The serial discontinuity concept (SDC; Ward and Stanford, in Ecology of River Systems, 1983) predicts that recovery of large regulated rivers over distance downstream from a dam is limited by relative tributary size; however, channel geomorphology may also influence the recovery process. We examined the spatial variation in water quality, benthic composition and ash‐free dry standing biomass (AFDM) among the bedrock‐defined geomorphological reaches in three turbidity segments of the Colorado River between Glen Canyon Dam and Diamond Creek, Arizona, including most of the Grand Canyon. This 387‐km long study area supported virtually no Ephemeroptera, Plecoptera or Trichoptera, probably because cold, stenothermic, hypolimnetic releases limited maximum aestival warming to 17·1°C. The benthos displayed abrupt, physically related decreases in AFDM over distance from the dam and in the varial zone. The 26‐km long clear water segment between the dam and the Paria River supported a depauperate Cladophora glomerata/epiphyte/chironomid/Gammarus lacustris/lumbricine/Physella sp. assemblage, and ooze‐dwelling oligochaetes. This segment contained 6·9% of the aquatic habitat below the 140 m3/s (normal minimum) discharge stage of the Colorado River study area, but supported 63·5% of the benthic primary producer AFDM and 87% of the benthic consumer AFDM in the entire study area. Turbidity increased and light penetration decreased immediately downstream from the confluence of the small, turbid Paria River, and further downstream from the Little Colorado River confluence. The benthos downstream from the Paria River was abruptly replaced by an Oscillatoria/Simuliium assemblage with a mean AFDM of <0·12 g C/m2.
Dam‐related effects on water clarity, varial flow and water temperature overrode geomorphological influences on habitat availability. These results generally support the SDC, in that recovery of the benthos did not take place over distance in this large river ecosystem; however, geomorphological differences in substratum availability between reaches mediated dam and tributary effects on water clarity and benthic AFDM. Interactions between flow regulation and geomorphology produce a pattern of circuitous recovery of some physical river ecosystem characteristics over distance from the dam, but not of the benthos. Improving discharge management for endangered native fish populations requires detailed understanding of existing and potential benthic development, and trophic interactions, throughout the geomorphological reaches and turbidity segments in this river. © 1997 John Wiley & Sons, Ltd.