There is considerable interest in restoring stocks of Atlantic sturgeo
n (Acipenser oxyrinchus), one of only two dozen extant sturgeons world
wide. Populations of its two subspecies are found in large rivers alon
g the North American coasts of the Atlantic (A. o. oxyrinchus) and the
Gulf of Mexico (A. o. desotoi). Although these populations were sever
ely reduced because of overfishing and, in some instances, blockage of
spawning runs, their present statuses, vary from those that still sup
port limited fisheries (St. John River, new Brunswick), to a large but
apparently declining population (Hudson River), to relict-sized (Dela
ware River, Mobile River), to apparently extirpated (Maryland tributar
ies of Chesapeake Bay; St. Johns, river, Florida). There are two prima
ry alternatives for restoring these populations: (1) eliminating harve
st and allowing natural recolonization and increase and (2) hatchery-b
ased stocking (reintroduction or supplementation). We performed geneti
c analyses aimed at guiding restoration efforts. Mitochondrial DNA ana
lysis revealed strong stock structure along both coasts at eh regional
and, in some instances, population levels. Estimates of gene flow rat
es were low and suggested slow natural recolonization rates. Thus, the
first alternative avoids the genetic risks of interstock transfer and
inbreeding depression that may result from hatchery-based programs, b
ut given the low intrinsic rates of increases and recolonization of At
lantic sturgeon, recovery may take decades to centuries, if it occurs
at all. Therefore,it is imperative that the restoration approach be ta
ilored to the particular circumstances and demographics of each popula
tion; however, the characteristics of this species and poor funding pr
ospects make this information difficult to obtain. It appears likely t
hat initial Atlantic sturgeon stocking efforts will target systems whe
re they are extinct, as recently occurred in the Nanticoke River of Ch
esapeake Bay.