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This study aims to clarify the characteristics of marine microbial communities in which prokaryotic and eukaryotic microorganisms interact via the metabolism of brown algae carbohydrates. Amplicon-based microbiome analysis revealed the predominance of the genera\n              <jats:italic>Marinomonas<\/jats:italic>\n              and\n              <jats:italic>Vibrio<\/jats:italic>\n              in seawater and seaweed samples mixed with alginate and mannitol, which are the primary carbohydrates in brown algae. Three\n              <jats:italic>Vibrio<\/jats:italic>\n              species and\n              <jats:italic>Candida intermedia<\/jats:italic>\n              were isolated via alginate enrichment culture. Although\n              <jats:italic>C. intermedia<\/jats:italic>\n              did not utilize alginate as a nutrient source, the yeast grew in the spent alginate medium in which\n              <jats:italic>Vibrio algivorus<\/jats:italic>\n              had been cultured. Coculture with\n              <jats:italic>C. intermedia<\/jats:italic>\n              and the\n              <jats:italic>Vibrio<\/jats:italic>\n              isolates, especially\n              <jats:italic>V. algivorus<\/jats:italic>\n              , also enhanced the growth of the yeast on alginate. These results suggested that\n              <jats:italic>C. intermedia<\/jats:italic>\n              grew because of the supply of nutrients via alginate metabolism by\n              <jats:italic>Vibrio<\/jats:italic>\n              species. In the coculture medium, the amount of phosphatidylserine increased in the early phase but decreased with the growth of\n              <jats:italic>C. intermedia<\/jats:italic>\n              , indicating that phosphatidylserine secreted by\n              <jats:italic>Vibrio<\/jats:italic>\n              is involved in the putative mutualistic interaction. We examined whether such interaction is applicable to the production of useful substances and succeeded in lipid production by oleaginous marine yeast\n              <jats:italic>Yarrowia lipolytica<\/jats:italic>\n              through coculture with\n              <jats:italic>V. algivorus<\/jats:italic>\n              . Our study suggested the potential of mutualistic interaction via degradation of alginate by marine\n              <jats:italic>Vibrio<\/jats:italic>\n              for production of industrially useful substances in yeast cells.\n            <\/jats:p>\n            <jats:sec>\n              <jats:title>IMPORTANCE<\/jats:title>\n              <jats:p>\n                In this study, we analyzed the microbiome of seawater and seaweed in the presence of brown algae carbohydrates and reconstructed the putative mutualistic relationship of marine\n                <jats:italic>Vibrio<\/jats:italic>\n                and\n                <jats:italic>Candida intermedia<\/jats:italic>\n                mediated by metabolism of brown algae in the ocean.\n              <\/jats:p>\n            <\/jats:sec>\n          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