Extracellular Enzymatic Interactions: Storage, Redistribution, and Interspecific Communication

Release of cell-free enzymes by marine pelagic fungal strains

Fungi are ubiquitous organisms that secrete different enzymes to cleave large molecules into smaller ones so that can then be assimilated. Recent studies suggest that fungi are also present in the oceanic water column harboring the enzymatic repertoire necessary to cleave carbohydrates and proteins. In marine prokaryotes, the cell-free fraction is an important contributor to the oceanic extracellular enzymatic activities (EEAs), but the release of cell-free enzymes by marine fungi remains unknown. Here, to study the cell-free enzymatic activities of marine fungi and the potential influence of salinity on them, five strains of marine fungi that belong to the most abundant pelagic phyla (Ascomycota and Basidiomycota), were grown under non-saline and saline conditions (0 g/L and 35 g/L, respectively). The biomass was separated from the medium by filtration (0.2 μm), and the filtrate was used to perform fluorogenic enzymatic assays with substrate analogues of carbohydrates, lipids, organic phosphorus, sulfur moieties, and proteins. Kinetic parameters such as maximum velocity (Vmax) and half-saturation constant (Km) were obtained. The species studied were able to release cell-free enzymes, and this represented up to 85.1% of the respective total EEA. However, this differed between species and enzymes, with some of the highest contributions being found in those with low total EEA, with some exceptions. This suggests that some of these contributions to the enzymatic pool might be minimal compared to those with higher total EEA. Generally, in the saline medium, the release of cell-free enzymes degrading carbohydrates was reduced compared to the non-saline medium, but those degrading lipids and sulfur moieties were increased. For the remaining substrates, there was not a clear influence of the salinity. Taken together, our results suggest that marine fungi are potential contributors to the oceanic dissolved (i.e., cell-free) enzymatic pool. Our results also suggest that, under salinity changes, a potential effect of global warming, the hydrolysis of organic matter by marine fungal cell-free enzymes might be affected and hence, their potential contribution to the oceanic biogeochemical cycles.

Remediation Strategies to Control Toxic Cyanobacterial Blooms: Effects of Macrophyte Aqueous Extracts on Microcystis aeruginosa (Growth, Toxin Production and Oxidative Stress Response) and on Bacterial Ectoenzymatic Activities

Increasing toxic cyanobacterial blooms in freshwater demand environmentally friendly solutions to control their growth and toxicity, especially in arid countries, where most drinking water is produced from surface reservoirs. We tested the effects of macrophyte allelochemicals on Microcystis aeruginosa and on the fundamental role of bacteria in nutrient recycling. The effects of Ranunculus aquatilis aqueous extract, the most bioactive of four Moroccan macrophyte extracts, were tested in batch systems on M. aeruginosa growth, toxin production and oxidative stress response and on the ectoenzymatic activity associated with the bacterial community. M. aeruginosa density was reduced by 82.18%, and a significant increase in oxidative stress markers was evidenced in cyanobacterial cells. Microcystin concentration significantly decreased, and they were detected only intracellularly, an important aspect in managing toxic blooms. R. aquatilis extract had no negative effects on associated bacteria. These results confirm a promising use of macrophyte extracts, but they cannot be generalized. The use of the extract on other toxic strains, such as Planktothrix rubescens, Raphidiopsis raciborskii and Chrysosporum ovalisporum, caused a reduction in growth rate but not in cyanotoxin content, increasing toxicity. The need to assess species-specific cyanobacteria responses to verify the efficacy and safety of the extracts for human health and the environment is highlighted.

Effects of terrigenous organic substrates and additional phosphorus on bacterioplankton metabolism and exoenzyme stoichiometry

Bamboo, as a pioneer vegetation, often forms forests on bare lands after catastrophic landslides. Compared to evergreen forest soil, bamboo forest soil is much more labile, with a higher percentage of microbially derived organic carbon (OC), lower molecular weight, and lower humic acid content. We hypothesised that different terrigenous organic matter (tOM) sources with varying lability and phosphorus (P) availability select for bacterioplankton with distinct metabolic pathways.We incubated natural bacterioplankton assemblages with tOM leached from bamboo forest soil (BOM) and evergreen forest soil (EOM) and compared these to a lake water control. To test if microbial metabolism would be limited by OC or P availability of each tOM treatment, we used acetate as an extra labile OC source and phosphate as an inorganic P source. Bacterial metabolism was measured by analysing respiration via O2 consumption and production via tritiated thymidine (TdR) assimilation.Bacterioplankton metabolism is limited by the availability of P in BOM substrates. When using BOM, bacteria had higher enzymatic activities for phosphatase. The nutrients required for bacterial biomass seemed to be derived from organic matter. Under BOM treatment, bacterial production (BP) (0.92 ± 0.13 μg C L-1 hr-1) and cell specific TdR assimilation rates (0.015 ± 0.002 10-18 M TdR cell-1 hr-1) were low. Adding P enhanced BP (BOM+P 1.52 ± 0.31 and BOM+C+P 2.25 ± 0.37 μg C L-1 hr-1) while acetate addition had no significant effect on BOM treatment.This indicated that the bacteria switched to using added inorganic P to respire a P-limited BOM substrate, which increased total BP and abundance, resulting in even more active respiration and lower growth efficiency. We also found higher activities for chitin-degrading enzyme β-N-acetylglucosaminidase, which is associated with N mining from aminosaccharides.Microbes using EOM, however, did not change metabolic strategies with additional acetate or/and inorganic P. This is due to higher concentrations of organic P in EOM substrates and the presence of inorganic N in the EOM leachates an alternative nutrient source. Bacteria produced β-glucosidase and leucyl-aminopeptidase in order to utilise the humic substances, which sustained greater bacterial abundance, higher BP (2.64 ± 0.39 μg C L-1 hr-1), and lower cell-specific respiration. This yielded a much higher bacterial growth efficiency (15 ± 9.2%) than the lake water control.Our study demonstrated the aquatic metabolic discrepancy between tOM of different forest types. Bacterioplankton in BOM and EOM exhibit distinct metabolic responses. Bacterial metabolic strategy when using BOM implied that the supposedly stabilised biomass OM might be efficiently used by aquatic bacterioplankton. As the labile and nutrient-deficient BOM is more susceptible to the influence of additional nutrients, fertiliser residues in bamboo forest catchments might have a stronger effect on aquatic bacterial metabolic pathways. Thus, it is important to take tOM differences into consideration when building models to estimate soil carbon turnover rates along a terrestrial-aquatic continuum.

Quantitative ecotoxicological impacts of sewage treatment plant effluents on plankton productivity and assimilative capacity of rivers

Sewage treatment plants are sources of inorganic and organic matter as well as contaminants for the receiving watercourses. We analyzed the ecological consequences of such effluents by following a holistic and synecological ecotoxicological approach based on quantifying extracellular enzyme activities (EEA), primary production and bacterial cell, and biomass production rates. Samples were obtained at three locations at the Rivers Holtemme and Elbe, Germany and Lower Jordan River, Israel and West Bank, as well as from their adjacent sewage treatment plants. Blending river samples with sewage treatment plant effluents mainly resulted in a stimulation of EEAs, which was diminished in blends with 0.2-μm filtered sewage treatment plant effluents. Stimulation for primary production and bacterial cell and biomass production of River Holtemme and Elbe samples was observed, and inhibition of these rates for Lower Jordan River samples probably linked to generally high turbidity. The quantified bacterial biomass versus cell production rates showed almost unbalanced (≫ 1) growth. Very high biomass to cell production ratios were found for sewage and sewage-containing samples, which provides a semi-quantitative indicator function for high quantities of microbial easy utilizable dissolved organic matter as nutrition source. The presented approach enables the simultaneous quantification of inhibitory and stimulating toxic responses as well as supplying ecosystem-based data for policy decision-making, and for direct incorporation in models to derive management and remediation strategies.

An Experimental Insight into Extracellular Phosphatases - Differential Induction of Cell-Specific Activity in Green Algae Cultured under Various Phosphorus Conditions

Extracellular phosphatase activity (PA) has been used as an overall indicator of P depletion in lake phytoplankton. However, detailed insights into the mechanisms of PA regulation are still limited, especially in the case of acid phosphatases. The novel substrate ELF97 phosphate allows for tagging PA on single cells in an epifluorescence microscope. This fluorescence-labeled enzyme activity (FLEA) assay enables for autecological studies in natural phytoplankton and algal cultures. We combined the FLEA assay with image analysis to measure cell-specific acid PA in two closely related species of the genus Coccomyxa (Trebouxiophyceae, Chlorophyta) isolated from two acidic lakes with distinct P availability. The strains were cultured in a mineral medium supplied with organic (beta-glycerol phosphate) or inorganic (orthophosphate) P at three concentrations. Both strains responded to experimental conditions in a similar way, suggesting that acid extracellular phosphatases were regulated irrespectively of the origin and history of the strains. We found an increase in cell-specific PA at low P concentration and the cultures grown with organic P produced significantly higher (ca. 10-fold) PA than those cultured with the same concentrations of inorganic P. The cell-specific PA measured in the cultures grown with the lowest organic P concentration roughly corresponded to those of the original Coccomyxa population from an acidic lake with impaired P availability. The ability of Coccomyxa strains to produce extracellular phosphatases, together with tolerance for both low pH and metals can be one of the factors enabling the dominance of the genus in extreme conditions of acidic lakes. The analysis of frequency distribution of the single-cell PA documented that simple visual counting of ‘active’ (labeled) and ‘non-active’ (non-labeled) cells can lead to biased conclusions regarding algal P status because the actual PA of the ‘active’ cells can vary from negligible to very high values. The FLEA assay using image cytometry offers a strong tool in plankton ecology for exploring P metabolism.

Chronic Exposure Effects of Silver Nanoparticles on Stream Microbial Decomposer Communities and Ecosystem Functions

With the accelerated use of silver nanoparticles (AgNP) in commercial products, streams will increasingly serve as recipients of, and repositories for, AgNP. This raises concerns about the potential toxicity of these nanomaterials in the environment. Here we aimed to assess the impacts of chronic AgNP exposure on the metabolic activities and community structure of fungal and bacterial plant litter decomposers as central players in stream ecosystems. Minimal variation in the size and surface charge of AgNP indicated that nanoparticles were rather stable during the experiment. Five days of exposure to 0.05 and 0.5 μM AgNP in microcosms shifted bacterial community structure but had no effect on a suite of microbial metabolic activities, despite silver accumulation in the decomposing leaf litter. After 25 days, however, a broad range of microbial endpoints, as well as rates of litter decomposition, were strongly affected. Declines matched with the total silver concentration in the leaves and were accompanied by changes in fungal and bacterial community structure. These results highlight a distinct sensitivity of litter-associated microbial communities in streams to chronic AgNP exposure, with effects on both microbial functions and community structure resulting in notable ecosystem consequences through impacts on litter decomposition and further biogeochemical processes.

Effect of TiO2 nanoparticles and UV radiation on extracellular enzyme activity of intact heterotrophic biofilms

When introduced into the aquatic environment, TiO2 NP are likely to settle from the water column, which results in increased exposure of benthic communities. Here, we show that the activity of two extracellular enzymes of intact heterotrophic biofilms, β-glucosidase (carbon-cycling) and l-leucin aminopeptidase (nitrogen-cycling), was reduced following exposure to surface functionalized TiO2 NP and UV radiation, depending on the particles' coating. This reduction was partially linked to ROS production. Alkaline phosphatase (phosphorus-cycling) activity was not affected, however in contrast, an alkaline phosphatase isolated from E. coli was strongly inhibited at lower concentrations of TiO2 NP than the intact biofilms. These results indicate that enzymes present in the biofilm matrix are partly protected against exposure to TiO2 NP and UV radiation. Impairment of extracellular enzymes which mediate the uptake of nutrients from water may affect ecosystem function.

Carbon preservation in humic lakes; a hierarchical regulatory pathway

Peatland catchments store vast amounts of carbon. Humic lakes and pools are the primary receptacles for terrigenous carbon in these meta-ecosystems, representing sequestration hotspots; boreal lakes alone store ca. 120 Pg C. But little is known about the mechanisms that preserve aquatic carbon stocks. Here, we determined the regulatory pathway of decomposition in relation to 'traditional' limitations, namely anoxia, decay inhibiting compounds, low nutrients and acidity, using in vitro manipulation, mesocosms and natural gradients. We show that anoxia represents a powerful hierarchical preservation mechanism affecting all major limitations on decomposition and recapturing carbon that would otherwise escape from peatlands. Oxygen constraints on microbial synthesis of oxidases and nutrient-cycling enzymes, prevents the decay of organic matter to CO2 , CH4 and N2 O by allowing inhibitor accumulation and lowering nutrients. However, this pathway is sensitive to direct nutrient inputs and therefore eutrophication could initiate catastrophic feedback to global warming via dramatically increased greenhouse gas emissions. Identifying these process-specific limitations should inform better management and conservation of these vital systems.

Interactions of bacteria with different mechanisms for chitin degradation result in the formation of a mixed-species biofilm

In this study, interactions between bacteria possessing either released or cell-associated enzymes for polymer degradation were investigated. For this, a co-culture of Aeromonas hydrophila strain AH-1N as an enzyme-releasing bacterium and of Flavobacterium sp. strain 4D9 as a bacterium with cell-associated enzymes was set up with chitin embedded into agarose beads to account for natural conditions, under which polymers are usually embedded in organic aggregates. In single cultures, strain AH-1N grew with embedded chitin, while strain 4D9 did not. In co-cultures, strain 4D9 grew and outcompeted strain AH-1N in the biofilm fraction. Experiments with cell-free culture supernatants containing the chitinolytic enzymes of strain AH-1N revealed that growth of strain 4D9 in the co-culture was based on intercepting N-acetylglucosamine from chitin degradation. For this, strain 4D9 had to actively integrate into the biofilm of strain AH-1N. This study shows that bacteria using different chitin degradation mechanisms can coexist by formation of a mixed-species biofilm.

Fine scale patterns in microbial extracellular enzyme activity during leaf litter decomposition in a stream and its floodplain

Microorganisms mediate the decomposition of leaf-litter through the release of extracellular enzymes. The surfaces of decomposing leaves are both chemically and physically heterogeneous, and spatial patterns in microbial enzyme activity on the litter surface should provide insights into fine-scale patterns of leaf-litter decomposition. Platanus occidentalis leaves were collected from the floodplain of a third-order stream in northern Mississippi, enclosed in individual litter bags, and placed in the stream channel and in the floodplain. Replicate leaves were collected approximately monthly over a 9-month period and assayed for spatial variation in microbial extracellular enzyme activity and rates of organic matter (OM) decomposition. Spatial variation in enzyme activity was measured by sampling 96 small discs (5-mm diameter) cut from each leaf. Discs were assayed for the activity of enzymes involved in lignin (oxidative enzymes) and cellulose (beta-glucosidase, cellobiohydrolase) degradation. Rates of OM loss were greater in the stream than the floodplain. Activities of all enzymes displayed high variability in both environments, with severalfold differences across individual leaves, and replicate leaves varied greatly in their distribution of activities. Geostatistical analysis revealed no clear patterns in spatial distribution of activity over time or among replicates, and replicate leaves were highly variable. These results show that fine-scale spatial heterogeneity occurs on decomposing leaves, but the level of spatial variability varies among individual leaves at the measured spatial scales. This study is the first to use geostatistical analyses to analyze landscape patterns of microbial activity on decomposing leaf litter and in conjunction with studies of the microbial community composition and/or substrate characteristics, should provide key insights into the function of these processes.

Potential of biofilm-based biofuel production

Biofilm technology has been extensively applied to wastewater treatment, but its potential application in biofuel production has not been explored. Current technologies of converting lignocellulose materials to biofuel are hampered by costly processing steps in pretreatment, saccharification, and product recovery. Biofilms may have a potential to improve efficiency of these processes. Advantages of biofilms include concentration of cell-associated hydrolytic enzymes at the biofilm-substrate interface to increase reaction rates, a layered microbial structure in which multiple species may sequentially convert complex substrates and coferment hexose and pentose as hydrolysates diffuse outward, and the possibility of fungal-bacterial symbioses that allow simultaneous delignification and saccharification. More importantly, the confined microenvironment within a biofilm selectively rewards cells with better phenotypes conferred from intercellular gene or signal exchange, a process which is absent in suspended cultures. The immobilized property of biofilm, especially when affixed to a membrane, simplifies the separation of biofuel from its producer and promotes retention of biomass for continued reaction in the fermenter. Highly consolidated bioprocessing, including delignification, saccharification, fermentation, and separation in a single reactor, may be possible through the application of biofilm technology. To date, solid-state fermentation is the only biofuel process to which the advantages of biofilms have been applied, even though it has received limited attention and improvements. The transfer of biofilm technology from environmental engineering has the potential to spur great innovations in the optimization of biofuel production.

Biobeds for environmental protection from pesticide use--a review

Biobeds originated in Sweden in response to the need for simple and effective methods to minimize environmental contamination from pesticide use, especially when filling spraying equipment, a typical point source of contamination. The biobed system has attracted attention in several countries, where work is being conducted to adapt it to local conditions and applications. As a consequence, the biobed system has been more or less modified and sometimes renamed, for example, as biomassbed in Italy, biofilter in Belgium, and Phytobac and biobac in France. The effectiveness and simplicity of the biobed also make it suitable for use in developing countries, and different adaptations of the biobed concept now exist in, for instance, Peru, Guatemala, and Ecuador. When the modification of the biobed includes an intention to use it for retention and degradation of pesticides in sprayer washings, the construction has to be adapted to, for example, lined biobeds to ensure that no pesticide leaching will occur. Replacement of some of the original materials in the Swedish biomixture (straw, peat, and soil) can also change the performance of the system, for instance, the amount, activity, and composition of the microbial community that develops. This review presents the state of the art of biobeds and similar systems in Sweden and worldwide and identifies future research needs. Factors affecting the efficiency of biobeds in terms of degradation and retention of pesticides are discussed, with particular emphasis on the microbial processes involved.

Changes in the composition of extracellular polymeric substances in activated sludge during anaerobic storage

Changes in the chemical composition of organic compounds in total activated sludge, activated sludge extracellular polymeric substances (EPS), and sludge bulk water during anaerobic storage (12 days) were studied. The background for the study was that anaerobic storage of activated sludge, which often takes place at wastewater treatment plants before dewatering, causes a deterioration of the dewaterability. The reasons are not known at present, but may be related to changes in exopolymer composition of the flocs. The results showed that a fast decrease in total sludge protein and carbohydrate took place within 3 days of anaerobic storage as a result of degradation processes, which accounted for approximately 20% of the organic fraction. The amount of uronic acids and humic compounds remained almost constant in the sludge. The EPS were extracted from the floc matrix using a cation-exchange resin. In the EPS matrix a similar initial (2-3 days) degradation of proteins and carbohydrate took place, whereas the content of DNA and uronic acids showed minor changes. The extractability of humic compounds increased during the first 3 days of storage. No changes in extractability of the carbohydrate were observed. A fraction of the EPS protein was found to be difficult to extract but was observed to be degraded during the anaerobic storage. The EPS composition was further characterized by high-performance size-exclusion chromatography analysis obtained by on-line UV detection and post-column detection of proteins, carbohydrates, humic compounds and DNA. Four fractions of polysaccharides were found, of which only one was responsible for the decrease in the carbohydrate content observed with storage time. The fraction was presumably of low molecular mass. Humic compounds and volatile fatty acids (acetate and propionate) were released to the bulk water from the flocs during the storage. A possible mechanism to explain the reduced dewaterability developed during anaerobic storage, partly because of the observed changes in EPS, is discussed.

Controls of the microbial loop: Nutrient limitation and enzyme production, location and control

A major controlling factor for bacterial growth is their ability to hydrolyze high molecular weight molecules too complex to be transported directly across the cell's membrane. The utility of such an extracellular enzyme hydrolysis system, location of the enzymes (free or attached), environmental controls of enzyme production, and implications of multiple hydrolysis-uptake systems are explored in relation to free-living oceanic bacteria and bacteria attached to rapidly sinking aggregates.

Concentrations and fluxes of organic carbon substrates in the aquatic environment

Data concerning concentrations and fluxes of dissolved organic compounds (DOC) from marine and lacustrine environments are reviewed and discussed. Dissolved free amino acids and carbohydrates comprised the main fraction in the labile organic carbon pool. Dissolved free amino acids in marine waters varied between 3-1400 nM and those of fresh waters between 2.6-4124 nM. Dissolved free carbohydrates varied between 0.4-5000 nM in marine systems and between 14-111 nM in fresh waters, The turnover times of both substrate pools varied in marine waters between 1.4 hours and 948 days and in fresh waters between 2 hours and 51 days. Measurements of stable 12/13C-ratio and 14C-isotope dating in ocean deep water samples revealed DOC turnover times between 2000-6000 years. Studies on carbon flows within the aquatic food webs revealed that about 50% of photosynthetically fixed carbon was channelled via DOC to the bacterioplankton. Excreted organic carbon varied between 1-70% of photosynthetically fixed carbon in marine waters and between 1-99% in fresh waters. The labile organic carbon pool represented only 10-30% of the DOC. The majority (70-90%) of the DOC was recalcitrant to microbial assimilation. Only 10-20% of the DOC could be easily chemically identified. Most of the large bulk material represented dissolved humic matter and neither the chemical structure nor the ecological function of the DOC is as yet clearly understood.