2-DE and MALDI-TOF-MS analysis of therapeutic fusion protein abatacept

2-DE and MALDI-TOF MS are useful techniques for the quality evaluation of medicinal products derived from recombinant DNA technology. The principal objective of this study has been to evaluate the suitability of 2-DE in combination with MALDI-TOF MS for the quality study of the therapeutic recombinant protein, abatacept. 1-DE SDS-PAGE, under reducing and nonreducing conditions, and 2-DE analysis were used for the assessment of M(r) , pI, and enzymatic deglycosylation efficiency of abatacept. 2-DE allowed the assessment of product identity, purity, charge heterogeneity, isoform pattern, and post-translational modifications. Furthermore, optimization of the deglycosylation procedure, charge heterogeneity, and sample preparation for the subsequent MALDI-TOF MS analysis has been addressed. PMF analysis allowed rapid identity confirmation of abatacept.     

On particle ionization/enrichment of multifunctional nanoprobes: washing/separation-free, acceleration and enrichment of microwave-assisted tryptic digestion of proteins via bare TiO2 nanoparticles in ESI-MS and comparing to MALDI-MS

A simple, rapid, straightforward and washing/separation free of in-solution digestion method for microwave-assisted tryptic digestion of proteins (cytochrome c, lysozyme and myoglobin) using bare TiO(2) nanoparticles (NPs) prepared in aqueous solution to serve as multifunctional nanoprobes in electrospray ionization mass spectrometry (ESI-MS) was demonstrated. The current approach is termed as 'on particle ionization/enrichment (OPIE)' and it can be applied in ESI-MS, atmospheric pressure-matrix-assisted laser desorption/ionization mass spectrometry (AP-MALDI-MS) and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS). The bare TiO(2) NPs can assist, accelerate and effectively enhance the digestion efficiency, sequence coverage and detection sensitivity of peptides for the microwave-assisted tryptic digestion of proteins in ESI-MS. The reason is attributed to the fact that proteins or partially digested proteins are easily attracted or concentrated onto the surface of TiO(2) NPs, resulting in higher efficiency of digestion reactions in the microwave experiments. Besides, the TiO(2) NPs could act as a microwave absorber to accelerate and enrich the protein fragments in a short period of time (40-60 s) from the microwave experiments in ESI-MS. Furthermore, the bare TiO(2) NPs prepared in aqueous solution exhibit high adsorption capability toward the protein fragments (peptides); thus, the OPIE approach for detecting the digested protein fragments via ESI and MALDI ionization could be achieved. The current technique is also a washing and separation-free technique for accelerating and enriching microwave-assisted tryptic digestion of proteins in the ESI-MS and MALDI-MS. It exhibits potential to be widely applied to biotechnology and proteome research in the near future.     

Multifunctional nanoparticles composite for MALDI-MS: Cd2+-doped carbon nanotubes with CdS nanoparticles as the matrix, preconcentrating and accelerating probes of microwave enzymatic digestion of peptides and proteins for direct MALDI-MS analysis

For the first time, we utilized multifunctional nanoparticles composite (NPs composite) for matrix-assisted laser desorption/ionization mass spectrometric (MALDI-MS) analysis of peptides and proteins. Multiwalled carbon nanotubes doped with Cd(2+) ions and modified with cadmium sulfide NPs were synthesized by a chemical reduction method at room temperature. The multifunctional NPs composite applied for the analysis of peptides and microwave-digested proteins in the atmospheric pressure matrix-assisted laser desorption/ionization ion-trap and MALDI time-of-flight (TOF) mass spectrometry (MS) was successfully demonstrated. The maximum detection sensitivity for peptides in MALDI-MS was achieved by the adsorption of negatively charged peptides onto the surfaces of NP composite through electrostatic interactions. The optimal conditions of peptide mixtures were obtained at 20 min of incubation time using 1 mg of NPs composite when the pH of the sample solution was kept higher than the pI values of peptides. The potentiality of the NP composite in the preconcentration of peptides was compared with that of the individual NP by calculating the preconcentration factors (PF) and found that the NPs composite showed a 4-6 times of PF than the other NPs. In addition, the NPs composite was also applied as heat-absorbing materials for efficient microwave tryptic digestion of cytochrome c and lysozyme from milk protein in MALDI-TOF-MS analysis. We believe that the use of NPs composite technique would be an efficient and powerful preconcentrating tool for MALDI-MS for the study of proteome research.     

Electrostatically self-assembled azides on zinc sulfide nanoparticles as multifunctional nanoprobes for peptide and protein analysis in MALDI-TOF MS

A simple method to synthesize electrostatically self-assembled azides on zinc sulfide nanoparticles (ZnS-N₃ NPs) was described and then it was further applied as a multifunctional nanoprobe such as enriching, desalting, accelerating and separation-/washing free nanoprobes for rapid analysis of peptides and proteins and microwave assisted tryptic digested proteins in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). The ZnS-N₃ NPs were characterized by UV-vis, FT-IR, SEM and TEM spectroscopy. The ZnS-N₃ NPs can effectively enrich signal intensities for 2-10 times for various peptides and proteins including HW6, insulin, ubiquitin, cytochrome c, lysozyme, myoglobin and bovine serum albumin (BSA) in MALDI-TOF MS. Furthermore, we also demonstrated that the ZnS-N₃ NPs can serve as accelerating probes for microwave assisted tryptic digestion of proteins in MALDI-TOF MS. The applicability of the present method on complex sample analysis such as milk proteins from cow milk and ubiquitin and ubiquitin like proteins from oyster mushroom were also demonstrated.     

Protein extraction for 2-DE from the lamina of Ecklonia kurome (laminariales): recalcitrant tissue containing high levels of viscous polysaccharides

Extraction of proteins from the tissues of laminarialean algae, i.e. kelp, is difficult due to high levels of nonprotein interfering compounds, mainly viscous polysaccharides. To establish proteomic analysis of kelp species, an ethanol/phenol extraction method was developed and compared to other popular methods. Proteins were extracted with phenol from crude protein powder, obtained by homogenizing the kelp tissues in ice-cold ethanol. The ethanol/phenol method produced high-quality proteins of the highest purity from the lamina of Ecklonia kurome, one of the Japanese dominant laminarialean algae. This method gave well-resolved 1-D SDS-PAGE or 2-DE images with low background and the highest number of bands or spots. In particular, proteins with neutral to basic pI's were efficiently extracted. Furthermore, 27 spots on the 2-DE gel were extensively identified by MALDI-TOF/TOF analysis. To the best of our knowledge, this is the first report of a protocol for protein extraction from kelp tissues that gives satisfactory 2-D protein profiles. It is expected that the protocol can be applied to other algae tissues or other recalcitrant plant tissues containing high levels of nonprotein interfering compounds.     

Preparation of disk‐like Pt/CeO2‐p‐TiO2 catalyst derived from MIL‐125(Ti) for excellent catalytic performance

A feasible strategy is reported for the synthesis of a disk‐like Pt/CeO₂‐p‐TiO₂ catalyst derived from the titanium‐based metal–organic framework (MOF) MIL‐125(Ti) through a few valid steps. To verify the successful synthesis and structural features of the Pt/CeO₂‐p‐TiO₂ catalyst, as‐prepared samples were characterized using several techniques. The characterizations demonstrated that MOF‐derived porous TiO₂ was appropriate for application as a support owing to its moderate surface area (101 m² g^?1) and suitable pore size (6 nm). Moreover, to study the effect of calcination temperature on the catalytic performance, the obtained catalyst was calcined at various temperatures. It was found that Pt/CeO₂‐p‐TiO₂ calcined at 550 °C exhibited the highest catalytic performance, evaluated by means of the reduction of 4‐nitrophenol monitored by UV–visible spectra. Furthermore, this catalyst showed good reusability with a conversion of 94% even after six cycles. Finally, a possible reaction mechanism was proposed to explain the reduction of 4‐nitrophenol to 4‐aminophenol over the Pt/CeO₂‐p‐TiO₂ catalyst.     

TiO2‐nanoparticles as efficient catalysts for the synthesis of pyridine dicarbonitriles

The catalytic effects of two forms of nano‐TiO₂, which are prepared via an ordinary or a magnetized process, are investigated in the synthesis of pyridine dicarbonitriles by one‐pot multicomponent reaction of 4‐methyl thiophenol, malononitrile, and aryl aldehydes. The results have shown that both prepared nano‐TiO₂ exhibited high catalytic activities toward the synthesis of pyridine dicarbonitrile derivatives but the nano‐TiO₂, which is prepared via a magnetized process, has shown better catalytic activity. Furthermore, this new catalytic method for the synthesis of pyridine dicarbonitriles provides rapid access to the desired compounds in high yields and so a simple work‐up procedure in the presence of water at room temperature. Therefore, this method represents a significant improvement incompatible of the other methods that are available for the synthesis of pyridine dicarbonitriles.     

Liquid-phase microextraction for rapid AP-MALDI and quantitation of nortriptyline in biological matrices

A liquid-phase microextraction (LPME) method using a micropipette with disposable tips was demonstrated for coupling to atmospheric pressure MALDI-MS (AP-MALDI/MS) as a concentrating probe for rapid analysis and quantitative determination of nortriptyline drug from biological matrices including human urine and human plasma. This technique was named as micropipette extraction (MPE). The best optimized parameters of MPE coupled to AP-MALDI/MS experiments were extraction solvent, toluene; extraction time, 5 min; sample agitation rate, 480 rpm; sample pH, 7; salt concentration, 30%; hole size of micropipette tips, 0.61 mm (id); and matrix concentration, 1000 ppm using alpha-cyano-4-hydroxycinnamic acid (CHCA) as a matrix. Three detection modes of AP-MALDI/MS analysis including full scan, selective ion monitor (SIM), and selective reaction monitor (SRM) of MS/MS were also compared for the MPE performance. The results clearly demonstrated that the MS/MS method provides a wider linear range and lower LODs but poor RSDs than the full scan and SIM methods. The LOD values for the MPE under SIM and MS/MS modes in water, urine, and plasma were 6.26, 47.5, and 94.9 nM, respectively. The enrichment factors (EFs) of this current approach were 36.5-43.0 fold in water. In addition, compared to single drop microextraction (SDME) and LPME using a dual gauge microsyringe with a hollow fiber (LPME-HF) technique, the LODs acquired by the MPE method under MS/MS modes were comparable to those of LPME-HF and SDME but it is more convenient than both methods. The advantages of this novel method are simple, easy to use, low cost, and no contamination between experiments since disposable tips were used for the micropipettes. The MPE has the potential to be widely used in the future because it only requires a simple micropipette to perform all extraction processes. We believe that this technique can be a powerful tool for MALDI/MS analysis of biological samples and clinical applications.     

Alkaline extraction of human plasma proteins from nondenaturing micro-2-D gels for protein/polypeptide mass measurement and peptide mass fingerprinting using MALDI-TOF MS

Previously, we have reported a high-efficiency method of protein extraction from CBB-stained polyacrylamide gels for molecular mass measurement with MALDI-TOF MS [1]. In the present work, the alkaline extraction method was applied to CBB-stained 2-DE gels on which human plasma proteins were separated in the absence of denaturant. In order to examine the performance of the method, ten spots with apparent molecular masses (MMapp) in the range of 65 to 1000 kDa were selected and the proteins were extracted from the gel pieces. The extracts were subjected to whole-mass measurement by MALDI-TOF MS, with and without DTT treatment. In addition, the extracts were subjected to in-solution trypsin digestion followed by MALDI-TOF MS and PMF analysis. Successful extraction of proteins from the ten spots, up to MMapp 1000 kDa, has been ascertained by the significant PMF assignment (MASCOT) with high sequence coverage of the respective proteins or polypeptides. When direct mass measurement of the extracted proteins was attempted, three spots in MMapp range 65-100 kDa provided mass peaks. Five spots in MMapp range 150-400 kDa did not give mass peaks of the intact proteins, but showed those of the constituent polypeptides after the DTT treatment. Extraction of proteins prior to trypsin digestion enabled the procedure of PMF analysis to be much simpler than the conventional in-gel digestion method, providing comparable protein scores and sequence coverage. The technique presented here suggests a new strategy for the characterization of proteins separated by nondenaturing 2-DE.     

Identification of differentially expressed proteins in the heart of translationally controlled tumor protein over-expressing transgenic mice

We previously reported that transgenic (TG) mice over-expressing translationally controlled tumor protein (TCTP) developed systemic arterial hypertension at about 6 weeks after birth. In the present study, we identified, using proteomics technologies, 24 other proteins that were differentially expressed in the heart of TCTP over-expressing TG mice. These 24 proteins are involved in a variety of biological processes such as reactive oxygen species metabolism, cytoskeleton organization, fatty acid metabolism, amino acid metabolism and energy metabolism. We determined protein expression levels of the peroxiredoxin (Prx)2, Prx3, myosin light chain 1, stress protein (heat shock protein) 25K, and T-complex protein 1 alpha subunit by western blot analysis. Over-expression of TCTP probably regulates the expression of other proteins which play a pivotal role in a variety of cellular functions in TCTP over-expressing TG mice.     

Matrix‐assisted laser desorption ionization time of flight mass spectrometry analysis of living cationic polymerization of vinyl ethers. I. Optimization of measurement conditions for poly(isobutyl vinyl ether)

Matrix‐assisted laser desorption ionization time of flight mass spectrometry (MALDI‐TOF‐MS) was utilized for the analysis of polymers obtained by the living cationic polymerization of isobutyl vinyl ether (IBVE) with the HCl‐VE adduct/SnCl₄/n‐Bu₄NCl initiating system in CH₂Cl₂ at −78 °C. Under optimized analysis conditions, well‐resolved spectra were obtained for samples with number‐average molecular weights of ≤10⁴ with the use of 1,8‐dihydroxy‐9(10H)‐anthracenone (dithranol) as a matrix and sodium trifluoroacetate as an added salt. The MS spectra showed only one series of peaks separated exactly by the mass of the IBVE. The observed mass of each peak was in good agreement with the theoretical one, which possesses one initiator fragment at the α end and one methoxy group originated from quenching with methanol at the ω end. Thus, detailed end group analysis is possible for poly(VE). © 2000 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 38: 4023–4031, 2000     

High MS-compatibility of silver nitrate-stained protein spots from 2-DE gels using ZipPlates and AnchorChips for successful protein identification

The availability of easy-to-handle, sensitive, and cost-effective protein staining protocols for 2-DE, in conjunction with a high compatibility for subsequent MS analysis, is still a prerequisite for successful proteome research. In this article we describe a quick and easy-to-use methodological protocol based on sensitive, homogeneous, and MS-compatible silver nitrate protein staining, in combination with an in-gel digestion, employing the Millipore 96-well ZipPlate system for peptide preparation. The improved quality and MS compatibility of the generated protein digests, as compared to the otherwise weakly MS-compatible silver nitrate staining, were evaluated on real tissue samples by analyzing 192 Coomassie-stained protein spots against their counterparts from a silver-stained 2-DE gel. Furthermore, the applicability of the experimental setup was evaluated and demonstrated by the analysis of a large-scale MALDI-TOF MS experiment, in which we analyzed an additional ~1000 protein spots from 2-DE gels from mouse liver and mouse brain tissue.     

Comparative evaluation of five protocols for protein extraction from stony corals (Scleractinia) for proteomics

Corals especially the reef‐building species are very important to marine ecosystems. Proteomics has been used for researches on coral diseases, bleaching and responses to the environment change. A robust and versatile protein extraction protocol is required for coral proteomics. However, a comparative evaluation of different protein extraction protocols is still not available for proteomic analysis of stony corals. In the present study, five protocols were compared for protein extraction from stony corals. The five protocols were TRIzol, phenol‐based extraction (PBE), trichloroacetic acid (TCA)‐acetone, glass bead‐assisted extraction (GBAE) and a commercially available kit. PBE, TRIzol and the commercial kit were more robust for extracting proteins from stony corals. The protein extraction efficiency and repeatability, two dimensional electrophoresis (2‐DE) and matrix‐assisted laser desorption/ionization time of flight mass spectrometry (MALDI TOF MS) were employed to evaluate the protocols. The results indicated that PBE protocol had the better protein extraction efficiency than the others. Protein extraction coverage varied among the procedures. Each protocol favored for certain proteins. Therefore, it is very important for coral proteomic analysis to select a suitable protein protocol upon the experimental design. In general, PBE protocol can be the first choice for extracting proteins from stony corals.     

Laser-induced fluorescence detection schemes for the analysis of proteins and peptides using capillary electrophoresis

Over the past few years, a large number of studies have been prepared that describe the analysis of peptides and proteins using capillary electrophoresis (CE) and laser-induced fluorescence (LIF). These studies have focused on two general goals: (i) development of automatic, selective and quick separation and detection of mixtures of peptides or proteins; (ii) generation of new methods of quantitation for very low concentrations (nm and subnanomolar) of peptides. These two goals are attained with the use of covalent labelling reactions using a variety of dyes that can be readily excited by the radiation from a commonly available laser or via the use of noncovalent labelling (immunoassay using a labelled antibody or antigen or noncovalent dye interactions). In this review article, we summarize the works which were performed for protein and peptide analysis via CE-LIF.     

A pitfall of using 2‐[(2E)‐3‐(4‐tert‐butylphenyl)‐2‐methylprop‐2‐enylidene]malononitrile as a matrix in MALDI TOF MS: chemical adduction of matrix to analyte amino groups

2‐[(2E)‐3‐(4‐tert‐Butylphenyl)‐2‐methylprop‐2‐enylidene]malononitrile (DCTB) has been considered as an excellent matrix for matrix‐assisted laser desorption/ionization (MALDI) of many types of synthetic compounds. However, it might provide troublesome results for compounds containing aliphatic primary or secondary amino groups. For these compounds, strong extra ion peaks with a mass difference of 184.1 Da were usually observed, which might falsely indicate the presence of some unknown impurities that were not detected by other matrices. On the basis of the possible mechanisms proposed, these extra ions are the products of nucleophilic reactions between analyte amino groups and DCTB molecules or radical cations. In these reactions, an amino group replaces the dicyanomethylene group of DCTB forming a matrix adduct via a ? C?N‐bond. An aliphatic primary amine could react easily with DCTB and the reaction could start once they are mixed in a MALDI solution. For an aliphatic secondary amine, on the other hand, the reaction most likely occurs in the gas phase. Protonation of amino groups by adding acid seems to be a useful way to stop DCTB adduction for compounds with one single amino group, but not for compounds with multiple amino groups. Unlike aliphatic primary or secondary amines, aliphatic tertiary amines and aromatic amines do not yield DCTB adducts. This is because tertiary amines do not have the required transferrable H‐(N) atom to form an extra ? C?N‐bond, while aromatic amines are not sufficiently nucleophilic to attack DCTB. In view of the possible matrix adduction, care should be taken in MALDI time‐of‐flight mass spectrometry (TOF MS) when DCTB is used as the matrix for compounds containing amino group(s). Copyright © 2010 John Wiley & Sons, Ltd.     

MALDI‐TOF‐MS analysis of living cationic polymerization of vinyl ethers. III. Polymerization with SnCl4 and TiCl4 in the absence of additives

Matrix‐assisted laser desorption/ionization time‐of‐flight mass spectrometry analysis revealed that the precision control (or the living nature) of the cationic polymerization of vinyl ethers with SnCl₄ or TiCl₄ critically depends on the Lewis acid concentration and temperature. Specifically, at an extremely low Lewis acid concentration, for example, the polymerization with the HCl–vinyl ether adduct (an initiator) is living at ?78 °C in CH₂Cl₂ solvent, whereas side reactions occurred at a higher concentration of SnCl₄ or at a higher temperature, ?15 °C. This was more pronounced with SnCl₄ than with TiCl₄, which was due to a stronger Lewis acidity of SnCl₄ as suggested by NMR analysis of the model reactions. © 2001 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 39: 1258–1267, 2001     

偏振光作用下金红石型TiO2单晶(001)面的表面光电压谱研究

TiO2是一种优异的光电功能材料,被广泛用于有机污染物光降解及太阳能光电转换[1～3].近年来的研究表明,表面原子排布对TiO2光电效能有决定性的影响.如Lowckamp[3]的研究表明,TiO2的(101)晶面与其它晶面相比具有高的光化学还原Ag+的能力.本文结合偏振光技术与表面光电压谱技术对金红石型TiO2单晶(001)面的光伏响应特性进行了研究,通过对TiO2不同晶面的电子跃迁形式的区分及其对偏振光的不同响应,揭示了表面原子排布与TiO2光电性质之间的关系,实现了对材料功能特性的调控.     

Effect of urea surface modification and photocatalytic cleaning on surface‐assisted laser desorption ionization mass spectrometry with amorphous TiO2 nanoparticles

We have investigated the effect of urea surface modification and the photocatalytic cleaning on surface‐assisted laser desorption ionization mass spectrometry (SALDI‐MS) with amorphous TiO₂ nanoparticles for the reduction of the background noise and the improvement of the sensitivity. In the use of nanoparticles of high surface area, chemical background signals arising from ambient environments and organic contaminants can frequently be serious problems below 500 Da, possibly reducing the advantages of the matrix‐free approach. In this study, removal of contaminants and enhanced SALDI efficiency were easily achieved with UV irradiation via the photocatalyst effect of TiO₂ before SALDI‐MS measurements. The surface cleaning achieved by the UV photocatalytic procedure reduced the background noise and increased the peak intensities of peptides. In addition, we found that urea surface modification of TiO₂ nanoparticles increased the performance of the TiO₂‐SALDI‐MS. (1) The urea‐surface modification of TiO₂ made it possible to produce proton‐adduct forms without citrate buffer, resulting in low background noises below 500 Da, in contrast to the essential use of a citrate buffer in the bare TiO₂‐SALDI‐MS. (2) The detection sensitivity of angiotensin I increased to 0.3 fmol with the urea‐surface modification, as compared to the use of bare TiO₂ nanoparticles (6 fmol). The urea‐TiO₂ could ionize proteins of more than 20 000 Da such as trypsinogen (600 fmol). (3) The urea modification of TiO₂ had the advantage of selective detection of phosphopeptides without sample clean up, or prefractionation in tryptic digest products of bovine hemoglobin. Copyright © 2009 John Wiley & Sons, Ltd.     

Consistency between chemotyping of single filaments of Planktothrix rubescens (cyanobacteria) by MALDI-TOF and the peptide patterns of strains determined by HPLC-MS

The high metabolic diversity of potentially toxigenic cyanobacteria has been recently demonstrated for several bloom-forming genera. To understand the dynamics of cyanobacterial blooms and fluctuations in toxin content, techniques are required that allow the distinction of clones in field samples on a subspecific taxonomic level. We evaluated the possibility to analyze single filaments of a common toxigenic taxon, Planktothrix rubescens, by comparing peptide profiles obtained from HPLC/MS analyses of bulk biomass to mass spectra of single filaments for 11 clonal strains. For all strains a significant relationship of chromatogram peak area to mass spectrum peak height was found for individual peptides. Individual peptide's response in mass spectrometry compared to HPLC, however, differed, likely attributable to the presence of particular moieties with high proton affinities in the molecules. Thirty-four individual peptides detected in HPLC fractions of all strains could also be detected in the corresponding single filaments. In conclusion, MALDI-TOF MS analysis of single filaments is shown to be an efficient tool for the study of chemotype diversity and dynamics in field studies and laboratory experiments. The good correspondence between peak area and peak height in chromatograms and mass spectra, respectively, is promising with respect to the use of MALDI-TOF MS as a quantitative analytical tool for natural products studies and cyanotoxin research.     

Green synthesis of TiO2 nanoparticles as an efficient heterogeneous catalyst with high reusability for synthesis of 1,2‐dihydroquinoline derivatives

Nano materials find wide applications due to their behavior at nano scale. TiO₂ nanoparticles (TiO₂ NPs) was synthesized using Neem leaf extract. This is simple, rapid, eco‐friendly, cheaper and green tools for TiO₂ NPs synthesis using agricultural waste at lower applied temperature. Characterization of the extracted TiO₂ NPs was confirmed by XRD, SEM, EDAX, TEM, HR‐TEM, SAED, and FT‐IR, respectively. The catalytic activity of TiO₂ NPs was investigated in synthesis of 1,2‐dihydroquinoline derivatives with excellent yields and low cost. Purification of the synthesized 1,2‐dihydroquinoline derivatives carried out by easy work‐up of non‐chromatographic methods.