Bacterial chemotaxis to naphthalene

The chemotaxis of two pseudomonads, P. putida AZ (Naph+) and P. putida AZ (Naph-), differing in the ability to metabolize naphthalene was studied by the known capillary method of Adler and the densitometric method devised in our laboratory. The migration of P. putida AZ (Naph+) cells toward increasing levels of naphthalene was accompanied by the formation of a migrating front of converted naphthalene. P. putida AZ (Naph-) cells, too, exhibited positive chemotaxis to naphthalene, but they did not form the front of converted naphthalene. The analysis of experimental data in terms of a kinetic model of bacterial chemotaxis showed that the densitometric method is a potential tool for studying bacterial chemotaxis to hydrophobic organic substances.     

Bacterial chemotaxis in an optical trap

An optical trapping technique is implemented to investigate the chemotactic behavior of a marine bacterial strain Vibrio alginolyticus. The technique takes the advantage that the bacterium has only a single polar flagellum, which can rotate either in the counter-clock-wise or clock-wise direction. The two rotation states of the motor can be readily and instantaneously resolved in the optical trap, allowing the flagellar motor switching rate S(t) to be measured under different chemical stimulations. In this paper the focus will be on the bacterial response to an impulsive change of chemoattractant serine. Despite different propulsion apparati and motility patterns, cells of V. alginolyticus apparently use a similar response as Escherichia coli to regulate their chemotactic behavior. Specifically, we found that the switching rate S(t) of the bacterial motor exhibits a biphasic behavior, showing a fast initial response followed by a slow relaxation to the steady-state switching rate S0. The measured S(t) can be mimicked by a model that has been recently proposed for chemotaxis in E. coli. The similarity in the response to the brief chemical stimulation in these two different bacteria is striking, suggesting that the biphasic response may be evolutionarily conserved. This study also demonstrated that optical tweezers can be a useful tool for chemotaxis studies and should be applicable to other polarly flagellated bacteria.     

Bacterial chemotaxis towards aromatic hydrocarbons in Pseudomonas

Bacterial chemotaxis is an adaptive behaviour, which requires sophisticated information-processing capabilities that cause motile bacteria to either move towards or flee from chemicals. Pseudomonas putida DOT-T1E exhibits the capability to move towards different aromatic hydrocarbons present at a wide range of concentrations. The chemotactic response is mediated by the McpT chemoreceptor encoded by the pGRT1 megaplasmid. Two alleles of mcpT are borne on this plasmid and inactivation of either one led to loss of this chemotactic phenotype. Cloning of mcpT into a plasmid complemented not only the mcpT mutants but also its transfer to other Pseudomonas conferred chemotactic response to high concentrations of toluene and other chemicals. Therefore, the phenomenon of chemotaxis towards toxic compounds at high concentrations is gene-dose dependent. In vitro experiments show that McpT is methylated by CheR and McpT net methylation was diminished in the presence of hydrocarbons, what influences chemotactic movement towards these chemicals.     

Bacterial motion in porous media

The motion of chemotactically different Escherichia coli C600, cheB287, and AW405 cells was studied using a column packed with silica gel. The model chemotaxis of bacteria in porous media seems to be adequate to natural bacterial chemotaxis in soils. The porous structure of silica gel prevents interfering convective flows. Silica gel columns make it possible to separate bacterial cells differing in motility and chemotaxis. Relevant physical phenomena are discussed. The concept of fast and slow chemotaxis is considered.     

Bacterial chemotaxis: information processing,thermodynamics, and behavior

1. Download : Download high-res image (116KB)
2. Download : Download full-size image

     

Bacterial soil community in a Brazilian sugarcane field

The assessment of bacterial communities in soil gives insight into microbial behavior under prevailing environmental conditions. In this context, we assessed the composition of soil bacterial communities in a Brazilian sugarcane experimental field. The experimental design encompassed plots containing common sugarcane (variety SP80-1842) and its transgenic form (IMI-1 — imazapyr herbicide resistant). Plants were grown in such field plots in a completely randomized design with three treatments, which addressed the factors transgene and imazapyr herbicide application. Soil samples were taken at three developmental stages during plant growth and analyzed using 16S ribosomal RNA (rRNA)-based PCR-denaturing gradient gel electrophoresis (PCR-DGGE) and clone libraries. PCR-DGGE fingerprints obtained for the total bacterial community and specific bacterial groups — Actinobacteria, Alphaproteobacteria and Betaproteobacteria — revealed that the structure of these assemblages did not differ over time and among treatments. Nevertheless, slight differences among 16S rRNA gene clone libraries constructed from each treatment could be observed at particular cut-off levels. Altogether, the libraries encompassed a total of eleven bacterial phyla and the candidate divisions TM7 and OP10. Clone sequences affiliated with the Proteobacteria, Actinobacteria, Firmicutes and Acidobacteria were, in this order, most abundant. Accurate phylogenetic analyses were performed for the phyla Acidobacteria and Verrucomicrobia, revealing the structures of these groups, which are still poorly understood as to their importance for soil functioning and sustainability under agricultural practices.     

Motility and chemotaxis of Spirochaeta aurantia: computer-assisted motion analysis.

A computer program has been designed to study behavior in populations of Spirochaeta aurantia cells, and this program has been used to analyze changes in behavior in response to chemoattractants. Three kinds of behavior were distinguished: smooth swimming, flexing, and reversals in direction of swimming after a short pause (120 ms). Cell populations exposed to chemoattractants spent, on average, 66, 33, and 1% of the time in these modes, respectively. After the addition of a chemoattractant, behavior was modified transiently--smooth swimming increased, flexing decreased, and reversals were suppressed. After addition of D-xylose (final concentration, 10 mM), the adaptation time (the time required for the populations to return to the unmodified behavior) for S. aurantia was 1.5 to 2.0 min. A model to explain the behavior of S. aurantia and the response of cells to chemoattractants is described. This model includes a coordinating mechanism for flagellar motor operation and a motor switch synchronizing device.     

Testing human sperm chemotaxis: how to detect biased motion in population assays

Biased motion of motile cells in a concentration gradient of a chemoattractant is frequently studied on the population level. This approach has been particularly employed in human sperm chemotactic assays, where the fraction of responsive cells is low and detection of biased motion depends on subtle differences. In these assays, statistical measures such as population odds ratios of swimming directions can be employed to infer chemotactic performance. Here, we report on an improved method to assess statistical significance of experimentally determined odds ratios and discuss the strong impact of data correlations that arise from the directional persistence of sperm swimming.     

Bacterial motility and chemotaxis: Light-induced tumbling response and visualization of individual flagella

High intensity visible light induces tumbling in Salmonella typhimurium, the effect being reversible provided short pulses are used. Fully aerated cultures are more sensitive to light than cultures with a lower oxygen tension. Bacteria which have been subjected to a sufficient positive chemotactic stimulus (concentration increase of attractant) are immune to the light stimulus. Light with a wavelength of 510 nm or shorter is effective, suggesting that absorption by a flavin may be involved. The light source used, with a yellow filter inserted to prevent light-induced tumbling, is bright enough to allow visualization of individual flagella as well as flagellar bundles. This has provided information on flagellar aggregation, rigidity, and behavior during tumbling. Since the occurrence of tumbles is modified as a result of chemical gradient sensing, these techniques are valuable in the study of bacterial chemotaxis.     

The physics of flagellar motion of E. coli during chemotaxis

Flagellar motion has been an active area of study right from the discovery of bacterial chemotaxis in 1882. During chemotaxis, E. coli moves with the help of helical flagella in an aquatic environment. Helical flagella are rotated in clockwise or counterclockwise direction using reversible flagellar motors situated at the base of each flagellum. The swimming of E. coli is characterized by a low Reynolds number that is unique and time reversible. The random motion of E. coli is influenced by the viscosity of the fluid and the Brownian motion of molecules of fluid, chemoattractants, and chemorepellants. This paper reviews the literature about the physics involved in the propulsion mechanism of E. coli. Starting from the resistive-force theory, various theories on flagellar hydrodynamics are critically reviewed. Expressions for drag force, elastic force and velocity of flagellar elements are derived. By taking the elastic nature of flagella into account, linear and nonlinear equations of motions are derived and their solutions are presented.     

Phenol: a complex chemoeffector in bacterial chemotaxis.

Earlier observations that phenol is a repellent for Salmonella typhimurium but an attractant for Escherichia coli were confirmed. This behavioral difference was found to correlate with a difference in the effect phenol had on receptor methylation levels; it caused net demethylation in S. typhimurium but net methylation in E. coli. On the basis of mutant behavior and measurement of phenol-stimulated methylation, the attractant response of E. coli was shown to be mediated principally by the Tar receptor. In S. typhimurium, two receptors were found to be sensitive to phenol, namely, an unidentified receptor, which mediated the repellent response and showed phenol-stimulated demethylation; and the Tar receptor, which (as with E. coli) mediated the attractant response and showed phenol-stimulated methylation. In wild-type S. typhimurium, the former receptor dominated the Tar receptor, with respect to both behavior and methylation changes. However, when the amount of Tar receptor was artificially increased by the use of Tar-encoding plasmids, S. typhimurium cells exhibited an attractant response to phenol. No protein analogous to the phenol-specific repellent receptor was evident in E. coli, explaining the different behavioral responses of the two species toward phenol.     

Boundary of the adiabatic motion of a charged particle in a dipole magnetic field

The motion of a charged particle in a dipole magnetic field is considered using a quasi-adiabatic model in which the particle guiding center trajectory is approximated by the central trajectory, i.e., a trajectory that passes through the center of the dipole. A study is made of the breakdown of adiabaticity in the particle motion as the adiabaticity parameter χ (the ratio of the Larmor radius to the radius of the magnetic field line curvature in the equatorial plane) increases. Initially, for χ?0.01, the magnetic moment μ of a charged particle undergoes reversible fluctuations, which can be eliminated by subtracting the particle drift velocity. For χ?0.1, the magnetic moment μ undergoes irreversible fluctuations, which grow exponentially with χ. Numerical integration of the equations of motion shows that, during the motion of a particle from the equatorial plane to the mirror point and back to the equator in a coordinate system related to the central trajectory, the analogue of the magnetic moment μ is conserved. In the equatorial plane, this analogue undergoes a jump. The long-term particle dynamics is described in a discrete manner, by approximating the Poincaré mapping. The existence of the regions of steady and stochastic particle motion is established, and the boundary between these regions is determined. The position of this boundary depends not only on the adiabaticity parameter χ but also on the pitch angle. The calculated boundary is found to agree well with that obtained previously by using the model of a resonant interaction between particle oscillations associated with different degrees of freedom.     

The neutrophil's eye-view: inference and visualisation of the chemoattractant field driving cell chemotaxis in vivo

As we begin to understand the signals that drive chemotaxis in vivo, it is becoming clear that there is a complex interplay of chemotactic factors, which changes over time as the inflammatory response evolves. New animal models such as transgenic lines of zebrafish, which are near transparent and where the neutrophils express a green fluorescent protein, have the potential to greatly increase our understanding of the chemotactic process under conditions of wounding and infection from video microscopy data. Measurement of the chemoattractants over space (and their evolution over time) is a key objective for understanding the signals driving neutrophil chemotaxis. However, it is not possible to measure and visualise the most important contributors to in vivo chemotaxis, and in fact the understanding of the main contributors at any particular time is incomplete. The key insight that we make in this investigation is that the neutrophils themselves are sensing the underlying field that is driving their action and we can use the observations of neutrophil movement to infer the hidden net chemoattractant field by use of a novel computational framework. We apply the methodology to multiple in vivo neutrophil recruitment data sets to demonstrate this new technique and find that the method provides consistent estimates of the chemoattractant field across the majority of experiments. The framework that we derive represents an important new methodology for cell biologists investigating the signalling processes driving cell chemotaxis, which we label the neutrophils eye-view of the chemoattractant field.     

The flow field around a freely swimming copepod in steady motion. Part II: Numerical simulation

Three-dimensional, numerical simulations of the flow field arounda freely swimming model-copepod were performed using a finite-volumecode. The model copepod had a realistic body shape representedby a curvilinear body-fitted coordinate system. The beatingmovement of the cephalic appendages was replaced by a distributedforce field acting on the water ventrally adjacent to the copepod'sbody. In the simulations, we took into account that freely swimmingcopepods are self-propelled bodies through properly couplingthe Navier–Stokes equations with the dynamic equationfor the copepod's body. Flow fields were calculated for fivesteady motions: (1) hovering, (2) sinking, (3) upwards swimming,(4) backwards swimming and (5) forwards swimming. The numericalresults confirm the conclusions drawn from the theoretical analysisusing Stokes flow models by Jiang et al. [in a companion paper(Jiang et al., 2002a)] for a spherical copepod shape and showthat the geometry of the flow field around a freely swimmingcopepod varies significantly with the different swimming behaviours.When a copepod hovers in the water, or swims very slowly, itgenerates a cone-shaped and wide flow field. In contrast, whena copepod sinks, or swims fast, the flow geometry is not cone-shaped,but cylindrical, narrow and long. The relationships betweencopepods' swimming behaviour and body orientation, hydrodynamicconspicuousness, energetics as well as feeding efficiency werediscussed, based on the simulation data. It is shown that thebehaviour of hovering or swimming slowly is more energeticallyefficient in terms of relative capture volume per energy expendedthan the behaviour of swimming fast, i.e. for a same amountof energy expended a hovering or slow-swimming copepod is ableto scan more water than a fast-swimming one. The numerical resultsalso suggest that the flow field generated by a fast-swimmingcopepod enables the copepod to use mechanoreception to perceivethe food/prey and therefore increases the food concentrationin the swept volume and that the flow field around a free-sinkingcopepod favours the copepod's mechanoreception while minimizingthe energy expense, so that the energy budget can still be maintainedfor both cases.