The algorithm for estimation of the quantum yield of phytoplankton fluorescence from the remote sensing satellite of the MODIS tool is discussed in the paper. There is an example of manifestation of the iron limitation in the Amundsen Sea. Amundsen Sea encloses two polynyas: Fe-limited ASP (Amundsen Sea Polynya) and Fe-replete PIP (Pine Island Polynya). We present a procedure for comparing the mean values of the quantum yield of phytoplankton fluorescence in these regions and the requirements for it. To meet these requirements, the data of two satellite systems were analyzed and compared: MODIS and AVHRR. Analysis of the data made it possible to observe the differences in the mean values of the quantum yield of phytoplankton fluorescence in these two regions during the bloom period of the Amundsen Sea phytoplankton in 2012.