Independent Candidate Serum Protein Biomarkers of Response to Adalimumab and to Infliximab in Rheumatoid Arthritis: An Exploratory Study

Response to treatment of rheumatoid arthritis shows large inter-individual variability. This heterogeneity is observed with all the anti-rheumatic drugs, including the commonly used TNF inhibitors. It seems that drug-specific and target-specific factors lead individual patients to respond or not to a given drug, although this point has been challenged. The search of biomarkers distinguishing responders from non-responders has included shotgun proteomics of serum, as a previous study of response to infliximab, an anti-TNF antibody. Here, we have used the same study design and technology to search biomarkers of response to a different anti-TNF antibody, adalimumab, and we have compared the results obtained for the two anti-TNF drugs. Search of biomarkers of response to adalimumab included depletion of the most abundant serum proteins, 8-plex isobaric tag for relative and absolute quantitation (iTRAQ) labeling, two-dimensional liquid chromatography fractionation and relative quantification with a hybrid Orbitrap mass spectrometer. With this approach, 264 proteins were identified in all the samples with at least 2 peptides and 95% confidence. Nine proteins showed differences between non-responders and responders (P < 0.05), representing putative biomarkers of response to adalimumab. These results were compared with the previous study of infliximab. Surprisingly, the non-responder/responder differences in the two studies were not correlated (r_s = 0.07; P = 0.40). This overall independence with all the proteins showed two identifiable components. On one side, the putative biomarkers of response to either adalimumab or infliximab, which were not shared and showed an inverse correlation (r_s = -0.69; P = 0.0023). On the other, eight proteins showing significant non-responder/responder differences in the analysis combining data of response to the two drugs. These results identify new putative biomarkers of response to treatment of rheumatoid arthritis and indicate that they are notably drug-specific.     

FoodChain-Lab: A Trace-Back and Trace-Forward Tool Developed and Applied during Food-Borne Disease Outbreak Investigations in Germany and Europe

FoodChain-Lab is modular open-source software for trace-back and trace-forward analysis in food-borne disease outbreak investigations. Development of FoodChain-Lab has been driven by a need for appropriate software in several food-related outbreaks in Germany since 2011. The software allows integrated data management, data linkage, enrichment and visualization as well as interactive supply chain analyses. Identification of possible outbreak sources or vehicles is facilitated by calculation of tracing scores for food-handling stations (companies or persons) and food products under investigation. The software also supports consideration of station-specific cross-contamination, analysis of geographical relationships, and topological clustering of the tracing network structure. FoodChain-Lab has been applied successfully in previous outbreak investigations, for example during the 2011 EHEC outbreak and the 2013/14 European hepatitis A outbreak. The software is most useful in complex, multi-area outbreak investigations where epidemiological evidence may be insufficient to discriminate between multiple implicated food products. The automated analysis and visualization components would be of greater value if trading information on food ingredients and compound products was more easily available.     

Single-Electron-Transfer in the Reduction of 1, 2-Dioxetanes by Biologically Active Substrates

Substances of low oxidation potential, which can also make available protons and hydrogen atoms, e.g. phenothiazines. NADH, and ascorbic acid efficiently reduce 1, 2-dioxetanes to their vic-diols by single-electron-transfer; a significant side reaction is catalytic decomposition of dioxetanes into the corresponding ketone fragments     

Spin Trapping Evidence for Radical Generation by Isolated Hearts and Cultured Heart Cells

The spin trap 5,5-dimethyl-l-pyrroline-l-oxide (DMPO) has been applied to monitor the generation of free oxy-radicals in samples derived from isolated hearts and heart cells. · OH was trapped in the effluent of isolated hearts in the early phase of reperfusion following an ischemia time of only 10min. Radical detection was possible even when the cardioactive DMPO was added to the effluent after draining off the heart, demonstrating that the short-lived · OH was generated by components released from the affected heart. These results support the hypothesis that radicals are of relevance for reperfusion injury.

By omitting antioxidants commonly used for incubation media of cultured cells, it was possible for the first time to demonstrate the formation of · OH in the incubation solution of cardiac cells.     

Characteristics of Sorbitol Uptake in Rat Glial Primary Cultures

Uptake of [U-14C]sorbitol was studied in astrogliarich rat primary cultures. Initial rate of sorbitol uptake is proportional to sorbitol concentration between 20 microM and 400 mM. Sorbitol transport is not inhibited by glucose, fructose, and a variety of structurally related polyols, or by cytochalasin B, an inhibitor of glucose transport. Phloretin, phlorizin, filipin, and n-hexanol, all compounds that alter the properties of biological membranes, and the sulfhydryl reagent p-chloromercuribenzoate inhibit sorbitol uptake to various degrees. Variation in the concentrations of extracellular Na+ and K+ does not affect transfer of sorbitol across the cell membrane. It is concluded that sorbitol is taken up into glial cells by a diffusion process, not involving a carrier and probably not through the lipid bilayer, but through a proteinaceous channel-like structure.     

Phenylketonuria: detection of a frequent haplotype 4 allele mutation

Summary By sequence analysis of 94 phenylketonuria (PKU) alleles using polymerase chain reaction (PCR) based techniques, we identified a G to A transition in exon 5 of the human phenylalanine hydroxylase gene. This base substitution predicts an Arg¹⁵⁸Glu¹⁵⁸ amino acid exchange and is strongly associated with the mutant haplotype 4 PKU allele.     

The amyloplast-targeting transit peptide of the waxy protein of maize also mediates protein transport in vitro into chloroplasts

Summary The transit peptide of the waxy protein of maize which in the maize plant targets this protein only into amyloplasts was used for in vitro protein transport experiments with isolated amyloplasts from maize and chloroplasts from maize, pea and potato. In the presence of both intact and disrupted amyloplasts an artificial preprotein (TP30), consisting of the waxy transit peptide plus the first 34 amino acids of the mature waxy protein fused in-frame to the -glucuronidase of Escherichia coli, is processed to the size expected when the transit peptide is cleaved off. The chloroplasts studied show in vitro import and correct processing of both TP30 and the authentic waxy protein, but not of the -glucuronidase without the waxy transit peptide. The in vitro import of TP30 into chloroplasts is almost as efficient as that of the precursor of the small subunit of pea ribulose-1,5-bisphosphate carboxylase, a nuclear-encoded chloroplast protein, whereas the waxy protein accumulates to a lesser extent in the chloroplasts. Since the amino-terminal transit peptides of TP30 and the waxy precursor are the same, this difference must be due to the mature part of the waxy protein. One possible explanation is the observed instability of the waxy protein in the presence of chloroplasts.     

Interspecific relationship of ten European orchid species as revealed by enzyme electrophoresis

Ten species of orchid plants belonging to the generaOrchis (7),Dactylorhiza (2), andGymnadenia (1) were analyzed by enzyme electrophoresis. Each species can be identified by a combination of enzyme bands different from those of all other species examined. The electrophoretic data were used for the construction of phenetic and phylogenetic trees with the help of computer programs. The trees were almost identical regardless which method was used. Our results differ considerably from a classification based on morphological evidence. The electrophoretic data indicate that the genusOrchis is not a monophyletic group.     

Cometabolic degradation of 2- and 3-chloroaniline because of glucose metabolism byRhodococcus sp. An 117

Various organic compounds were tested for their ability to stimulate degradation of monochloroanilines by aniline-grown cells ofRhodocuccus sp. An 117 in 0.1 M phosphate buffer, pH 6.9. Among them, glucose proved to be the most effective. In its presence both 2- and 3-chloroaniline were degraded with a transient accumulation of 3- and 4-chlorocatechnol, respectively. The turnover rates were 43 and 57% compared with the unsubstituted aniline, whereas in the case of 4-chloroaniline the rates did not exceed 5%. Aniline, when used as the additional carbon source, stimulated 3-chloroaniline degradation. With the exception of a certain initial delay in removal of the monochloroaniline, the respective kinetics resembled those seen with glucose as the cosubstrate. Evidence is presented that the enzymes involved in monochloroaniline turnover were identical with those responsible for aniline catabolism. The results obtained suggest that the cometabolic effect of glucose was due to certain products derived from the metabolism of the cosubstrate. The molar ratio between the amount of glucose added, on the one hand, and the amount of 2- or 3-chloroaniline converted, on the other hand, was found to be 0.4–0.5∶1.0.     

Human serum deoxyribonuclease assay in (3H)DNA-polyacrylamide gels without staining artifacts

A method is described for detecting and evaluating serum deoxyribonuclease (DNase) activities after their separation by disc electrophoresis in polyacrylamide gels containing radioactively labeled DNA.After the electrophoretic run the gels are sliced, incubated in an appropriate buffer, and the amount of diffusible radioactive DNA fragments formed by the action of DNases in the incubation buffer is determined.The method has a high sensitivity as well as a quantitative reproducibility within ±5% even at low enzyme activities down to 10 pg Worthington DNase I equivalents.This method has been found superior to procedures that use staining of the gels for unhydrolyzed DNA, where irrelevant stained bands may invalidate the results. Thus, we get meaningful results even with human serum.