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Publications

Foukal, N.P., A.C. Thomas. 2014. Biogeography and phenology of satellite-measured phytoplankton seasonality in the California current. Deep-Sea Research I, 92(204): 11-25. PDF File

Xiu, P., A.C. Thomas, F. Chai. 2014. Satellite bio-optical and altimeter comparisons of phytoplankton blooms induced by natural and artificial iron addition in the Gulf of Alaska. Remote Sensing of Environment, 145(2014): 38-46. PDF File

Di Lorenzo, E., V. Combes, J.E. Keister, T.P. Strub, A.C. Thomas, P.J.  S. Franks, M.D. Ohman, J. Furtado, A. Bracco, S.J. Bograd, W.T.  Peterson, F.B. Schwing, S. Chiba, B. Taguchi, S. Hormazabal and C. Parada, 2013. Synthesis of Pacific Ocean Climate & Ecosystems Dynamics. Oceanography. 2013. Oceanography 26(4): 68-81, http://dx.doi.org/10.5670/oceanog.2013.76. Cover Art: http://www.tos.org/oceanography/graphics/26-4_cover.pdf

Thomas, A.C., R. Mendelssohn and R. Weatherbee. 2013. Background trends in California Current surface chlorophyll concentrations: a state-space view. Journal of Geophysical Research. PDF File

 
Alameddine, I., M.E. Borsuk and A.C. Thomas. 2013. Bayesian survival analysis as a means for predicting the timing of harmful algal bloom-induced shellfish toxicity. Marine Pollution Bulletin. Submitted.

Horecka, H.M., A.C. Thomas and R.A. Weatherbee, 2013. Environmental links to interannual variability in shellfish toxicity in Cobscook Bay and eastern Maine, a strongly mixed coastal region, Deep-Sea Research Part II, http://dx.doi.org/10.1016/j.dsr2.2013.01.013. PDF File

Nair, A., A.C. Thomas and M.A. Borsuk, M. A. 2013.  Interannual variability in the timing of New England shellfish toxicity and relationships to environmental forcing. Science of the Total Environment. 447, 255-266. PDF File

Thomas, A.C., P.T. Strub, R.A. Weatherbee, and C. James, 2012. Satellite views of Pacific chlorophyll variability: Comparisons to physical variability, local versus nonlocal influences and links to climate indices, Deep-Sea Research Part II, 77-80, 99-116. PDF File

Ruzicka, J.J., R.D. Brodeur, R.L. Emmett, J.H. Steele, J.E. Zamon, C.A. Morgan, A.C. Thomas, T.C. Wainwright, 2012. Interannual variability in the Northern California Current food web structure: Changes in energy flow pathways and the role of forage fish, euphausiids, and jellyfish, Progress in Oceanography,102(2012), 19-41. PDF File

Runge, J.A., A. Kovach, J. Churchill, L. Kerr, J.R. Morrison, R. Beardsley, D. Berlinsky, C. Chen, S. Cadrin, C. Davis, K. Ford, J.H. Grabowski, W. H. Howell, R.Ji, R. Jones, A. Pershing, N. Record, A. Thomas, G. Sherwood, S. Tallack, and D. Townsend, 2010. Understanding Climate Impacts on Recruitment and Spatial Dynamics of Atlantic Cod in the Gulf of Maine: Integration of Observations and Modeling. Progress in Oceanography, 87(1-4), 251-263. PDF File

Ji R., M. Edwards, D.L. Mackas, J.A. Runge, and A.C. Thomas, 2010. Marine plankton phenology and life history in a changing climate: Current research and future directions, J. Plankton Res. 32(10), 1355-1368. PDF File

Thomas, A.C., R. Weatherbee, H. Xue and G. Liu, 2010. Interannual variability of shellfish toxicity in the Gulf of Maine: Time and space patterns and links to environmental variability. Harmful Algae, 9, 458-480, doi:10.1016/j.hal.2010.03.002. PDF File

Thomas, A.C., P. Brickley and R. Weatherbee, 2009. Interannual variability in chlorophyll concentrations in the Humboldt and California Current Systems. Progress in Oceanography, 83, 386-392, doi: 10.1016/j.pocean.2009.07.020. PDF File

Henson, S.A. and A.C. Thomas, 2008.  Interannual variability in timing of seasonal chlorophyll increases in the California Current. J. Geophys. Res. 112 (C8), doi:10.1029/2006JC003960. PDF File

Henson S.A. and A.C. Thomas. 2008. A census of oceanic anticyclonic eddies in the Gulf of Alaska. Deep Sea Res., 55, 163-176. PDF File

Venegas, R., P.T. Strub, E. Beier, R. Letelier, A.C. Thomas, T.Cowles, C. James, L. Soto-Mardones, C. Cabrera. 2008. Satellite-derived variability in chlorophyll, wind stress, sea surface height, and temperature in the northern California Current System. J. Geophys. Res. 113, C03015, doi:10.1029/2007JC004481. PDF File

Legaard, K. and A.C. Thomas, 2007. Spatial patterns of intraseasonal variability of chlorophyll and sea surface temperature in the California Current. J. Geophys. Res. 112, doi:10.1029/2007JC004097. PDF File

Henson, S.A. and A.C. Thomas, 2007.  Phytoplankton scales of variability in the California Current system: 1. Interannual and cross- shelf variability. J. Geophys. Res. 112(C07017), doi:10.1029/2006JC004039. PDF File

Henson, S.A. and A.C. Thomas, 2007.  Phytoplankton scales of variability in the California Current system: 2. Latitudinal variability. J. Geophys. Res.
112(C07018), doi:10.1029/2006JC004040. PDF File

Crawford, W.R., P.J. Brickley, and A.C. Thomas, 2007. Mesoscale eddies dominate surface phytoplankton in northern Gulf of Alaska. Prog. in Oceanogr., 75, 287-303. PDF File

Theil, M. et al., 2007. The Humboldt Current system of northern- central Chile: Oceanographic processes, ecological interactions and socioeconomic feedback. Oceanogr. Mar. Biol. Ann Rev. 45: 195-345.

Thomas, A.C. and P. Brickley. 2006. Satellite measurements of chlorophyll distribution during spring 2005 in the California Current. Geophys. Res. Lett. 33, doi:10.1029/2006GL026588. PDF File
 
Legaard, K. and A.C. Thomas. 2006. Spatial patterns of seasonal and interannual variability in chlorophyll and surface temperature in the California Current. J. Geophys. Res. 111, C06032, doi:10.1029/2005JC003282. PDF File
 
Thomas, A.C. and R. Weatherbee. 2006. Satellite-measured temporal variability of the Columbia River plume. Rem. Sensing. Env. 100: 167-178. PDF File

Dagg, M.J., H. Liu and A.C. Thomas. 2006. Effects of mesoscale phytoplankton variability on the copepods Neocalanus flemingeri and N. plumchrus in the coastal Gulf of Alaska. Deep-Sea Res. 53: 321-332. PDF File

Mackas, D., P.T. Strub, A.C. Thomas, V. Montecino, 2006, Eastern Ocean Boundaries Pan-Regional View, In: The Sea. A.R. Robinson and K.H. Brink, Editors. Harvard Press Ltd.. In Press. PDF File

D.W. Townsend, A.C. Thomas, L.M. Mayer, M.A.Thomas and J.A. Quinlan, 2006, Interdisciplinary oceanography of the northwest Atlantic continental shelf waters. In: The Sea. A.R. Robinson and K.H. Brink, Editors. Harvard Press Ltd.. In Press. PDF File

Montecino, V., P.T. Strub, J. Tarazona, F. Chavez, A.C. Thomas and T. Baumgartner. 2006, Bio-physical interactions off western South America, In: The Sea. A.R. Robinson and K.H. Brink, Editors. Harvard Press Ltd.. In Press. PDF File

Pettigrew, N.R., J.H. Churchill, C.D. Janzen, L.J. Mangum, R.P. Signell, A.C. Thomas, D.W. Townsend, J.P. Wallinga, and H. Xue, 2005, The kinematic and hydrographic structure of the Gulf of Maine Coastal Current. Deep Sea Res. Part2, 52: 2369-2391. PDF File

Townsend, D.W., N.R. Pettigrew and A.C. Thomas, 2005. On the nature of offshore Alexandrium fundyense blooms in the Gulf of Maine. Deep-Sea Res. Part 2. 52: 2603-2630. PDF File

Luerssen R.M., A.C. Thomas and J. Hurst, 2005. Relationships between satellite-measured thermal features and Alexandrium-imposed toxicity in the Gulf of Maine, Deep Sea Res. Part 2. 52: 2656-2673. PDF File

Crawford, W.R., P.J. Brickley, T.D. Peterson, and A.C. Thomas, 2005. Impact of Haida Eddies on chlorophyll-a distribution in the eastern Gulf of Alaska, Deep-Sea Res.. 52: 975-989. PDF File

Brickley P., and A.C. Thomas, 2004, Satellite-measured seasonal and interannual chlorophyll variability in the Northeast Pacific and coastal Gulf of Alaska. Deep-Sea Res. 51: 229-245. PDF File

Siegel, D.A., A.C. Thomas and J. Marra, 2004. Views of ocean processes from the Sea-viewing Wide Field-of-view Sensor mission: introduction to the first special issue, Deep-Sea Research II, 51:1-3. PDF File

Thomas, A.C. , P. Ted Strub, and P. Brickley, 2003. Anomalous satellite-measured chlorophyll concentrations in the northern California Current in 2001-2002, Geophys. Res. Lett. 30(15): 8022, doi:10.1029/2003GL017409, 2003. PDF File

Thomas A.C., D.W. Townsend and R. Weatherbee, 2003. Satellite-measured phytoplankton variability in the Gulf of Maine, Cont. Shelf Res., 23: 971-989, doi:10.1016/S0278-4343(03)00086-4. PDF File

Thomas A.C., P. Ted Strub, M.E. Carr and R. Weatherbee, 2003. Comparisons of chlorophyll variability between the four major global eastern boundary currents. In press, Int. J. Rem. Sens., 23, doi: 10.1080/0143116031000159241. PDF File

Carr, M-E., Strub, P.T., Thomas, A.C. and Blanco, J.L., 2002. Evolution of 1996-1999 La Nina and El Nino conditions off the western coast of South America: a remote sensing perspective, J. Geophys. Res. 107: 3236. PDF File

Blanco J.L., M-E. Carr, A.C. Thomas and P.T. Strub, 2002, Hydrographic conditions off northern Chile during the 1996-1998 La Nina and El Nino, J. Geophys. Res. 107: 10,1029. PDF File

Thomas A.C., D. Byrne, and R. Weatherbee, 2002. Coastal sea surface temperature variability from Landsat infrared data. Rem. Sens. Env. 81: 262-272. PDF File

Thomas A.C., M-E. Carr, and P.T. Strub, 2001. Chlorophyll variability in eastern boundary currents, Geophys. Res. Lett. 28: 3421-3424. PDF File Chosen as featured cover article - see the cover

Nixon, S. and , A.C. Thomas, 2001. On the size of the Peru upwelling ecosystem, Deep Sea Res I. 48: 2521-2528. PDF File

Blanco J.L., A.C. Thomas, M-E. Carr and P.T. Strub, 2001. Seasonal climatology of hydrographic conditions in the upwelling region off northern Chile, J. Geophys. Res. 106: 11,451-11,467. PDF File

Thomas A.C. and P.T. Strub, 2001. Cross-shelf phytoplankton pigment variability in the California Current. Cont. Shelf Res. 21: 1157-1190. PDF File

Thomas A.C., J.L. Blanco, M.E. Carr,P.T. Strub and J. Ossus, 2001. Satellite-measured chlorophyll and temperature variability off northern Chile during the 1996-1998 La Nina and El Nino, J. Geophys. Res. 106: 899-915.  PDF File

Townsend D.W. and A.C. Thomas, 2001, Winter-spring transition of phytoplankton chlorophyll and inorganic nutrients on Georges Bank, Deep Sea Res II. 48: 199-214. PDF File

Townsend, D.W., Pettigrew, N.R. and Thomas A.C., 2001. Offshore blooms of the red tide dinoflagellate, Alexandrium sp., in the Gulf of Maine. Con. Shelf Res. 21: 347-369. PDF File

Reddin D.G., J. Helbig, A. Thomas, B.G. Whitehouse and K.D. Friedland, 2000. Survival of Atlantic Salmon (Salmo salar L.) Related to Marine Climate.Chapter 8 in The Ocean Life of Atlantic Salmon - Environmental and Biological Factors Influencing Survival, Derek Mills ED, Blackwell Science Ltd., UK, 228 pp,.

Thomas, A.C. 1999.Seasonal distributions of satellite-measured phytoplankton pigment concentration along the Chilean coast. J. Geophys. Res. 104:25877-25890. PDF File

Hill, A.E., B.M.Hickey, F.A.Shillington, P.T.Strub,K.H. Brink, E.D.Barton, A.C. Thomas, 1998.Eastern Boundary Currents: A Pan-Regional Review. Chapter 2 In: The Sea. A.R. Robinson and K.H. Brink, Editors. J.Wiley and Sons Inc. PDF File

Thomas, A.C. and P.T. Strub. 1998. Large-scale temporal and spatial variability of phytoplankton pigment concentrations in the California Current.Pg 255-266 In: Remote Sensing of the Pacific Ocean by Satellites.R.A. Brown, Ed., Earth Ocean and Space Pty. Ltd.

Thomas, A.C., B. Whitehouse and S. Levesque. 1996. Spatial and Temporal Variability of North Atlantic Salmon Habitat: Estimates from Satellite Measured Sea Surface Temperature. Professional Technical Report for the Atlantic Salmon Federation and the Atlantic Salmon Trust.

Thomas, A.C., P.T. Strub and S. Levesque. 1994. Satellite measured ocean colour variability at large spatial and temporal scales. Pg 240-248 In: Proceedings of WMO/IOC Technical Conference on Space-based Ocean Observations, Bergen, Norway,World Meteorological Organization, UNESCO.

Thomas, A.C., P.T. Strub, F. Huang and C. James. 1994. Comparison of the seasonal and interannual variability of phytoplankton pigment concentrations in the Peru and California Current System. J. Geophys. Res. 99:7355-7370. PDF File

Thomas, A.C.1992. Associations between zooplankton community structure and satellite measured surface thermal patterns in a continental shelf region.Cont. Shelf Res. 12:753-777.

Hobbs, R.C., L.W. Botsford and A.C. Thomas. 1992. Influence of hydrographic conditions and hind forcing on the distribution and abundance of Dungeness crab, Cancer magister, Larvae.Can. J. Fish. Aquat. Sci., 49:1379-1388.

Thomas, A.C. and P.T. Strub. 1990.Seasonal and interannual variability of pigment concentrations across a California Current frontal zone.J. Geophys. Res. 95:13023-13042. PDF File

Strub, P.T., C. James, A.C. Thomas, and M.R. Abbott. 1990. Seasonal and non-seasonal variability of satellite derived surface pigment concentration in the California Current. J. Geophys. Res. 95:11501-11530. PDF File

Thomas, A.C. and P.T. Strub.1989.Interannual variability in phytoplankton pigment distribution during the spring transition off western North America.J. Geophys. Res. 94:18095-18117. PDF File

Thomas, A.C. and W.J. Emery.1988. Relationships between near-surface plankton concentrations, hydrography and satellite measured sea surface temperature.J. Geophys. Res. 93:15733-15748. PDF File

Thomas, A.C. and W.J. Emery.1986.Winter hydrography and plankton distributions on the southern British Columbia continental shelf.Can. J. Fish. Aquat. Sci. 43:1249-1258.

Emery, W.J., A.C. Thomas, M. Collins, W.J. Crawford and D.L. Mackas.1986.An objective method for computing advective surface velocities from sequential infrared satellite images.J. Geophys. Res. 91:12865-12878. PDF File

Lewis, A.G. and A.C. Thomas.1986.Tidal transport of zooplankton across the sill of a British Columbia fjord.J. Plankton Res.8:1079-1089.

Emery, W.J., A.C. Thomas, M.J. Collins, W.R. Crawford, and D.L. Mackas.1986.Comparison between satellite image advective velocities, dynamic topography, and surface drifter trajectories.The Oceanography Report, EOS 67(22).