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A Gram-reaction-negative, aerobic, non-spore-forming, non-motile and rod-shaped or ovoid bacterial strain, designated SSK6-1T, was isolated from the zone where the ocean and a freshwater spring meet at Jeju island, South Korea. Strain SSK6-1T grew optimally at 30 °C, at pH 7.0–7.5 and in the presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain SSK6-1T clustered with Phaeobacter daeponensis TF-218T and Phaeobacter caeruleus LMG 24369T, exhibiting sequence similarities of 98.6 and 98.3 %, respectively. The novel strain exhibited sequence similarities of 94.6–97.8 % to the type strains of other recognized species of the genera Phaeobacter and Leisingera . Strain SSK6-1T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c and 11-methyl C18 : 1ω7c as the major fatty acids. The major polar lipids of strain SSK6-1T were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid. The DNA G+C content of strain SSK6-1T was 64.6 mol% and its DNA–DNA relatedness values with P. daeponensis TF-218T and P. caeruleus were 21 and 25 %, respectively. The differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain SSK6-1T is separate from recognized Phaeobacter species. On the basis of the data presented, strain SSK6-1T is considered to represent a novel species of the genus Phaeobacter , for which the name Phaeobacter aquaemixtae sp. nov. is proposed. The type strain is SSK6-1T ( = KCTC 32538T = CECT 8399T).