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The continental shelf of Antarctica harbours rich suspension-feeding macroinvertebrate communities that are continuously exposed to large populations of free-living microbes. To avoid settlement or fouling by undesirable microorganisms that could cause infection or collapse filter-feeding systems, these macroinvertebrates might regulate the epibiotic microbial mat through chemical interactions. In Antarctic chemical ecology, the antibacterial roles of natural products remain mostly unknown. A necessary first step is to identify organisms that produce compounds with potential ecological relevance. For that reason, we tested the crude organic extracts of 116 taxa of Antarctic benthic organisms for antibacterial activity against a panel of seven strains of marine bacteria. Nine out of 11 phyla tested had antibacterial properties. However, inhibitory activity was quite selective and species-specific. These patterns suggest that Antarctic benthic organisms may produce diverse bioactive metabolites with different antibacterial activities or, alternatively, those contrasting profiles may be shaped by environmental and biological interactions acting at a small spatial scale. The reasons of such selectivity remain to be further investigated and may contribute to the identification of bioactive compounds with pharmaceutical applications.