Activities and regulation of peptidoglycan synthases

Peptidoglycan (PG) is an essential component in the cell wall of nearly all bacteria, forming a continuous, mesh-like structure, called the sacculus, around the cytoplasmic membrane to protect the cell from bursting by its turgor. Although PG synthases, the penicillin-binding proteins (PBPs), have been studied for 70 years, useful in vitro assays for measuring their activities were established only recently, and these provided the first insights into the regulation of these enzymes. Here, we review the current knowledge on the glycosyltransferase and transpeptidase activities of PG synthases. We provide new data showing that the bifunctional PBP1A and PBP1B from Escherichia coli are active upon reconstitution into the membrane environment of proteoliposomes, and that these enzymes also exhibit DD-carboxypeptidase activity in certain conditions. Both novel features are relevant for their functioning within the cell. We also review recent data on the impact of protein–protein interactions and other factors on the activities of PBPs. As an example, we demonstrate a synergistic effect of multiple protein–protein interactions on the glycosyltransferase activity of PBP1B, by its cognate lipoprotein activator LpoB and the essential cell division protein FtsN.     

Involvement of contractile elements in control of bioluminescence in Northern krill, <Emphasis Type="Italic">Meganyctiphanes norvegica</Emphasis> (M. Sars)

Inside the light organs of the bioluminescent (light-producing) crustacean Meganyctiphanes norvegica (krill), numerous capillaries drain haemolymph into the light-producing structure (lantern). We have investigated the arrangement and function of filamentous material found around the opening of the capillaries. These have been suggested to work as sphincters, controlling the haemolymph (i.e. oxygen) supply to the lantern and thereby the production of light. Electron microscopy shows that the filamentous material consists of thick and thin muscle filaments arranged in perpendicular blocks around the opening of each capillary. The actin probe rhodamine phalloidin has revealed that one component is filamentous actin. Clusters of vesicle-dense nerve profiles surround the cells containing filamentous material and antibodies against 5-hydroxytryptamine (5-HT) reveal that 5-HT containing nerves lead to the filamentous area. When exposed to the muscle-relaxing substances papaverine and verapamil, krill respond with luminescence, suggesting that the sphincter structures are functionally involved in the control of light production. Treatment with the muscle-contracting drugs Bay K8544 and thapsigargin gives no light response. Thus, 5-HT stimulates light production in krill; however, a combination of 5-HT and the muscle-relaxing drugs or Bay K8544 potentiates the effect of 5-HT. Thapsigargin quenches the response to 5-HT. Our results corroborate speculations of earlier authors who have suggested that the sphincter structures are of a muscular nature and important in controlling light production in krill. However, other parameters in addition to the oxygen supply to the lantern are involved in controlling bioluminescence in the light organs of M. norvegica. We acknowledge financial support from the Biodiversity Program of the Swedish Science Research Council and from the Royal Swedish Academy of Science for supporting work at the Kristineberg Marine Research Center. Electron microscopy equipment was granted by the Lundberg Research Foundation.     

Environmental determinants of the distribution of planktonic diplonemids and kinetoplastids in the oceans

We analysed a widely used barcode, the V9 region of the 18S rRNA gene, to study the effect of environmental conditions on the distribution of two related heterotrophic protistan lineages in marine plankton, kinetoplastids and diplonemids. We relied on a major published dataset (Tara Oceans) where samples from the mesopelagic zone were available from just 32 of 123 locations, and both groups are most abundant in this zone. To close sampling gaps and obtain more information from the deeper ocean, we collected 57 new samples targeting especially the mesopelagic zone. We sampled in three geographic regions: the Arctic, two depth transects in the Adriatic Sea, and the anoxic Cariaco Basin. In agreement with previous studies, both protist groups are most abundant and diverse in the mesopelagic zone. In addition to that, we found that their abundance, richness, and community structure also depend on geography, oxygen concentration, salinity, temperature, and other environmental variables reflecting the abundance of algae and nutrients. Both groups studied here demonstrated similar patterns, although some differences were also observed. Kinetoplastids and diplonemids prefer tropical regions and nutrient-rich conditions and avoid high oxygen concentration, high salinity, and high density of algae.     

Metabolic quenching of <Emphasis Type="Italic">Corynebacterium glutamicum</Emphasis>: efficiency of methods and impact of cold shock

Representative and valid cytoplasmic concentrations are essential for ensuring the significance of results in the field of metabolome analysis. One of the most crucial points in this respect is the sampling itself. A rapid and sudden stopping of the metabolism on a timescale that is much faster than the conversion rates of investigated metabolites is worthwhile. This can be achieved by applying of cold methanol quenching combined with reproducible, fast, and automated sampling. Unfortunately, quenching the metabolism by a sharp temperature shift leads to what is known as cold shock or the cell-leakage effect. In the present work, we applied a microstructure heat exchanger to analyze the cold shock effect using Corynebacterium glutamicum as a model microorganism. Using this apparatus together with a silicon pipe, it was possible to assay the leakage effect on a timescale starting at 1 s after cooling cell suspension. The high turnover rates not only require a rapid quenching technique, but also the correct application. Moreover, we succeeded in showing that even when the required appropriate setup of methanol quenching is not used, the metabolism is not stopped within the required timescale. By applying robust techniques like rapid sampling in combination with reproducible sample processing, we ensured fast and reliable metabolic inactivation during all steps.     

MreC and MreD balance the interaction between the elongasome proteins PBP2 and RodA

Rod-shape of most bacteria is maintained by the elongasome, which mediates the synthesis and insertion of peptidoglycan into the cylindrical part of the cell wall. The elongasome contains several essential proteins, such as RodA, PBP2, and the MreBCD proteins, but how its activities are regulated remains poorly understood. Using E. coli as a model system, we investigated the interactions between core elongasome proteins in vivo. Our results show that PBP2 and RodA form a complex mediated by their transmembrane and periplasmic parts and independent of their catalytic activity. MreC and MreD also interact directly with PBP2. MreC elicits a change in the interaction between PBP2 and RodA, which is suppressed by MreD. The cytoplasmic domain of PBP2 is required for this suppression. We hypothesize that the in vivo measured PBP2-RodA interaction change induced by MreC corresponds to the conformational change in PBP2 as observed in the MreC-PBP2 crystal structure, which was suggested to be the “on state” of PBP2. Our results indicate that the balance between MreC and MreD determines the activity of PBP2, which could open new strategies for antibiotic drug development.     

Ureolytic activity of Nitellopsis obtusa (Characeae)

The decomposition of urea by Nitellopsis obtusa from Characeae was investigated. The intact cells were exposed to the inhibition by two typical urease inhibitors: boric acid and fluoride ion, used as a criterion to define if urease or UAL-ase is responsible for the ureolytic activity of the algae. It was found that boric acid and fluoride ion are simple competitive and slow-binding competitive inhibitors of Nitellopsis obtusa enzyme respectively, which is the response characteristic of urease. The inhibition constants equal to 2.3 and 0.1 mM for boric acid and fluoride ion, when compared to those of jack bean urease, indicate that in the observed kinetic behaviour of Nitellopsis obtusa urease partake transport processes taking place in the intact cells.     

Linear Discriminant Functions for Stationary Time Series

Optimal classification rules based on linear functions which maximize the Chernoff distance, or the Morisita distance, or the Kullback-Leibler distance are studied here. We obtain an expression for the optimal linear discriminant function and show that the resulting linear procedure belongs to the Anderson-Bahadur admissible class. For the comparison of discriminant rules we use some index which is the measure of the accuracy of a given class of discriminant procedures. The asymptotic form of the discriminant function is also studied.