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This work is an extension of the MicroPhytoBenthos Optical Model (MPBOM) workflow. The model was based on the observation that the biofilm itself has a negligible inherent reflectance and can be described solely by the ratio between its apparent reflectance (RA) and background reflectance (RB), allowing a straightforward calculation of the absorption coefficient (α). This coefficient is directly related to pigment concentrations estimated by High Performance Liquid Chromatography (HPLC). To run the model, assess and extend the use of α, the background contribution is a critical step. This work shows that: (i) indices based on reflectance and absorption coefficient spectra derived from the optical model correctly identified the main microphytobenthos (MPB) groups covering a pixel; (ii) contrary to the RA index each new α index was insensitive to biomass variations; (iii) for each MPB group there was a significant linear relation between the biomass estimated by HPLC and α peak at 673 nm; (iv) indices based on α spectra were almost insensitive to mixing constraints at a subpixel level. Knowing the background reflectance contribution of MPB biofilms, α can therefore be used to map MPB algal composition and biomass at any scale from MPB synthetized in laboratory to intertidal mudflat airborne observations.

Microphytobenthos Biomass and Diversity Mapping at Different Spatial Scales with a Hyperspectral Optical Model