Tropical seagrasses support abundant and diverse epiphytic microalgae that form the base of seagrass food webs. To help better understand the influence of structural variability of tropical seagrass meadows on associated microalgal epiphytes, we quantified the relative abundance and distribution of epiphytic microphytes in subtidal meadows of Thalassodendron ciliatum with varying seagrass canopy structure, using pigments and fatty acid (FA) profiling. We observed significant differences in microalgal epiphytic communities (diatoms and Rhodophyta) among four seagrass meadows, which was best explained by seagrass leaf surface area. Contrary to expectations, seagrass meadows with lower leaf surface area supported higher relative epiphytic microphyte abundance than those with higher leaf surface area. These results increase understanding of how spatial variability of structural components in seagrass meadows can influence their functional components, with implications on the availability to primary consumers.
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