Use of the MALDI BioTyper system with MALDI–TOF mass spectrometry for rapid identification of microorganisms

In a clinical diagnosis microbiology laboratory, the current method of identifying bacterial isolates is based mainly on phenotypic characteristics, for example growth pattern on different media, colony morphology, Gram stain, and various biochemical reactions. These techniques collectively enable great accuracy in identifying most bacterial isolates, but are costly and time-consuming. In our clinical microbiology laboratory, we prospectively assessed the ability of matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI–TOF MS) to identify bacterial strains that were routinely isolated from clinical samples. Bacterial colonies obtained from a total of 468 strains of 92 bacterial species isolated at the Department of Clinical Laboratory at Chiba University were directly placed on target MALDI plates followed by addition of CHCA matrix solution. The plates were then subjected to MALDI–TOF MS measurement and the microorganisms were identified by pattern matching with the libraries in the BioTyper 2.0 software. Identification success at the species and genus levels was 91.7% (429/468) and 97.0% (454/468), respectively. MALDI–TOF MS is a rapid, simple, and high-throughput proteomic technique for identification of a variety of bacterial species. Because colony-to-colony differences and effects of culture duration on the results are minimal, it can be implemented in a conventional laboratory setting. Although for some pathogens, preanalytical processes should be refined, and the current database should be improved to obtain more accurate results, the MALDI–TOF MS based method performs, in general, as well as conventional methods and is a promising technology in clinical laboratories.     

Design and stereoselective synthesis of four peptide nucleic acid monomers with cyclic structures in backbone

Four isomers of the monomer of peptide nucleic acid (PNA) were derived from (2S,4R)‐4‐hydroxyproline; they had different stereochemistries at the C² and C⁴ positions in the pyrrolidine ring. These different backbone conformations corresponding to four different stereochemistries were realized through a combination of inversions at the C² and the C⁴ positions in pyrrolidine ring. The obtained backbone frameworks were reacted with N‐benzoyl thymine to give the corresponding PNA monomers. Spectroscopic comparison of the resultant monomers confirmed their stereochemistries. J. Heterocyclic Chem., (2011).     

Immobilization of folic acid on Eu3+-doped nanoporous silica spheres

Folic acid (FA) was immobilized on Eu(3+)-doped nanoporous silica spheres (Eu:NPSs) through mediation of the 3-aminopropyltriethoxysilane adlayer. The ordered nanopores of Eu:NPS were preserved by the immobilization. The FA-immobilized Eu:NPSs showed the characteristic photoluminescence peak due to interactions between the FA molecules and Eu(3+) ions, and highly dispersed stability in phosphate buffered saline.     

The effect of Cl...π interactions on the conformations of 4‐chloro‐5‐(2‐phenoxyethoxy)phthalonitrile and 4‐chloro‐5‐[2‐(pentafluorophenoxy)ethoxy]phthalonitrile

4‐Chloro‐5‐(2‐phenoxyethoxy)phthalonitrile, C₁₆H₁₁ClN₂O₂, (I), and 4‐chloro‐5‐[2‐(pentafluorophenoxy)ethoxy]phthalonitrile, C₁₆H₆ClF₅N₂O₂, (II), show different types of electrostatic interaction. In (I), the phenoxy and phthalonitrile (benzene‐1,2‐dicarbonitrile) moieties are well separated in an open conformation and intermolecular C—H...π interactions are observed in the crystal packing. On the other hand, in (II), the pentafluorophenoxy moiety interacts closely with the Cl atom to form a folded conformation containing an intramolecular halogen–π interaction.     

Cost‐efficient monitoring of continuous‐time stochastic processes based on discrete observations

Planning a cost‐efficient monitoring policy of stochastic processes arises from many industrial problems. We formulate a simple discrete‐time monitoring problem of continuous‐time stochastic processes with its applications to several industrial problems. A key in our model is a doubling trick of the variables, with which we can construct an algorithm to solve the problem. The cost‐efficient monitoring policy balancing between the observation cost and information loss is governed by an optimality equation of a fixed point type, which is solvable with an iterative algorithm based on the Feynman‐Kac formula. This is a new linkage between monitoring problems and mathematical sciences. We show regularity results of the optimization problem and present a numerical algorithm for its approximation. A problem having model ambiguity is presented as well. The presented model is applied to problems of environment, ecology, and energy, having qualitatively different target stochastic processes with each other.     

Preparation of magnetic nanoparticles by the use of self-assembled fluorinated oligomeric aggregates—A new approach to the dispersion of magnetic particles on poly(methyl methacrylate) film surface

Fluoroalkyl end-capped acrylic acid oligomer-encapsulated magnetic nanoparticles were prepared by the coprecipitation of aqueous ferric and ferrous ions in the presence of the corresponding oligomers under alkaline conditions. The dynamic light scattering measurements showed that these fluorinated oligomer magnetic nanoparticles were encapsulated in the self-assemblies of fluoroalkyl end-capped oligomers. Fluoroalkyl end-capped oligomer-encapsulated magnetic nanoparticles thus obtained were applied to the dispersion of magnetic particles on the poly(methyl methacrylate) film surface to exhibit not only the surface active property imparted by fluorine but also magnetic behavior toward a permanent magnet.     

Oxidative coupling polymerization of 2,3‐dihydroxynaphthalene with dinuclear‐type copper(II) catalyst

The oxidative coupling polymerization of 2,3‐dihydroxynaphthalene with the novel dinuclear‐type copper(II) catalysts successfully produced poly(2,3‐dihydroxy‐1,4‐naphthylene). For example, the MeOH‐insoluble polymer with a number average molecular weight of 4.4 × 10³ from the polymerization using the complex of CuCl₂ and N,N′‐bis(2‐morpholinoethyl)‐p‐xylylenediamine ( p ‐ 1 ) at room temperature under an O₂ atmosphere followed by acetylation of the hydroxyl groups was obtained in 63% yield. The structures of the tetraamine ligands and the counter anion of the copper(II) salts significantly influenced the catalyst activity. The polymerization of 2,2′‐dimethoxy‐1,1′‐binaphthalene‐3,3′‐diol with the 2CuCl₂‐ p ‐ 1 catalyst, however, resulted in a lower yield. © 2005 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 43: 1635–1640, 2005     

Finding of Optimal Calcium Ion Probes for Fluorescence Lifetime Measurement

We have investigated the fluorescence lifetime properties of 8 calcium ion probes, calcium-green-1, calcium green-2, calcium green-5N, calcium orange, oregon green 488 BAPTA-6F, fluo-3, fluo-4, and fluo-5N. We found that the decay time of calcium green-5N varied more sensitively with calcium concentration than calcium green-1 which was known to be a highly sensitive probe. We have also found that the center of observable range of calcium concentration by fluorescence lifetime measurement is lower than that by fluorescence intensity measurement.     

Synthetic studies of the cyclic depsipeptides bearing the 3-amino-6-hydroxy-2-piperidone (Ahp) unit. Total synthesis of the proposed structure of micropeptin T-20

The first total synthesis of a cyclic depsipeptide possessing the 3-amino-6-hydroxy-2-piperidone (Ahp) unit was successfully achieved in a convergent manner by the oxidative construction of the Ahp unit at the later stage of the synthesis. This synthetic work provides data indicating that the structure of the target Ahp-depsipeptide, micropeptin T-20, should be re-examined.