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The members of Rhodophyceae are commonly called as red algae, as the predominant pigment is the red pigment, r-phycoerythrin in their body. The members of Phaeocyceae are commonly termed brown algae, because of ‌the pigment fucoxanthin, which provides them a distinct greenish-olive color. 

The main points of difference between red algae and brown algae are

Red algae Brown algae
Red algae is grouped under the class Rhodophyceae Class Phaeopyceae includes members of brown algae.
Major pigments include Chlorophyll a, d and phycoerythrin Major pigments include chlorophyll a, c and fucoxanthin
They store food as Floridean starch They store food as Mannitol and Laminarin
Cell wall of red algae is composed of cellulose, pectin and poly-sulphate esters. Cell wall of brown algae is rich in cellulose and algin.
They lack flagella  Members of brown algae possess 2, unequal, lateral flagella
Example Polysiphonia, Gelidium, Gracilaria Examples: Ectocarpus, Dictyota, Laminaria

Final Answer

The major difference between red and brown algae is the predominance of red pigment r-phycoerythrin in red algae and fucoxanthin in brown algae. In red algae food gets stored as floridean starch while in brown algae stored food is Mannitol and Laminarin. 

 

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