Data from: The biogeography of the atlantic salmon (Salmo salar) gut microbiome

Although understood in many vertebrate systems, the natural diversity of
host-associated microbiota has been little studied in teleosts. For
migratory fishes, successful exploitation of multiple habitats may affect
and be affected by the composition of the intestinal microbiome. We
collected 96 Salmo salar from across the Atlantic encompassing both
freshwater and marine phases. Dramatic differences between environmental
and gut bacterial communities were observed. Furthermore, community
composition was not significantly impacted by geography. Instead
life-cycle stage strongly defined both the diversity and identity of
microbial assemblages in the gut, with evidence for community
destabilisation in migratory phases. Mycoplasmataceae phylotypes were
abundantly recovered in all life-cycle stages. Patterns of
Mycoplasmataceae phylotype recruitment to the intestinal microbial
community among sites and life-cycle stages support a dual role for
deterministic and stochastic processes in defining the composition of the
S. salar gut microbiome.