MS-Express: data-extracting and -processing software for high-throughput experimentation with mass spectrometry

High-throughput experiments (HTE) result in large amounts of raw data that have to be evaluated for sample classification. Especially mass spectrometry, a widely used detection method in catalytic HTE applications, produces enormous amounts of data. In the past few years, in catalysts research, several test rigs based on mass spectrometric detection have been independently reported by different groups. In a typical HTE, the catalysts are tested sequentially; the recording of the scans, however, occurs continuously. For this reason, the scans of interest have to be extracted from the raw data, and scans belonging to the same sample have to be averaged in a tedious procedure before further processing. In this publication, we present our custom-designed software MS-Express (mass spectrometry data-extracting and -processing software), an efficient tool for HTE MS data evaluation. MS-Express not only sorts the data, it also establishes statistical significance with the help of reference and blank data and provides concise information about abundance and intensity distributions of expected peaks. A special feature is that the program also reports unexpected MS signals, which potentially lead to unexpected discoveries.     

Organische Phorsphorverbindungen XXXV. Die α-Aminoalkylierung von elementarem weissem Phosphor und von Biphosphinen. Darstellung und Reaktionen von dialkylaminomethyl-substituierten tertiären Phosphinoxiden [1]

Further examples of the α-aminoalkylation of white phosphorus and of a biphosphine are reported. The reaction is described using C-methyl piperidines, methylamine, ethylamine or propylamine as the amine component, and formaldehyde or benzaldehyde as the carbonyl component. The reaction mechanism has been clarified. Furthermore the direct synthesis of the diethylamine salt of phosphorous acid is reported. In addition, some physical and chemical properties of tris (dialkylamino-methyl)-phosphine oxides are given and their coordination compounds with nickel halides are described.     

Structural Basis for Recognition of Guanosine by a Synthetic Tricyclic Cytosine Analogue: Guanidinium G‐Clamp

An oligonucleotide analogue containing a novel heterocyclic analogue, the guanidinium G‐clamp, was designed to allow formation of five H‐bonds to guanosine. The guanidinium group was introduced postsynthetically by treatment of the deprotected oligonucleotide containing a free amino group with a solution of 1H‐pyrazole‐1‐carboxamidine and purified by a combination of size‐exclusion chromatography and reversed‐phase HPLC. A single incorporation of this modification into an oligodeoxynucleotide sequence was found to increase duplex stability by 13° and 16° per modification to RNA and DNA, respectively. Crystals of a self‐complementary decamer sequence containing this modification were grown and diffracted to 1‐Å resolution. The structure was solved by molecular replacement and revealed that the modification forms additional H‐bonds to O(6) and N(7) of guanosine through the amino and imino N‐atoms, respectively. The origins of enhanced duplex stability are also attributed to increased stacking interactions mediated by the phenoxazine moiety of the G‐clamp and formation of H‐bond networks between the positively charged guanidinium group, H₂O molecules, and negatively charged O‐atoms from phosphates on the adjacent strand.     

Hyperfine structure and isotope shift of some even parity levels in the YbI spectrum

Using laser induced fluorescence spectroscopy the hyperfine structure of the even parity levels 4f ¹⁴6s6d ³ D ₁, 4f ¹⁴ 6s8s ³ S ₁ and 4f ¹³ 5d6s6p (7/2, 5/2)J=1,2,3 as well as of the odd parity level 4f ¹⁴ 6s6p ³ P ₂ in neutral ytterbium has been investigated. The isotope shift of the transitions 4f ¹⁴6s6p ³ P ₀ → 4f ¹⁴ 6s6p ³ D ₁ and 4f ¹⁴ 6s6p ³ P ₂ → 4f ¹⁴ 6s8s ³ S ₁, 4f ¹³ 5d6s6p (7/2, 5/2)J=1,2,3 could be measured with high accuracy. The results for the 4f ¹⁴ 6s6p ³ D ₁ level show a considerable influence of second order effects of the hyperfine interaction. The isotope shifts of the 4f ¹⁴ 6s8s ³ S ₁ and 4f ¹³ 5d6s6p (7/2, 5/2)J=1 levels indicate a possible configuration mixing for these levels.     

Automatic Bi trace analysis integrated in the manufacturing process of turbine blades

Summary In the manufacture of aero-engine components, auxiliary materials are used which impair mechanical properties if they are not completely removed afterwards. Taking the manufacture of turbine blades and vanes as an example, this investigation shows how the inclusion of an analysis stage in the fully-automatic production cycle makes it possible to monitor the thoroughness of the cleaning process. As indicator, the element Bi is used; the matrix consists of concentrated nitric acid with a high nickel content. Because of the imposition of a limiting value, it must be possible to determine differences in the Bi-content of 20 g/l. The main part of the paper concerns the selection of the most optimum process. The results using two types of AAS coupled with hydride generation are presented. The success of the complete system is illustrated by the summarized results.     

Site-specific amide hydrogen/deuterium exchange in E. coli thioredoxins measured by electrospray ionization mass spectrometry

Mass spectrometry as an analytical tool to study protein folding and structure by hydrogen/deuterium exchange is a relatively new approach. In this study, site-specific amide deuterium content was measured in oxidized and reduced E. coli thioredoxins by using the b(n) ions in electrospray ionization CID MS/MS experiments after 20-s incubation in D(2)O phosphate-buffered solution (pH 5.7). The deuterium levels correlated well with reported NMR-determined H/D exchange rate constants. The deuterium measured by y(n) ions, however, showed much less reliable correlation with rate exchange data. In general, residues in alpha helices and beta sheets, when measured by b(n) ions, showed low incorporation of deuterium while loops and turns had high deuterium levels. Most amide sites in the two protein forms showed similar deuterium levels consistent with the expected similarity of their structures, but there were some differences. The turn consisting of residues 18-22 in particular showed more variability in deuterium content consistent with reported structural differences in the two forms. The deuterium uptake by thioredoxins alkylated at Cys-32 by S-(2-chloroethyl)glutathione and S-(2-chloroethyl)cysteine, in peptides 1-24 and 45-58, was similar to that observed for oxidized and reduced thioredoxins, but several residues, particularly Leu-53 and Thr-54, showed slightly elevated deuterium levels, suggesting that structural changes had occurred from alkylation of the protein at Cys-32. It is concluded that b(n) ions are reliable for determining the extent of site-specific amide hydrogen isotope exchange and that mass spectrometry is useful as a complementary technique to NMR and other analytical methods for probing regional structural characteristics of proteins.     

Electrophoretic clean-up of organic acids from coffee for the GC/MS analysis

The clean-up presented here includes a free flow field step electrophoresis followed by ultrafiltration. Thus, organic acids can be separated from non-acidic and high-molecular compounds in roasted and instant coffee. The acids are identified by gas chromatography/mass spectrometry after freeze-drying and trimethylsilylation. With the method presented, 31 acids could be identified in commercial roasted coffee blends and in instant coffee, among them for the first time in coffee: 3-hydroxypropionic, 2-oxobutyric, glyceric, 2,4-dihydroxybutyric, 5-hydroxymethylfuran-2-carboxylic and 2-hydroxyglutaric acid.