A new highly selective physicochemical assay to measure NAD+ in intact cells

A simple, fast, and highly specific chromatographic method for measuring the content of NAD+ in intact cells has been developed. This procedure involves the separation of NAD+ from the bulk of acid-soluble nucleosides, nucleotides, and other pyridine containing molecules by affinity chromatography on dihydroxyboronyl-Bio-Rex. The boronate purified preparations were utilized for the quantification of NAD+ by strong anion exchange high-pressure liquid chromatography under isocratic conditions using a low salt buffer system. The overall recovery of the method exceeded 80%. This new method was applied to determine the extent of NAD+ consumption in intact hepatocytes following treatment with two different DNA damaging agents. A major advantage of this method is that it allows for the simultaneous determination of poly(ADP-ribose) in the acid-insoluble fraction of the same sample.     

Poly ADP-ribosylation of proteins. Processivity of a post-translational modification

The nuclear enzyme poly(ADP-ribose) polymerase (EC 2.4.2.30) participates in DNA excision repair by post-translational selfmodification ("automodification") and the modification of other chromatin proteins ("heteromodification") with ADP-ribose polymers. We have studied the molecular mechanism of these reactions in a reconstituted in vitro system. After activation by DNA, poly(ADP-ribose) polymerase produces polymers with a distinct size pattern. These polymers are attached to a small subfraction of enzyme molecules. As the reaction progresses, more enzyme molecules are recruited for modification with an identical polymer size pattern. Likewise, the auto- and heteromodification reaction in nucleosomal core particles involves the consecutive addition of a highly conserved polymer size pattern to the acceptor proteins. Thus, a highly conserved polymer size pattern may constitute the molecular signal priming chromatin proteins for a role in DNA excision repair in vivo. The priming reaction is processive.     

The Protector Species Hypothesis: Do Black Skimmers Find Refuge from Predators in Gull-billed Tern Colonies?

The protector-species hypothesis explains mixed-species coloniality on the basis of benefits individuals of a species may receive by nesting with another species, the ‘protector’ species, that responds aggressively to potential threats. The reactions of nesting individuals to both natural and model predators were observed to determine whether black skimmers (Rhynchops niger) gain an antipredator advantage by nesting with gull-billed terns (Sterna nilotica). Observations of natural predators were gathered from three mixed-species and three single-species (black skimmers) subcolonies. Natural predators most commonly encountered by the colonies were herring gulls (Larus argentatus), laughing gulls (Larus atricilla), and ruddy turnstones (Arenaria interpres). Gull-billed terns responded to the gulls, but not to the turnstones, in higher proportions than did black skimmers. Two decoys, a mink and a gull, were used to simulate predatory encounters, and a duck decoy was used as a control at two mixed-species and one single-species subcolonies. Gull-billed terns responded in significantly higher proportions than did skimmers to all decoy treatments in the mixed-species subcolonies. Mobbing of both natural and model predators by the terns suggests that skimmers may gain a reproductive advantage by nesting with these terns. However, the response of black skimmers to both natural and simulated predators was independent of the presence of gull-billed terns in the colony, indicating that black skimmers may not perceive these objects as threats, or may react differently to predators than do gull-billed terns.     

Purification and partial amino acid sequence analysis of two distinct tumor necrosis factor receptors from HL60 cells

Two distinct tumor necrosis factor (TNF) receptors of 55- and 75-kDa apparent molecular masses previously identified on the cell surface by monoclonal antibodies have been solubilized with Triton X-100 from HL60 cells. A filter-based dot blot assay was developed to monitor specific 125I-TNF alpha binding during fractionation of the cell extract. By a combination of immuno- and ligand affinity chromatography and reverse phase high performance liquid chromatography both receptor proteins were purified to apparent homogeneity. Analysis by sodium dodecyl sulfate-polyacrylamide gel electrophoresis showed two bands at 55 and 51 kDa for the 55-kDa TNF receptor and a major 75-kDa and a minor 65-kDa band for the 75-kDa TNF receptor. All these bands specifically bound TNF alpha and TNF beta in ligand blot experiments. The exclusive specificity of monoclonal antibodies of the utr series for the 75.65-kDa bands and of the htr series for the 55.51-kDa bands was demonstrated with the purified antigens on Western blots. Both TNF receptor types were found to contain N-linked carbohydrates. N-terminal amino acid sequence analysis of the 55- and 51-kDa bands of the 55-kDa TNF receptor revealed identical sequences suggesting a possible truncation at the C-terminal end. Two different N-terminal sequences were determined for the 65-kDa band. One corresponded to the published sequence of ubiquitin; the other was therefore assumed to be a unique sequence of the 75-kDa TNF receptor. Additional internal sequences of this receptor were determined after proteolytic cleavage.     

Novel anti-inflammatory and analgesic agents: synthesis,molecular docking and in vivo studies

Twelve new derivatives of benzothiazole bearing benzenesulphonamide and carboxamide were synthesised and investigated for their in vivo anti-inflammatory, analgesic and ulcerogenic activities. Molecular docking showed an excellent binding interaction of the synthesised compounds with the receptors, with 17c showing the highest binding energy (–12.50?kcal/mol). Compounds 17c and 17i inhibited carrageenan-induced rat paw oedema at 72, 76, and 80% and 64, 73, and 78% at 1?h, 2?h, and 3?h, respectively. In the analgesic activity experiment, compounds 17c, 17?g, and 17i had ED₅₀ (µM/kg) of 96, 127, and 84 after 0.5?h; 102, 134, and 72 after 1?h and 89, 156, and 69 µM/kg after 2?h, respectively, which were comparable with 156, 72, and 70 µM/kg for celecoxib. The ulcerogenic index of the most active derivatives 17c and 17i were 0.82 and 0.89, respectively, comparable to 0.92 for celecoxib. The physicochemical studies of the new derivatives showed that they will not have oral bioavailability problems.     

Effect of trophic status of a deep-water lake on breeding Great Crested Grebes Podiceps cristatus during a phase of recovery from eutrophication: a long-term study

Capsule: Trophic status of a deep-water lake was the main driver of changes in breeding population size of Great Crested Grebes Podiceps cristatus while reproductive success was also strongly affected by weather parameters.

Aims: To determine the effects of changes in nutrient status of a formerly highly-eutrophicated deep-water lake and other environmental parameters on a Great Crested Grebe population during a phase of re-oligotrophication.

Methods: Annual surveys were carried out on a natural lake in Switzerland over a period of 25 years to determine breeding population size and reproductive success. The effects of phosphorus content, other limnological parameters and weather variables were analysed with quasi-Poisson models.

Results: The breeding population increased from 80 pairs in 1992 to 417 pairs in 2001, after which numbers showed strong fluctuations. Total phosphorus content in the lake had a strong negative effect on breeding population size. A significant positive correlation was found with the national population index. Reproductive success fluctuated strongly but showed an overall decline. The model indicated positive effects on reproductive success of phosphorus and negative effects of the number of days with strong wind. Rapid water-level increases in early summer and water transparency in June led to higher proportions of late broods.

Conclusion: Phosphorus concentration was identified as the main driver affecting the breeding population of Great Crested Grebes during the phase of recovery of the lake from a highly-eutrophic state. Results indicate that mesotrophic to eutrophic conditions enabled a large population and high breeding success. Reproductive output was further negatively affected by strong wind during a critical breeding phase.     

Structural Insights into the Lipid A Transport Pathway in MsbA

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Cell spreading and focal adhesion dynamics are regulated by spacing of integrin ligands

Integrin-mediated adhesion is regulated by multiple features of the adhesive surface, including its chemical composition, topography, and physical properties. In this study we investigated integrin lateral clustering, as a mechanism to control integrin functions, by characterizing the effect of nanoscale variations in the spacing between adhesive RGD ligands on cell spreading, migration, and focal adhesion dynamics. For this purpose, we used nanopatterned surfaces, containing RGD-biofunctionalized gold dots, surrounded by passivated gaps. By varying the spacing between the dots, we modulated the clustering of the associated integrins. We show that cell-surface attachment is not sensitive to pattern density, whereas the formation of stable focal adhesions and persistent spreading is. Thus cells plated on a 108-nm-spaced pattern exhibit delayed spreading with repeated protrusion-retraction cycles compared to cells growing on a 58-nm pattern. Cell motility on these surfaces is erratic and nonpersistent, leaving thin membrane tethers bound to the RGD pattern. Dynamic molecular profiling indicated that the adhesion sites formed with the 108-nm pattern undergo rapid turnover and contain reduced levels of zyxin. These findings indicate that a critical RGD density is essential for the establishment of mature and stable integrin adhesions, which, in turn, induce efficient cell spreading and formation of focal adhesions.     

Both tumor necrosis factor receptor types mediate proliferative signals in human mononuclear cell activation.

TNF is a highly pleiotropic cytokine. The recent identification of two distinct cellular receptors for TNF may provide explanations for the many different TNF activities. We have investigated the expression of the two receptor types, TNFR alpha (75 kDa) and TNFR beta (55 kDa), in human PBMC. Both receptors were found simultaneously expressed by cytofluorimetric, radioligand binding and Northern analysis of naive as well as PHA-activated PBMC. The expression levels in the CD14+ and CD14- subsets were different. Both receptors were strongly expressed in the CD14+ subset. The expression of the receptors in the CD14-, CD3+, CD4+, and CD8+ subsets was lower and similar among these subsets, but TNFR alpha was expressed at higher level than TNFR beta. To dissect the functional roles of the two receptors, we studied the growth factor activity of TNF in the late proliferative responses of PBMC to PHA. In the first approach, the activity of either receptor was blocked by neutralizing, receptor type specific antibodies. In a second approach, the ligand, TNF, was inhibited by a neutralizing antiserum, and the cells were restimulated using type-specific anti-TNFR antibodies with agonistic activity. It was found that both receptor types mediated signals required for proliferative responses of PBMC to PHA from day 4 to day 8 in culture. The cell responses to the activation of either receptor type appeared to be independent, because one receptor could not compensate for the reduction in cell activation caused by blocking the other receptor type.