Differential freshwater flagellate community response to bacterial food quality with a focus on Limnohabitans bacteria

Different bacterial strains can have different value as food for heterotrophic nanoflagellates (HNF), thus modulating HNF growth and community composition. We examined the influence of prey food quality using four Limnohabitans strains, one Polynucleobacter strain and one freshwater actinobacterial strain on growth (growth rate, length of lag phase and growth efficiency) and community composition of a natural HNF community from a freshwater reservoir. Pyrosequencing of eukaryotic small subunit rRNA amplicons was used to assess time-course changes in HNF community composition. All four Limnohabitans strains and the Polynucleobacter strain yielded significant HNF community growth while the actinobacterial strain did not although it was detected in HNF food vacuoles. Notably, even within the Limnohabitans strains we found significant prey-related differences in HNF growth parameters, which could not be related only to size of the bacterial prey. Sequence data characterizing the HNF communities showed also that different bacterial prey items induced highly significant differences in community composition of flagellates. Generally, Stramenopiles dominated the communities and phylotypes closely related to Pedospumella (Chrysophyceae) were most abundant bacterivorous flagellates rapidly reacting to addition of the bacterial prey of high food quality.     

The Diversity of the Limnohabitans Genus,an Important Group of Freshwater Bacterioplankton,by Characterization of 35 Isolated Strains

Bacteria of the genus Limnohabitans, more precisely the R-BT lineage, have a prominent role in freshwater bacterioplankton communities due to their high rates of substrate uptake and growth, growth on algal-derived substrates and high mortality rates from bacterivory. Moreover, due to their generally larger mean cell volume, compared to typical bacterioplankton cells, they contribute over-proportionally to total bacterioplankton biomass. Here we present genetic, morphological and ecophysiological properties of 35 bacterial strains affiliated with the Limnohabitans genus newly isolated from 11 non-acidic European freshwater habitats. The low genetic diversity indicated by the previous studies using the ribosomal SSU gene highly contrasted with the surprisingly rich morphologies and different patterns in substrate utilization of isolated strains. Therefore, the intergenic spacer between 16S and 23S rRNA genes was successfully tested as a fine-scale marker to delineate individual lineages and even genotypes. For further studies, we propose the division of the Limnohabitans genus into five lineages (provisionally named as LimA, LimB, LimC, LimD and LimE) and also additional sublineages within the most diversified lineage LimC. Such a delineation is supported by the morphology of isolated strains which predetermine large differences in their ecology.     

Strain-Specific Differences in the Grazing Sensitivities of Closely Related Ultramicrobacteria Affiliated with the Polynucleobacter Cluster

Ultramicrobacteria (cell volume < 0.1 μm³) are the numerically dominant organisms in the plankton of marine and freshwater habitats. Flagellates and other protists are assumed to be the most important predators of these ultramicrobacteria as well as of larger planktonic bacteria. However, due to controversial observations conducted previously, it is not clear as to whether fractions of the ultramicrobacteria are resistant to flagellate predation. Furthermore, it is not known if closely related bacteria vary significantly in their sensitivity to flagellate predation. We investigated the sensitivity of ultramicrobacteria affiliated with the cosmopolitan Polynucleobacter cluster to grazing by Spumella-like nanoflagellates. Laboratory grazing experiments with four closely related (≥99.6% 16S rRNA gene sequence similarity) bacteria and three closely related (100% 18S rRNA gene sequence similarity) flagellates were performed. In comparison to larger bacteria, predation on the ultramicrobacterial Polynucleobacter strains was weak, and the growth of the predating flagellates was slow. Specific clearance rates ranged between 0.14 × 10⁵ and 2.8 × 10⁵ units of predator size h⁻¹. Feeding rates strongly depended on the flagellate and bacterial strain (P < 0.001). Grazing mortality rates of the three flagellate strains investigated varied for the same prey strain by up to almost fourfold. We conclude that (i) ultramicrobacteria affiliated with the Polynucleobacter cluster are not protected from grazing, (ii) strain-specific variations in grazing sensitivity even between closely related bacteria are high, and (iii) strain-specific differences in predator-prey interaction could be an important factor in the evolution and maintenance of microbial microdiversity.     

Are Readily Culturable Bacteria in Coastal North Sea Waters Suppressed by Selective Grazing Mortality?

We studied the growth of six culturable bacterial lineages from coastal North Sea picoplankton in environmental samples under different incubation conditions. The grazing pressure of heterotrophic nanoflagellates (HNF) was reduced either by double prefiltration through 0.8-μm-pore-size filters or by 10-fold dilutions with 0.2-μm (pore-size) prefiltered seawater. We hypothesized that those γ-proteobacterial genera that are rapidly enriched would also be most strongly affected by HNF regrowth. In the absence of HNF, the mean protein content per bacterial cell increased in both treatments compared to environmental samples, whereas the opposite trend was found in incubations of unaltered seawater. Significant responses to the experimental manipulations were observed in Alteromonas, Pseudoalteromonas, and Vibrio populations. No treatment-specific effects could be detected for members of the Roseobacter group, the Cytophaga latercula-C. marinoflava lineage, or the NOR5 clade. Statistical analysis confirmed a transient increase in the proportions of Alteromonas, Pseudoalteromonas, and Vibrio cells at reduced HNF densities only, followed by an overproportional decline during the phase of HNF regrowth. Cells from these genera were significantly larger than the community average in the dilution treatments, and changes in their relative abundances were negatively correlated with HNF densities. Our findings suggest that bacteria affiliated with frequently isolated genera such as Alteromonas, Pseudoalteromonas, and Vibrio might be rare in coastal North Sea picoplankton because their rapid growth response to changing environmental conditions is counterbalanced by a higher grazing mortality.     

Clostridium quinii sp. nov., a new saccharolytic anaerobic bacterium isolated from granular sludge

A new species of sporulating saccharolytic anaerobe, designated as Clostridium quinii sp. nov., is described. A gram-positive strain BS1, was isolated from the granular metanogenic sludge (UASB) from a waste-water treatment plant at a sugar refinery. The strain exhibits a series of morphological stages, developing from a spore to a small rod to a motile rod (peritrichous flagella) in the exponential growth phase, and then swelling to form cigar-shaped cells, exhibiting tumbling movements, in the late exponential growth phase before finally becoming large nonmotile ovoid cells in the stationary phase. Swelling occurs as a result of glucose being taken up and stored as a glycogen-like substance. The main fermentation products when growing on glucose is H₂, CO₂, formate, acetate and ethanol as well as small amounts of butyrate during exponential growth. Lactate is formed during the stationary phase, when glucose is abundant. Optimal conditions for growth is 40–45°C and pH of around 7.4. The type strain BS1 contains 28.0% mol G+C.     

Behavior of Bacillus anthracis Strains Sterne and Ames K0610 in Sterile Raw Ground Beef

The behavior of Bacillus anthracis Sterne spores in sterile raw ground beef was measured at storage temperatures of 2 to 70°C, encompassing both bacterial growth and death. B. anthracis Sterne was weakly inactivated (−0.003 to −0.014 log₁₀ CFU/h) at storage temperatures of 2 to 16°C and at temperatures greater than and equal to 45°C. Growth was observed from 17 to 44°C. At these intermediate temperatures, B. anthracis Sterne displayed growth patterns with lag, growth, and stationary phases. The lag phase duration decreased with increasing temperature and ranged from approximately 3 to 53 h. The growth rate increased with increasing temperature from 0.011 to 0.496 log₁₀ CFU/h. Maximum population densities (MPDs) ranged from 5.9 to 7.9 log₁₀ CFU/g. In addition, the fate of B. anthracis Ames K0610 was measured at 10, 15, 25, 30, 35, 40, and 70°C to compare its behavior with that of Sterne. There were no significant differences between the Ames and Sterne strains for both growth rate and lag time. However, the Ames strain displayed an MPD that was 1.0 to 1.6 times higher than that of the Sterne strain at 30, 35, and 40°C. Ames K0610 spores were rapidly inactivated at temperatures greater than or equal to 45°C. The inability of B. anthracis to grow between 2 and 16°C, a relatively low growth rate, and inactivation at elevated temperatures would likely reduce the risk for recommended ground-beef handling and preparation procedures.     

Grazing Pressure by a Bacterivorous Flagellate Reverses the Relative Abundance of Comamonas acidovorans PX54 and Vibrio Strain CB5 in Chemostat Cocultures

The response of the bacterial strains Comamonas acidovorans PX54 (β subclass of the class Proteobacteria) and Vibrio strain CB5 (γ subclass of the class Proteobacteria) to grazing by the bacterivorous flagellate Ochromonas sp. was examined in one-stage chemostat experiments under conditions of low growth rates with a complex carbon source. The two bacterial strains were cultured together; they were cultured without flagellates in the first phase of the experiments and in the presence of the flagellates in the second phase. Monoclonal and polyclonal antibodies were used to determine the numbers and sizes of C. acidovorans PX54 and Vibrio strain CB5 cells. The flagellates caused strong changes in total bacterial cell numbers, in the relative abundances of the individual bacterial strains, and in bacterial cell size distribution. Vibrio strain CB5 dominated the total bacterial cell numbers during the flagellate-free phase of the experiments with a relative abundance of 93%, but this declined to 33% after inoculation with the flagellate. In contrast to Vibrio strain CB5, C. acidovorans PX54 responded to grazing with a strong expansion of cell length distribution toward large, filamentous cells. These changes in cell morphology resulted in a high percentage of inedible cells in the C. acidovorans PX54 population but not in the Vibrio strain CB5 population, which caused the observed change in the relative abundances of the strains. Batch culture experiments without the flagellate demonstrated that the elongation of C. acidovorans PX54 cells was dependent on their growth rate. This indicates that the occurrence of filamentous C. acidovorans PX54 cells is not a direct response to chemical stimuli released by the flagellates but rather a response to increased growth rates due to flagellate grazing.Predator-prey interactions of coexisting, free-living aquatic bacteria and bacterivorous protozoa have coevolved for more than a billion years (28). This enormous time span and the short generation times of both groups of microorganisms should have resulted in a high degree of evolutionary adaptation on both sides. Bacteria may have developed defense strategies to prevent themselves from being ingested (preingestional strategies) or digested (postingestional strategies) by their protozoan predators, which, expectedly, adaptated to circumvent the bacterial defense mechanisms. Information about the strategies involved in these predator-prey interactions is scarce. Recently, Jürgens and Güde (20) reviewed the strategies of bacteria and stressed the lack of knowledge in this field.Studies on size-selective ingestion (grazing) of bacterivorous protozoa (6, 10, 25) indicate that very small and large bacteria are partly or totally protected from protozoan grazing (12, 20). This finding is supported by field and experimental observations showing the occurrence and persistence of large bacterial filaments and aggregates during times of high grazing pressure (11, 21, 29, 41). The experimental evidence for protection and the increasing number of reports on the presence of filamentous bacteria in freshwater ecosystems (12, 13, 19, 35, 39, 41) indicate that this bacterial morphotype exhibits an ecologically significant defense strategy against protozoan grazing. It is not known to which species these protected forms belong. Additionally, it is unclear if the filamentous bacteria grow permanently with these, with respect to grazing, advantageous morphological properties or if they express these characteristic features only under strong grazing pressure.In a recent study, Pernthaler et al. (30) demonstrated that a slow-growing bacterial community reacted to the addition of bacterivorous flagellates within 1 day: one group produced filamentous, grazing-resistant forms, and another group of bacteria reacted with a massive growth rate increase. Similarly, Jürgens et al. (21) observed in enclosure studies, after experimentally increasing the protozoan grazing pressure, that there was a rapid and strong change in the morphological structure of the bacterial community. After 3 days, mainly filamentous and other inedible bacterial cells dominated the bacterial biomass, with a prevalence of 80 to 90%.Different mechanisms are conceivable for such changes in the morphological structure of bacterial communities. First, nonfilamentous, edible strains may simply be replaced after some time by inedible, permanently filamentous strains. In situations with bacterial generation times longer than 1 day and undetectably low abundances of filamentous cells (30), such an indirect selection mechanism can hardly cause visible changes in community structure within 24 h. But the possibility cannot be ruled out that this mechanism is of relevance in natural ecosystems. Second, medium-size, edible cells may become elongated and thus form filaments. This type of response to strong protistan grazing might be controlled by two different mechanisms: (i) elongation of the cells due to grazing-mediated changes in bacterial growth conditions (indirect induction of filament formation) or (ii) direct induction of morphological changes by chemical stimuli. Such chemical stimuli might be produced and released by the protozoan predators (predator kairomone) or produced by the prey bacteria and set free by the predators during digestion. The second type of stimuli would act as an alarm substance. It is not known if selection or one of the induction mechanisms triggers the observed reactions of bacterial communities. Pernthaler et al. (30) speculated that a chemical stimulus caused the observed changes in their experiments, since they found an immediate response upon addition of a flagellate grazer.Detailed information on the interactions of bacteria with protozoan grazers and the resulting bacterial defense strategies are necessary for a comprehensive understanding of a number of important issues in microbial ecology. This includes questions about the influence of protozoa on (i) the bacterial species composition of natural communities, (ii) the regulation of bacterial production and mineralization in aquatic systems, and (iii) the survival and behavior of allochthonous bacteria such as pathogenic members of the family Enterobacteriaceae or genetically engineered microorganisms in the environment.In this study, we used a model system to investigate the interactions of two bacterial strains with the bacterivorous nanoflagellate Ochromonas sp. The bacterium Vibrio sp. strain CB5 originated from the pelagic zone of Lake Constance (southern Germany) and was isolated from a chemostat inoculated with a water sample from that lake (14). The other strain, Comamonas acidovorans PX54, represents a member of a phylogenetic group which is abundant in Lake Plußsee (located near Plön, northern Germany) and in other lakes in the same area (9).In this study, we investigated mechanisms that control the observed changes in the composition of the model community and investigated possible defense strategies of pelagic bacteria against protozoan grazing.     

Microbial food web in a large shallow lake (Lake Balaton, Hungary)

Seasonal variations of phyto-, bacterio- and colourless flagellate plankton were followed across a year in the large shallow Lake Balaton (Hungary). Yearly average chlorophyll-a concentration was 11 µg 1^–1, while the corresponding values of bacterioplankton and heterotrophic nanoflagellate (HNF) plankton biomass (fresh weight) were 0.24 mg 1^–1 and 0.35 mg 1^–1, respectively. About half of planktonic primary production was channelled through bacterioplankton on the yearly basis. However, there was no significant correlation between phytoplankton biomass and bacterial abundance. Bacterial specific growth rates were in the range of 0.009 and 0.09 h^–1, and ended to follow the seasonal changes in water temperature. In some periods of the year, predator-prey relationships between the HNF and bacterial abundance were obvious. The estimated HNF grazing on bacteria varied between 3% and 227% of the daily bacterial production. On an annual basis, 87% of bacterial cell production was grazed by HNF plankton.     

Flagellate Predation on a Bacterial Model Community: Interplay of Size-Selective Grazing, Specific Bacterial Cell Size, and Bacterial Community Composition

The influence of grazing by the bacterivorous nanoflagellate Ochromonas sp. strain DS on the taxonomic and morphological structures of a complex bacterial community was studied in one-stage chemostat experiments. A bacterial community, consisting of at least 30 different strains, was fed with a complex carbon source under conditions of low growth rate (0.5 day⁻¹ when nongrazed) and low substrate concentration (9 mg liter⁻¹). Before and after the introduction of the predator, the bacterial community composition was studied by in situ techniques (immunofluorescence microscopy and fluorescent in situ hybridization), as well as by cultivation on agar media. The cell sizes of nonspecifically stained and immunofluorescently labeled bacteria were measured by image analysis. Grazing by the flagellate caused a bidirectional change in the morphological structure of the community. Medium-size bacterial cells, which dominated the nongrazed community, were largely replaced by smaller cells, as well as by cells contained in large multicellular flocs. Cell morphological changes were combined with community taxonomic changes. After introduction of the flagellate, the dominating strains with medium-size cells were largely replaced by single-celled strains with smaller cells on the one hand and, on the other hand, by Pseudomonas sp. strain MWH1, which formed the large, floc-like forms. We assume that size-selective grazing was the major force controlling both the morphological and the taxonomic structures of the model community.     

Grazing of a Tetrahymena sp. on Adhered Bacteria in Percolated Columns Monitored by In Situ Hybridization with Fluorescent Oligonucleotide Probes

Predation of attached Pseudomonas putida mt2 by the small ciliate Tetrahymena sp. was investigated with a percolated column system. Grazing rates were examined under static and dynamic conditions and were compared to grazing rates in batch systems containing suspended prey. The prey densities were 2 × 10⁸ bacteria per ml of pore space and 2 × 10⁸ bacteria per ml of suspension, respectively. Postingestion in situ hybridization of bacteria with fluorescent oligonucleotide probes was used to quantify ingestion. During 30 min, a grazing rate of 1,382 ± 1,029 bacteria individual⁻¹ h⁻¹ was obtained with suspended prey; this was twice the grazing rate observed with attached bacteria under static conditions. Continuous percolation at a flow rate of 73 cm h⁻¹ further decreased the grazing rate to about 25% of the grazing rate observed with suspended prey. A considerable proportion of the protozoans fed on neither suspended bacteria nor attached bacteria. The transport of ciliates through the columns was monitored at the same time that predation was monitored. Less than 20% of the protozoans passed through the columns without being retained. Most of these organisms ingested no bacteria, whereas the retained protozoans grazed more efficiently. Retardation of ciliate transport was greater in columns containing attached bacteria than in bacterium-free columns. We propose that the correlation between grazing activity and retardation of transport is a consequence of the interaction between active predators and attached bacteria.     

Grazing impact of different heterotrophic nanoflagellates on eukaryotic (Ostreococcus tauri) and prokaryotic picoautotrophs (Prochlorococcus and Synechococcus)

Autotrophic picoplankton (<3 microm) composed of both prokaryotes and eukaryotes are the most abundant primary producers on Earth. In this study we examined the ingestion of the picoeukaryote Ostreococcus tauri by different marine heterotrophic nanoflagellates (HNF) with various morphologies, swimming and feeding behaviours. Cultures of specific bacterivorous nanoflagellates (Rhynchomonas nasuta, Jakoba libera, and a culture of Cafeteria sp./Monosiga sp.) and natural nanoflagellate populations were used as grazers. For comparison with Ostreococcus, we used similar-sized prokaryotes as prey, Prochlorococcus and Synechococcus. We observed large species-specific differences in terms of: use of picoautotrophs among nanoflagellates, time lag between prey addition and prey consumption (0-196 h), grazing rate (0-0.12 h(-1)), growth rate (0-0.3 h(-1)) and maximum abundance of HNF reached in experimental bottles (e.g. from 10(4) to 10(5) cells ml(-1), for a natural coastal population and a Cafeteria sp./Monosiga sp. culture feeding Ostreococcus respectively). Overall, this study shows that the nanoflagellate community composition is conclusive for picoautotrophic community structure and, vice versa, the picoautotrophic community structure favours or inhibits the growth of some nanoflagellate groups.     

Examining the relationship between bacteria and heterotrophic nanoflagellates in Funka Bay (Japan) using the size-fractionation method

The chemical and biological conditions, and the bacteria-heterotrophic nanoflagellate (HNF) relationship were investigated in the vicinity of Funka Bay, southwest of Hokkaido, Japan during early spring 1999. At the time of sampling, chlorophyll a concentration, bacteria, phycoerythrin rich-cyanobacteria, and HNF abundance were in the following ranges: 0.3–3.6 g l^–1, 2.5–5.6 × 10⁵ cells ml^–1, 0.6–1.2 × 10³ cells ml^–1, and 2.2–4.2 × 10³ cells ml^–1, respectively. Dissolved inorganic nitrogen, phosphate and silicate concentrations were in the ranges: 8.7–12.2 M, 0.9–2.0 M, and 21.6–25.5 M, respectively. Primary production ranged from 6.4 to 76.3 mg C m^–3 d^–1. Using water samples from regions of different productivity levels (in and outside bay), the bacteria - HNF relationship was uncoupled experimentally by the size-fractionation technique. Higher primary production (19.9 mg C m^–3 d^–1) in the bay supported higher bacterial growth rate (0.029 h^–1). However, outside the bay both primary production (6.4 mg C m^–3 d^–1) and bacterial growth rate (0.007 h^–1) were lower. The HNF growth rates and grazing rates were similar for both but by comparing both HNF grazing capacity and bacterial production, there was net decrease in bacterial abundance outside the bay and net increase inside the bay. The microbial parameters (rates and abundance) and the amount of carbon flow estimated through the phytoplankton – dissolved organic matter (DOM) – bacteria loop were different between the coastal station and the open ocean station. However HNF grazing and growth rates was similar for both stations.     

Factors influencing the phytoplankton steady state assemblages in a drinking-water reservoir (Ömerli reservoir, Istanbul)

In situ growth of heterotrophic nanoflagellates (HNF) in Lake Donghu, a eutrophic shallow lake in mainland China, was studied from January 1999 to March 2000 using a modified Weisse protocol. The study results indicated that the growth rates of HNF showed pronounced seasonal variation (–0.37–1.25 d^–1), reaching the maximum during spring to early summer. When the water temperature was higher than 25.5°C, HNF growth was inversely proportional to water temperature. There was an effect by bacterial abundance and autotrophic picoplankton on HNF growth that depended on location. HNF biomass was the highest in late spring, and the HNF production ranged from –2.25 to 35.45 mg l^–1 d^–1 with mean of 3.17 mg l^–1d^–1. When considered in the context of biomass and production data for zooplankton in Lake Donghu, it was evident that HNF contributed significantly to the total zooplankton production in Lake Donghu. These in situ studies indicate that temperature and food supply are the major determinants of HNF abundance and productivity.     

Identification of a Third Sulfate Activation System in Sinorhizobium sp. Strain BR816: the CysDN Sulfate Activation Complex

Sinorhizobium sp. strain BR816 possesses two nodPQ copies, providing activated sulfate (3′-phosphoadenosine-5′-phosphosulfate [PAPS]) needed for the biosynthesis of sulfated Nod factors. It was previously shown that the Nod factors synthesized by a nodPQ double mutant are not structurally different from those of the wild-type strain. In this study, we describe the characterization of a third sulfate activation locus. Two open reading frames were fully characterized and displayed the highest similarity with the Sinorhizobium meliloti housekeeping ATP sulfurylase subunits, encoded by the cysDN genes. The growth characteristics as well as the levels of Nod factor sulfation of a cysD mutant (FAJ1600) and a nodP1 nodQ2 cysD triple mutant (FAJ1604) were determined. FAJ1600 shows a prolonged lag phase only with inorganic sulfate as the sole sulfur source, compared to the wild-type parent. On the other hand, FAJ1604 requires cysteine for growth and produces sulfate-free Nod factors. Apigenin-induced nod gene expression for Nod factor synthesis does not influence the growth characteristics of any of the strains studied in the presence of different sulfur sources. In this way, it could be demonstrated that the “household” CysDN sulfate activation complex of Sinorhizobium sp. strain BR816 can additionally ensure Nod factor sulfation, whereas the symbiotic PAPS pool, generated by the nodPQ sulfate activation loci, can be engaged for sulfation of amino acids. Finally, our results show that rhizobial growth defects are likely the reason for a decreased nitrogen fixation capacity of bean plants inoculated with cysD mutant strains, which can be restored by adding methionine to the plant nutrient solution.     

Marine microalgae attack and feed on metazoans

Free-living microalgae from the dinoflagellate genus Karlodinium are known to form massive blooms in eutrophic coastal waters worldwide and are often associated with fish kills. Natural bloom populations, recently shown to consist of the two mixotrophic and toxic species Karlodinium armiger and Karlodinium veneficum have caused fast paralysis and mortality of finfish and copepods in the laboratory, and have been associated with reduced metazooplankton biomass in-situ. Here we show that a strain of K. armiger (K-0688) immobilises the common marine copepod Acartia tonsa in a density-dependent manner and collectively ingests the grazer to promote its own growth rate. In contrast, four strains of K. veneficum did not attack or affect the motility and survival of the copepods. Copepod immobilisation by the K. armiger strain was fast (within 15 min) and caused by attacks of swarming cells, likely through the transfer and action of a highly potent but uncharacterised neurotoxin. The copepods grazed and reproduced on a diet of K. armiger at densities below 1000, cells ml⁻¹, but above 3500 cells ml⁻¹ the mixotrophic dinoflagellates immobilised, fed on and killed the copepods. Switching the trophic role of the microalgae from prey to predator of copepods couples population growth to reduced grazing pressure, promoting the persistence of blooms at high densities. K. armiger also fed on three other metazoan organisms offered, suggesting that active predation by mixotrophic dinoflagellates may be directly involved in causing mortalities at several trophic levels in the marine food web.     

Karlotoxin mediates grazing by Oxyrrhis marina on strains of Karlodinium veneficum

Karlodinium veneficum is a common member of temperate, coastal phytoplankton assemblages that occasionally forms blooms associated with fish kills. Here, we tested the hypothesis that the cytotoxic and ichthyotoxic compounds produced by K. veneficum, karlotoxins, can have anti-grazing properties against the heterotrophic dinoflagellate, Oxyrrhis marina. The sterol composition of O. marina (>80% cholesterol) renders it sensitive to karlotoxin, and does not vary substantially when fed different algal diets even for prey that are resistant to karlotoxin. At in situ bloom concentrations (10⁴–10⁵ K. veneficum ml⁻¹), grazing rates (cells ingested per Oxyrrhis h⁻¹) on toxic K. veneficum strain CCMP 2064 were 55% that observed on the non-toxic K. veneficum strain MD5. At lower prey concentrations typical of in situ non-bloom levels (<10³ cells ml⁻¹), grazing rates (cells ingested per Oxyrrhis h⁻¹) on toxic K. veneficum strain CCMP 2064 were 70–80% of rates on non-toxic strain MD5. Growth of O. marina was significantly suppressed when fed the toxic strain of K. veneficum. Experiments with mixed prey cultures, where non-toxic strain MD5 was fluorescently stained, showed that the presence of toxic strain CCMP 2064 inhibited grazing of O. marina on the co-occurring non-toxic strain MD5. Exogenous addition of a sub-lethal dose (100 ng ml⁻¹) of purified karlotoxin inhibited grazing of O. marina by approximately 50% on the non-toxic K. veneficum strain MD5 or the cryptophyte S. major. These results identify karlotoxin as an anti-grazing compound for those grazers with appropriate sterol composition (i.e., desmethyl sterols). This strategy is likely to be an important mechanism whereby growth of K. veneficum is uncoupled from losses due to grazing, allowing it to form ichthyotoxic blooms in situ.     

Prey Range Characterization, Ribotyping, and Diversity of Soil and Rhizosphere Bdellovibrio spp. Isolated on Phytopathogenic Bacteria

Thirty new Bdellovibrio strains were isolated from an agricultural soil and from the rhizosphere of plants grown in that soil. Using a combined molecular and culture-based approach, we found that the soil bdellovibrios included subpopulations of organisms that differed from rhizosphere bdellovibrios. Thirteen soil and seven common bean rhizosphere Bdellovibrio strains were isolated when Pseudomonas corrugata was used as prey; seven and two soil strains were isolated when Erwinia carotovora subsp. carotovora and Agrobacterium tumefaciens, respectively, were used as prey; and one tomato rhizosphere strain was isolated when A. tumefaciens was used as prey. In soil and in the rhizosphere, depending on the prey cells used, the concentrations of bdellovibrios were between 3 × 10² to 6 × 10³ and 2.8 × 10² to 2.3 × 10⁴ PFU g⁻¹. A prey range analysis of five soil and rhizosphere Bdellovibrio isolates performed with 22 substrate species, most of which were plant-pathogenic and plant growth-enhancing bacteria, revealed unique utilization patterns and differences between closely related prey cells. An approximately 830-bp fragment of the 16S rRNA genes of all of the Bdellovibrio strains used was obtained by PCR amplification by using a Bdellovibrio-specific primer combination. Soil and common bean rhizosphere strains produced two and one restriction patterns for this PCR product, respectively. The 16S rRNA genes of three soil isolates and three root-associated isolates were sequenced. One soil isolate belonged to the Bdellovibrio stolpii-Bdellovibrio starrii clade, while all of the other isolates clustered with Bdellovibrio bacteriovorus and formed two distantly related, heterogeneous groups.     

Involvement of Cell Surface Structures in Size-Independent Grazing Resistance of Freshwater Actinobacteria

We compared the influences of grazing by the bacterivorous nanoflagellate Poterioochromonas sp. strain DS on ultramicrobacterial Actinobacteria affiliated with the Luna-2 cluster and ultramicrobacterial Betaproteobacteria of the species Polynucleobacter cosmopolitanus. These bacteria were almost identical in size (<0.1 μm³) and shape. Predation on a Polynucleobacter strain resulted in a reduction of >86% relative to the initial bacterial cell numbers within 20 days, while in comparable predation experiments with nine actinobacterial strains, no significant decrease of cell numbers by predation was observed over the period of ≥39 days. The differences in predation mortality between the actinobacterial strains and the Polynucleobacter strain clearly demonstrated size-independent grazing resistance for the investigated Actinobacteria. Importantly, this size-independent grazing resistance is shared by all nine investigated Luna-2 strains and thus represents a group-specific trait. We investigated if an S-layer, previously observed in an ultrastructure study, was responsible for the grazing resistance of these strains. Experiments aiming for removal of the S-layer or modification of cell surface proteins of one of the grazing-resistant strains by treatment with lithium chloride, EDTA, or formaldehyde resulted in 4.2- to 5.2-fold higher grazing rates in comparison to the levels for untreated cells. These results indicate the protective role of a proteinaceous cell surface structure in the size-independent grazing resistance of the actinobacterial Luna-2 strains, which can be regarded as a group-specific trait.Predation by phagotrophic flagellates is considered (besides the effect of viruses and sedimentation) one of the major mortality factors affecting planktonic bacteria in freshwater and marine environments (13, 24, 28). A large number of investigations demonstrated that bacteria with small cell sizes are less susceptible to grazing mortality caused by flagellates than medium-sized cells (e.g., references 9 and 34). However, even bacterial cells with ultramicrobacterial (<0.1 μm³) cell sizes can be ingested and probably processed by bacterivorous flagellates (4). Interestingly, an increasing number of observations indicate that planktonic Actinobacteria indigenous to freshwater systems are less vulnerable to protistan predation than other taxa of freshwater bacterioplankton. Pernthaler and colleagues observed in a two-stage continuous cultivation system that freshwater Actinobacteria increased in relative and absolute abundance in the presence of a bacterivorous flagellate (26). Other investigations also indicate at least a low level of vulnerability of freshwater Actinobacteria to protistan grazing (17, 29). Experiments with a single actinobacterial strain affiliated with the Luna-2 cluster indicated complete grazing resistance for this freshwater strain against predation by a bacterivorous flagellate (14). Incubation of the strain in the presence of the flagellate over a period of 20 days resulted only in minor changes of bacterial cell numbers. Addition of heat-killed cells of another bacterial species serving as alternative prey resulted even in simultaneous increases of actinobacterial and flagellate numbers. Thus, even the rapidly growing flagellate population was not able to efficiently reduce the actinobacterial cell numbers. Recently, experiments with natural bacterial and protist communities demonstrated a strong negative selection of planktonic Actinobacteria by bacterivorous flagellates (18). In this investigation, the relative abundances of several phylogenetic groups of bacteria inside food vacuoles of flagellate cells and in the surrounding water have been determined. Actinobacterial cells were strongly underrepresented in the food vacuoles compared to their presence in the surrounding water. Currently, it is not known if the observed strong predation resistance of freshwater Actinobacteria is the result of postingestional protection or digestion protection taking place after ingestion of cells by a predator. Furthermore, it is unknown if this grazing protection is a common trait shared by all planktonic Actinobacteria present in freshwater systems or if only some taxa are protected.Importantly, Actinobacteria constitute large fractions (up to 60%) of bacterioplankton in freshwater systems (8) and seem to present a ubiquitous component of freshwater bacterioplankton (8, 23, 37). Almost all actinobacterial taxa identified by cultivation-independent methods so far represent indigenous taxa exclusively known to occur in freshwater habitats (8, 37, 39), and only some of these indigenous actinobacterial taxa are represented by cultivated strains (7, 14-16).The cultivated strains representing indigenous freshwater Actinobacteria provide excellent opportunities for detailed studies of the grazing resistance mechanisms of this ecologically important group of bacteria. Cultivated strains affiliated with the Luna cluster (14), also known as the acII clade (37), currently represent the best-characterized planktonic Actinobacteria indigenous to freshwater systems. Many of the cultivated Luna strains are characterized by C-shaped (selenoid) cells with ultramicrobacterial sizes of <0.07 μm³. An electron microscopy investigation revealed a so-called S-layer at the surfaces of their cells (14). S-layers are monomolecular arrays composed of identical protein or glycoprotein subunits forming crystalline layers at the cell surfaces of many Bacteria and Archaea (30, 35). We hypothesize that this S-layer is involved in the grazing protection of the previously investigated freshwater Actinobacteria.In the study presented here, we investigated (i) if grazing resistance is a common trait among strains of the Luna-2 cluster, (ii) if the grazing protection previously demonstrated for an actinobacterial strain affiliated with the Luna-2 cluster is independent of the small size and the C shape of the cells, and (iii) if the cell surface structure is involved in the grazing resistance mechanism of Luna-2 strains.     

Effects of Grazer Presence on Genetic Structure of a Phenotypically Diverse Diatom Population

Studies of predator–prey systems in both aquatic and terrestrial environments have shown that grazers structure the intraspecific diversity of prey species, given that the prey populations are phenotypically variable. Populations of phytoplankton have traditionally considered comprising only low intraspecific variation, hence selective grazing as a potentially structuring factor of both genetic and phenotypic diversity has not been comprehensively studied. In this study, we compared strain specific growth rates, production of polyunsaturated aldehydes, and chain length of the marine diatom Skeletonema marinoi in both grazer and non-grazer conditions by conducting monoclonal experiments. Additionally, a mesocosm experiment was performed with multiclonal experimental S. marinoi populations exposed to grazers at different levels of copepod concentration to test effects of grazer presence on diatom diversity in close to natural conditions. Our results show that distinct genotypes of a geographically restricted population exhibit variable phenotypic traits relevant to grazing interactions such as chain length and growth rates. Grazer presence affected clonal richness and evenness of multiclonal Skeletonema populations in the mesocosms, likely in conjunction with intrinsic interactions among the diatom strains. Only the production of polyunsaturated aldehydes was not affected by grazer presence. Our findings suggest that grazing can be an important factor structuring diatom population diversity in the sea and emphasize the importance of considering clonal differences when characterizing species and their role in nature.     

Direct and Indirect Effects of Protist Predation on Population Size Structure of a Bacterial Strain with High Phenotypic Plasticity

We studied the impact of grazing and substrate supply on the size structure of a freshwater bacterial strain (Flectobacillus sp.) which showed pronounced morphological plasticity. The cell length varied from 2 to >40 μm and encompassed rods, curved cells, and long filaments. Without grazers and with a sufficient substrate supply, bacteria grew mainly in the form of medium-sized rods (4 to 7 μm), with a smaller proportion (<10%) of filamentous forms. Grazing experiments with the bacterivorous flagellate Ochromonas sp. showed that freely suspended cells of <7 μm were highly vulnerable to grazers, whereas filamentous cells were resistant to grazing and became enriched during predation. A comparison of long-term growth in carbon-limited chemostats with and without grazers revealed that strikingly different bacterial populations developed: treatments with flagellates were composed of >80% filamentous cells. These attained a biomass comparable to that of populations in chemostats without grazers, which were composed of medium-sized rods and c-shaped cells. Carbon starvation resulted in a fast decrease in cell length and a shift towards small rods, which were highly vulnerable to grazing. Dialysis bag experiments in combination with continuous cultivation revealed that filament formation was significantly enhanced even without direct contact of bacteria with bacterivores and was thus probably stimulated by grazer excretory products.