Interrelations between Microcystis and Cladocera in the highly Eutrophic Lake Kasumigaura,Japan

The zooplankton community in the highly eutrophic Lake Kasumigaura was investigated and its relation to a bloom of Microcystis was analyzed. The zooplankton community was dominated by small cladocerans, whose biomass and production became highest in summer, when Microcystis bloomed. The high cladoceran production is considered to depend on the production of colonial Microcystis, because the production of nannoplankton was apparently too low to ensure the cladoceran production. Microcystis cells were unsuitable as food for the cladocerans inhabiting Lake Kasumigaura, but became utilizable when decomposed. Decomposed Microcystis may be the main food for Cladocera in the lake in summer. High water temperatures occurring in summer probably promoted decomposition of the Microcystis, leading to increased production of the small cladocerans.     

Evaluation of Microcystis as food for zooplankton in a eutrophic lake

Four experiments were conducted to evaluate Microcystis as food for zooplankton in Lake Kasumigaura, and the following results were obtained. (1) Moina micrura (Cladocera) showed little growth and no reproduction when the animal was reared with Microcystis cultured in the laboratory. The animal did not grow nor reproduce well when Chlorella was mixed with Microcystis as food. (2) Moina micrura assimilated Microcystis much less than Chlorella when the animal fed on single species of Microcystis or a mixture with Chlorella. (3) Microcystis collected from Lake Kasumigaura could not be utilized by Moina micrura even though the colonies were broken up into edible sizes. However, the alga turned into utilizable food when it was decomposed. (4) No inhibitors of Moina micrura population growth could be found in the non-filtered water of Lake Kasumigaura where Microcystis was blooming heavily. Decomposed Microcystis seemed to be utilized by zooplankton as an important food source in Lake Kasumigaura.     

Development of tolerance against toxic cyanobacteria in Daphnia

We tested whether previous exposure to a toxic strain of cyanobacteria (Microcystis) affects survival, growth, and reproduction of a common herbivore, Daphnia magna. Samples from three natural populations of D. magna were each divided into two parts; one part was fed a mixture of toxic Microcystis and the non-toxic green alga Scenedesmus whereas the other part was fed only Scenedesmus. After four weeks, we compared the ability of these two populations to withstand the toxic Microcystis by assessing survivorship, growth, and reproduction. We found that the ability of D. magna to cope successfully with toxic Microcystis is improved if the animals have experienced previous exposure to toxic Microcystis. This suggests that the toxin may less affect the D. magna populations that are repeatedly exposed to toxic cyanobacteria in their natural habitat than populations lacking prior exposure. Since the ability to tolerate toxins is manifested in both improved survival and larger size of the animals, it may have considerable impact on zooplankton community composition in fresh-waters.     

Different competitive outcomes among four species of cladocerans under different alga combinations of colonial <Emphasis Type="Italic">Microcystis</Emphasis> spp. and green alga <Emphasis Type="Italic">Scenedesmus obliquus</Emphasis>

Cyanobacteria blooms (especially Microcystis spp.) are thought to alter dominance of large-sized daphnids into small-sized metazoan zooplankton. However, several field investigations show different phenomena. Laboratory experiments were conducted based on the hypothesis that different Microcystis spp. concentrations would influence competitive outcomes using two algal combinations of different concentrations and four species of cladocerans. In the algal combination of 50 mg l⁻¹ colonial Microcystis spp. + 1 mg l⁻¹ Scenedesmus obliquus (fresh weight), Daphnia carinata was absent during the experiment in competition with other cladocerans. Decreasing colonial Microcystis spp. concentration (10 mg l⁻¹) resulted in a shift from dominance by small-sized cladocerans to dominance by D. carinata. No significant effects of different concentrations of colonial Microcystis spp. on competitive outcomes were shown among three small-sized cladocerans. These results support the idea that cyanobacteria concentration affects the dominance status of large-bodied daphnid.     

FATE OF THE TOXIC CYCLIC HEPTAPEPTIDES,THE MICROCYSTINS,FROM BLOOMS OF MICROCYSTIS (CYANOBACTERIA) IN A HYPERTROPHIC LAKE1

The in situ fate of the toxic cyclic heptapeptides, the microcystins, produced by blooms of Microcystis was examined at two stations in a hypertrophic Japanese lake. Microcystins were detected in all samples of Microcystis with quantities varying seasonally and spatially (230–950 μg · g dry wt^?1 at St. 1 and 160–746 μg · g dry wt^?1 at St. 2) and composed of microcystin-LR, -RR, and-YR. Microcystin-RR was the dominant toxin in most samples. A large amount of microcystin (1.1 μg · L^?1) was detected in only one sample of filtered lake water. Accumulation of microcystin in zooplankton was indirectly estimated from a newly developed equation model. Large amounts of microcystin (75–1387 μg · g dry wt^?1) were accumulated in the zooplankton community, which consisted of two cladocerans, Bosmina fatalis Burckhardt and Diaphanosoma brachyurum Lieve, and a copepod, Cyclops vicinus Uljanin, that co-occurred with the toxic Microcystis blooms. The maximum percent of microcystin content in zooplankton to that in Microcystis was 202%. Among the three species of zooplankton, only B. fatalis seemed to be responsible for accumulation of the microcystins because C. vicinus appeared to avoid contact with Microcystis cells and D. brachyurum did not consume colonies of Microcystis. Microcystins may be transferred to higher trophic levels through B. fatalis.     

Toxin production of cyanobacteria is increased by exposure to zooplankton

1. Cyanobacterial toxin production in response to direct and indirect zooplankton feeding activity was examined using four strains of Microcystis aeruginosa, of which three were previously reported to be toxic to zooplankton and one non‐toxic. Direct (Microcystis cultured with zooplankton) and indirect effects (Microcystis cultured with filtered zooplankton culture media, ZCMF) were tested for the zooplankton species, Moina macrocopa, Daphnia magna or D. pulex. 2. With direct exposure to zooplankton, increased mass‐specific microcystin productions occurred in all Microcystis strains, with mean microcystin concentrations up to five times greater (61.5–177.3 μg g^?1 dry cell) than the controls. 3. With indirect exposure, mass‐specific microcystin production increased over controls in three strains of M. aeruginosa. Mean maximum concentrations of microcystin during the experiment were 92.6–125.7 μg g^?1 dry cell. 4. These results suggest that several strains of Microcystis aeruginosa increased toxin production in response to direct and indirect exposure to herbivorous zooplankton of several species, and support the hypothesis that this response is an induced defence mediated by the release of info‐chemicals from zooplankton.     

Composition and variation of phytoplankton communities during Microcystis bloom in an artificial lagoon of Hangzhou Bay,China

The interaction of various environmental triggers on phytoplankton communities of an artificial lagoon of Hangzhou Bay China, was studied during a Microcystis bloom in summer 2016. Forty-two phytoplankton genera (six phyla) were defined, with Bacillariophyta accounting for half of all phytoplankton genera. It was determined that Melosira, Chlorella, Cyclotella, Microcystis, Merismopedia, Anabaena and Selenastrum, which were identified and counted by an inverted microscope, were the dominant genera. In addition, a series of environmental indicators were analyzed, including salinity, seawater temperature, dissolved inorganic nitrogen, soluble reactive phosphorus (PO₄-P), ammonium (NH₄-N), nitrate nitrogen (NO₃-N), nitrite (NO₂-N), silicate (SiO₄-Si), and chemical oxygen demand of the water samples, as well as zooplankton community. The results of variance partitioning by R language revealed that the most influential factor driving the change in the phytoplankton community was the environment (49.7%), and zooplankton grazing represented only 7.9%. The results of redundancy analysis indicated that the change and composition of the phytoplankton community correlated significantly with the interaction of salinity, PO₄-P, transparency, seawater temperature, and the dominant zooplankton species. Notably, salinity and temperature fluctuation were the key factors inducing the rapid succession of the plankton community in artificial lagoons such as within the Jinshan City Beach (Shanghai, China).

     

Field and experimental studies on the combined impacts of cyanobacterial blooms and small algae on crustacean zooplankton in a large,eutrophic, subtropical,Chinese lake

Field and experimental studies were conducted to evaluate the combined impacts of cyanobacterial blooms and small algae on seasonal and long-term changes in the abundance and community structure of crustacean zooplankton in a large, eutrophic, Chinese lake, Lake Chaohu. Seasonal changes of the crustacean zooplankton from 22 sampling stations were investigated during September 2002 and August 2003, and 23 species belonging to 20 genera were recorded. Daphnia spp. dominated in spring but disappeared in mid-summer, while Bosmina coregoni and Ceriodaphnia cornuta dominated in summer and autumn. Both maximum cladoceran density (310 ind. l⁻¹) and biomass (5.2 mg l⁻¹) appeared in autumn. Limnoithona sinensis, Sinocalanus dorrii and Schmackeria inopinus were the main species of copepods. Microcystis spp. were the dominant phytoplankton species and formed dense blooms in the warm seasons. In the laboratory, inhibitory effects of small colonial Microcystis on growth and reproduction of Daphnia carinata were more remarkable than those of large ones, and population size of D. carinata was negatively correlated with density of fresh large colonial Microcystis within a density range of 0–100 mg l⁻¹ (r = −0.82, P< 0.05). Both field and experimental results suggested that seasonal and long-term changes in the community structure of crustacean zooplankton in the lake were shaped by cyanobacterial blooms and biomass of the small algae, respectively, i.e., colonial and filamentous cyanobacteria contributed to the summer replacement of dominant crustacean zooplankton from large Daphnia spp. to small B. coregoni and C. cornuta, while increased small algae might be responsible for the increased abundance of crustacean zooplankton during the past decades.     

Zooplankton community structure, micro-zooplankton grazing impact, and seston energy content in the St. Johns river system, Florida as influenced by the toxic cyanobacterium Cylindrospermopsis raciborskii

Zooplankton can influence the phytoplankton community through preferential grazing. In turn, nuisance cyanobacteria may affect zooplankton community structure by allowing certain species to out-compete others. We examined zooplankton-phytoplankton interactions, micro-zooplankton (< 200 m) grazing, and biochemical components of the seston in the St. Johns River System (SJR), Florida in the presence and absence of the toxin-producing cyanobacterium Cylindrospermopsis raciborskii. We tested whether this cyanobacterium would cause a decrease in the size structure of the zooplankton community and postulated a resultant decline in the metabolic energy and carbon available to higher consumers (i.e. fish). When numbers of C. raciborskii were low or undetectable, zooplankton were more diverse and were comprised of larger species. Rotifers were the dominant zooplankton, and their numbers relative to other zooplankton increased as C. raciborskii concentrations increased. Micro-zooplankton grazing was higher in times of C. raciborskii abundance, suggesting competitive and predatory exclusion by larger zooplankton in times of higher phytoplankton diversity. Total caloric content of the seston was higher in times of C. raciborskii abundance. However, essential fatty acids and phosphorus may be lacking in the seston, or nutrients may potentially be sequestered by the cyanobacteria and remain as organic matter in the water column. In such cases, higher trophic levels would not be able to obtain optimal energy requirements. Overall, there was a greater impact of micro-grazers on phytoplankton in the presence of C. raciborskii and apparent negative effects on the larger zooplankton species, suggesting a potential for changes in zooplankton and higher trophic level community structure.     

Spatial and temporal diversity of microcystins and microcystin-producing genotypes in Oneida Lake, NY

Oneida Lake is a shallow, eutrophic lake with a well-established cyanobacterial population with reported toxic blooms containing hepatotoxic microcystins (MC). Peak bloom events from the summers of 2002 and 2003 were analyzed to determine the principal cyanobacterial genera containing microcystin synthetase (mcy) genes. Sequence analysis of a partial mcyA amplicon targeting Microcystis, Anabaena and Planktothrix sp. indicated that Microcystis sp. was the dominant mcy genotype. This Microcystis clade was split into two distinct sub-clades. Bloom events contained members of both sub-clades with the higher MC concentrations found when both sub-clades were present in near equal proportions. The proportion of Microcystis containing the mcyD gene ranged from 0 to 37% of the total Microcystis population as determined by quantitative PCR (qPCR). The total concentration of Microcystis containing mcyD genes was linearly related to the concentration of MCs (r² = 0.63). The relationship between mcy genotype and physiochemical variables was examined to determine the factor(s) controlling the periodicity in MC production in Oneida Lake. Multivariate statistical analyses, used to correlate the continuous-response variables, revealed a strong relationship between chlorophyll a, MCs and total Microcystis.     

Cyanobacteria dominance influences resource use efficiency and community turnover in phytoplankton and zooplankton communities

Freshwater biodiversity loss potentially disrupts ecosystem services related to water quality and may negatively impact ecosystem functioning and temporal community turnover. We analysed a data set containing phytoplankton and zooplankton community data from 131 lakes through 9 years in an agricultural region to test predictions that plankton communities with low biodiversity are less efficient in their use of limiting resources and display greater community turnover (measured as community dissimilarity). Phytoplankton resource use efficiency (RUE = biomass per unit resource) was negatively related to phytoplankton evenness (measured as Pielou's evenness), whereas zooplankton RUE was positively related to phytoplankton evenness. Phytoplankton and zooplankton RUE were high and low, respectively, when Cyanobacteria, especially Microcystis sp., dominated. Phytoplankton communities displayed slower community turnover rates when dominated by few genera. Our findings, which counter findings of many terrestrial studies, suggest that Cyanobacteria dominance may play important roles in ecosystem functioning and community turnover in nutrient‐enriched lakes.     

Fluctuation of the zooplankton community in Lake Biwa during the 20th century: a paleolimnological analysis

Detailed zooplankton records from a 26-cm sediment core with a time resolution of approximately 3–10 years were obtained from Lake Biwa, Japan, to examine the historical variations in the zooplankton community during the 20th century. In the sediments, selected zooplankton remains have fluctuated over the years. Daphnia – large zooplankton herbivores – did not occur from 1900 to 1920, and formed a very minor component of the zooplankton community in the following 30 years, while Bosmina – small zooplankton herbivores – were common during this period. In the mid-1960s, however, when eutrophication was noticeable in this lake, Daphnia numbers increased dramatically and became the dominant zooplankton thereafter. In contrast, Difflugia brevicolla and D. biwae, two amoeboid protozoans that live in connection with the lake bottom environment, occurred abundantly until the late 1950s, but gradually decreased after the mid-1960s. In particular, D. biwae, a species peculiar to this lake, was not found in sediment dated after 1980, suggesting its extinction. These results indicate that the zooplankton community structure changed greatly in the 1960s, and suggest that the eutrophication occurring at this time altered the relative strength of top-down and bottom-up forces on the zooplankton community in Lake Biwa.     

Responses of rotifers and cladocerans to Microcystis aeruginosa (Cyanophyceae): A demographic study

The response of selected rotifers and cladocerans to Microcystis aeruginosa, offered as colonies and single cells, was compared to that on a diet of Chlorella vulgaris using the life table demography approach. The test zooplankton species were Simocephalus vetulus, Daphnia carinata, Moina macrocopa, Scapholeberis kingi, Ceriodaphnia cornuta, Brachionus calyciflorus and Hexarthra mira. To detect the development of resistance to toxins from Microcystis in zooplankton, in addition to the laboratory cultured strain of Ceriodaphnia cornuta, another strain of the same species was also used (designated as C. cornuta 2, this was collected from a pond containing Microcystis and cultured in the laboratory on Chlorella for a few weeks prior to experimentation). Experiments were conducted at 20°C and 30°C. Survivorship was high on Chlorella in most species but low on diets of Microcystis. Except for C. cornuta 2, S. kingi and S. vetulus, all other test species were adversely affected by Microcystis. The ability to utilise Microcystis improved at 30°C in M. macrocopa, D. carinata and H. mira. The longest mean lifespan was recorded for C. cornuta 2 (25.3 ± 4.86 d) and the lowest for B. calyciflorus (0.58 ± 0.05 d). The highest net reproductive rate was observed for C. cornuta 1 (44.9 ± 4.88) and the longest generation time of 26.6 ± 2.13 d for S. vetulus. Among the cladocerans that showed positive values of population growth rate (r), M. macrocopa had the highest of 0.96 ± 0.04 per day.     

Impacts of two biomanipulation fishes stocked in a large pen on the plankton abundance and water quality during a period of phytoplankton seasonal succession

Silver and bighead carp were stocked in a large pen to control the nuisance cyanobacterial blooms in Meiliang Bay of Lake Taihu. Plankton abundance and water quality were investigated about once a week from 9 May to 7 July in 2005. Biomass of both total crustacean zooplankton and cladocerans was significantly suppressed by the predation of pen-cultured fishes. There was a significant negative correlation between the N:P weight ratio and phytoplankton biomass. The size-selective predation by the two carps had no effect on the biomass of green alga Ulothrix sp. It may be attributed to the low fish stocking density (less than 40 g m⁻³) before June. When Microcystis dominated in the water of fish pen, the pen-cultured carps effectively suppressed the biomass of Microcystis, as indicated by the significant decline of chlorophyll a in the >38 μm fractions of the fish pen. Based on the results of our experiment and previous other studies, we conclude that silver and bighead carp are two efficient biomanipulation tools to control cyanobacterial (Microcystis) blooms in the tropical/subtropical eutrophic waters. Moreover, we should maintain an enough stocking density for an effective control of phytoplankton biomass.     

Genetic diversity of <Emphasis Type="Italic">Microcystis</Emphasis> blooms (Cyanobacteria) in recently constructed reservoirs in Tigray (Northern Ethiopia) assessed by rDNA ITS

The cyanobacterium Microcystis is notorious for forming extensive and potentially toxic blooms in nutrient-rich freshwater bodies worldwide. However, little is known about the factors underlying the genetic diversity and structure of natural Microcystis populations, despite the fact that this knowledge is essential to understand the build-up of blooms. Microcystis blooms are common and occur year-round in Africa, but are underinvestigated in this continent. We studied the genetic diversity and structure of Microcystis populations in 30 man-made reservoirs in Tigray (Northern Ethiopia) using Denaturing Gradient Gel Electrophoresis of the 16S–23S rDNA internal transcribed spacer (ITS) region and assessed the importance of local environmental conditions and geographic position of the reservoirs for the observed patterns. The analyses showed that both regional and local Microcystis ITS diversity in these recently constructed reservoirs was relatively low, with several dense blooms containing only a single ITS type. Especially one non-toxic ITS type dominated a considerable fraction of Microcystis blooms, but appeared restricted in its geographic distribution. The relationship between Microcystis ITS population structure and abiotic variables (water clarity, pH) and with zooplankton (Daphnia biomass) indicates a (limited) influence of environmental conditions on Microcystis population structure in the reservoirs of Tigray.     

Colony formation in the cyanobacterium Microcystis

Morphological evolution from a unicellular to multicellular state provides greater opportunities for organisms to attain larger and more complex living forms. As the most common freshwater cyanobacterial genus, Microcystis is a unicellular microorganism, with high phenotypic plasticity, which forms colonies and blooms in lakes and reservoirs worldwide. We conducted a systematic review of field studies from the 1990s to 2017 where Microcystis was dominant. Microcystis was detected as the dominant genus in waterbodies from temperate to subtropical and tropical zones. Unicellular Microcystis spp. can be induced to form colonies by adjusting biotic and abiotic factors in laboratory. Colony formation by cell division has been induced by zooplankton filtrate, high Pb²⁺ concentration, the presence of another cyanobacterium (Cylindrospermopsis raciborskii), heterotrophic bacteria, and by low temperature and light intensity. Colony formation by cell adhesion can be induced by zooplankton grazing, high Ca²⁺ concentration, and microcystins. We hypothesise that single cells of all Microcystis morphospecies initially form colonies with a similar morphology to those found in the early spring. These colonies gradually change their morphology to that of M. ichthyoblabe, M. wesenbergii and M. aeruginosa with changing environmental conditions. Colony formation provides Microcystis with many ecological advantages, including adaption to varying light, sustained growth under poor nutrient supply, protection from chemical stressors and protection from grazing. These benefits represent passive tactics responding to environmental stress. Microcystis colonies form at the cost of decreased specific growth rates compared with a unicellular habit. Large colony size allows Microcystis to attain rapid floating velocities (maximum recorded for a single colony, ∼ 10.08 m h⁻¹) that enable them to develop and maintain a large biomass near the surface of eutrophic lakes, where they may shade and inhibit the growth of less‐buoyant species in deeper layers. Over time, accompanying species may fail to maintain viable populations, allowing Microcystis to dominate. Microcystis blooms can be controlled by artificial mixing. Microcystis colonies and non‐buoyant phytoplankton will be exposed to identical light conditions if they are evenly distributed over the water column. In that case, green algae and diatoms, which generally have a higher growth rate than Microcystis, will be more successful. Under such mixing conditions, other phytoplankton taxa could recover and the dominance of Microcystis would be reduced. This review advances our understanding of the factors and mechanisms affecting Microcystis colony formation and size in the field and laboratory through synthesis of current knowledge. The main transition pathways of morphological changes in Microcystis provide an example of the phenotypic plasticity of organisms during morphological evolution from a unicellular to multicellular state. We emphasise that the mechanisms and factors influencing competition among various close morphospecies are sometimes paradoxical because these morphospecies are potentially a single species. Further work is required to clarify the colony‐forming process in different Microcystis morphospecies and the seasonal variation in this process. This will allow researchers to grow laboratory cultures that more closely reflect field morphologies and to optimise artificial mixing to manage blooms more effectively.     

Seasonal variations of Microcystis populations in sediments of Lake Biwa, Japan

Seasonal variations of colony numbers of Microcystis aeruginosa(Kütz.) Kütz. and M. wesenbergii(Komárek) Komárek in N. V. Kondrat. in sediments of Lake Biwa were investigated over a period of 1 year. At two stations located in the shallow South Basin of Lake Biwa (ca. 4 m water depth), the colony number of Microcystisfluctuated seasonally. The number had a tendency to gradually decrease from winter to early summer, while it increased through mid-summer and autumn. Since the Microcystispopulation in sediment was rather small, intensive growth and accumulation in the water column should be important for the formation of Microcystisblooms in Lake Biwa. Microcystiscolonies in the sediment samples after June were observed to be floating in a counting chamber under a microscope. The observation suggests that the recruitment of Microcystis colonies into the water column mostly occurs in early summer. The number of Microcystiscolonies in the deep North Basin of Lake Biwa (70 – 90 m water depth) was larger than in the South Basin. Because the seasonal variation of colony numbers was not observed in the North Basin, and Microcystiscells do not have gas vesicles, these colonies will not return into the water column. The colonies isolated from the sediment of the North Basin were able to grow in cultured conditions, in the same way as those from the sediment of the South Basin. Therefore, Microcystiscolonies may survive for a long time under stable conditions of low temperature (ca. 8 °C) and darkness, in the sediment of the deep North Basin, accumulating gradually each year.     

Impact of the fish Garra on the ecology of reservoirs and the occurrence of Microcystis blooms in semi-arid tropical highlands: an experimental assessment using enclosures

1. Many man‐made reservoirs in the semi‐arid highlands of Northern Ethiopia (Tigray) are characterised by the occurrence of intensive blooms of cyanobacteria and a dominance of small riverine fishes belonging to the genus Garra. 2. We carried out enclosure experiments to test for the effect of these small fish on abiotic characteristics, phytoplankton biomass and zooplankton community structure in the pelagic of two reservoirs (Gereb Awso and Tsinkanet). Two experiments were carried out in each of the reservoirs, one at the end of the rainy season (highest water level) and one at the end of the dry season (lowest water level). 3. The presence of Garra in general increased the amount of suspended matter, nutrient concentrations (total nitrogen and total phosphorus), phytoplankton and Microcystis biomass (including the proportion of Microcystis in the phytoplankton community), and reduced water transparency. The positive effect of the presence of Garra on nutrient concentrations and phytoplankton productivity indicate that Garra has the potential to affect food web functioning indirectly through bottom‐up effects, by enhancing nutrient concentrations through sediment resuspension and excretion of nutrients. Indeed, population densities of the cladoceran zooplankton taxa Ceriodaphnia and Diaphanosoma also showed an overall increase in enclosures with Garra. 4. However, our data also provide some evidence for a potential of Garra to exert top‐down control on large bodied daphnids (Daphnia carinata, D. barbata), although such effect varied among experiments. The limited capability of Garra to control zooplankton communities mainly reflects the low efficiency of these small, riverine and benthos‐oriented fish in foraging on zooplankton and suggests the existence of an unoccupied niche for zooplanktivorous fish in the majority of the reservoirs. 5. Although the main effects of Garra on the pelagic food web seemed to be mediated by bottom‐up mechanisms, our results also indicate that one of the key variables, the relative abundance of Microcystis, was impacted by Daphnia‐mediated trophic cascade effects.     

Lake Erie Microcystis: Relationship between microcystin production, dynamics of genotypes and environmental parameters in a large lake

Cyanobacteria of genus Microcystis sp. have been commonly found in Lake Erie waters during recent summer seasons. In an effort to elucidate relationships between microcystin production, genotypic composition of Microcystis community and environmental parameters in a large lake ecosystem, we collected DNA samples and environmental data during a three-year (2003–2005) survey within Lake Erie and used the data to perform a series of correlation analyses. Cyanobacteria and Microcystis genotypes were quantified using quantitative real-time PCR (qPCR). Our data show that Microcystis in Lake Erie forms up to 42% of all cyanobacteria, and that Microcystis exists as a mixed population of potentially toxic and (primarily) non-toxic genotypes. In the entire lake, the total abundance of Microcystis as well as the abundance of microcystin-producing Microcystis is strongly correlated with the abundance of cyanobacteria suggesting that Microcystis is a significant component of the cyanobacterial community in Lake Erie during summer seasons. The proportion of total Microcystis of all cyanobacteria was strongly linked to the microcystin concentrations, while the percentage of microcystin-producing genotypes within Microcystis population showed no correlation with microcystin concentrations. Correlation analysis indicated that increasing total phosphorus concentrations correlate strongly with increasing microcystin concentrations as well as with the total abundance of Microcystis and microcystin-producing Microcystis.