Recently discovered hydrothermal vents of the East Scotia Ridge (ESR) in the Southern Ocean host unique faunal communities that depend on microbial chemosynthetic primary production. These highly abundant invertebrates gain energy from either grazing on free-living microbes or via hosting symbiotic chemoautotrophic microorganisms. The main objective of this study was to characterise microbes associated with a newly discovered species of hydrothermal vent gastropod and therefore increase knowledge of ecosystem functioning in this largely unknown Antarctic hydrothermal vent system. We investigated the phylogenetic composition of bacteria associated with the gills and oesophageal gland of the ESR peltospirid gastropod, Gigantopelta chessoia by molecular cloning and terminal restriction fragment length polymorphism (T-RFLP). 16S rRNA gene clone libraries revealed host tissue-specific combinations of bacteria. The oesophageal gland contained one Gammaproteobacteria OTU whereas a more diverse community of Gamma, Epsilon and Deltaproteobacteria was isolated from the gills. T-RFLP analysis revealed that juvenile bacterial communities were more closely related to adult gill-associated bacterial communities than oesophageal gland bacteria. Oesophageal gland Gammaproteobacteria exhibited a higher sequence similarity with sulphur-oxidising bacteria isolated from cold seep sediments and with thioautotrophic endosymbionts than with bacteria found in the surrounding water column, suggesting that these endosymbionts were not acquired directly from the water column. Juvenile G. chessoia were located within the mantle cavity of adults and we speculate that Gammaproteobacterial endosymbionts in the oesophageal gland could be transmitted horizontally from adults to juveniles via the gills due to the close contact of juveniles with adults’ gills.