Abstract
Hyperspectral approaches are at the technological forefront of optical remote sensing of coral reef environments. Currently most hyperspectral data acquisition employs instruments mounted on airplanes, but in the coming years several planned satellite instruments will increase data availability for hyperspectral analysis of reefs. At the simplest level, hyperspectral data permits classification techniques to derive greater number of classes at higher accuracy than multispectral data can support. Alternatively, full spectral reflectance profiles at each pixel allow band-ratio or derivative approaches to look for features of benthic types that occur at specific wavelengths. But while the feasibility of this approach is supported by in situ data, there have been relatively few successfully demonstrated image analyses. Beyond this, working with full spectral reflectance profiles has stimulated exciting new model-based methods that aim to tease apart depth, benthic type and water quality parameters simultaneously. These methods can also incorporate uncertainty propagation, so that error bars can be placed on each derived parameter at every image pixel. Working with hyperspectral data takes coral reef remote sensing to the edge of what can be achieved by per-pixel optical analysis. Natural variations in the reflectance of benthic types and water column properties become limiting and fundamentally confound some objectives. This prompts future developments to look at analyzing spatial patterns and also to establish the cost-benefit ratio of the integration of other data, such as sonar and LiDAR data.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Suggested Reading
Dekker AG, Phinn SR, Anstee J, Bissett P, Brando VE, Casey B, Fearns P, Hedley J, Klonowski W, Lee ZP, Lynch M, Lyons M, Mobley C, Roelfsema C (2011a) Inter-comparison of shallow water bathymetry, hydrooptics, and benthos mapping techniques in Australian and Caribbean coastal environments. Limnol Oceanogr Methods 9:396–425
Hedley JD, Mumby PJ (2002a) Biological and remote sensing perspectives of pigmentation in coral reef organisms. Adv Marine Biol 43:277–317
Kirk JTO (2010) Light and photosynthesis in aquatic ecosystems. Cambridge University Press, Cambridge
Lesser MP, Mobley CD (2007a) Bathymetry, water optical properties, and benthic classification of coral reefs using hyperspectral remote sensing imagery. Coral Reefs 26:819–829
Mobley CD (1994a) Light and water. Academic, San Diego
References
Adams JB, Smith MO, Johnson PE (1986) Spectral mixture modelling: a new analysis of rock and soil types at the Viking Lander I site. J Geophys Res 91:8098–8112
Adler-Golden SM, Matthew MW, Bernstein LS, Levine RY, Berk A, Richtsmeier SC, Acharya PK, Anderson GP, Felde JW, Gardner JA, Hoke ML, Jeong LS, Pukall B, Ratkowski AJ, Burke HK (1999) Atmospheric correction for short-wave imagery based on MODTRAN 4. SPIE Proc 3753:61–69
Andréfouët S, Muller-Karger FE, Hochberg EJ, Hu C, Carder KL (2001) Change detection in shallow coral reef environments using Landsat 7 ETM + data. Remote Sens Environ 78:150–162
Bejarano S, Mumby PJ, Hedley JD, Sotheran I (2010) Combining optical and acoustic data to enhance the detection of Caribbean forereef habitats. Remote Sens Environ 114:2768–2778
Bertels L, Vanderstraete T, Collie SV, Knaeps E, Sterckx S, Goossens R, Deronde B (2007) Mapping of coral reefs using hyperspectral CASI data; a case study: Fordata, Tanimbar, Indonesia. Int J Remote Sens 29:2359–2391
Bina RT, Ombac ER (1979) Effects of tidal fluctuations on the spectral patterns of Landsat coral reef imageries. In: Proceedings of the 13th international symposium of the remote sensing of environment. University of Michigan, Ann Arbor, pp 2051–2070
Brando VE, Dekker AG (2003) Satellite hyperspectral remote sensing for estimating estuarine and coastal water quality. IEEE Trans Geosci Remote Sens 41:1378–1387
Brando VE, Anstee JM, Wettle M, Dekker AG, Phinn SR, Roelfsema C (2009) A physics based retrieval and quality assessment of bathymetry from suboptimal hyperspectral data. Remote Sens Environ 113:755–770
Caplosini P, Andréfouët S, Rion C, Payri C (2003) A comparison of Landsat ETM+, SPOT HRV, Ikonos, ASTER, and airborne MASTER data for coral reef habitat mapping in South Pacific islands. Canadian J Remote Sens 29:187–200
Cronin TW, Marshall NJ (1989) A retina with at least ten spectral types of photoreceptors in a mantis shrimp. Nature 339:137–140
Cureton GP, Anderson SJ, Lynch MJ, McGann BT (2007) Retrieval of wind wave elevation spectra from sunglint data. IEEE Trans Geosci Remote Sens 45:2829–2836
Dadhich AP, Nadaoka K, Yamamoto T, Kayanne H (2011) Detecting coral bleaching using high-resolution satellite data analysis and 2-dimensional thermal model simulation in the Ishigaki fringing reef, Japan. Coral Reefs. doi:10.1007/s00338-011-0860-1
de Haan JF, Kokke JMM, Hoogenboom HJ, Dekker AG (1997) An integrated toolbox for processing and analysis of remote sensing data of inland and coastal waters—atmospheric correction. In: 4th international conference on remote sensing for marine and coastal environments, Orlando, Florida
de Vries DH (1994) Imaging spectroscopy: CASI operations in Australia during summer 1992/93. In: 7th Australasian remote sensing conference proceedings, pp 136–140, ARSC, Melbourne, Australia
Dekker A, Byrne G, Brando V, Anstee J (2003) Hyperspectral mapping of intertidal rock platform vegetation as a tool for adaptive management. CSIRO Land and Water, Canberra, Australia
Dekker AG, Phinn SR, Anstee J, Bissett P, Brando VE, Casey B, Fearns P, Hedley J, Klonowski W, Lee ZP, Lynch M, Lyons M, Mobley C, Roelfsema C (2011b) Inter-comparison of shallow water bathymetry, hydrooptics, and benthos mapping techniques in Australian and Caribbean coastal environments. Limnol Oceanogr Methods 9:396–425
Dustan P, Dobson E, Nelson G (2002) Landsat Thematic Mapper: detection of shifts in community composition of coral reefs. Conserv Biol 15:892–902
Elvidge CD, Dietz JB, Berkelmans R, Andréfouët S, Skirving W, Strong AE, Tuttle BT (2004) Satellite observation of Keppel Islands (Great Barrier Reef) 2002 coral bleaching using IKONOS data. Coral Reefs 23:123–132
Enriquez S, Mendez ER, Iglesias-Prieto R (2005) Multiple scattering on coral skeletons enhances light absorption by symbiotic algae. Limnol Oceanogr 50:1025–1032
ERDAS (2011). ERDAS IMAGINE. http://www.erdas.com
Exelis VIS, Exelis Visual Information Solutions (2012) ENVI—Environment for visualizing images, Version 4.8
Fearns P, Rodrigo G, Klonowski W (2008) Combining hyperspectral and environmental knowledge using probabilistic methods to produce shallow water habitat maps. In: Proceedings of ocean optics XIX, Ciocco, Tuscany, Italy
Ferrier G, Trahair NS (1995) Evaluation of apparent surface reflectance estimation methodologies. Int J Remote Sens 16:2291–2297
Gao B-C, Montes MJ, Ahmad Z, Davis CO (2000) Atmospheric correction algorithm for hyperspectral remote sensing of ocean color from space. Appl Opt 39:887–896
Goodman JA, Ustin SL (2007) Classification of benthic composition in a coral reef environment using spectral unmixing. J Appl Remote Sens 1:011501
Goodman JA, Lee ZP, Ustin SL (2008) Influence of atmospheric and sea-surface corrections on retrieval of bottom depth and reflectance using a semi-analytical model: a case study in Kaneohe Bay, Hawaii. Appl Optics 47:F1–F11
Green EP, Mumby PJ, Edwards AJ, Clark CD (1996) A review of remote sensing for tropical coastal resources assessment and management. Coastal Manage 24:1–40
Green EP, Mumby PJ, Edwards AJ, Clark CD (2000) Remote sensing handbook for tropical coastal management. UNESCO, Paris
Hamylton S (2011) Estimating the coverage of coral reef benthic communities from airborne hyperspectral remote sensing data: multiple discriminant function analysis and linear spectral unmixing. Int J Remote Sens. doi:10.1080/01431161.2011.574162
Harborne AR, Mumby PJ, Zychaluk K, Hedley JD, Blackwell PG (2006) Modeling the beta diversity of coral reefs. Ecology 87:2871–2881
Heege T, Hausknecht P, Kobryn H (2007) Hyperspectral seafloor mapping and direct bathymetry calculation using HyMap data from the Ningaloo Reef and Rottnest Island areas in Western Australia. In: Proceedings of the 5th EARSel Workshop on imaging spectroscopy, Bruges, 23–25 April, pp 1–8
Hedley JD (2008) A three-dimensional radiative transfer model for shallow water environments. Opt Express 16:21887–21902
Hedley JD (2011a) Modelling the optical properties of suspended particulate matter of coral reef environments using the finite difference time domain (FDTD) method. Geo Marine Letters. doi:10.1007/s00367-011-0265-8
Hedley JD (2011b) PlanarRad user manual. http://www.planarrad.com
Hedley JD, EnrÃquez S (2010) Optical properties of canopies of the tropical seagrass Thalassia testudinum estimated by a three-dimensional radiative transfer model. Limnol Oceanogr 55:1537–1550
Hedley JD, Harborne AR, Mumby PJ (2005) Simple and robust removal of sun glint for mapping shallow water benthos. Int J Remote Sens 26:2107–2112
Hedley JD, Mumby PJ (2002b) Biological and remote sensing perspectives of pigmentation in coral reef organisms. Adv Marine Biol 43:277–317
Hedley JD, Mumby PJ (2003) A remote sensing method for resolving depth and subpixel composition of aquatic benthos. Limnol Oceanogr 48:480–488
Hedley JD, Mumby PJ, Joyce KE, Phinn SR (2004) Spectral unmixing of coral reef benthos under ideal conditions. Coral Reefs 23:60–73
Hedley JD, Roelfsema C, Phinn SR (2009a) Efficient radiative transfer model inversion for remote sensing applications. Remote Sens Environ 113:2527–2532
Hedley JD, Roelfsema C, Phinn S (2009b) Uncertainty propagation in a physics-based shallow water mapping algorithm applied to CASI and QuickBird imagery of Heron Reef, GBR. In: Proceedings of RSPSoc conference, Leicester
Hedley JD, Roelfsema C, Phinn S (2010) Propagating uncertainty through a shallow water mapping algorithm based on radiative transfer model inversion. In: Proceedings of ocean optics XX, Anchorage
Hedley JD, Roelfsema C, Koetz B, Phinn S (2012a) Capability of the Sentinel 2 mission for tropical coral reef mapping and coral bleaching detection. Remote Sens Environ. doi:10.1016/j.rse.2011.06.028
Hedley JD, Roelfsema C, Phinn S, Mumby PJ (2012b) Environmental and sensor limitations in optical remote sensing of coral reefs: implications for monitoring and sensor design. Remote Sens 4:271–302. doi:10.3390/rs4010271
Hedley JD, Roelfsema C, Phinn SR (2012c). Bathymetric map of Heron Reef, Australia, derived from airborne hyperspectral data at 1Â m resolution. doi: 10.1594/PANGAEA.779522
Hochberg EJ, Atkinson MJ (2000) Spectral discrimination of coral reef benthic communities. Coral Reefs 19:164–171
Hochberg EJ, Atkinson MJ, Andrefouet S (2003a) Spectral reflectance of coral reef bottom-types worldwide and implications for coral reef remote sensing. Remote Sens Environ 85:159–173
Hochberg E, Andrefouet S, Tyler M (2003b) Sea surface correction of high spatial resolution Ikonos images to improve bottom mapping in near-shore environments. IEEE Trans Geosci Remote Sens 41:1724–1729
Hochberg EJ, Atkinson MJ (2003) Capabilities of remote sensors to classify coral, algae and sand as pure and mixed spectra. Remote Sens Environ 85:174–189
Holden H, LeDrew E (1999) Hyperspectral identification of coral reef features. Int J Remote Sens 13:2545–2563
ITRES (2008) CASI-550 airborne hyperspectral solutions. www.itres.com/assets/pdf/CASI-550.pdf
Isoun E, Fletcher C, Frazer N, Gradie J (2003) Multi-spectral mapping of reef bathymery and coral cover; Kailua Bay, Hawaii. Coral Reefs 22:68–82
Jeffery SW, Mantoura RFC, Bjørnland T (1997) Data for the identification of 47 key phytoplankton pigments. In: Jeffery SW, Mantoura RFC, Wright SW (eds) Phytoplankton pigments in oceanography: guidelines to modern methods. UNESCO, Paris, pp 449–559
Joyce KE (2004) A method for mapping live coral cover using remote sensing. Ph.D. thesis, University of Queensland, Brisbane, Australia
Karpouzli E, Malthus T (2003) The empirical line method for atmospheric correction of IKONOS imagery. Int J Remote Sens 24:1143–1150
Kay S, Hedley JD, Lavender S (2009) Sun glint correction of high and low spatial resolution images of aquatic scenes: a review of methods for visible and near-infrared wavelengths. Remote Sensing 1:697–730
Kay S, Hedley JD, Lavender S, Nimmo-Smith A (2011) Light transfer at the ocean surface modeled using high resolution sea surface realizations. Opt Express 19:6493–6504
Kennedy RE, Cohen WB, Takao G (1997) Empirical methods to compensate for a view-angle-dependent brightness gradient in AVIRIS imagery. Remote Sens Environ 62:277–291
Klonowski WM, Fearns PRCS, Lynch MJ (2007) Retrieving key benthic cover types and bathymetry from hyperspectral imagery. J Appl Remote Sens 1:011505
Kotchenova SY, Vermote EF, Matarrese R, Klemm FJ Jr (2006) Validation of a vector version of the 6S radiative transfer code for atmospheric correction of satellite data Part I: path radiance. Appl Optics 45:6726–6774
Kotchenova SY, Vermote EF (2007) Validation of a vector version of the 6S radiative transfer code for atmospheric correction of satellite data. Part II: homogeneous Lambertian and anisotropic surfaces. Appl Opt 46:4455–4464
Kutser T, Miller I, Jupp D (2006) Mapping coral reef benthic substrates using hyperspectral space-borne images and spectral libraries. Estuar Coast Shelf Sci 70:449–460
Kutser T, Vahtmäe E, Praks J (2009) A sun glint correction method for hyperspectral imagery containing areas with non-negligible water leaving NIR signal. Remote Sens Environ 113:2267–2274
Lee Z, Carder KL, Mobley CD, Steward RG, Patch JS (1998) Hyperspectral remote sensing for shallow waters I. A semianalytical model. Appl Optics 37:6329–6338
Lee Z, Carder KL, Mobley CD, Steward RG, Patch JS (1999) Hyperspectral remote sensing for shallow waters. 2. Deriving bottom depths and water properties by optimization. Appl Opt 38:3831–3843
Lee Z, Carder KL, Chen RF, Peacock TG (2001) Properties of the water column and bottom derived from airborne visible infrared imaging spectrometer (AVIRIS) data. J Geophys Res 106:11639–11651
Lee Z, Casey B, Arnone R, Weidemann A, Parsons R, Montes MJ, Gao B-C, Goode W, Davis CO, Dyef J (2007) Water and bottom properties of a coastal environment derived from Hyperion data measured from the EO-1 spacecraft platform. J Appl Remote Sens 1:011502
Lesser MP, Mobley CD (2007b) Bathymetry, water optical properties, and benthic classification of coral reefs using hyperspectral remote sensing imagery. Coral Reefs 26:819–829
Lyzenga DR (1978) Passive remote sensing techniques for mapping water depth and bottom features. Appl Opt 17:379–383
Lyzenga DR (1981) Remote sensing of bottom reflectance and water attenuation parameters in shallow water using aircraft and Landsat data. Int J Remote Sens 2:71–82
Lyzenga D, Malinas N, Tanis F (2006) Multispectral bathymetry using a simple physically based algorithm. IEEE Trans Geosci Remote Sens 44:2251–2259
Maritorena S, Morel A, Gentili B (1994) Diffuse reflectance of oceanic shallow waters: Influence of water depth and bottom albedo. Limnol Oceanogr 39:1689–1703
Mather PM (1999) Computer processing of remotely sensed images, 2nd edn. Wiley, Chichester
Mayer B, Kylling A (2005) Technical note: the libRadtran software package for radiative transfer calculations—description and examples of use. Atmos Chem Phys 5:1855–1877
Milovich JA, Frulla LA, Gagliardini DA (1995) Environmental contribution to the atmospheric correction for Landsat-MSS images. Int J Remote Sens 16:2515–2537
Mishra DR, Narumalani S, Rundquist D, Lawson M, Perk R (2007) Enhancing the detection of coral reef and associated benthic habitats: a hyperspectral remote sensing approach. J Geophys Res 112: CO8014
Mobley CD (1994b) Light and water. Academic, San Diego
Mobley CD, Sundman L (2000) Hydrolight 4.1 user’s guide. Sequoia Scientific. http://www.sequoiasci.com/products/Hydrolight.aspx
Mobley CD, Sundman LK, Davis C, Bowles JH, Downes TV, Leathers RA, Montes MJ, Bissett WP, Kohler DDR, Reid RP, Louchard EM, Gleason A (2005) Interpretation of hyperspectral remote-sensing imagery by spectrum matching and look-up tables. Appl Opt 44:3576–3592
Montes MJ, Gao B-C, Davis CO (2001) A new algorithm for atmospheric correction of hyperspectral remote sensing data. Proc SPIE-Int Soc Opt Eng SPIE 4383:23–30
Mumby PJ, Green EP, Edwards AJ, Clark CD (1997) Coral reef habitat-mapping: how much detail can remote sensing provide? Mar Biol 130:193–202
Mumby PJ, Clark CD, Green EP, Edwards AJ (1998) Benefits of water column correction and contextual editing for mapping coral reefs. Int J Remote Sens 19:203–210
Mumby PJ, Chisholm JRM, Clark CD, Hedley JD, Jaubert J (2001) A bird’s-eye view of the health of coral reefs. Nature 413:36
Mumby PJ, Edwards AJ (2002) Mapping marine environments with IKONOS imagery: enhanced spatial resolution can deliver greater thematic accuracy. Remote Sens Environ 82:248–257
Mumby PJ, Harbourne AR (1999) Development of a systematic classification scheme of marine habitats to faciltate regional management and mapping of Caribbean coral reefs. Biol Conserv 88:155–163
Mumby PJ, Hedley JD, Chisholm JRM, Clark CD, Ripley H, Jaubert J (2004) The cover of living and dead corals from airborne remote sensing. Coral Reefs 23:171–183
Mustard J, Staid M, Fripp W (2001) A semianalytical approach to the calibration of AVIRIS data to reflectance over water application in a temperate estuary. Remote Sens Environ 75:335–349
Pope RM, Fry ES (1997) Absorption spectrum (380–700 nm) of pure water II. Integrating cavity measurements. Appl Optics 36:8710–8723
Phinney J, Muller-Karger F, Dustan P, Sobel J (2002) Using remote sensing to reassess the mass mortality of Diadema antillarum 1983–1984. Conserv Biol 15:885–891
Ricchiazzi P, Yang S, Gautier C, Sowle D (1998) SBDART: a research and teaching software tool for plane-parallel radiative transfer in the earth’s atmosphere. Bull Am Meteorol Soc 79:2101–2114
Roelfsema CM, Marshall J, Hochberg E, Phinn S, Goldizen A, Joyce KE (2006) Underwater spectrometer system 2006 (UWSS04). http://ww2.gpem.uq.edu.au/CRSSIS/publications/ UW %20Spec %20Manual %2029August06.pdf
Schuyler Q, Dustan P, Dobson E (2006) Remote sensing of coral reef community change on a remote coral atoll: Karang Kapota, Indonesia. In: Proceedings of 10th international coral reef symposium, Okinawa, Japan. 28 June– 2 July, 2004, pp 1763–1770
Siebeck UE, Marshall NJ, Kluter A, Hoegh-Guldberg O (2006) Monitoring coral bleaching using a colour reference card. Coral Reefs 25:453–460
Slivkoff M (2010) Dynamic above-water radiance and irradiance collector (DALEC). http://wwwinsitumarineoptics.com
Smith GM, Milton EJ (1999) The use of the empirical line method to calibrate remotely sensed data to reflectance. Int J Remote Sens 20:2653–2662
Splinter KD, Holman RA (2009) Bathymetry estimation from single-frame images of nearshore waves. IEEE Trans Geosci Remote Sens 47:3151–3160
Tsai F, Philpot W (1998) Derivative analysis of hyperspectral data. Remote Sens Environ 66:41–51
Tote C, Sterckx S, Knaeps E, Raymaekers D (2011) Remote sensing of shallow water bodies: effect of the bottom substrate on water leaving reflectance. In: 7th EARSeL workshop of the special interest group in imaging spectroscopy, 11–13th April 2011, Edinburgh
Wettle M, Ferrier G, Lawrence AJ, Anderson K (2003) Fourth derivative analysis of Red Sea coral reflectance spectra. Int J Remote Sens 24:3867–3872
Wettle M, Brando VE (2006) Sambuca: semi-analytical model for bathymetry un-mixing and concentration assessment. CSIRO Land and Water Science Report 22/06
Wolfe MA (1978) Numerical methods for unconstrained optimization. Van Nostrand Reinhold Company, New York
Acknowledgments
Reflectance spectra in Fig. 4.3 were collected by Chris Roelfsema. Heron Island imagery was collected by Stuart Phinn and funded by the Australian Research Council, and image pre-processing was conducted by Karen Joyce. Inherent optical properties in Fig. 4.2b were collected with instrumentation held by the UK’s NERC Field Spectroscopy Facility and during field work part-funded by the World Bank/Global Environment Facility Coral Reef Targeted Research Program. Figure 4.4a and b were derived from a figure previously published in Hedley et al. 2005 and are reproduced with permission from Taylor and Francis. Figure 4.5 is reproduced from Harborne et al. 2006 with permission from the Ecological Society of America.
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2013 Springer Science+Business Media Dordrecht
About this chapter
Cite this chapter
Hedley, J.D. (2013). Hyperspectral Applications. In: Goodman, J., Purkis, S., Phinn, S. (eds) Coral Reef Remote Sensing. Springer, Dordrecht. https://doi.org/10.1007/978-90-481-9292-2_4
Download citation
DOI: https://doi.org/10.1007/978-90-481-9292-2_4
Published:
Publisher Name: Springer, Dordrecht
Print ISBN: 978-90-481-9291-5
Online ISBN: 978-90-481-9292-2
eBook Packages: Earth and Environmental ScienceEarth and Environmental Science (R0)