We collected data for five years from the lower Missouri River including di
scharge (819-10032 m(3) s(-1)), mean depth (2.7-9.3 m), underwater irradian
ce (0.1-3.7 fin m(-2) d(-1)), suspended solids (19-2340 mg L-I), total phos
phorus (131-1810 mu g L-1), total nitrogen (0.9-4.2 mg L-1), nitrate-N (380
-3050 mu g L-1), silica (8.2-16.8 mg L-1) and chlorophyll (4.5-107 mu g L-1
). Suspended solids, phosphorus and light attenuation varied directly with
discharge. Nitrate, ammonium-N, silica and chlorophyll were strongly season
al. Chlorophyll was temperature dependent exhibiting winter minima (<8 mu g
L-1) and spring and fall maxima (>40 mu g L-1). In the growing season, chl
orophyll co-varied with light and varied inversely with silica and dissolve
d P. Poor light conditions (mixed depth:photic depth >10) and rapid flow ra
tes (approximate to 150 km d(-1)) suggest that in situ production of algae
is less important than flux of biomass from upstream. Chlorophyll flux and
pheophytin increased with discharge indicating contributions of benthic or
terrestrial inputs. About a fourth of the particulate organic nitrogen tran
sported by the river may be autochthonous. Algal uptake may reduce silica f
lux by >22%.