Is phosphorus limitation of planktonic heterotrophic bacteria and accumulation of degradable DOC a normal phenomenon in phosphorus-limited systems? A microcosm study

Microbial remineralization processes during postspring-bloom with excess phosphate available in the northern Baltic Sea

The phosphorus (P) concentration is increasing in parts of the Baltic Sea following the spring bloom. The fate of this excess P-pool is an open question, and here we investigate the role of microbial degradation processes in the excess P assimilation phase. During a 17-day-long mesocosm experiment in the southwest Finnish archipelago, we examined nitrogen, phosphorus, and carbon acquiring extracellular enzyme activities in three size fractions (<0.2, 0.2-3, and >3 µm), bacterial abundance, production, community composition, and its predicted metabolic functions. The mesocosms received carbon (C) and nitrogen (N) amendments individually and in combination (NC) to distinguish between heterotrophic and autotrophic processes. Alkaline phosphatase activity occurred mainly in the dissolved form and likely contributed to the excess phosphate conditions together with grazing. At the beginning of the experiment, peptidolytic and glycolytic enzymes were mostly produced by free-living bacteria. However, by the end of the experiment, the NC-treatment induced a shift in peptidolytic and glycolytic activities and degradation of phosphomonoesters toward the particle-associated fraction, likely as a consequence of higher substrate availability. This would potentially promote retention of nutrients in the surface as opposed to sedimentation, but direct sedimentation measurements are needed to verify this hypothesis.

Long-term phosphorus addition enhances the biodegradability of dissolved organic carbon in a nitrogen-limited temperate freshwater wetland

Phosphorus (P) enrichment is expected to strongly influence dissolved organic carbon (DOC) biodegradation. However, the relationship between P availability and DOC biodegradation is largely unknown in nitrogen (N)-limited ecosystems. Here, we investigated the changes in the ratio of DOC to dissolved total nitrogen (DTN), specific UV absorbance at 254nm (SUVA₂₅₄), and DOC biodegradation in surface water and soil pore water (0-15cm depth) following eight years of multi-level P addition (0, 1.2, 4.8, and 9.6gPm^-2year^-1) in an N-limited freshwater marsh in Northeast China. We found that P addition caused an increase in DOC biodegradation in surface water and soil pore water, irrespective of the P addition levels. Compared with the control treatment, the P addition rates of 1.2, 4.8, and 9.6gPm^-2year^-1 increased DOC biodegradation by 20.7%, 15.2%, and 14.5% in surface waters, and 11.3%, 9.4%, and 12.0% in soil pore waters, respectively. The DOC biodegradation was separately negatively correlated with the DOC:DTN ratio and SUVA₂₅₄, indicating that the positive effect of P addition on DOC biodegradation was caused by the elevated N concentration and the reduced DOC aromaticity. Our findings suggest that P enrichment enhances the biodegradability of DOC through increased N availability and altered DOC chemical composition, which would accelerate DOC loss from the waters and alter ecosystem C balance in N-limited temperate wetlands.

Competition and niche separation of pelagic bacteria in freshwater habitats

Freshwater bacterioplankton assemblages are composed of sympatric populations that can be delineated, for example, by ribosomal RNA gene relatedness and that differ in key ecophysiological properties. They may be free-living or attached, specialized for particular concentrations or subsets of substrates, or invest a variable amount of their resources in defence traits against protistan predators and viruses. Some may be motile and tactic whereas others are not, with far-reaching implications for their respective life styles and niche partitioning. The co-occurrence of competitors with overlapping growth requirements has profound consequences for the stability of community functions; it can to some extent be explained by habitat factors such as the microscale complexity and spatiotemporal variability of the lacustrine environments. On the other hand, the composition and diversity of freshwater microbial assemblages also reflects non-equilibrium states, dispersal and the stochasticity of community assembly processes. This review synoptically discusses the competition and niche separation of heterotrophic bacterial populations (defined at various levels of phylogenetic resolution) in the pelagic zone of inland surface waters from a variety of angles, focusing on habitat heterogeneity and the resulting biogeographic distribution patterns, the ecophysiological adaptations to the substrate field and the interactions of prokaryotes with predators and viruses.

The Effect of Dreissena polymorpha on Bacterioplankton, Nematode Fauna and their Relations to Environmental Factors in Ogosta Reservoir (Danube Basin)

Spatial, seasonal, and annual bacterioplankton dynamics in recently infested by the species Dreissena polymorpha Ogosta Reservoir were studied for the first time during three year period. Bacterioplankton total number was higher in spring in ecotone zones, than in summer at thermocline. NH4-N, PO4-P, turbidity, dissolved oxygen, COD and chlorophyll-a correlate positively, while transparency and Ca2+ negatively with bacteria. Nematode species composition, included 22 species studied (13 rarely found and Rhabditis brevispina new for Bulgaria) belonging to nine families. The D. polymorpha impact is positive on nematodes and phytoplankton, negative on zooplankton and bacterioplankton, but weak positive on larger bacteria, rods and attached bacteria.

Bacterioplankton from Two Hungarian Danube River Wetlands (Beda-Karapancsa, Danube-Drava National Park) and its Relations to Environmental Variables

Seasonal and spatial distribution of bacterioplankton from two Hungarian oxbow lake type wetlands, Mocskos-Danube and Riha, was studied. They were both covered by macrophytes and they had different hydrological connectivity to the Danube. The six sampling campaigns from April to October 2014 included parallel samples from the Danube River at Mohács, Hungary. Bacterial abundance was the highest in spring and in Mocskos-Danube, followed by Mohács and Riha. Positive relationships existed between bacterioplankton and temperature on one hand and suspended solids, pH, PO4-P and chl-a on the other. Negative correlations were with DOC, dissolved oxygen and NH4-N.

The role of C:N:P stoichiometry in affecting denitrification in sediments from agricultural surface and tile-water wetlands

Nutrient stoichiometry within a wetland is affected by the surrounding land use, and may play a significant role in the removal of nitrate (NO3-N). Tile-drained, agricultural watersheds experience high seasonal inputs of NO3-N, but low phosphorus (PO4-P) and dissolved organic carbon (DOC) loads relative to surface water dominated systems. This difference may present stoichiometric conditions that limit denitrification within receiving waterways. We investigated how C:N:P ratios affected denitrification rates of sediments from tile-drained mitigation wetlands incubated for: 0, 5, 10, and 20 days. We then tested whether denitrification rates of sediments from surface-water and tile-drained wetlands responded differently to C:N ratios of 2:1 versus 4:1. Ratios of C:N:P (P < 0.05) and incubation length (P < 0.05) had a significant effect on denitrification in tile-drained wetland sediments. Carbon limitation of denitrification became evident at elevated NO3-N concentrations (20 mg L(-1)). Denitrification measured from tile water and surface water wetland sediments increased significantly (P < 0.05) at the 2:1 and 4:1 C:N treatments. The results from both experiments suggest wetland sediments provide a limiting pool of labile DOC to maintain prolonged NO3-N removal. Also, DOC limitation became more evident at elevated NO3-N concentrations (20 mg L(-1)). Irrespective of NO3-N concentrations, P did not limit denitrification rates. In addition to wetting period, residence time, and maintenance of anaerobic conditions, the availability of labile DOC is playing an important limiting role in sediment denitrification within mitigation wetlands.

Quantification of carbon and phosphorus co-limitation in bacterioplankton: new insights on an old topic

Because the nature of the main resource that limits bacterioplankton (e.g. organic carbon [C] or phosphorus [P]) has biogeochemical implications concerning organic C accumulation in freshwater ecosystems, empirical knowledge is needed concerning how bacteria respond to these two resources, available alone or together. We performed field experiments of resource manipulation (2×2 factorial design, with the addition of C, P, or both combined) in two Mediterranean freshwater ecosystems with contrasting trophic states (oligotrophy vs. eutrophy) and trophic natures (autotrophy vs. heterotrophy, measured as gross primary production:respiration ratio). Overall, the two resources synergistically co-limited bacterioplankton, i.e. the magnitude of the response of bacterial production and abundance to the two resources combined was higher than the additive response in both ecosystems. However, bacteria also responded positively to single P and C additions in the eutrophic ecosystem, but not to single C in the oligotrophic one, consistent with the value of the ratio between bacterial C demand and algal C supply. Accordingly, the trophic nature rather than the trophic state of the ecosystems proves to be a key feature determining the expected types of resource co-limitation of bacteria, as summarized in a proposed theoretical framework. The actual types of co-limitation shifted over time and partially deviated (a lesser degree of synergism) from the theoretical expectations, particularly in the eutrophic ecosystem. These deviations may be explained by extrinsic ecological forces to physiological limitations of bacteria, such as predation, whose role in our experiments is supported by the relationship between the dynamics of bacteria and bacterivores tested by SEMs (structural equation models). Our study, in line with the increasingly recognized role of freshwater ecosystems in the global C cycle, suggests that further attention should be focussed on the biotic interactions that modulate resource co-limitation of bacteria.

Phosphate limitation induces the intergeneric inhibition of Pseudomonas aeruginosa by Serratia marcescens isolated from paper machines

Phosphate is an essential nutrient for heterotrophic bacteria, affecting bacterioplankton in aquatic ecosystems and bacteria in biofilms. However, the influence of phosphate limitation on bacterial competition and biofilm development in multispecies populations has received limited attention in existing studies. To address this issue, we isolated 13 adhesive bacteria from paper machine aggregates. Intergeneric inhibition of Pseudomonas aeruginosa WW5 by Serratia marcescens WW4 was identified under phosphate-limited conditions, but not in Luria–Bertani medium or M9 minimal medium. The viable numbers of the pure S. marcescens WW4 culture decreased over 3 days in the phosphate-limited medium; however, the mortality of S. marcescens WW4 was significantly reduced when it was co-cultured with P. aeruginosa WW5, which appeared to sustain the S. marcescens WW4 biofilm. In contrast, viable P. aeruginosa WW5 cells immediately declined in the phosphate-limited co-culture. To identify the genetic/inhibitory element(s) involved in this process, we inserted a mini-Tn5 mutant of S. marcescens WW4 that lacked inhibitory effect. The results showed that an endonuclease bacteriocin was involved in this intergeneric inhibition by S. marcescens WW4 under phosphate limitation. In conclusion, this study highlights the importance of nutrient limitation in bacterial interactions and provides a strong candidate gene for future functional characterisation.

Lower respiration in the littoral zone of a subtropical shallow lake

Macrophytes are important sources of dissolved organic carbon (DOC) to littoral zones of lakes, but this DOC is believed to be mostly refractory to bacteria, leading to the hypothesis that bacterial metabolism is different in littoral and pelagic zones of a large subtropical shallow lake. We tested this hypothesis by three approaches: (I) dissolved inorganic carbon (DIC) accumulation in littoral and pelagic water; (II) O₂ consumption estimate for a cloud of points (n = 47) covering the entire lake; (III) measurement of O₂ consumption and CO₂ accumulation in dark bottles, pCO₂ in the water, lake-atmosphere fluxes of CO₂ (fCO₂) and a large set of limnological variables at 19 sampling points (littoral and pelagic zones) during seven extensive campaigns. For the first two approaches, DIC and O₂ consumption were consistently lower in the littoral zone, and O₂ consumption increased marginally with the distance to the nearest shore. For the third approach, we found in the littoral zone consistently lower DOC, total phosphorus (TP), and chlorophyll a, and a higher proportion of low-molecular-weight substances. Regression trees confirmed that high respiration (O₂ consumption and CO₂ production) was associated to lower concentration of low-molecular-weight substances, while pCO₂ was associated to DOC and TP, confirming that CO₂ supersaturation occurs in an attempt to balance phosphorus deficiency of macrophyte substrates. Littoral zone fCO₂ showed a tendency to be a CO₂ sink, whereas the pelagic zone showed a tendency to act as CO₂ source to the atmosphere. The high proportion of low-molecular-weight, unreactive substances, together with lower DOC and TP may impose lower rates of respiration in littoral zones. This effect of perennial stands of macrophytes may therefore have important, but not yet quantified implications for the global carbon metabolism of these lakes, but other issues still need to be carefully addressed before rejecting the general belief that macrophytes are always beneficial to bacteria.

Prey-predator dynamics in rotifers: density-dependent consequences of spatial heterogeneity due to surface attachment

Classical models of prey-predator interactions assume that per capita prey consumption is dependent on prey density alone and that prey consumption (functional response) and consumer proliferation (numerical response) operate on the same timescales and without time lags. Several modifications have been proposed for resolving this timescale discrepancy, including variants where the functional response depends on both prey and predator densities. A microcosm system with the rotifer Brachionus 'Nevada' feeding on the prasinophyte Tetraselmis sp. showed significant (P < 0.0005) increases in steady-state biomasses of both prey and predators with increasing carrying capacity (represented by total phosphorus of the growth medium), which is inconsistent with predictions based on the traditional prey-only-dependent functional response. We provide data indicating that surfaces where the predator can attach provide a high-quality habitat for rotifers, which can result in a predator-dependent functional response. We also show that partitioning between the attached and free-swimming habitats was fast compared to the timescale of the numerical response. When attached to surfaces, rotifers maximized net energy gain by avoiding the high cost of swimming and by increased food capture due to reduced viscous drag. A mathematical model with prey-dependent functional response and wall-attached and free-swimming fractions of the population describes our data adequately. We discuss the implications of this finding for extrapolating microcosm experiments to systems with other surface-to-volume ratios, and to what extent our findings may apply to other popular model organisms for prey-predator interaction.

Effect of a transient perturbation on marine bacterial communities with contrasting history

AIMS

To evaluate the importance of the bacterial composition on the resilience of the organic matter assimilation in the sea.

METHODS AND RESULTS

Chemostats were inoculated with coastal and offshore bacterial communities. Bacterial density and protein synthesis increased before stabilizing, and this response to confinement was more marked in the offshore chemostats. Before the toluene perturbation the community structure in the coastal chemostats remained complex whereas the offshore chemostats became dominated by Alteromonas sp. After the perturbation, bacterial protein synthesis was inhibited before peaking briefly at a level fivefold to that observed before the perturbation and then stabilizing at a level comparable to that before the perturbation. Alteromonas dominated both the coastal and the offshore communities immediately after the perturbation and the coastal communities did not recover their initial complexity.

CONCLUSIONS

Cell lysis induced by the toluene perturbation favoured the growth of Alteromonas which could initiate growth rapidly in response to the nutrient pulse. Despite their different community structure in situ, the resilience of protein synthesis of coastal and offshore bacterial communities was dependent on Alteromonas, which dominated in the chemostats.

SIGNIFICANCE AND IMPACT OF THE STUDY

Here we show that although Alteromonas sp. dominated in artificial offshore and coastal communities in chemostats, their response time to the shock was different. This suggests that future perturbation studies on resilience in the marine environment should take account of ecosystem history.

Differential response of high-elevation planktonic bacterial community structure and metabolism to experimental nutrient enrichment

Nutrient enrichment of high-elevation freshwater ecosystems by atmospheric deposition is increasing worldwide, and bacteria are a key conduit for the metabolism of organic matter in these oligotrophic environments. We conducted two distinct in situ microcosm experiments in a high-elevation lake (Emerald Lake, Sierra Nevada, California, USA) to evaluate responses in bacterioplankton growth, carbon utilization, and community structure to short-term enrichment by nitrate and phosphate. The first experiment, conducted just following ice-off, employed dark dilution culture to directly assess the impact of nutrients on bacterioplankton growth and consumption of terrigenous dissolved organic matter during snowmelt. The second experiment, conducted in transparent microcosms during autumn overturn, examined how bacterioplankton in unmanipulated microbial communities responded to nutrients concomitant with increasing phytoplankton-derived organic matter. In both experiments, phosphate enrichment (but not nitrate) caused significant increases in bacterioplankton growth, changed particulate organic stoichiometry, and induced shifts in bacterial community composition, including consistent declines in the relative abundance of Actinobacteria. The dark dilution culture showed a significant increase in dissolved organic carbon removal in response to phosphate enrichment. In transparent microcosms nutrient enrichment had no effect on concentrations of chlorophyll, carbon, or the fluorescence characteristics of dissolved organic matter, suggesting that bacterioplankton responses were independent of phytoplankton responses. These results demonstrate that bacterioplankton communities in unproductive high-elevation habitats can rapidly alter their taxonomic composition and metabolism in response to short-term phosphate enrichment. Our results reinforce the key role that phosphorus plays in oligotrophic lake ecosystems, clarify the nature of bacterioplankton nutrient limitation, and emphasize that evaluation of eutrophication in these habitats should incorporate heterotrophic microbial communities and processes.

Utilization of DNA as a sole source of phosphorus, carbon, and energy by Shewanella spp.: ecological and physiological implications for dissimilatory metal reduction

The solubility of orthophosphate (PO4(3-)) in iron-rich sediments can be exceedingly low, limiting the bioavailability of this essential nutrient to microbial populations that catalyze critical biogeochemical reactions. Here we demonstrate that dissolved extracellular DNA can serve as a sole source of phosphorus, as well as carbon and energy, for metal-reducing bacteria of the genus Shewanella. Shewanella oneidensis MR-1, Shewanella putrefaciens CN32, and Shewanella sp. strain W3-18-1 all grew with DNA but displayed different growth rates. W3-18-1 exhibited the highest growth rate with DNA. While strain W3-18-1 displayed Ca2+-independent DNA utilization, both CN32 and MR-1 required millimolar concentrations of Ca2+ for growth with DNA. For S. oneidensis MR-1, the utilization of DNA as a sole source of phosphorus is linked to the activities of extracellular phosphatase(s) and a Ca2+-dependent nuclease(s), which are regulated by phosphorus availability. Mass spectrometry analysis of the extracellular proteome of MR-1 identified one putative endonuclease (SO1844), a predicted UshA (bifunctional UDP-sugar hydrolase/5' nucleotidase), a predicted PhoX (calcium-activated alkaline phosphatase), and a predicted CpdB (bifunctional 2',3' cyclic nucleotide 2' phosphodiesterase/3' nucleotidase), all of which could play important roles in the extracellular degradation of DNA under phosphorus-limiting conditions. Overall, the results of this study suggest that the ability to use exogenous DNA as the sole source of phosphorus is widespread among the shewanellae, and perhaps among all prokaryotes, and may be especially important for nutrient cycling in metal-reducing environments.

Marine bacterioplankton production of polysaccharidic and proteinaceous particles under different nutrient regimes

The influence of inorganic nutrient concentrations on the ability of bacterioplankton to produce and degrade polysaccharidic transparent exopolymer particles (TEPs) and proteinaceous Coomassie-stained particles (CSPs) was investigated in an 11-day experiment. The dynamics of these particles were followed in prefiltered (1 microm) northern Adriatic seawater enclosures enriched either with 1 microM orthophosphate (main limiting nutrient in this area), 10 microM ammonium or both orthophosphate and ammonium. These enclosures were referenced to a nonenriched control. A high potential for bacterial TEP and CSP production was observed (10(4) - 10(5) L(-1) for particles larger than 4 microm). In conditions of high orthophosphate concentration (either orthophosphate enriched or both orthophosphate and ammonium enriched), lower abundances and surface areas of CSPs were obtained, whereas TEP dynamics were more affected by unbalanced enrichments where only orthophosphate or ammonium was added. The impact of unbalanced nutrient ratios on TEPs was indicated by their higher abundance but low capacity for Alcian blue absorption, implying a change in their structure. Inorganic nutrient availability was thus proven to affect the bacterial potential for producing and degrading bacterially derived TEPs and CSPs.

Does excess dietary carbon affect respiration of Daphnia?

Like many invertebrate herbivores, Daphnia frequently face diets with excess carbon (C) relative to elements like phosphorus (P), and with limited ability to store C-rich compounds. To cope with this relative surplus of C they may either regulate the net uptake of C or dispose of excess assimilated C via increased release of dissolved organic carbon or CO(2). Here we investigate whether juvenile Daphnia magna use respiration as a means of stoichiometrically regulating excess C. Growth rate and respiration were measured under different algal food qualities (P-replete and P-depleted algae). Growth rate was strongly reduced by P-depleted food, implying a stoichiometric disposal of excess ingested C. Respiration rates of feeding animals were measured after short- (0.5 h), medium- (12 h) and long- (five days) term acclimation to P-limited food. The respiration rates of animals during active feeding were not affected by the acclimation period per se, whereas food quality had a significant effect; respiration rates of feeding animals increased slightly in individuals receiving low-P food under all acclimation regimes. Respiration was also measured on nonfeeding and fasting animals that had been acclimated for five days to P-limited food. Respiration rates of these animals were strongly affected by feeding conditions but not by food quality; feeding individuals had higher respiration rates than those deprived of food, which again had higher respiration than fasting animals. Although animals grown on low-P food had strongly reduced growth and thus were expected to have decreased respiration rates due to reduced growth-related costs, this seems to be canceled out by increased stoichiometric respiration under P-deficiency. These results indicate that D. magna partly releases excess C as CO(2), but other means of stoichiometric regulation most likely add to this.

Relative importance of nutrients and mortality factors on prokaryotic community composition in two lakes of different trophic status: microcosm experiments

The effect of nutrient resources (N and P enrichment) and of different grazing communities on the prokaryotic community composition (PCC) was investigated in two freshwater ecosystems: Sep reservoir (oligomesotrophic) and lake Aydat (eutrophic). An experimental approach using microcosms was chosen, that allowed control of both predation levels, by size fractionation of predators, and resources, by nutrient amendments. Changes in PCC were monitored by fluorescent in situ hybridization (FISH) and terminal-restriction fragment length polymorphism (T-RFLP). The main mortality agents were (i) heterotrophic nanoflagellates and virus-like particles in Aydat and (ii) cladocerans in Sep. All the nutritional elements assayed (N-NO3, P-PO4 and N-NH4) together with prokaryotic production (PP) always accounted for a significant part of the variations in PCC. Overall, prokaryotic diversity was mainly explained by resources in Sep, by a comparable contribution of resources and mortality factors in lake Aydat and, to a lesser extent, by the combined action of both.