Application of the hyperspectral imager for the coastal ocean to phytoplankton ecology studies in Monterey Bay, CA, USA

Remote Sensing

Volumn 6, Issue 2, 2014, Pages 1007-1025

  Ryan, John P ^a   Davis, Curtiss O ^b   Tufillaro, Nicholas B ^b   Kudela, Raphael M ^c   Gao, Bo Cai ^d  

^a MONTEREY BAY AQUARIUM RESEARCH INSTITUTE   (United States)

^b OREGON STATE UNIVERSITY   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d NAVAL RESEARCH LABORATORY   (United States)

Author keywords

Monterey Bay; Phytoplankton; Remote sensing; Upwelling

Indexed keywords

EID: 84894634023     PISSN: None     EISSN: 20724292     Source Type: Journal    
DOI: 10.3390/rs6021007     Document Type: Article

References (44)

1. Lucke, R.L.; Corson, M.; McGlothlin, N.R.; Butcher, S.D.; Wood, D.L.; Korwan, D.R.; Li, R.R.; Snyder, W.A.; Davis, C.O.; Chen, D.T. Hyperspectral imager for the coastal ocean: Instrument description and first images. Appl. Opt. 2011, 50, 1501-1516.
2. Corson, M.R.; Davis, C.O. A new view of coastal oceans from the space station. Eos Trans. Am. Geophys. Union 2011, 92, 161-162.
3. Davis, C.O.; Bowles, J.; Leathers, R.A.; Korwan, D.; Downes, T.V.; Snyder, W.A.; Rhea, W.J.; Chen, W.; Fisher, J.; Bissett, W.P.; et al. Ocean PHILLS hyperspectral imager: Design, characterization, and calibration. Opt. Express 2002, 10, 210-221.
4. Barber, R.T.; Smith, R.L. Coastal Upwelling Ecosystems. In Analysis of Marine Ecosystems; Longhurst, A.R., Ed.; Academic Press: New York, NY, USA, 1981; pp. 31-68.
5. Breaker, L.C.; Broenkow, W.W. The circulation of Monterey Bay and related processes. Oceanogr. Mar. Biol. Annu. Rev. 1994, 32, 1-64.
6. Rosenfeld, L.K.; Schwing, F.B.; Garfield, N.; Tracy, D.E. Bifurcated flow from an upwelling center: A cold water source for Monterey Bay. Cont. Shelf Res. 1994, 14, 931-964.
7. Woodson, C.B.; Eerkes-Medrano, D.I.; Flores-Morales, A.; Foley, M.M.; Henkel, S.K.; Hessing-Lewis, M.; Jacinto, D.; Needles, L.; Nishizaki, M.T.; O'Leary, J.; et al. Local diurnal upwelling driven by sea breezes in northern Monterey Bay. Cont. Shelf Res. 2007, 27, 2289-2302.
8. Shea, R.E.; Broenkow, W.W. The role of internal tides in the nutrient enrichment of Monterey Bay, California. Estuar. Coast. Shelf Sci. 1982, 15, 57-66.
9. Ryan, J.P.; McManus, M.A.; Sullivan, J.M. Interacting physical, chemical and biological forcing of phytoplankton thin-layer variability in Monterey Bay, California. Cont. Shelf Res. 2010, 30, 7-16.
10. Kudela, R.; Pitcher, G.; Probyn, T.; Figueiras, F.; Moita, T.; Trainer, V. Harmful algal blooms in coastal upwelling systems. Oceanography 2005, 18, 184-197.
11. Ryan, J.; Greenfield, D.; Marin III, R.; Preston, C.; Roman, B.; Jensen, S.; Pargett, D.; Birch, J.; Mikulski, C.; Doucette, G.; et al. Harmful phytoplankton ecology studies using an autonomous molecular analytical and ocean observing network. Limnol. Oceanogr. 2011, 56, 1255-1272.
12. Jessup, D.A.; Miller, M.A.; Ryan, J.P.; Nevins, H.M.; Kerkering, H.A.; Mekebri, A.; Crane, D.B.; Johnson, T.A.; Kudela, R.M. Mass stranding of marine birds caused by a surfactant-producing red tide. PLoS ONE 2009, doi:10.1371/journal.pone.0004550.
13. Kudela, R.M.; Lane, J.; Cochlan, W. The potential role of anthropogenically derived nitrogen in the growth of harmful algae in California, USA. Harmful Algae 2008, 8, 103-110.
14. Kudela, R.M., University of California, Santa Cruz, CA, USA; Ryan, J.P. Monterey Bay Aquarium Research Institute, Moss Landing, CA, USA. Unpublished data, 2007-2009.
15. HICO. Available online: http://hico.coas.oregonstate.edu. (accessed on 1 November 2013).
16. Gao, B.-C.; Davis, C.O. Development of a line-by-line-based atmosphere removal algorithm for airborne and spaceborne imaging spectrometers. Proc. SPIE 1997, doi:10.1117/12.283822.
17. Montes, M.J.; Gao, B.C. NRL Atmospheric Correction Algorithms for Oceans: Tafkaa User's Guide; NRL Report; NRL: Washington, DC, USA, 2004; pp. 1-39.
18. Bowles, J. The US Naval Research Laboratory, Washington, DC, USA. Private Communication, 2013.
19. O'Reilly, J.E.; Maritorena, S.; Siegel, D.; O'Brien, M.C.; Toole, D.; Mitchell, B.G.; Kahru, M.; Chavez, F.P.; Strutton, P.; Cota, G.; et al. Ocean Color Chlorophyll A Algorithms for SeaWiFS, OC2, and OC4: Version 4. In SeaWiFS Postlaunch Calibration and Validation Analyses, Part 3; Hooker, S.B., Firestone, E.R., Eds.; NASA Goddard Space Flight Center: Greenbelt, MD, USA, 2000; Volume 11, pp. 9-23.
20. Lee, Z.P.; Carder, K.L.; Arnone, R.A. Deriving inherent optical properties from water color: A multiband quasi-analytical algorithim for optically deep waters. Appl. Opt. 2002, 41, 5755-5756.
21. Lee, Z.P.; Carder, K.L. Absorption spectrum of phytoplankton pigments derived from hyperspectral remote-sensing reflectance. Remote Sens. Environ. 2004, 89, 361-368.
22. IOCCG. Available online: http://www.ioccg.org/groups/software.html. (accessed on 1 November 2013).
23. Letelier, R.M.; Abbott, M.R.; An analysis of chlorophyll fluorescence algorithms for Moderate Resolution Imaging Spectrometer (MODIS). Remote Sens. Environ. 1996, 58, 215-223.
24. Gower J.; King, S.; Borstad, G.; Brown, L. Detection of intense plankton blooms using the 709 nm band of the MERIS imaging spectrometer, Int. J. Remote Sens. 2005, 26, 2005-2012.
25. Ryan, J.P.; Fischer, A.M.; Kudela, R.M.; McManus, M.A.; Myers, J.S.; Paduan, J.D.; Ruhsam, C.M.; Woodson, C.B.; Zhang, Y. Recurrent frontal slicks of a coastal ocean upwelling shadow. J. Geophys. Res. 2010, doi:10.1029/2010JC006398.
26. Bellingham, J.G.; Streitlien, K.; Overland, J.; Rajan, S.; Stein, P.; Stannard, J.; Kirkwood, W.; Yoerger, D. An Arctic basin observational capability using AUVs. Oceanography 2000, 13, 64-71.
27. Johnson, K.S.; Chavez, F.P.; Friederich, G.E. Continental-shelf sediment as a primary source of iron for coastal phytoplankton. Nature 1999, 398, 697-700.
28. Bruland, K.W.; Rue, E.L.; Smith, G.J. The influence of iron and macronutrients in coastal upwelling regimes off central California: Implications for extensive blooms of large diatoms. Limnol. Oceanogr. 2001, 46, 1661-1674.
29. Rue, E.L.; Bruland, K.W. Domoic acid binds iron and copper: A possible role for the toxin produced by the marine diatom Pseudo-nitzchia. Mar. Chem. 2001, 76, 127-134.
30. Maldonado M.T.; Hughes, M.P.; Rue, E.L.; Wells, M.L. The effect of Fe and Cu on growth and domoic acid production by Pseudo-nitzschia multiseries and Pseudo-nitzschia australis. Limnol. Oceanogr. 2002, 47, 515-526.
31. Rhodes, L.; Selwood, A.; McNabb, P.; Briggs, L.; Adamson, J., van Ginkel, R.; Laczka, O. Trace metal effects on the production of biotoxins by microalgae. Afr. J. Mar. Sci. 2006, 28, 393-397.
32. Ryan, J.P.; McManus, M.A.; Kudela, R.M.; Lara Artigas, M.; Bellingham, J.G.; Chavez, F.P.; Doucette, G.; Foley, D.; Godin, M.; Harvey, J.B.J.; et al. Boundary influences on HAB phytoplankton ecology in a stratification-enhanced upwelling shadow. Deep Sea Res. Part II Top. Stud. Oceanogr. 2013, in press.
33. Huot, Y.; Franz, B.A.; Fradette, M. Estimating variability in the quantum yield of Sun-induced chlorophyll fluorescence: A global analysis of oceanic waters. Remote Sens. Environ. 2013, 132, 238-253.
34. Abbott, M.R.; Brink, K.H.; Booth, C.R.; Blasco, D.; Swenson, M.S.; Davis, C.O.; Codispoti, L.A. Scales of variability of bio-optical properties as observed from near-surface drifters. J. Geophys. Res. Ocean 1995, 100, 13345-13367.
35. Kudela, R.M.; Ryan, J.P.; Blakely, M.D.; Lane, J.Q.; Peterson, T.D. Linking the physiology and ecology of Cochlodinium to better understand harmful algal bloom events: A comparative approach. Harmful Algae 2008, 7, 278-292.
36. Ryan, J.P.; Gower, J.F.R.; King, S.A.; Bissett, W.P.; Fischer, A.M.; Kudela, R.M.; Kolber, Z.; Mazzillo, F.; Rienecker, E.V.; Chavez, F.P. A coastal ocean extreme bloom incubator. Geophys. Res. Lett. 2008, doi:10.1029/2008GL034081.
37. Ryan, J.P.; Fischer, A.M.; Kudela, R.M.; Gower, J.F.R.; King, S.A.; Marin, R., III; Chavez, F.P. Influences of upwelling and downwelling winds on red tide bloom dynamics in Monterey Bay, California. Cont. Shelf Res. 2009, 29, 785-795.
38. Wynne, T.T.; Stumpf, R.P.; Tomlinson, M.C.; Warner, R.A.; Tester, P.A.; Dybie, J.; Fahnenstiel, G.L. Relating spectral shape to cyanobacterial blooms in the Laurentian Great Lakes. Int. J. Remote Sens. 2008, 29, 3665-3672.
39. Wynne, T.T.; Stumpf, R.P.; Briggs, T.O. Comparing MODIS and MERIS spectral shapes for cyanobacterial bloom detection. Int. J. Remote Sens. 2013, 34, 6668-6678.
40. Matthews, M.W.; Bernard, S.; Robertson, L. An algorithm for detecting trophic status (chlorophyll-a), cyanobacterial-dominance, surface scums and floating vegetation in inland and coastal waters. Remote Sens. Environ. 2012, 124, 637-652.
41. Tufillaro, N. The Shape of Ocean Color. In Topology and Dynamics of Chaos; Letellier, C., Gilmore, R. Eds.; World Scientific Publishing: Singapore, 2013; pp. 251-268.
42. Raitsos, D.E.; Lavender, S.J.; Maravelias, C.D.; Haralabous, J.A.; Richardson, J.; Reid, P.C. Identifying four phytoplankton functional types from space: An ecological approach. Limnol. Oceanogr. 2008, 53, 605-613.
43. Sadeghi, A.; Dinter, T.; Vountas, M.; Taylor, B.; Altenburg-Soppa, M.; Bracher, A. Remote sensing of coccolithophore blooms in selected oceanic regions using the PhytoDOAS method applied to hyper-spectral satellite data. Biogeosciences 2012, 9, 2127-2143.
44. Torrecilla, E.; Stramski, D.; Reynolds, R.A.; Millán-Núñez, E.; Piera, J. Cluster analysis of hyperspectral optical data for discriminating phytoplankton pigment assemblages in the open ocean. Remote Sens. Environ. 2011, 115, 2578-2593.