The microstratification of the microbial community at the chemocline of Lake Cadagno and the associated inorganic carbon fixation activity was studied by fine layer sampling. A deep chlorophyll maximum caused by diatoms overlying Cryptomonas was found at the upper edge of the chemocline. A high population density of phototrophic sulphur bacteria, mainly Amoebobacter cf. purpureus, occurred closely below the oxic-anoxic boundary. Despite the small fraction of total lake volume represented by the chemocline, half of the total carbon photoassimilation of the lake occurred within the chemocline with approximately equal contributions by oxygenic and anoxygenic phototrophs. Rates of dark carbon fixation in the chemocline were even higher than rates of photoassimilation, especially at the depths where oxygen and sulphide coexisted during part of the day. These results indicate a substantial contribution by chemolithotrophic organisms to the carbon cycle in Lake Cadagno. Analysis of stable carbon isotopes suggests that zooplankton may obtain as much as half of its carbon at the chemocline, indicating a strong link between production in anoxic waters and the food web in the oxic part of the lake.

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SUMMARY 1. Macrophyte abundance and distribution was assessed in a chain of six interconnected lakes (all with the same flooding frequency) in the Arctic, where increasing distance from the Mackenzie River channel resulted in a gradient of water transparency (‘chain‐set’ lakes), and in a group of 26 spatially discrete lakes where increasing frequency and duration of lake flooding with river water (controlled by sill height) also resulted in a transparency gradient (‘sill‐set’ lakes). 2. Among the chain‐set lakes, above‐ground macrophyte biomass increased from 0 to 1000 g m−2 with increasing water transparency. Among the sill‐set lakes, the transparency gradient among the lakes was less well defined and the relations with biomass were more varied. A decrease in flooding was associated with increasing water transparency and an increasing biomass of macrophytes from about 0 to over 2000 g m−2. For a specific flood frequency, however, the effect of flooding was much greater when lakes were directly connected to a river channel than when floodwaters flowed first through an intervening lake. Among infrequently flooded lakes the effect of flooding on water transparency and biomass was negligible. 3. Among relatively clear lakes in both sets of lakes, biomass increased with increasing water transparency and decreasing lake depth. Among relatively turbid lakes, however, biomass increased with the combined effect of increasing water colour (decreasing water transparency) and increasing lake water depth. The increases in biomass with increasing water colour (coloured dissolved organic matter) and increasing depth, which together result in reduced light at the bed, may be explained by reduced exposure to ultra violet light. 4. An average light attenuation of 1.3 m−1 (Secchi depth about 1 m) over the growing season appears to represent a threshold water transparency which, in combination with water depths early in the growing season, is consistent with a light supply on the bed required for growth of the common macrophytes in lakes of the Mackenzie Delta. However, a comparison with other systems indicates that macrophytes among lakes of the Mackenzie Delta grow deeper, for a given level of transparency, than is reported in lakes at lower latitude, despite the lower sun angles and increased reflectivity of water surfaces in the arctic. 5. A complete accounting of water transparency (at PAR and UV wavelengths), lake depth, summer sun angle and duration of sunlight may be necessary to explain patterns of macrophyte growth among lakes across a full range of latitudes.

Macrophyte abundance and distribution among lakes of the Mackenzie Delta were assessed where increasing distance from the river (chain set) and increasing frequency of flooding (sill set) corresponded with increasing water transparency. Overall, sediment organic matter (OM) and total nitrogen (TN) content increased with increasing biomass of macrophytes but was higher in the sill set than in the chain set. The amount of phosphorus (P) in sediments was similar among lakes, but pore-water P was appreciably higher in the chain set. Increasing sediment OM and water clarity corresponded with increasing biomass of macrophytes in the lakes. Community structure shifted from dominance by erect Potamogeton at low and intermediate transparency and moderate sediment OM content to low-growing Chara and Ceratophyllum at high transparency and high sediment OM. Similar transparency in the chain set supported greater biomass of macrophytes than in the sill set. A high rate of inorganic sedimentation (linked with frequent flooding) and organic sedimentation (linked with high transparency and plant biomass) may result in the most suitable substrate for the growth of macrophytes among lakes of the Mackenzie Delta. Submersed plant biomass was higher in the Mackenzie Delta lakes than in temperate lakes and comparable to that in the temperate and tropical floodplains, despite the high-latitude location.

SUMMARY 1. The seasonal dynamics of light attenuation, and the relative roles of total suspended solids (TSS), dissolved organic carbon (DOC) and chlorophyll as light attenuators among two sets of lakes in the Mackenzie Delta, were assessed during the open‐water periods of 1998 and 1999. 2. The first set consisted of 40 spatially discrete lakes where the frequency of flooding with river water was controlled by sill height (‘sill‐set lakes’). The second set consisted of a chain of six lakes connected to a main river channel (frequently flooded, all with same frequency), but where riverine influence was controlled by the distance from the channel connection point (‘chain‐set lakes’). 3. As the flooding frequency of lakes decreased (sill‐set), and as the distance from the channel connection point increased (chain‐set), lake water became increasingly transparent and the stability (decreasing temporal variability) of underwater light increased. 4. The effect of flooding on transparency was greater in years with a high minimum summer water level. However, the effect of river flooding on lake water transparency was damped more by an increase in the frequency and duration of flooding than by an increase in distance from the channel connection point. 5. The index of scattering was linearly related to TSS over the common range of concentrations in both sets of lakes. The specific attenuation coefficient for TSS (and scattering) increased substantially from the most turbid to the most transparent waters. 6. During the summer, DOC provided an approximate index of water colour in the sill‐set lakes but not in the chain‐set lakes, where the gradient of DOC ran counter to the gradient of water colour. The specific attenuation coefficient for water colour was roughly constant among both sets of lakes. 7. Calculations of partial attenuation show that, during the spring flood peak, TSS is the dominant attenuator among most lakes, other than those with high sills or positioned far from channel connection points. During the lengthy summer period of open water, however, water colour appeared to be the most important light attenuator among almost all of the lakes in the central delta, with chlorophyll a of only minor importance. 8. Lakes of the Mackenzie Delta may be quite sensitive to changes in climate and ultraviolet‐b (UV‐b) radiation in the circumpolar arctic because of the role of DOC as an attenuator of photosynthetically active radiation and UV‐b irradiance and as an energy source for microbial foodwebs in this system.