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Biotelemetry of shortnose sturgeon Acipenser brevirostrum and Atlantic sturgeon A. oxyrinchus oxyrinchus was used to study fish uses of habitat in several hierarchical classes in the Connecticut and Merrimack rivers. Hierarchical classes were geomorphological region (straight river run, run with an island, and river curve), river cross section (channel or shoal), and microhabitat (water depth, bottom current, substrate, and illumination). Coastal wandering juvenile Atlantic sturgeon were summer visitors to the Merrimack River, where they used a narrow range of habitat on all spatial scales, e.g., run-with-island, the channel portion of the cross section, and sand substrate. Shortnose sturgeon, year-round residents in both rivers, showed great individual variation in habitat use, and all ages selected a broad range of habitats on all spatial scales. However, shortnose sturgeon in both rivers preferred curves with sand or cobble substrate and avoided runs regardless of substrate. Individuals used channel or shoal at rates ranging from 0 to 100% on a weekly time scale in an unpredictable manner. Connecticut River shortnose sturgeon increased their use of curves, channels (deep water), and sand substrate in the fall. This strategy may conserve energy because these conditions usually reflect slow water velocity. Winter habitat selection continued the fall pattern, but was less variable because habitat affinity was highest among wintering fish. Documenting individual fish use of large-scale habitat revealed habitat relationships that would not have been discovered if only fish use of microhabitat had been studied.

Evidence has become available in this century indicating that populations of the endangered Shortnose Sturgeon Acipenser brevirostrum migrate outside their natal river systems, but the full extent and functional basis of these migrations are not well understood. Between 2007 and 2013, 40 Shortnose Sturgeon captured and tagged in four Gulf of Maine river systems migrated long distances in coastal waters to reach the Kennebec System where their movements were logged by an acoustic receiver array. Twenty-one (20%) of 104 Shortnose Sturgeon tagged in the Penobscot River, two (50%) of four tagged in the Kennebec System, one (50%) of two tagged in the Saco River, and 16 (37%) of 43 tagged in the Merrimack River moved to a previously identified spawning site or historical spawning habitat in the Kennebec System in spring. Most (65%) moved in early spring from the tagging location directly to a spawning site in the Kennebec System, whereas the rest moved primarily in the fall from the tagging location to a wintering site in that system and moved to a spawning site the following spring. Spawning was inferred from the location, behavior, and sexual status of the fish and from season, water temperature, and discharge, and was confirmed by the capture of larvae in some years. Tagged fish went to a known spawning area in the upper Kennebec Estuary (16 events) or the Androscoggin Estuary (14 events), an historical spawning habitat in the restored Kennebec River (8 events), or two spawning areas in a single year (7 events). We have provided the first evidence indicating that Shortnose Sturgeon spawn in the restored Kennebec River in an historical habitat that became accessible in 1999 when Edwards Dam was removed, 162 years after it was constructed. These results highlight the importance of the Kennebec System to Shortnose Sturgeon throughout the Gulf of Maine.