Aggressive dereplication using UHPLC–DAD–QTOF: screening extracts for up to 3000 fungal secondary metabolites

In natural-product drug discovery, finding new compounds is the main task, and thus fast dereplication of known compounds is essential. This is usually performed by manual liquid chromatography-ultraviolet (LC-UV) or visible light-mass spectroscopy (Vis-MS) interpretation of detected peaks, often assisted by automated identification of previously identified compounds. We used a 15 min high-performance liquid chromatography–diode array detection (UHPLC–DAD)–high-resolution MS method (electrospray ionization (ESI)⁺ or ESI^?), followed by 10–60 s of automated data analysis for up to 3000 relevant elemental compositions. By overlaying automatically generated extracted-ion chromatograms from detected compounds on the base peak chromatogram, all major potentially novel peaks could be visualized. Peaks corresponding to compounds available as reference standards, previously identified compounds, and major contaminants from solvents, media, filters etc. were labeled to differentiate these from compounds only identified by elemental composition. This enabled fast manual evaluation of both known peaks and potential novel-compound peaks, by manual verification of: the adduct pattern, UV–Vis, retention time compared with log D, co-identified biosynthetic related compounds, and elution order. System performance, including adduct patterns, in-source fragmentation, and ion-cooler bias, was investigated on reference standards, and the overall method was used on extracts of Aspergillus carbonarius and Penicillium melanoconidium, revealing new nitrogen-containing biomarkers for both species.     

Identification of single stranded regions of DNA by enzymatic digestion with matrix-assisted laser desorption/ionization analysis

Elucidating structure function relationships of DNA in cellular processes requires fast, reliable methods that can be applied to picomole amounts of sample. Higher order structure can be inferred by distinguishing paired and unpaired regions. It is shown here that enzymatic digestion coupled with product analysis by matrix-assisted laser desorption ionization (MALDI) is able to identify unpaired bases within structured DNA regions. The method is demonstrated with DNA duplexes having a five nucleotide mismatch as a 5' overhang, a 3' overhang, and an internal loop. Exo- and endonuclease digestions are performed under solution conditions (temperature, annealing, and enzyme buffers) which promote base pairing and specific enzyme activity. For each type of mismatch, the length and sequence of the single stranded region can be inferred from MALDI spectra taken as a function of digestion time.     

Chlorobiphenyls in sewage sludge; comparison of extraction methods

Six extraction methods for the analysis of PCBs (CB-28, CB-52, CB-101, CB-118, CB-138, CB-153 and CB-180) in sewage sludge were tested. A certified reference material (CRM 392) was used for the evaluation of the performance of the methods. Soxhlet-Dean-Starch with toluene as solvent, Soxhlet with hexane:acetone (2:3), cold digestion/saponification with 2 mol/L KOH in methanol followed by partition with hexane, and sonicated liquid-solid extraction with hexane:acetone (1:1) produced accurate results (97%, 93%, 104%, and 88%, respectively) with acceptable precisions (6.2%, 6.8%, 15% and 12%, respectively). Results in close agreement with the certified value for all congeners were obtained by treatment with BF₃-methanol prior to partition with dichloromethane. However, this is a tedious procedure and involves the use of hazardous compounds. Cyclic steam distillation produced results with an accuracy of around 80% and a good precision (5.2%). The very low consumption of solvents and other expensive chemicals by this technique and the possibility of analyzing the extract directly without clean-up make it an interesting alternative to the more sophisticated methods. Column elution with dichloromethane was found to be less efficient (61%), but it is a rapid, direct method with a low consumption of solvents and it may therefore serve as screening method. Received: 29 April 1997 / Revised: 30 July 1997 / Accepted: 6 August 1997     

Field desorption mass spectrometry of 1-methylpyridinium salts

Quaternary pyridinium salts were investigated by field desorption, field ionization and electron impact mass spectrometry. Thermal decomposition of the salts under field desorption conditions was found to give very abundant volatile products, identified as the dihydro analogues and the ‘methides’ of the cations. The formation of the volatile compounds, especially those with molecular weights corresponding to those of the (cation ?1), (cation +1) and (cation +13) was studied in detail by deuterium and ¹³C labelling experiments.     

Equilibrium configuration and barriers of four fluorine substituted nitrobenzenes,obtained by microwave spectroscopy

MW Spectra of 3- and 4-fluoronitrobenzene in several torsional states and of 2- and 2,4,6-trifluoronitrobenzene in the ground state have been obtained. The inertial defects have been used to show that the 3- and 4-substituted molecules are planar and to find their twofold barriers (1428 cm^?1 and 1213 cm^?1 respectively). The 2- and 2,4,6-substituted molecules have very large negative inertial defects indicating non-planarity. The out-of-plane angles have been calculated (32° and 57° respectively).     

Field ionization mass spectrometry as a facile method for the study of the thermal formation of radicals

Electron impact spectra of thermolysis products of organic salts heated in the ion source of a mass spectrometer may give rise to organic ions corresponding to the cation of the salt. Field ionization mass spectrometry has been used as a facile method for detemining whether such an ion is due to ionization of the corresponding radical present in the gas phase, or to an electron impact induced fragmentation of a reaction product of higher mass. By comparison of the electron impact and field ionization spectra of a series of N-methyl pyridinium, tropylium and 1,2-dithiolylium salts it has been found possible to identify the radicals formed thermolytically, when present.     

Mass fragmentographic quantitation of ethotoin and some of its metabolites in human urine.

A method for the determination of ethotoin and its p-hydroxylated and dealkylated metabolites in urine has been developed. Ethotoin and the metabolites were extracted from acidified urine with ethyl acetate and silylated before injection into a combined gas chromatograph--mass spectrometer. Four partly identified metabolites were recorded, but their exact quantitation was not possible as pure reference substances were not available. The limit of sensitivity was far below the amounts of ethotoin and of its metabolites found in urine from patients treated with therapeutic doses of ethotoin.     

Error introduced into determination of pore size distribution by size exclusion chromatography

Simultaneous use of large standard molecules and small particles of the product examined gives rise to errors in pore size determination by size exclusion chromatography. This error is calculated for packings of spherical particles, thus making corrections possible.