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Issue Title: Theme: Long-term Limnological Research and Monitoring at Crater Lake, Oregon Taxonomic composition and production dynamics of phytoplankton assemblages in Crater Lake, Oregon, were examined during time periods between 1984 and 2000. The objectives of the study were (1) to investigate spatial and temporal patterns in species composition, chlorophyll concentration, and primary productivity relative to seasonal patterns of water circulation; (2) to explore relationships between water column chemistry and the taxonomic composition of the phytoplankton; and (3) to determine effects of primary and secondary consumers on the phytoplankton assemblage. An analysis of 690 samples obtained on 50 sampling dates from 14 depths in the water column found a total of 163 phytoplankton taxa, 134 of which were identified to genus and 101 were identified to the species or variety level of classification. Dominant species by density or biovolume included Nitzschia gracilis, Stephanodiscus hantzschii, Ankistrodesmus spiralis, Mougeotia parvula, Dinobryon sertularia, Tribonema affine, Aphanocapsa delicatissima, Synechocystis sp., Gymnodinium inversum, and Peridinium inconspicuum. When the lake was thermally stratified in late summer, some of these species exhibited a stratified vertical distribution in the water column. A cluster analysis of these data also revealed a vertical stratification of the flora from the middle of the summer through the early fall. Multivariate test statistics indicated that there was a significant relationship between the species composition of the phytoplankton and a corresponding set of chemical variables measured for samples from the water column. In this case, concentrations of total phosphorus, ammonia, total Kjeldahl nitrogen, and alkalinity were associated with interannual changes in the flora; whereas pH and concentrations of dissolved oxygen, orthophosphate, nitrate, and silicon were more closely related to spatial variation and thermal stratification. The maximum chlorophyll concentration when the lake was thermally stratified in August and September was usually between depths of 100 m and 120 m. In comparison, the depth of maximum primary production ranged from 60 m to 80 m at this time of year. Regression analysis detected a weak negative relationship between chlorophyll concentration and Secchi disk depth, a measure of lake transparency. However, interannual changes in chlorophyll concentration and the species composition of the phytoplankton could not be explained by the removal of the septic field near Rim Village or by patterns of upwelling from the deep lake. An alternative trophic hypothesis proposes that the productivity of Crater Lake is controlled primarily by long-term patterns of climatic change that regulate the supply of allochthonous nutrients.[PUBLICATION ABSTRACT]

To investigate the influence of plant productivity on plant-herbivore interactions in stream ecosystems, we varied the productive capacity of algal assemblages by exposing periphyton to three levels of irradiance and two levels of grazing. We studied interactions between algal assemblages (grown from algae obtained from four Oregon streams) and herbivorous snails (Juga silicula) in 15 laboratory streams containing either 250 snails/m^2 or no snails. Biomass, production, export, and taxonomic structure of the algal community were measured at intervals throughout the 75-d study. Ingestion rate and assimilation efficiency of snails also were measured on six different dates using dual-isotope labeling, and snail growth was measured at the end of the experiment. Rates of primary production, algal biomass accumulation, and dominance by chlorophytes generally increased with higher irradiance, although these patterns were modified by herbivores. Ungrazed periphyton at low irradiance (photon flux density: 20@mmol@?m^-^2@?s^-^1) accumulated little biomass, which was further reduced by grazing snails. At intemediate (100 @mmol@?m^-^2@?s^-^1) and high (400@mmol@?m^-^2@?s^-^1) irradiance, snails delayed the accumulation of algal biomass but did not affect the final biomass attained. After 43 d, net primary production (NPP) at high irradiance was unaffected by grazing, whereas grazing increased NPP at both low and intermediate irradiance. Algal export increased with both irradiance and the presence of grazers and constituted a significant loss of plant biomass from the streams. Grazing by Juga delayed algal succession and altered algal taxonomic structure and assemblage physiognomy by reducing the relative abundance of erect and non-attached algae, while increasing the abundance of adnate diatoms. Snails grew slowly at low irradiance, due to scant food resources, but had high growth rates at intermediate and high irradiance, probably because food was not limiting. Assimilation efficiencies for snails generally varied from 40 to 70% and were highest at low irradiance. At low irradiance, 90% of benthic production was harvested by grazers, whereas only 10% accumulated as attached biomass or was exported. At higher irradiances, <15% of primary production was harvested by grazers, and >85% persisted as attached algae or was exported. In these stream ecosystems, the biomass and production of grazers were influenced by abiotic constriants placed on algal productive capacity (i.e., the ability of a plant assemblage to generate biomass). The structure and metabolism of algal assemblages were affected, in turn, by consumptive demand of herbivores. The productive capacity of periphyton modified the nature and outcome of plant-herbivore interactions. This capacity therefore has important implications for the operation of stream ecosystems.

Issue Title: Theme: Long-term Limnological Research and Monitoring at Crater Lake, Oregon Crater Lake is a unique environment to evaluate the ecology of introduced kokanee and rainbow trout because of its otherwise pristine state, low productivity, absence of manipulative management, and lack of lotic systems for fish spawning. Between 1986 and 2004, kokanee displayed a great deal of variation in population demographics with a pattern that reoccurred in about 10 years. We believe that the reoccurring pattern resulted from density dependent growth, and associated changes in reproduction and abundance, driven by prey resource limitation that resulted from low lake productivity exacerbated by prey consumption when kokanee were abundant. Kokanee fed primarily on small-bodied prey from the mid-water column; whereas rainbow trout fed on large-bodied prey from the benthos and lake surface. Cladoceran zooplankton abundance may be regulated by kokanee. And kokanee growth and reproductive success may be influenced by the availability of Daphnia pulicaria, which was absent in zooplankton samples collected annually from 1990 to 1995, and after 1999. Distribution and diel migration of kokanee varied over the duration of the study and appeared to be most closely associated with prey availability, maximization of bioenergetic efficiency, and fish density. Rainbow trout were less abundant than were kokanee and exhibited less variation in population demographics, distribution, and food habits. There is some evidence that the population dynamics of rainbow trout were in-part related to the availability of kokanee as prey.[PUBLICATION ABSTRACT]

The planktonic zooplankton assemblage in Mowich Lake, Mount Rainier National Park (MORA), was composed almost entirely of rotifers in 1966 and 1967. Adult pelagic crustacean taxa were rare. Their paucity was attributed to predation by kokanee salmon (Oncorhynchus nerka), which had been stocked in 1961. During a park-wide survey of 24 lakes in 1988, Mowich Lake was the only one that did not contain at least one planktonic crustacean species. Given the apparent persistence of the unusual pelagic zooplankton assemblage in Mowich Lake, the first objective of this study was to document the interannual variation in the taxonomic structure of the zooplankton assemblages in the lake from 1988 through 1999. A second objective was to determine if it was possible to predict the taxonomic composition of the pelagic crustacean zooplankton assemblage in Mowich Lake prior to the stocking of kokanee salmon. The Mowich Lake zooplankton assemblages in 1988-1999 were consistent with those in 1966 and 1967. Crustacean taxa were extremely rare, but they included most of the primary taxa collected from 23 MORA lakes surveyed in 1988. Nonetheless, the 1988 collections showed that the September rotifer assemblage in Mowich Lake was similar to 10 of the 24 lakes sampled. Seven of the 10 lakes were dominated by cladocerans, primarily Daphnia rosea and Holopedium gibberum. Therefore, it appeared that either one or both of these species may have numerically dominated the crustacean zooplankton assemblage in the lake prior to 1961.[PUBLICATION ABSTRACT]

Issue Title: Theme: Long-term Limnological Research and Monitoring at Crater Lake, Oregon Crater Lake covers the floor of the Mount Mazama caldera that formed 7700 years ago. The lake has a surface area of 53 km^sup 2^ and a maximum depth of 594 m. There is no outlet stream and surface inflow is limited to small streams and springs. Owing to its great volume and heat, the lake is not covered by snow and ice in winter unlike other lakes in the Cascade Range. The lake is isothermal in winter except for a slight increase in temperature in the deep lake from hyperadiabatic processes and inflow of hydrothermal fluids. During winter and spring the water column mixes to a depth of about 200-250 m from wind energy and convection. Circulation of the deep lake occurs periodically in winter and spring when cold, near-surface waters sink to the lake bottom; a process that results in the upwelling of nutrients, especially nitrate-N, into the upper strata of the lake. Thermal stratification occurs in late summer and fall. The maximum thickness of the epilimnion is about 20 m and the metalimnion extends to a depth of about 100 m. Thus, most of the lake volume is a cold hypolimnion. The year-round near-bottom temperature is about 3.5°C. Overall, hydrothermal fluids define and temporally maintain the basic water quality characteristics of the lake (e.g., pH, alkalinity and conductivity). Total phosphorus and orthophosphate-P concentrations are fairly uniform throughout the water column, where as total Kjeldahl-N and ammonia-N are highest in concentration in the upper lake. Concentrations of nitrate-N increase with depth below 200 m. No long-term changes in water quality have been detected. Secchi disk (20-cm) clarity varied seasonally and annually, but was typically highest in June and lowest in August. During the current study, August Secchi disk clarity readings averaged about 30 m. The maximum individual clarity reading was 41.5 m in June 1997. The lowest reading was 18.1 m in July 1995. From 1896 (white-dinner plate) to 2003, the average August Secchi disk reading was about 30 m. No long-term changes in the Secchi disk clarity were observed. Average turbidity of the water column (2-550 m) between June and September from 1991 to 2000 as measured by a transmissometer ranged between 88.8% and 90.7%. The depth of 1% of the incident solar radiation during thermal stratification varied annually between 80 m and 100 m. Both of these measurements provided additional evidence about the exceptional clarity of Crater Lake.[PUBLICATION ABSTRACT]

Issue Title: Theme: Long-term Limnological Research and Monitoring at Crater Lake, Oregon The zooplankton assemblages in Crater Lake exhibited consistency in species richness and general taxonomic composition, but varied in density and biomass during the period between 1988 and 2000. Collectively, the assemblages included 2 cladoceran taxa and 10 rotifer taxa (excluding rare taxa). Vertical habitat partitioning of the water column to a depth of 200 m was observed for most species with similar food habits and/or feeding mechanisms. No congeneric replacement was observed. The dominant species in the assemblages were variable, switching primarily between periods of dominance of Polyarthra-Keratella cochlearis and Daphnia. The unexpected occurrence and dominance of Asplanchna in 1991 and 1992 resulted in a major change in this typical temporal shift between Polyarthra-K. cochlearis and Daphnia. Following a collapse of the zooplankton biomass in 1993 that was probably caused by predation from Asplanchna, Kellicottia dominated the zooplankton assemblage biomass between 1994 and 1997. The decline in biomass of Kellicottia by 1998 coincided with a dramatic increase in Daphnia biomass. When Daphnia biomass declined by 2000, Keratella biomass increased again. Thus, by 1998 the assemblage returned to the typical shift between Keratella-Polyarthra and Daphnia. Although these observations provided considerable insight about the interannual variability of the zooplankton assemblages in Crater Lake, little was discovered about mechanisms behind the variability. When abundant, kokanee salmon may have played an important role in the disappearance of Daphnia in 1990 and 2000 either through predation, inducing diapause, or both.[PUBLICATION ABSTRACT]

A simple and an expanded model of periphyton dynamics in lotic environments are described. The simple model includes one level variable, the biomass of the periphyton assemblage, and four rate variables: primary production, community respiration, and two export fractions. In the expanded model three level variables and eight rate variables are added to the simple model to introduce the effects of allochthonous organic matter and grazing activities by an aquatic snail. In general, computer output from the expanded model supports the hypothesis that the relatively low biomasses of periphyton observed in the small streams of western Oregon are the result of grazing activities by aquatic animals, high silt loads during the fall and winter months, and the effects of a dense canopy of terrestrial vegetation on light penetration. Furthermore, the model indicates that it is bioenergetically feasible for a periphyton biomass of about 10 g m^-^2 ash-free dry weight to support a consumer biomass of 150 g m^-^2 or more if the productive capacity of the system is sufficient. The simulation models provided an analytical way of synthesizing the results of a number of experiments with periphyton assemblages, identified weaknesses in the experimental data, and provided insights into the dynamics of periphyton assemblages that could not be obtained by intuition alone or by examining the results of individual experiments.

This paper presents the structure and properties of a total stream model that simulates the dynamics of small, flowing-water ecosystems in the northwestern United States. Conceptually, the model is hierarchically structured, consisting of 7 basic processes: periphyton dynamics, grazing, shredding, collecting, invertebrate predation, vertebrate predation, and detrital conditioning. These processes are subprocesses of 3 echelons of higher level processes: detritivory; herbivory; primary consumption; predation; and the total ecosystem. The model has 14 state variables in the 7 basic processes, and is conceptualized in discrete time with a basic time step corresponding to 1 day. Behavior of the stream model relative to different schedules of energy inputs and to the practice of clear-cut logging was investigated and related to contemporary theory of lotic ecosystems. In general, model behavior indicated that the regulation of biological processes in streams is complex, the mechanisms of which vary seasonally and from process to process. If a process is regulated by food supply, its annual production tends to increase as predation increases, while mean biomass may or may not be affected appreciably. In contrast, an increase in predation tends to decrease both mean biomass and annual production in processes regulated primarily by predation and such life history phenomena as insects emergence. The stream model provided the stimulus that led to a mathematical expression for the rate of production at the level of the entire ecosystem, and model behavior suggests that this rate tends to remain constant along a continuum from small, first-order streams with no tributaries to larger rivers which eventually drain into the sea.

Changes in biomass, growth form and shoot net primary production in an eelgrass, Zostera marina L., bed were monitored along transects at three tidal heights in Netarts Bay, Oregon, from May 1979 through June 1981. During the growing season, April through October, the mean plastochrone interval was 16.5 d along the low intertidal transect and 11.6 d along the high intertidal transect. The mean export interval was 13.3 d along the low intertidal transect and 11.6 d along the high intertidal transect. The life span of a leaf averaged 48 d along the low intertidal transect and 36 d along the high intertidal transect. Shoot density was positively correlated with mean leaf area index (LAI) until the LAI reached 3.8 to 5.5, above which LAI was negatively correlated with density. The maximum Zostera biomass ranged from 143 (high intertidal transect) to 463 (low intertidal transect) g dry wt m-2. Maximum values of shoot net production ranged from 4.7 (high intertidal transect) to 13.6 (low intertidal transect) g dry wt m-2 d-1. Zostera shoot net production was related to light and to the physical damage to the shoots associated with a rapid accumulation of Enteromorpha biomass in the bay. In addition, patterns of biomass accumulation were related to the duration of water coverage, as determined by both tidal height and local impoundments of water. At all transects, biomass sloughed was equal to at least 50% of the shoot net primary production in that area during that time period; sloughed leaves accounted for 25 to 97% of these losses. An estimate of the total annual net primary production of aboveground Zostera in the bed was 17,500 kg dry wt (SE = 3,080 kg dry wt), which was equivalent to a mean annual rate of 383 g C m-2( SE=67 g C m-2).