Comparison of Triple Quadrupole and Double Focusing Mass Spectrometers to Investigate Collision-Induced Dissociation and Metastable Ions of Glycoconjugates

Glycoconjugates, such as chromophore-labeled disaccharides and permethylated glycosphingolipids (GSL) were used for comparison of triple quadrupole and double focusing mass spectrometers in analysis of product ions. A profound effect of collision energy was observed in the product ion spectra of ceramide ions (fragment ions of permethylated GSL): more product ions were observed from a double focusing mass spectrometer. Besides collision energy, the structure of the analyte had a significant effect on the formation of product ions. Despite the fact that masses of protonated molecular ions (MH⁺) of permethylated GSL are significantly larger than their ceramide fragments, the low-energy and high-energy product ion spectra of MH⁺ are, in general, similar. In a double focusing mass spectrometer of reversed geometry, more metastable ions were observed in the first field free region (FFR) than in the second FFR. The metastable ions observed in the second FFR were similar to those observed in low-energy collision-induced dissociation (CID). Although a double focusing mass spectrometer is superior to triple quadrupole instrument for detection of product ions, the poor resolution in either the selection of precursor ion or in the product ion spectra can be a serious problem in analysis of a mixture with similar masses.     

异黄酮同分异构体的ESI-IT-TOF质谱特征及区别

采用电喷雾-离子阱-飞行时间串联质谱(ESI-IT-TOF)技术, 在正/负离子检测模式下对芒柄花素及其同分异构体7-甲氧基异黄酮的质谱裂解规律进行了系统研究. 实验结果表明, 该化合物在正、负离子模式下均得到了5级高分辨质谱. 结果显示, 二者在负离子模式下的碎片相同, 而在正离子模式下的碎片裂解不同. 根据正负离子模式的5级高分辨质谱推导了两者的可能裂解规律, 丰富了异黄酮的ESI-MSn数据, 为其它异黄酮类化合物的分析鉴定提供了有效的质谱方法.     

Primary to quaternary protein structure determination with electrospray ionization and magnetic sector mass spectrometry

Electrospray ionization with a forward-geometry magnetic sector mass spectrometer was used for collisionally activated dissociation studies of multiply charged polypeptides and for studying non-covalently bound protein systems. The high-resolution capabilities of a high-performance instrument allow the resolution of isotopic contributions for product ions and molecular ion species. Determination of product ion charge states by this method reduces difficulties in the interpretation of product ion mass spectra from multiply charged precursors, which are generated either in the atmospheric pressure/vacuum electrospray interface or in the collision chamber of the mass spectrometer. Extended tandem mass spectrometric experiments have the potential for sequencing larger polypeptides. However, evidence for isomerization of gas-phase product ions from substance P and substance P analogues was observed, complicating the interpretation of product ion spectra. Non-covalent complexes can also be studied by electrospray ionization magnetic sector MS. The higher m/z range of such an instrument is a major advantage for studying weakly bound systems, such as heme–protein systems (myoglobin, hemoglobin) and protein aggregates (concanavalin A), because of their tendency to form complex ions with relatively low charge states.     

Collision‐induced dissociation study of poly(2‐ethyl‐2‐oxazoline) using survival yields and breakdown curves

Poly(2‐ethyl‐2‐oxazoline), a synthetic polymer was analysed by mass spectrometry using different ion sources. Two distributions could be identified in the mass spectra which related to two different polymer series (one with hydrogen and hydroxyl end‐groups and the other with methyl and hydroxyl end‐groups). The fragmentation behaviour of the protonated oligomers was studied in a quadrupole time‐of‐flight mass spectrometer (MS) with electrospray, atmospheric pressure chemical ionization and direct analysis in real time soft ionization techniques. Three product ion series were identified in the MS/MS spectra independently of the ion source used. Based on the results, a mechanism was proposed for the dissociation by means of the accurate mass of the product ions, pseudo MS³ experiments and the energy dependence of the product ion intensity, i.e. breakdown curves. The survival yield method was used to highlight the correlation between the size of the oligomers and the laboratory frame collision energy. Copyright © 2012 John Wiley & Sons, Ltd.     

Calibration Point for Electron Ionization MS / MS spectra measured with multiquadrupole mass spectrometers

A protocol for establishing standard instrument conditions for measurement of product ion MS/MS spectra from parent ions produced by electron ionization is presented. Within this protocol, the ion at m/z 231 (C₅F₉ ⁺) from perfluorokerosene or perfluorotributylamine is selected as the parent ion and subjected to collision-induced dissociation. The relative intensities of product ions at m/z 69, 131, and 181 are monitored as a function of collision energy while keeping the target gas pressure constant within the range of 10^?4–10^?6 torr (measured), or a beam attenuation of approximately 30-70%. The collision energy at which the ion intensities for product ions at m/z 69 and 181 are equal is defined as the calibration point at that collision gas pressure; the intensity of the ion at m/z 131 is very close to this value as well. Electron ionization MS/MS spectra taken at the calibration point using two different multiquadrupole instruments show good reproducibility for several test compounds. The high degree of similarity may aid in the establishment of a MS/MS spectral library.     

The role of mobile protons in negative ion CID of oligosaccharides

Carbohydrates of all classes consist of glycoform mixtures built on common core units. Determination of compositions and structures of such mixtures relies heavily on tandem mass spectrometric data. Analysis of native glycans is often necessary for samples available in very low quantities and for sulfated glycan classes. Negative tandem mass spectrometry (MS) provides useful product ion profiles for neutral oligosaccharides and is preferred for acidic classes. In previous work from this laboratory, site-specific influences of sialylation on product ion profiles in the negative mode were elucidated. The present results show how the interplay of two other acidic groups, uronic acids and sulfates, determines product ion patterns for chondroitin sulfate oligosaccharides. Unsulfated chondroitin oligosaccharides dissociate to form C-type ions almost exclusively. Chondroitin sulfate oligosaccharides produce abundant B- and Y-type ions from glycosidic bond cleavage with C- and Z-types in low abundances. These observations are explained in terms of competing proton transfer reactions that occur during the collisional heating process. Mechanisms for product ion formation are proposed based on tandem mass spectra and the abundances of product ions as a function of collision energy.     

Collision Energetics in a Tandem Time-of-Flight (TOF/TOF) Mass Spectrometer with a Curved-Field Reflectron

Collisions of fullerene ions (C(60) (+)) with helium and neon were carried out over a range of laboratory energies (3-20 keV) on a unique tandem time-of-flight (TOF/TOF) mass spectrometer equipped with a curved-field reflectron (CFR). The CFR enables focusing of product ions over a wide kinetic energy range. Thus, ions extracted from a laser desorption/ionization (LDI) source are not decelerated prior to collision, and collision energies in the laboratory frame are determined by the source extraction voltages. Comparison of product ion mass spectra obtained following collisions with inert gases show a time (and apparent mass) shift for product ions relative to those observed in spectra obtained by metastable dissociation (unimolecular decay), consistent with impulse collision models, in which interactions of helium with fullerene in the high energy range are primarily with a single carbon atom. In addition, within a narrow range of kinetic energies an additional peak corresponding to the capture of helium is observed for fragment ions C(50) (+), C(52) (+), C(54) (+), C(56) (+) and C(58) (+).     

Characterization of a high-pressure quadrupole collision cell for low-energy collision-indneed dissociation

A RF-only quadrupole collision cell of new design has been evaluated for use in tandem mass spectrometry experiments as a component of a triple quadrupole mass spectrometer. The new design permits operation at values of collision gas thickness higher by 1 order of magnitude than those used in most cells of this type. When operated at sufficiently high collision gas pressures, the transmission efficiency for precursor ions increases with increasing pressure, often to values greater than those observed in the absence of collision gas. Simultaneously, the attainable resolving power for fragment ions across the entire mass-to-charge ratio range, even for multiply charged precursors, also increases to the point where isomers of a quadruply charged fragment are resolved. The performance of the cell, judged in terms of yields and resolution of fragment ions, has been investigated as a function of the nature and pressure of collision gas, the kinetic energy of the precursor ions that enter the cell, and of the size and charge state of the precursors. The enhanced performance is explicable in terms of a marked deceleration of all ions that emerge from the cell to very low energies, probably a few tens of millielectronvolts, so that the cell effectively acts as an ion source for the second mass filter (fragment ion analyzer) to provide a spectrum of ions of fixed axial energy. The high transmission efficiency appears to arise from a collisional focusing effect analogous to that exploited in three-dimensional RF ion traps. The low axial energies imply that ion transit times through the cell are sufficiently long (several milliseconds) that, in precursor ion experiments where the first mass filter is scanned, a hysteresis effect is observed. This implies that in this operating mode compromises must be sought between scan speed and quality of peak shape. Examples are given of spectra obtained under realistic operating conditions that employ flow injection of samples.     

Observations on the detection of b‐ and y‐type ions in the collisionally activated decomposition spectra of protonated peptides

Tandem mass spectrometric data from peptides are routinely used in an unsupervised manner to infer product ion sequence and hence the identity of their parent protein. However, significant variability in relative signal intensity of product ions within peptide tandem mass spectra is commonly observed. Furthermore, instrument‐specific patterns of fragmentation are observed, even where a common mechanism of ion heating is responsible for generation of the product ions. This information is currently not fully exploited within database searching strategies; this motivated the present study to examine a large dataset of tandem mass spectra derived from multiple instrumental platforms. Here, we report marked global differences in the product ion spectra of protonated tryptic peptides generated from two of the most common proteomic platforms, namely tandem quadrupole‐time‐of‐flight and quadrupole ion trap instruments. Specifically, quadrupole‐time‐of‐flight tandem mass spectra show a significant under‐representation of N‐terminal b‐type fragments in comparison to quadrupole ion trap product ion spectra. Energy‐resolved mass spectrometry experiments conducted upon test tryptic peptides clarify this disparity; b‐type ions are significantly less stable than their y‐type N‐terminal counterparts, which contain strongly basic residues. Secondary fragmentation processes which occur within the tandem quadrupole‐time‐of‐flight device account for the observed differences, whereas this secondary product ion generation does not occur to a significant extent from resonant excitation performed within the quadrupole ion trap. We suggest that incorporation of this stability information in database searching strategies has the potential to significantly improve the veracity of peptide ion identifications as made by conventional database searching strategies. Copyright © 2009 John Wiley & Sons, Ltd.     

Energy dependence of rearrangements of an N-terminal protecting group in tandem mass spectrometry of protonated tripeptides containing C-terminal arginine

The types and intensities of tandem mass spectrometric products of side-chain interactions were investigated with a hybrid tandem instrument. Positive-ion unimolecular decomposition and collisionally activated decomposition studies were conducted on the [M + H]⁺ ions of two N-benzyloxycarbonyl (Cbz or Z)-protected tripeptides, Cbz-Gly-Leu-Arg-NH₂ and Cbz-Gly-Pro-Arg-NH₂. The loss of benzyl alcohol (108 u) and the formation of other significant product ions and their dependence on collision energy and gas pressure suggest reaction between both ends of the molecule. Replacement of leucine with proline at the second position in the tripeptide produces a very intense [M + H ? 108]⁺ ion and fewer lower mass fragment ions in the tandem mass spectra for Cbz-Gly-Pro-Arg-NH₂ than in those for Cbz-Gly-Leu-Arg-NH₂.     

Efficiency of collisionally-activated dissociation and 193-nm photodissociation of peptide ions in fourier transform mass spectrometry

For tandem mass spectrometry, the Fourier transform instrument exhibits advantages for the use of collisionally-activated dissociation (CAD). The CAD energy deposited in larger ions can be greatly increased by extending the collision time to as much as 120 s, and the efficiency of trapping and measuring CAD product ions is many times greater than that found for triple-quadrupole or magnetic sector instruments, although the increased pressure from the collision gas is an offsetting disadvantage. A novel system that uses the same laser for photodesorption of ions and their subsequent photodissociation can produce complete dissociation of larger oligopeptide ions and unusually abundant fragment ions. In comparison to CAD, much more internal energy can be deposited in the primary ions using 193-nm photons, sufficient to dissociate peptide ions of m/z > 2000. Mass spectra closely resembling ion photodissociation spectra can also be obtained by' neutral photodissociation (193-nm laser irradiation of the sample) followed by ion photodesorption.     

Classical trajectories and RRKM modeling of collisional excitation and dissociation of benzylammonium and <Emphasis Type="Italic">tert</Emphasis>-butyl benzylammonium ions in a quadrupole-hexapole-quadrupole tandem mass spectrometer

Collision-induced dissociation of the benzylammonium and the 4-tert-butyl benzylammonium ions was studied experimentally in an electrospray ionization quadrupole-hexapole-quadrupole tandem mass spectrometer. Ion fragmentation efficiencies were determined as functions of the kinetic energy of ions and the collider gas (argon) pressure. A theoretical Monte Carlo model of ion collisional excitation, scattering, and decomposition was developed. The model includes simulation of the trajectories of the parent and the product ions flight through the hexapole collision cell, quasiclassical trajectory modeling of collisional activation and scattering of ions, and Rice-Ramsperger-Kassel-Marcus (RRKM) modeling of the parent ion decomposition. The results of modeling demonstrate a general agreement between calculations and experiment. Calculated values of ion fragmentation efficiency are sensitive to initial vibrational excitation of ions, scattering of product ions from the collision cell, and distribution of initial ion velocities orthogonal to the axis of the collision cell. Three critical parameters of the model were adjusted to reproduce the experimental data on the dissociation of the benzylammonium ion: reaction enthalpy and initial internal and translational temperatures of the ions. Subsequent application of the model to decomposition of the t-butyl benzylammonium ion required adjustment of the internal ion temperature only. Energy distribution functions obtained in modeling depend on the average numbers of collisions between the ion and the atoms of the collider gas and, in general, have non-Boltzmann shapes.     

Automated determination of precursor ion, product ion, and neutral loss compositions and deconvolution of composite mass spectra using ion correlation based on exact masses and relative isotopic abundances

After an accidental, deliberate, or weather-related dispersion of chemicals (dispersive event), rapid determination of elemental compositions of ions in mass spectra is essential for tentatively identifying compounds. A direct analysis in real time (DART)ion source interfaced to a JEOL AccuTOFmass spectrometer provided exact masses accurate to within 2 mDa for most ions in full scan mass spectra and relative isotopic abundances (RIAs) accurate to within 15-20% for abundant isotopic ions. To speed determination of the correct composition for precursor ions and most product ions and neutral losses, a three-part software suite was developed. Starting with text files of m/z ratios and their ion abundances from mass spectra acquired at low, moderate, and high collision energies, the ion extraction program (IEP) compiled lists for the most abundant monoisotopic ions of their exact masses and the RIAs of the +1 and +2 isotopic peaks when abundance thresholds were met; precursor ions; and higher-mass, precursor-related species. The ion correlation program (ICP) determined if a precursor ion composition could yield a product ion and corresponding neutral loss compositions for each product ion in turn. The input and output program (IOP) provided the ICP with each precursor ion:product ion pair for multiple sets of error limits and prepared correlation lists for single or multiple precursor ions. The software determined the correct precursor ion compositions for 21 individual standards and for three- and seven-component mixtures. Partial deconvolution of composite mass spectra was achieved based on exact masses and RIAs, rather than on chromatography.     

Enhancement of ion transmission at low collision energies via modifications to the interface region of a spectrometer

The transmission efficiency of precursor and product ions decreases significantly at lower collision energies in a four-sector tandem mass spectrometer. In an effort to improve the overall ion transmission in this energy regime three modifications were made in the interface region between the two stages of mass analysis. An einzel lens was inserted prior to the deceleration lens of the collision cell block to reduce the precursor ion beam diameter. The collision cel1 block was reduced in thickness while maintaining the collision path length, thus increasing the number of ions which entered and exited the gas chamber, while removing any stray electrical fields. Finally, a second active focusing element was incorporated after the collision cell block to enhance the collection efficiency of the product ions. A tandem mass spectrum of angiotensin I obtained with this interface, at a collision cell block potential of 9200 volts, exhibited classical high energy collision-induced dissociation (CID) fragmentation patterns, a precursor ion transmission of 92% and an overall CID efficiency of approximately 7.5%. These improvements have resulted in a dramatically higher overall ion transmission at high collision cell potentials as well as sufficient sensitivity in acquiring good quality CID spectra in the lower collision energy regime (i.e., 60 eV). (460-469)     

Simultaneous fragmentation of multiple ions using IMS drift time dependent collision energies

Ion mobility spectrometry coupled with mass spectrometry (IMS-MS) was utilized to evaluate an ion collision energy ramping technique that simultaneously fragments a variety of species. To evaluate this technique, the fragmentation patterns of a mixture of ions ranging in mass, charge state, and drift time were analyzed to determine their optimal fragmentation conditions. The precursor ions were pulsed into the IMS-MS instrument and separated in the IMS drift cell based on mobility differences. Two differentially pumped short quadrupoles were used to focus the ions exiting the drift cell, and fragmentation was induced by collision induced dissociation (CID) between the conductance limiting orifice behind the second short quadrupole and before the first octopole in the mass spectrometer. To explore the fragmentation spectrum of each precursor ion, the bias voltages for the short quadrupoles and conductance limiting orifices were increased from 0 to 50 V above nonfragmentation voltage settings. An approximately linear correlation was observed between the optimal fragmentation voltage for each ion and its specific drift time, so a linear voltage gradient was employed to supply less collision energy to high mobility ions (e.g., small conformations or higher charge state ions) and more to low mobility ions. Fragmentation efficiencies were found to be similar for different ions when the fragmentation voltage was linearly ramped with drift time, but varied drastically when only a single voltage was used.     

Prediction of artifact peak intensity in linked scans for dissociations occurring in the first field-free region of sector mass spectrometers

Linked scans are commonly used on double-focusing mass spectrometers to obtain tandem mass spectrometry (MS/MS) spectra. The appearance of artifact peaks in linked scan MS/MS spectra from dissociations occurring in the first field-free region are a result of poor parent ion resolution, and they often can complicate the interpretation of the MS/MS spectra. The kinetic energy release associated with dissociation of ions of similar m/z to the “selected” parent ion is the main factor in determining the intensity of artifact peaks. A means of predicting the intensities of these artifact peaks in product ion and constant neutral loss scans is presented here. The method requires straightforward calculations based on Lacey-Macdonaldion intensity diagrams. The exact calculations require knowledge of the kinetic energy release of a particular dissociation, the kinetic energy spread of the main beam, and the parent ion and product ion mass-to-charge ratios. Adequate predictions, however, can be made by assuming a general kinetic energy release for any given reaction and a typical instrument energy resolution. Theoretical predictions are in good agreement with experimental data obtained from the product ion scans of unlabeled and isotopically labeled tirilazad and unlabeled and labeled leucine enkephalin methyl ester. There is also excellent agreement between experiment and theory in the constant neutral loss scans of rubidium bromide clusters.     

Effect of electrospray ionization conditions on low-energy tandem mass spectra of peptides

The effect of electrospray ionization (ESI) conditions on low-energy tandem mass spectra of peptides in the relative molecular mass range 400–1200 was examined. For singly charged peptide ions the source skimmer potential (which determines the degree of acceleration of the ions through the intermediate pressure region in the source) can strongly influence the extent of fragmentation observed in tandem mass spectra, especially at low collision energies. For each peptide there is an optimum skimmer potential which represents a balance between generating ions with sufficient internal energy for subsequent tandem mass spectrometric experiments and inducing the onset of other processes such as source fragmentation. The fragmentation which can be achieved in tandem mass spectra with high skimmer potentials differs from ESI source fragmentation for the same peptides. We have found that fragmentation in ESI mass spectra depends both on skimmer potential and on solvent pH, presumably because the latter determines the proportion of doubly charged species generated from a given peptide. Low-energy tandem mass spectra of peptides following ESI are equally as sensitive to peptide structure and the type of adduct studied (e.g. [M + H]⁺ vs. [M + NH₄]⁺) as tandem mass spectra obtained following older ionization methods such as fast atom bombardment.     

The gas phase structure of some protonated and ethylated aromatic amines

The fundamental processes of protonation and ethylation, occurring in a methane chemical ionization source, have been investigated for a variety of aromatic amines. The positions of protonation and ethylation on the substrate amines were determined by generating isomeric ions either by protonation of neutral ethyl substituted amines or by ethylation of the amines themselves. The product ions were investigated for structural differences via collision induced dissociation and subsequent analysis via mass analysed ion kinetic energy spectrometry. Similarities and differences between mass analysed ion kinetic energy/collision induced dissociation spectra of these isomeric ions were used to determine protonation and ethylation sites for imidazole, benzimidazole, indazole, pyrrole, pyridine and aniline.     

Investigation of collisional-activation decomposition process and spectra in the transport region of an electrospray single-quadrupole mass spectrometer.

The use of collisional-activation dissociation (CAD) in the electrospray transport region was evaluated for generating structural information on several pesticides and antibiotics. The collision energy used to generate the CAD spectra could be varied easily by changing the capillary/skimmer potential difference, imparting from 0 eV to above 16 eV internal energy to the near thermal ions generated by electrospray. The internal energy distribution for low-energy collisions (capillary/skimmer potential difference of 20 V) closely matches the curves generated by a triple-quadrupole mass spectrometer. Furthermore, the CAD spectra for selected compounds generated by electrospray in the transport region at a capillary/skimmer potential difference of 30-50 V closely resembled those obtained from the [M + H]+ ion by a triple quadrupole using 30 eV collision energy. The CAD of ions in the transport region resulted in 70% to 80% daughter-ion yields and minimal loss in overall ion current compared to the ion current for protonated or cationized parent molecules. The major daughter ions for 10 pg of Aldicarb and penicillin G could be detected (signal-to-noise ratio greater than 5) under full-scan CAD conditions.     

Are liquid chromatography/electrospray tandem quadrupole fragmentation ratios unequivocal confirmation criteria?

Multiple reaction monitoring (MRM) ratios as provided by tandem mass spectrometers are used to confirm positive residue findings (e.g. veterinary drugs or pesticides). The Commission Decision 2002/657/EEC defines tolerance levels for MRM ratios, which are intended to prevent the reporting of false positives. This paper reports findings where blank sample extracts have been spiked by a drug (difloxacin) and the corresponding measured MRM ratios significantly deviated from MRM ratios observed in matrix‐free solution. The observation was explained by the formation of two different [M+H]⁺ analyte ions within the electrospray ionization (ESI) interface. These two ions vary only by the site of analyte protonation. Since they are isobaric, they are equally transmitted through the first quadrupole, but are differently fragmented in the collision chamber. The existence of two isobaric ions was deduced by statistical data and the observation of a doubly charged analyte ion. It was hypothesized that the combined presence of [M+H]⁺ and [M+2H]²⁺ implies the existence of two different singly charged ion species differing only by the site of protonation. Low‐ and high‐energy interface‐induced fragmentation was performed on the samples. The surviving precursor ion population was mass selected and again fragmented in the collision chamber. Equal product ion spectra would be expected. However, very different product ion spectra were observed for the two interface regimes. This is consistent with the assumption that the two postulated isobaric precursor ions show different stability in the interface. Hence the abundance ratio among the two types of surviving precursor ions will shift and change the resulting product ion spectra. The existence of the postulated singly charged ions with multiple chargeable sites was finally confirmed by successful ion mobility separation. Copyright © 2009 John Wiley & Sons, Ltd.