Fungal virulence studies come of age

Sophisticated molecular biological research has revealed many virulence attributes in at least four pathogenic fungi, but the future study of fungal virulence requires investigators to distinguish between molecules that directly interact with the host, molecules that regulate these, and molecules that are always required for fungal growth and survival, independent of the host.     

Biodegradation of tert-butyl alcohol and related xenobiotics by a methylotrophic bacterial isolate

A new aerobic bacterial strain, CIP 1-2052, isolated from an activated sludge sample, was able to use tert-butyl alcohol (TBA), a product of methyl tert-butyl ether (MTBE) and ethyl tert-butyl ether (ETBE) degradation, as its sole carbon and energy source. Cobalt ions stimulated TBA mineralization. The maximum growth and TBA degradation rates were 0.032 +/- 0.004 h(-1) and 35.8 +/- 8.5 mg TBA x g(-1) (cell dry mass) per h, respectively. The growth yield on TBA was 0.54 +/- 0.02 g x g(-1). Strain CIP 1-2052 exhibited a particular substrate specificity towards alcohols. It degraded tertiary alcohols, TBA and tert-amyl alcohol (TAA), but neither their primary and secondary alcohol homologues, nor ethanol. However, one-carbon compounds, namely methanol and formate, were degraded by strain CIP 1-2052, showing the methylotrophic nature of this isolate. The properties of this new strain suggest that it could be used for bioremediation of contaminated aquifers.     

Muscarinic and beta-adrenergic regulation of heart rate, force of contraction and calcium current is preserved in mice lacking endothelial nitric oxide synthase

Nitric oxide (NO) is an ubiquitous signaling molecule produced from L-arginine by NO synthase (NOS). In the vasculature, NO mediates parasympathetic endothelium-dependent vasodilation. NO may also mediate the parasympathetic control of myocardial function. This is supported by the observations that NOS3, the endothelial constitutive NOS, is expressed in normal cardiac myocytes from rodents and human, and NOS and/or guanylyl cyclase inhibitors antagonize the effect of muscarinic agonists on heart rate, atrio-ventricular conduction, contractility and L-type calcium current. Here we examine the autonomic regulation of the heart in genetically engineered mice deficient in NOS3 (NOS3-KO). We show that the chronotropic and inotropic responses to both beta-adrenergic and muscarinic agonists were unaltered in isolated cardiac tissue preparations from NOS3-KO mice, although these mice have a defective parasympathetic regulation of vascular tone. Similarly, beta-adrenergic stimulation and muscarinic inhibition of the calcium current did not differ in cardiac myocytes from NOS3-KO mice and those from wild-type mice. RT-PCR did not demonstrate upregulation of other NOS isoforms. Similarly, Gi/Go proteins and muscarinic receptor density were unaltered. These data refute the idea that NOS3 is obligatory for the normal autonomic control of cardiac muscle function.     

Community shifts in a seeded 3-chlorobenzoate degrading membrane biofilm reactor: indications for involvement of in situ horizontal transfer of the clc-element from inoculum to contaminant bacteria

Pseudomonas putida BN210, carrying the self- transferable clc-element encoding degradation of 3-chlorobenzoate on the chromosome, was used as inoculum in different membrane biofilm reactors treating 3-chlorobenzoate-contaminated model wastewater. Analysis of the bacterial population in the effluent and in the biofilm showed the loss of BN210 beyond detection from the reactors and the appearance of several novel 3-chlorobenzoate mineralizing bacteria mainly belonging to the beta-proteobacteria. In contrast, in non-inoculated reactors, no 3-chlorobenzoate degradation was observed and no 3-chlorobenzoate degraders could be recovered. Southern blots hybridization of genomic DNA using clc-element-specific probes and FIGE analysis indicated the presence of the complete clc-element in one or more copies in the isolates. Moreover, the isolates could transfer the clc genes to Ralstonia metallidurans recipients. Two representative reactor isolates, Ralstonia sp. strains KP3 and KP9 demonstrated a higher growth rate on 3-chlorobenzoate than strain BN210 in batch cultures. When BN210, KP3 and KP9 were simultaneously inoculated in a membrane reactor supplied with 3-chlorobenzoate, strain KP3 outcompeted the two other strains and remained the major 3-chlorobenzoate degrading population in the reactor. Our data suggest that in situ horizontal transfer of the clc-element from the inoculum to contaminant bacteria in the reactors was involved in the establishment of novel 3-chlorobenzoate degrading populations that were more competitive under the defined reactor conditions than the inoculum strain.     

A Cheap Chlorophyll a Fluorescence Imaging System

A cheap chlorophyll (Chl) a fluorescence imaging system was developed for measuring leaf areas of 30×45 cm. Uniform saturating irradiances were created using CuSO₄ filtered radiation from stroboscopes. The system was tested using maize leaves treated with diuron. Comparison was made with a small-area-measuring pulse amplified modulation Chl fluorometer.     

Distribution in the environment of degradative capacitiesfor gasoline attenuation

A methodology allowing the detailed assessment ofthe capacities of microflorae to degrade gasoline inaerobic conditions has been developed. It consisted inthe determination of the degradation of a gasolinemodel mixture in liquid cultures in optimalconditions. The gasoline model mixture contained 23representative hydrocarbons of gasoline (GM23). Thekinetics and extent of biodegradation were evaluatedby continuous overall monitoring of CO₂production and final chromatographic analysis (usuallyafter about 30 days) of the consumption of eachhydrocarbon. The methodology was used with soil andwater samples from polluted and non polluted sites.The experimentation aimed at assessing thedistribution of the degradative capacities in theenvironment and the prospects for natural attenuationof gasoline. Nine microflorae were tested. The intrinsicbiodegradability (existence of mechanisms ofbiodegradation) appeared total for GM23 as shown bythe results obtained with several microflorae. Thedegradative capacities of microflorae from nonpolluted samples were high (total degradation rates atleast 85%). Incomplete degradation was observedessentially for trimethylalkanes(2,2,4-trimethylpentane and 2,3,4-trimethylpentane)and for cyclohexane. In several cases, samples frompolluted sites exhibited more extensive degradativecapacities, with total degradation of all hydrocarbonsbeing observed for three out of the six samples.     

Biodegradability of volatile hydrocarbons of gasoline

The biodegradability under aerobic conditions of volatile hydrocarbons (4–6 carbons) contained in gasoline and consisting of n-alkanes, iso-alkanes, cycloalkanes and alkenes, was investigated. Activated sludge was used as the reference microflora. The biodegradation test involved the degradation of the volatile fraction of gasoline in closed flasks under optimal conditions. The kinetics of biodegradation was monitored by CO₂ production. Final degradation was determined by gas chromatographic analysis of all measurable hydrocarbons (12 compounds) in the mixture after sampling the headspace of the flasks. The degradation of individual hydrocarbons was also studied with the same methodology. When incubated individually, all hydrocarbons used as carbon sources, except 2,2-dimethylbutane and 2,3-dimethylbutane, were completely consumed in 30 days or less with different velocities and initial lag periods. When incubated together as constituents of the light gasoline fraction, all hydrocarbons were metabolised, often with higher velocities than for individual compounds. Cometabolism was involved in the degradation of dimethyl isoalkanes. Received: 19 October 1999 / Received revision: 21 January 2000 / Accepted: 23 January 2000     

Demonstrating the suitability of genetic algorithms for driving microbial ecosystems in desirable directions

The functioning of natural microbial ecosystems is determined by biotic interactions, which are in turn influenced by abiotic environmental conditions. Direct experimental manipulation of such conditions can be used to purposefully drive ecosystems toward exhibiting desirable functions. When a set of environmental conditions can be manipulated to be present at a discrete number of levels, finding the right combination of conditions to obtain the optimal desired effect becomes a typical combinatorial optimisation problem. Genetic algorithms are a class of robust and flexible search and optimisation techniques from the field of computer science that may be very suitable for such a task. To verify this idea, datasets containing growth levels of the total microbial community of four different natural microbial ecosystems in response to all possible combinations of a set of five chemical supplements were obtained. Subsequently, the ability of a genetic algorithm to search this parameter space for combinations of supplements driving the microbial communities to high levels of growth was compared to that of a random search, a local search, and a hill-climbing algorithm, three intuitive alternative optimisation approaches. The results indicate that a genetic algorithm is very suitable for driving microbial ecosystems in desirable directions, which opens opportunities for both fundamental ecological research and industrial applications.     

Integrating sequence and structural biology with DAS

Background  

The Distributed Annotation System (DAS) is a network protocol for exchanging biological data. It is frequently used to share annotations of genomes and protein sequence.     

Species- and tissue-dependent effects of NO and cyclic GMP on cardiac ion channels

Biochemical studies have established the presence of a NO pathway in the heart, including sources of NO and various effectors. Several cardiac ion channels have been shown to be modified by NO, such as L-type Ca(2+), ATP-sensitive K(+), and pacemaker f-channels. Some of these effects are mediated by cGMP, through the activity of three main proteins: the cGMP-dependent protein kinase (PKG), the cGMP-stimulated phosphodiesterase (PDE2) and the cGMP-inhibited PDE (PDE3). Other effects appear independent of cGMP, as for instance the NO modulation of the ryanodine receptor-Ca(2+) channel. In the case of the cardiac L-type Ca(2+) channel current (I(Ca,L)), both cGMP-dependent and cGMP-independent effects have been reported, with important tissue and species specificity. For instance, in rabbit sinoatrial myocytes, NO inhibits the beta-adrenergic stimulation of I(Ca,L) through activation of PDE2. In cat and human atrial myocytes, NO potentiates the cAMP-dependent stimulation of I(Ca,L) through inhibition of PDE3. In rabbit atrial myocytes, NO enhances I(Ca,L) in a cAMP-independent manner through the activation of PKG. In ventricular myocytes, NO exerts opposite effects on I(Ca,L): an inhibition mediated by PKG in mammalian myocytes but by PDE2 in frog myocytes; a stimulation attributed to PDE3 inhibition in frog ventricular myocytes but to a direct effect of NO in ferret ventricular myocytes. Finally, NO can also regulate cardiac ion channels by a direct action on G-proteins and adenylyl cyclase.