Positive feedback in aquatic ecosystems

Aquatic ecosystems offer striking examples of how positive feedback can be integral to the dynamics of complex communities. In particular, microorganisms (bacteria and protozoa) introduce a multitude of positive feedback pathways by rapidly recycling nutrients at the very base of many aquatic food webs. The relatively large magnitude of fluxes being shunted through this 'microbial loop' allows an accumulation of nutrients in localized areas, promotes a general build-up of biomass, and acts as a 'life-support system' in harsh environments. In contrast to customary notions which portray positive feedback effects as undesirable, a reassessment indicates that this 'bootstrapping' can often be advantageous for many organisms.     

Toward the development of generally applicable models of the microbial loop in aquatic ecosystems

Simulation modeling has been an integral, albeit ad hoc, component of the field of aquatic microbial ecology for the past two decades. One of the most critical steps in simulation modeling is the initial formulation of a clear set of questions and goals. It is doubtful that a single generic model could be constructed to address adequately all questions of interest concerning the microbial loop because of the tremendous range in time scales that define these questions. Progress in the field of aquatic microbial ecology will benefit from an integrated research program including experimental and modeling approaches. A submodel of bacterial utilization of various qualities of organic matter that we have under construction is presented. This submodel will be a component of a larger model to evaluate the effects of quality and quantity of organic matter and inorganic nutrient inputs on estuarine food web structure and efficiency. The overall model will be general enough in its structure that it should be applicable to a wide range of questions concerning the microbial loop, with time scales ranging from hours to days.     

Nitrogen transformations in stratified aquatic microbial ecosystems

New analytical methods such as advanced molecular techniques and microsensors have resulted in new insights about how nitrogen transformations in stratified microbial systems such as sediments and biofilms are regulated at a μm–mm scale. A large and ever-expanding knowledge base about nitrogen fixation, nitrification, denitrification, and dissimilatory reduction of nitrate to ammonium, and about the microorganisms performing the processes, has been produced by use of these techniques. During the last decade the discovery of anammmox bacteria and migrating, nitrate accumulating bacteria performing dissimilatory reduction of nitrate to ammonium have given new dimensions to the understanding of nitrogen cycling in nature, and the occurrence of these organisms and processes in stratified microbial communities will be described in detail.     

Positive feedback in a brainstem tactile sensorimotor loop

The trigeminal loop in the brainstem comprises the innermost level of sensorimotor feedback in the rat vibrissa system. Anatomy suggests that this loop relays tactile information from the vibrissae to the motoneurons that control vibrissa movement. We demonstrate, using in vitro and in vivo recordings, that the trigeminal loop consists of excitatory pathways from vibrissa sensory inputs to vibrissa motoneurons in the facial nucleus. We further show that the trigeminal loop implements a rapidly depressing reflex that provides positive sensory feedback to the vibrissa musculature during simulated whisking and contact. On the basis of these findings, we propose that the trigeminal loop provides an enhancement of vibrissa muscle tone upon contact during active touch.     

Adding artificial feedback to a simple aquatic ecosystem: the cybernetic nature of ecosystems revisited

A cybernetic system can be defined as one controlled by feedback, that is, a system in which input is partially determined by output. I explored the cybernetic properties of a simple planktonic ecosystem by introducing an artificial feedback loop; light energy delivered to the system was linked to the ecosystem's productivity and respiration. Specifically, I programmed a computer to turn lights on and off when dissolved oxygen reached low and high setpoints, respectively. Three treatments were applied that differed in light intensity and in range between high and low setpoints. Experiments were repeated under high and low nutrient conditions. The added feedback did not substantially alter responses to limiting factors from those expected under fixed duration lighting. However, several novel features were observed, including poor coupling between productivity and respiration, similar patterns in energy demand among treatments, and oscillations in primary productivity. These observations can be viewed as support for a holistic, cybernetic view of ecological systems. This view complements the dominant mechanistic-reductionist perspective on causality in ecosystems. The experimental addition of new feedback is apparently a useful means of investigating the self-organizational properties of ecosystems and may also improve our understanding of the consequences of anthropogenically induced feedback in natural and managed systems.     

Heat-flow measurements in aquatic ecosystems

Heat production by plankton and intertidal benthos reveal anddisprove underlying assumptions about energy flow in aquaticecosystems.     

The microbial loop in flowing waters

The microbial loop in flowing waters is dependent on allochthonous sources of carbon, which vary in quality. The proportion of dissolved organic carbon (DOC) that can be degraded ranges from <1 to over 50%, and the bioavailability of DOC (micrograms bacterial biomass produced per milligram DOC present) ranges over two orders of magnitude. Bioavailability of DOC is predictable from the ratio of H/C and O/C of the DOC, but further work is needed to develop simple predictors of bioavailability of DOC in a range of environments. Consumers of bacteria in streams range in size from protists to insect larvae, with highest rates of bacterial consumption found among the meiofauna and certain filter feeders and grazers. Because there appear to be fewer trophic transfers in the lotic microbial loop, it functions more as a link in flowing waters than it appears to do in the marine plankton.     

Drought and aquatic ecosystems: an introduction

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A model for improving microbial biofuel production using a synthetic feedback loop

Cells use feedback to implement a diverse range of regulatory functions. Building synthetic feedback control systems may yield insight into the roles that feedback can play in regulation since it can be introduced independently of native regulation, and alternative control architectures can be compared. We propose a model for microbial biofuel production where a synthetic control system is used to increase cell viability and biofuel yields. Although microbes can be engineered to produce biofuels, the fuels are often toxic to cell growth, creating a negative feedback loop that limits biofuel production. These toxic effects may be mitigated by expressing efflux pumps that export biofuel from the cell. We developed a model for cell growth and biofuel production and used it to compare several genetic control strategies for their ability to improve biofuel yields. We show that controlling efflux pump expression directly with a biofuel-responsive promoter is a straightforward way of improving biofuel production. In addition, a feed forward loop controller is shown to be versatile at dealing with uncertainty in biofuel production rates.     

The microbial carbon pump: from genes to ecosystems

The majority of marine dissolved organic carbon (DOC) is resistant to biological degradation and thus can remain in the water column for thousands of years, constituting carbon sequestration in the ocean. To date the origin of such recalcitrant DOC (RDOC) is unclear. A recently proposed conceptual framework, the microbial carbon pump (MCP), emphasizes the microbial transformation of organic carbon from labile to recalcitrant states. The MCP is concerned with both microbial uptakes and outputs of DOC compounds, covering a wide range from gene to ecosystem levels. In this minireview, the ATP binding cassette (ABC) transporter is used as an example for the microbial processing of DOC at the genetic level. The compositions of the ABC transporter genes of the two major marine bacterial clades Roseobacter and SAR11 demonstrate that they have distinct patterns in DOC utilization: Roseobacter strains have the advantage of taking up carbohydrate DOC, while SAR11 bacteria prefer nitrogen-containing DOC. At the ecosystem level, bacterially derived RDOC based on d-amino acid biomarkers is reported to be responsible for about a quarter of the total marine RDOC pool. Under future global warming scenarios, partitioning of primary production into DOC could be enhanced, and thus the MCP could play an even more important role in carbon sequestration by the ocean. Joint efforts to study the MCP from multiple disciplines are required to obtain a better understanding of ocean carbon cycle and its coupling with global change.     

Carbon fluxes in the microbial loop: Comments

The heterotrophic bacterial community of oceanic aggregates which mediates particle solubilization, displays features (low carbon demand and low turnover) that are difficult to reconcile with the observed high enzyme activities and cell numbers. Hypotheses are proposed to explain this discrepancy. Furthermore, production of both free and attached bacteria may have been underestimated by neglecting the ultramicrobacteria (UMB). Production of UMB may represent up to 28% of the total bacterial production.     

Quantifying habitat complexity in aquatic ecosystems

1. Many aquatic studies have attempted to relate biological features, such as species diversity, abundance, brain size and behaviour, to measures of habitat complexity. Previous measures of habitat complexity have ranged from simple, habitat‐specific variables, such as the number of twigs in a stream, to quantitative parameters of surface topography, such as rugosity. 2. We present a new video‐based technique, called optical intensity, for assaying habitat complexity in aquatic ecosystems. Optical intensity is a visual, quantitative technique modifiable for any scale or for a nested analysis. We field‐tested the technique in Lake Tanganyika, Tanzania, on 38 quadrats (5 × 5 m) to determine if three freshwater habitats (sand, rock and intermediate) were quantitatively different. 3. A comparison of the values obtained from optical intensity with a previous measure of surface topography (rugosity) showed that the two corresponded well and revealed clear differences among habitats. Both the new measure and rugosity were positively correlated with species diversity, species richness and abundance. Finally, whether used alone or in combination, both measures had predictive value for fish community parameters. 4. This new measure should prove useful to researchers exploring habitat complexity in both marine and freshwater systems.     

The ecology of chytrids in aquatic ecosystems: roles in food web dynamics

Chytrids are very important components of freshwater ecosystems, but the ecological significance of this group of fungi is not well understood. This review considers some of the significant environmental factors affecting growth and population composition of chytrids in aquatic habitats. The physical factors include primarily salinity, dissolved oxygen concentration and temperature. The biological factors include the role of chytrids as saprobes and parasites and methods of dispersal of propagules throughout the ecosystem. Dispersal depends upon both zoospores for short range and whole thalli for long range dispersal. Five roles for chytrids in food-web dynamics are proposed: (1) chytrid zoospores are a good food source for zooplankton, (2) chytrids decompose particulate organic matter, (3) chytrids are parasites of aquatic plants, (4) chytrids are parasites of aquatic animals and (5) chytrids convert inorganic compounds into organic compounds. New molecular methods for analysis of chytrid diversity in aquatic environments have the potential to provide accurate quantitative data necessary for better understanding of ecological processes in aquatic ecosystems.     

Microbial diversity-productivity relationships in aquatic ecosystems

Thanks to recent advances in molecular biology, one's knowledge of microbial co-occurrence patterns, microbial biogeography and microbial biodiversity is expanding rapidly. This MiniReview explores microbial diversity-productivity relationships in the light of what is known from the general ecology literature. Analyses of microbial diversity-productivity relationships from 70 natural, experimental, and engineered aquatic ecosystems reveal patterns that are strikingly similar to those that have long been documented for communities of macroorganisms. Microbial ecology and the general science of ecology are thus continuing to converge.     

Pesticide toxicity endpoints in aquatic ecosystems

To adequately protect aquatic ecosystems from impactby anthropogenic perturbations it is necessary todistinguish what is safe from what is not. Thisreview examines approaches to this problem in relationto primary and secondary effects of pesticides.Understanding nutrient – plankton and plankton –plankton interrelationships on both spatial andtemporal scales is important if secondary or indirecteffects are to be assessed. Before defining ormeasuring a toxicity endpoint, consideration must begiven to whether to use single species or multispeciestests. Each has its strengths and weaknesses and isreviewed. In single species testing, toxicityendpoints can be more clearly defined butextrapolation of effects to an ecosystem is moredifficult than with multispecies testing and can oftenlead to incorrect conclusions. Interpretation ofmultispecies testing results are challenging andnumerical analysis techniques including methods whoseobjectives are inference, classification andordination are required. Conceptual and fuzzy logicmodelling techniques promise a solution to theinterpretation of multispecies tests.     

Diversity of aquatic hyphomycetes in the aquatic ecosystems of the Western Ghats of India

Relationships between physico-chemical factors of waters, riparian vegetation, altitude and species richness of the hyphomycete communities in six rivers and a sulfur spring in the Western Ghats of Karnataka were analysed statistically. Linear regression and correlation between log fungal species and riparian vegetation was highly significant. The similarity in the fungal diversity between different rivers and the sulphur spring was evaluated by Sorensen's index. Generally, the indices of similarity in the mycoflora between the streams were high. However, in the streams of Lakya, Bhadra, Ranganathittu bird sanctuary and the sulfur spring the indices of similarity were low compared with the rest of the water systems. The low pH, low oxygen concentration, hardness, high iron, high temperature and sulfide contents of the waters of these streams are thought to be the reasons for the differences in these streams. Anguillospora longissima, Helicomyces roseus, Lunulospora curvula, Triscelophorus monosporus and Wiesneriomyces laurinus were found to be the most abundant species.     

Significance of microbial interactions in control of microbial ecosystems

A microbial ecosystem represents a delicately balanced population of microorganisms each interacting with and influencing the other members of the population. An understanding of the nature and effects of these interactions is essential to improving the performance of these ecologies, which are important, in such diverse processes as biological waste treatment procedures, water pollution abatement, industrial fermentations, human or animal digestives processes and in soil. There are several types of mocrobial interactions, such as commensalism, inhibition, food competition, predation, parasitism, and synergism, which either singly or in combination may influence the functioning of the microbial ecology. To understand interactions, it is necessary to perform a detailed study of the physiology of the individual predominating microorganisms to establish their requirements with respect to such environmental factors as nutrients, temperature, pH, oxidation-reduction potential, removal of waste products, or toxic materials which may be involved in control processes and to determine how these factors affect their capabilities. The sum total of this information will indicate the possible interactions between the microorganisms and will form the basis for conducting experiments either in the laboratory or with mathematical models. Such experiments will lead to an understanding of microbial activities and to the formulation of control measures, often using an alteration of the environmental factors for regulation of the microbial ecologies. Extensive research remains to be done on the microbial interact inns in obtain the desired, precise control of these ecological processes.     

The taxonomic feedback loop: symbiosis of morphology and molecules

Here, we relate the ongoing taxonomic story of a species complex of problematic, cryptic Australian freshwater shrimp (Atyidae; Caridina) to highlight the relative strength and utility of different taxonomic methods in assessing species boundaries. We used popular 'DNA barcode' gene fragments cytochrome c oxidase 1 and 16S ribosomal DNA. We then assessed the morphological attributes of these specimens and developed an identification key to complement the molecular results, and conclude that, despite occasionally strident arguments in favour of either molecular or morphological taxonomy, the two are inseparably linked and form parts of a greater whole.