticyclonic activity in North-Eastern Pacific and air temperature extremes in Western North America. Climate Dynamics. 26:617-629. (2006).

Field, D., D. Cyan, and F. Chavez. Secular warming in the California Current and North Pacific. California Cooperative Oceanic Fisheries Investigations Reports. 47:92-111. (2006).

Field, D. B., T. R. Baumgartner, C. D. Charles, V. Ferreira-Bartrina, and M. D. Ohman. Planktonic foraminifera of the California Current reflect 20th-century warming. Science. 311:63-66. (2006).

Genrich, J. F. and Y. Bock. Instantaneous geodetic positioning with 10-50 Hz GPS Measurements: Noise characteristics and implications for monitoring networks. J. Geophys. Res. 111:B03403. (2006).

Gilardoni, S., L. M. Russell, A. Sorooshian, R. C. Flagan, J. H. Seinfeld, T. B. Bates, T. Onasch, P. K. Quinn, J. Allan, D. Worsnop, B. Williams, and A. Goldstein. Regional variation of functional groups in aerosol particles on four U.S. east coast platforms during the International Consortium for Atmospheric Research on Transport and Transformation 2004 campaign. J. Geophys. Res. 12:D10S27. (2007).

Goin, J. J., T. H. Williams, and C. J. Donohoe. Variation of vertebral number in juvenile Oncorhynchus mykiss in relation to upstream distance from the ocean. Env. Biol. Fishes. (2007).

Gruber, N., H. Frenzel, S. C. Doney, P. Marchesiello, J. C. McWilliams, J. R. Moisan, J. J. Oram, G.-K. Plattner, and K. D. Stolzenbach. Eddy-resolving simulation of plankton ecosystem dynamics in the California Current System. Deep Sea Res. I. 53 (9):1483-1516. (2006).

Hadley, O. Trans-Pacific transport of black carbon and fine aerosols (D < 2.5 µm) into North America. J. Geophys. Res. 112 (Art. No. D05309). (2007).

Hanson, R. T., M. D. Dettinger, and M. W. Newhouse. Relations between climatic variability and hydrologic time series from four alluvial basins across the southwestern United States. Hydrogeol. J. (2006).

Hastings, A. and L. W. Botsford. Persistence of spatial populations depends on returning home. Proc. Natl. Acad. Sci.- U.S. 103:6067-6072. (2006).

Hastings, A. and L. W. Botsford. A simple persistence condition for structured populations. Ecol. Lett. 9 (7):846-852. (2006).

Hereu, C. M., B. E. Lavaniegos, G. Gaxiola-Castro, and M. D. Ohman. Composition and potential grazing impact of salps off Baja California during the 1997-1999 El Nino and La Nina. Mar. Ecol. Prog. Series. 318:123-140. (2006).

Hoteit, I., B. D. Cornuelle, V. Thierry, and D. Stammer. Impact of resolution and optimized ECCO forcing on simulation of the tropical Pacific. J. Atmos. & Oceanic Tech. (2007).

Hsieh, C., C. S. Reiss, J. R. Hunter, J. R. Beddington, R. M. May, and G. Sugihara. Fishing elevates variability in the abundance of exploited species. Nature. 443:859-862. (2006).

Hsieh, C.-H. and M. D. Ohman. Biological responses to environmental forcing: The Linear Tracking Window hypothesis. Ecol. 87:1932-1938. (2006).

Hui, D. T. W., K. K.-Y. Shum, J. Chen, S. C. Chen, J. Ritchie, and J. O. Roads. Case studies of seasonal rainfall forecasts for Hong Kong and its vicinity using a regional climate model. Nat. Hazards. (2007).

Iacobellis, S. F. and R. C. J. Somerville. Evaluating parameterizations of the autoconversion process using a single-column model and Atmospheric Radiation Measurement Program measurements. J. Geophys. Res. 111:D02203. (2006).

Johnson, L. R. and M. Mangel. Life histories and the evolution of aging in bacteria and other single-celled organisms. Mechanisms of Ageing and Development. 127:786-793. (2006).

Jorgensen, S. J., D. M. Kaplan, A. P. Klimley, S. G. Morgan, M. R. O'Farrell, and L. W. Botsford. Limited movement in blue rockfish (Sebastes mystinus): internal structure of the home range. Mar. Ecol. Prog. Series. 327:157-170. (2006).

Kanamaru, H. and M. Kanamitsu. Scale-Selective Bias Correction in a Downscaling of Global Analysis using a Regional Model. Mon. Wea. Rev. 135 (2):334-350. (2007).

Kanamitsu, M. and S.-O. Hwang. Role of Sea Surface Temperature in Reanalysis. Mon. Wea. Rev. 134:532-552. (2006).

Kim, S. Y., E. Terrill, and B. Cornuelle. Objectively mapping HF radar-derived surface current data using measured and idealized data covariance matrices. J. Geophys. Res. 112 (C6). (2007).

King, J. R. and G. A. McFarlane. Shift in size-at-age of the Strait of Georgia population of pacific hake (Merluccius productus). California Cooperative Oceanic Fisheries Investigations. 47:111-118. (2006).

King, N. E., D. Argus, J. Langbein, D. C. Agnew, R. S. Dollar, G. Bawden, Z. Liu, E. Reichard, A. Yong, F. H. Webb, Y. Bock, K. Stark, and D. Barseghian. Space geodetic observation of expansion of the San Gabriel Valley, California, aquifer system, during heavy rainfall in winter 2004-2005. J. Geophys. Res. 112:B03409. (2007).

Knowles, N., M. D. Dettinger, and D. R. Cayan. Trends in snowfall versus rainfall in the Western United States. J. Climate. 19:4545-4559. (2006).

Largier, J. L., C. A. Lawrence, M. Roughan, D. M. Kaplan, E. P. Dever, C. E. Dorman, R. M. Kudela, S. M. Bollens, F. P. Wilkerson, R. C. Dugdale, L. W. Botsford, N. Garfield, B. Kueble-Cervantes, and D. Koracin. WEST: a northern California study of the role of wind-driven transport in the productivity of coastal plankton communities. Deep Sea Res. II. 53 (25-26):2833-2849. (2006).

Lawford, R., M. Bosilovich, S. Eden, S. Benedict, C. Brown, A. Gruber, P. Houser, T. Meyers, K. Mitchell, J. Roads, M. Rodell, S. Sorooshian, D. Tarbley, and S. William. US Contributions to the Coordinated Enhanced Observing Period. Bull. Amer. Soc. (2006).

Lee, K., L. T. Tong, F. J. Millero, C. L. Sabine, A. G. Dickson, C. Goyet, G.-H. Park, R. Wanninkhof, R. A. Feely, and R. M. Key. Global relationships of total alkalinity with salinity and temperature in surface waters of the major oceans. Geophys. Res. Lett. 33:L19605. (2006).

Lindley, S. T., E. Mora, R. S. Schick, P. B. Adams, J. J. Anderson, S. Greene, C. Hanson, B. P. May, D. McEwan, R. B. MacFarlane, C. Swanson, and J. G. Williams. Framework for assessing viability of Chinook salmon and steelhead in the Sacramento-San Joaquin basin. San Francisco Estuary and Watershed Sci. 5 (1):Article 4. (2007).

Love, M. S., D. M. Schroeder, B. Lenarz, and G. R. Cochrane. Gimme shelter: The importance of crevices to some fish inhabiting a deeper-water rocky outcrop in southern California. California Cooperative Oceanic Fisheries Investigations Reports. 47:119-126. (2006).

Lundquist, J. and D. R. Cayan. Surface temperature patterns in complex terrain: Daily variations and long-term change in the Sierra Nevada, California. J. Geophys. Res.—Atmos. 112:D11124. (2007).

Mackas, D. L., W. T. Peterson, M. D. Ohman, and B. E. Lavaniegos. Zooplankton anomalies in the California Current system before and during the warm ocean conditions of 2005. Geophys. Res. Lett. 33:L22S07. (2006).

Maes, C., K. Ando, T. Delcroix, W. S. Kessler, M. J. McPhaden, and D. Roemmich. Observed correlation of surface salinity, temperature and barrier layer at the eastern edge of the western Pacific warm pool. Geophys. Res. Lett. 33:L06601. (2006).

Malamud-Roam, F., M. D. Dettinger, B. L. Ingram, M. Hughes, and J. Florsheim. Holocene climates and connections between the San Francisco Bay estuary and its watershed—A Review. San Francisco Estuary and Watershed Sci. 5 (1):28 pp. (2007).

Mangel, M. Commentary: Accounting for uncertainty in marine reserve design. Ecol. Lett. 9:11-12. (2006).

Mangel, M., H. K. Kindsvater, and M. B. Bonsall. Evolutionary analysis of life span, competition, and adaptive radiation, motivated by the Pacific rockfishes (Sebastes). Evol. 61:1208-1224. (2006).

Maye, A., C. Hsieh, G. Sugihara, and B. Brembs. Order in spontaneous behavior in Drosophila. PLOS. (2007).

McClenachan, L., J. B. C. Jackson, and M. J. H. Newman. Conservation Implications of Historic Sea Turtle Nesting Beach Loss. Frontiers in Ecol. and the Environ. 4 (6):290-296. (2006).

Meinke, I., B. Geyer, F. Feser, and H. Storch. The Impact of Spectral Nudging on Cloud Simulation with a Regional Atmospheric Model. J. Atmos. Oceanic Tech. 23 (6):815-824. (2006).

Meinke, I., J. Roads, and M. Kanamitsu. Global evaluation of the RSM simulated precipitation through transferability studies during CEOP. J. Meteorol. Soc. Japan. 85A:145-166. (2007).

Munch, S. B. and M. Mangel. Evaluation of mortality trajectories in evolutionary demography. PNAS. 103:16604-16607. (2006).

Newman, K. B. and S. T. Lindley. Accounting for demographic and environmental stochasticity observation error and parameter uncertainty in fish population dynamics models. No. Am. J. Fisheries Manage. 26:685-701. (2006).

O'Farrell, M. R. and L. W. Botsford. Estimating the status of nearshore rockfish (Sebastes spp.) with length frequency data. Ecol. Appl. 16:977-986. (2006).

O'Farrell, M. R. and L. W. Botsford. The fisheries management implications of maternal-age-dependent larval survival. Can. J. Fish. Aquat. Sci. 63:2249-2258. (2006).

Ochoa, J. and P. P. Niiler. Vertical Vorticity Balance in Meanders Downstream the Agulhas Retroflection. J. Phys. Oceanogr. 37:1740-1744. (2006).

Pan, Z., X. B. Yang, S. Pivonia, L. Xue, R. Pasken, and J. Roads. Long-term Prediction of Soybean Rust Entry into the Continental United States. Plant Disease. 90 (7):840-846. (2006).

Pearse, D., C. J. Donohoe, and C. Garza. Population genetics of steelhead (Oncorhynchus mykiss) in the Klamath River. Env. Biol. Fishes. (2006).

Prawirodirdjo, L., Y. Ben-Zion, and Y. Bock. Observation and modeling of thermoelastic strain in Southern California Integrated GPS Network daily position time series. J. Geophys. Res. 111:B02408. (2006).

Preisler, H. K. and A. L. Westerling. Statistical Model for Forecasting Monthly Large Wildfire Events in the Western United States. J. Appl. Meteorol. and Climatol. 46:1020-1030. (2007).

Ralph, F. M., P. J. Neiman, G. A. Wick, S. I. Gutman, M. D. Dettinger, D. R. Cayan, and A. B. White. Flooding on California's Russian River: Role of atmospheric rivers. Geophys. Res. Lett. 33:L13801, 5 pp. (2006).

Roemmich, D., J. Gilson, R. Davis, P. J. H. Sutton, S. Wijffels, and S. Riser. Decadal spin-up of the South Pacific subtropical gyre. J. Phys. Oceanogr. 37 (2):162-173. (2007).

Ruane, A. and J. Roads. The diurnal cycle of water and energy over the Continental United States from three reanalyses. J. Meteorol Soc Japan. 85 (2):117-143. (2007).

Sakuma, K., S. Ralston, and V. G. Wespestad. Interannual and spatial variation in the distribution of young-of-the-year rockfish. (Sebastes spp.): expanding and coordinating a survey sampling frame. California Cooperative Oceanic Fisheries Investigations. 47:127-139. (2006).

Sanchirico, J., A. Hastings, L. Malvadka, and J. Wilen. When are no-take zones an economicaly optimal fishery management strategy? Ecol. Appl. 16 (5). (2006).

Satterthwaite, W. H., K. D. Holl, G. F. Hayes, and A. L. Barber. Seed banks in plant conservation: case study of Santa Cruz tarplant restoration. Biol. Cons. 135:57-66. (2007).

Seo, H., M. Jochum, R. Murtugudde, and A. J. Miller. Effect of Ocean Mesoscale Variability on the Mean State of Tropical Atlantic Climate. Geophys. Res. Lett. 33:L09606. (2006).

Seo, H., A. J. Miller, and J. O. Roads. The Scripps Coupled Ocean-Atmosphere Regional (SCOAR) model, with Applications in the Eastern Pacific Sector. J. Climate. 20:381-40. (2007).

Shamir, E., T. M. Carpenter, P. Fickenscher, and K. P. Georgakakos. Evaluation of the NWS Operational Hydrologic Model for the American River Basin. J. Hydrol. Eng. 11:392-407. (2006).

Shamir, E. and K. P. Georgakakos. Estimating snow depletion curves for American River basins using distributed snow modeling. J. Hydrol. 334:162-173. (2007).

Siegfried, K. I. and B. Sanso. Two Bayesian methods for estimating parameters of the von Bertalanffy growth equation. Env. Biol. Fishes. 77:301-308. (2006).

Soldevilla, M. S., S. M. Wiggins, J. Calambokidis, A. Douglas, E. M. Oleson, and J. A. Hildebrand. Marine mammal monitoring and habitat investigations during CalCOFI surveys. California Cooperative Oceanic Fisheries Investigations. 47:79-91. (2006).

Southwood, T. R. E., R. M. May, and G. Sugihara. Some observations on related ecological exponents. Proc. Natl. Acad. Sci., USA. 103:6931-6933. (2006).

Stephens, J., D. Wendt, D. Wilson-Vandenberg, J. Carroll, R. Nakamura, E. Nakada, S. Rienecke, and J. Wilson. Rockfish resources of the south central California coast: Analysis of the resource from partyboat data, 1980-2005. California Cooperative Oceanic Fisheries Investigations. 47:140-155. (2006).

Sterner, T., M. Troell, J. Vincent, S. Aniyar, S. Barrett, W. Brock, S. Carpenter, K. Chopra, P. Ehrlich, M. Hoel, S. Levin, K.-G. Maler, J. Norberg, L. Pihl, T. Soderqvist, and A. Xepapadeas. Quick Fixes for Environmental Problems: Part of the Solution or Part of the Problem? Environment. 48 (10). (2007).

Sydeman, W. J., R. W. Bradley, P. Warzybok, C. L. Abraham, J. Jahncke, K. D. Hyrenbach, V. Kousky, J. M. Hipfner, and M. D. Ohman. Planktivorous Auklet Ptychoramphus aleuticus responses to ocean climate 2005: Unusual atmospheric blocking? Geophys. Res. Lett. 33:L22S09. (2006).

Ueno, H., E. Oka, T. Suga, H. Onishi, and D. Roemmich. Formation and variation of temperature inversions in the eastern subarctic North Pacifiic. Geophys. Res. Lett. 34:L05603. (2007).

Venrick, E. L., F. M. H. Reid, A. Weinheimer, C. B. Lange, and E. P. Dever. Temporal patterns of the siliceous flux in the Santa Barbara basin: The influence of north pacific and local oceanographic processes. California Cooperative Oceanic Fisheries Investigations. 47:156-174. (2006).

Waples, R. S., P. B. Adams, J. Bohnsack, and B. L. Taylor. A biological framework for evaluating whether a species is threatened or endangered in a significant portion of its range. Cons. Biol. (2007).

Wdowinski, S., B. Smith, Y. Bock, and D. Sandwell. Diffuse interseismic deformation across the Pacific–North America plate boundary. Geology 35 (4):311-314. (2007).

Westerling, A. L., H. G. Hidalgo, D. R. Cayan, and T. W. Swetnam. Warming and Earlier Spring Increase Western U.S. Forest Wildfire Activity. Science. 313:940-943. (2006).

Wiedenmann, J. and T. E. Essington. Density-dependent overwintersurvival in young-of-year bluefish (Pomatomus saltatrix)? A new approach for assessing stage structured survival. Can. J. Fish. Aq. Sci. 63:1934-1943. (2006).

Wilcox, E., G. Roberts, and V. Ramanathan. Influence of aerosols on the shortwave cloud radiative forcing from North Pacific oceanic clouds: Results from the Cloud Indirect Forcing Experiment (CIFEX). Geophys. Res. Lett. 33 (doi: 10.1029/2006GL027150). (2006).

Wilen, J. Why Fisheries Management Fails: Treating Symptoms Rather than Causes. Bull. Mar. Sci. 78:529-546. (2006).

Wilen, J. Thoughts on Capacity Analysis: Is Capacity Analysis Giving Policy Makers Information They Need? Mar. Resource Economics. 22 (1):79-82. (2007).

Wolf-Gladrow, D. A., R. E. Zeebe, C. Klaas, A. Kortzinger, and A. G. Dickson. Total alkalinity: the explicit conservative expression and its application to biogeochemical processes. Mar. Chem. 106:287-300. (2007).

Zhou, M., P. P. Niiler, Y. Zhu, and R. D. Dorland. The western boundary current in the Bransfield Strait. Antarctica. Deep Sea Res. I. 53:1244-1252. (2006).