Development of cancer biomarker heat shock protein 90α certified reference material using two different isotope dilution mass spectrometry techniques.

Heat shock protein 90α (HSP90α) has been regarded as an important indicator for judging tumor metastasis and prognosis due to its significant upregulation in various tumors. Therefore, the accurate quantification of HSP90α is of great significance for clinical diagnosis and therapy of cancers. However, the lack of HSP90α certified reference material (CRM) leads to the accuracy and consistency of quantification methods not being effectively evaluated. Besides, quantitative results without traceability make comparisons between different studies difficult. In this study, an HSP90α solution CRM was developed from the recombinant protein raw material. The recombinant protein is a dimer, and the purity of the CRM candidate reached 96.71%. Both amino acid analysis-isotope dilution mass spectrometry (AAA-IDMS) and unique peptide analysis-isotope dilution mass spectrometry (UPA-IDMS) were performed to measure the content of HSP90α in the solution CRM candidate, and the certified value was assessed to be 66.2 ± 8.8 µg/g. Good homogeneity of the CRM was identified, and the stability examination suggested that the CRM was stable for at least 4 months at - 80 °C and for 7 days at 4 °C. With traceability to SI unit (kg), this CRM has potential to help establish a metrological traceability chain for quantification of HSP90α, which will make the quantification results standardized and comparable regardless of the quantitative methods.

Precise Control of Trypsin Immobilization by a Programmable DNA Tetrahedron Designed for Ultrafast Proteome Digestion and Accurate Protein Quantification.

In proteomics research, with advantages including short digestion times and reusable applications, immobilized enzyme reactors (IMERs) have been paid increasing attention. However, traditional IMERs ignore the reasonable spatial arrangement of trypsin on the supporting matrixes, resulting in the partial overlapping of the active domain on trypsin and reducing digesting efficiency. In this work, a DNA tetrahedron (DNA TET)-based IMER Fe3O4-GO-AuNPs-DNA TET-Trypsin was designed and prepared. The distance between vertices of DNA TETs effectively controls the distribution of trypsin on the nanomaterials; thus, highly efficient protein digestion and accurate quantitative results can be achieved. Compared to the in-solution digestion (12-16 h), the sequence coverage of bovine serum albumin was up to 91% after a 2-min digestion by the new IMER. In addition, 3328 proteins and 18,488 peptides can be identified from HeLa cell protein extract after a 20-min digestion. For the first time, human growth hormone reference material was rapidly and accurately quantified after a 4-h digestion by IMER. Therefore, this new IMER has great application potential in proteomics research and SI traceable quantification.

Preparation and evaluation of ultra-long open-tubular capillary columns modified with zeolitic imidazolate framework-8 incorporated polymeric porous layer for liquid chromatography.

An ultra-long (5 m) open tubular capillary liquid chromatographic column was prepared by incorporating Metal Organic Framework (MOF), zeolitic imidazolate framework-8 (ZIF-8), directly into polymer coating, which was synthesized by the copolymerization of 4-vinylbenzyl chloride and divinylbenzene, on the capillary inner surface. The prepared ZIF-8 incorporate polymeric open tubular capillary column (denoted as ZIF-8-p(VBC/DVB) OTCC) was evaluated with thiourea, alkylbenzenes and polycyclic aromatic hydrocarbons as probe molecules. The results showed that the ultra-long column achieved absolute column efficiency of 130,000 plates for thiourea, and the incorporation of ZIF-8 effectively improved the chromatography performance of the OTCC. Baseline separation of aromatic compounds and position isomers was achieved based on multiple interactions provided by the zeolitic imidazolate framework and polymer, including hydrophobic interaction, π-π stacking interaction and the coordination effect. The RSD values (run-to-run, day-to-day, column-to-column, n = 3) of retention time of phenylenediamine isomers and propylbenzene isomers were less than 0.7%, 1.2% and 4.0% respectively, suggesting excellent repeatability. Finally, the prepared ZIF-8-p(VBC/DVB) OTCC was applied to the separation of hydroxyacetophenone isomers with satisfied results.

Layer-by-layer coating and chemical cross-linking of multilayer polysaccharides on silica for mixed-mode HPLC application.

A facile, controllable and environmentally friendly method for fabricating a novel polysaccharide-silica composite stationary phase (SiO2@(HA-CS)12) was developed in this report. Two natural polysaccharides (hyaluronan acid and chitosan) were controllably coated on the silica surface using a layer-by-layer assembly technique, and then the polysaccharide shell was chemically cross-linked to improve the stability. The column efficiency of the SiO2@(HA-CS)12 column reached 74 000 plates per m in HILIC mode and 20 100 plates per m in IEC mode, which indicates great potential for separating polar and charged samples.

The separation characteristics and performance evaluation of the silica-based poly(pentabromostyrene) stationary phase in capillary electrochromatography.

A mixed-mode capillary column packed with silica-based poly(pentabromostyrene) particles (denoted as SiO2@pPBS) was prepared and applied to capillary electrochromatography (CEC) separation. With the presence of benzene rings and bromine atoms in polymer chains, the SiO2@pPBS column provides a reversed-phase/hydrophilic mixed-mode retention mechanism owing to hydrophilic, hydrophobic and π-π interactions between the stationary phase and various analytes, including alkylbenzenes, polycyclic aromatic hydrocarbons, nucleosides, phenols and anilines. In CEC mode, the separation behavior of charged solutes is not only related to the interaction with the stationary phase, but also influenced by electrophoretic effects, which may lead to different selectivities compared to high performance liquid chromatography (HPLC). A column efficiency of up to 1.22 × 105 N m-1 was achieved for p-chloroaniline. Besides, the RSDs of retention time of anilines for run to run (n = 5), day to day (n = 5) and column to column (n = 3) were all less than 4.4%. Finally, the SiO2@pPBS capillary column was applied to the separation of coking wastewater with satisfactory results. All the results demonstrated that the SiO2@pPBS capillary packed column with RP/HILIC mixed-mode has great application potential.

Core-shell magnetic bimetallic MOF material for synergistic enrichment of phosphopeptides.

In proteomics, phosphorylation is an important process for protein post-translational modification (PTM), which greatly improves the diversity of proteomes. The PTM regulates almost all physiological and pathological processes such as signal transduction, cell division, proliferation, differentiation and metabolism. The abnormal expression of protein phosphorylation is also associated with cellular metabolic disorders and a range of diseases. However, in mass spectrometry-based phosphorylated peptideomics studies, phosphorylated peptide signals were inhibited by a high abundance of non-phosphorylated peptides; thus, highly selective enrichment was required. In this study, a newly designed material named Fe3O4@MIL(Fe/Ti) was synthesized using a layer-by-layer self-assembly technique that coats the surface of magnetic oxide nanospheres with bimetallic MOF of iron and titanium. The synergistic synthetic coating of the bimetallic MOF gives the material a large surface area and excellent hydrophilicity, which endow the nanoparticles with excellent phosphopeptide enrichment ability, high selectivity (ß-casein/BSA molar ratio 1:500), a low detection limit (3 fmol), high recovery rate (85%), strong binding capacity, size exclusion ability, and ideal batch-to-batch repeatability. For comparison, we used Fe3O4@MIL(Fe/Ti) and two single-metal MOF materials Fe3O4@MIL-100(Fe) and Fe3O4@MIL-125(Ti), to enrich α-casein in the middle. Thus, the iron-titanium bimetallic MOF can not only enrich all the phosphorylated peptides enriched by Fe3O4@MIL-100(Fe) and Fe3O4@MIL-125(Ti), but can also specifically enrich four phosphorylated peptides. Encouraged by the excellent results of characterization and standard protein enrichment, we used this material to analyze human serum and found that bimetallic materials can effectively enrich all four phosphorylated peptides and exclude high molecular proteins. These experimental results indicate that the novel bimetallic MOF is a good candidate to analyze protein phosphorylation in complex samples.

Carrier ampholyte-free free-flow isoelectric focusing for separation of protein.

Free-flow isoelectric focusing (FFIEF) has the merits of mild separation conditions, high recovery and resolution, but suffers from the issues of ampholytes interference and high cost due to expensive carrier ampholytes. In this paper, a home-made carrier ampholyte-free FFIEF system was constructed via orientated migration of H+ and OH- provided by electrode solutions. When applying an electric field, a linear pH gradient from pH 4 to 9 (R2 = 0.994) was automatically formed by the electromigration of protons and hydroxyl ions in the separation chamber. The carrier ampholyte-free FFIEF system not only avoids interference of ampholyte to detection but also guarantees high separation resolution by establishing stable pH gradient. The separation selectivity was conveniently adjusted by controlling operating voltage and optimizing the composition, concentration and flow rate of the carrier buffer. The constructed system was applied to separation of proteins in egg white, followed by MADLI-TOF-MS identification. Three major proteins, ovomucoid, ovalbumin and ovotransferrin, were successfully separated according to their pI values with 15 mmol/L Tris-acetic acid (pH = 6.5) as carrier buffer at a flow rate of 12.9 mL/min.

Facile synthesis of layered mesoporous covalent organic polymers for highly selective enrichment of N-glycopeptides.

Hydrophilic interaction liquid chromatography is a significant strategy for the separation and enrichment of glycoproteins and glycopeptides. A layered imine-based covalent organic polymer with mesopores (denoted as p-TpBDH) was successfully fabricated by a facile solvothermal method. Then p-TpBDH-OH with abundant hydrophilic groups was evolved from p-TpBDH by the direct reduction. 36 and 40 glycopeptides were identified from IgG digests respectively by p-TpBDH and p-TpBDH-OH. Furthermore, the p-TpBDH-OH exhibits superior selectivity (IgG: BSA = 1: 250) for glycopeptides compared with the p-TpBDH. Encouragingly, a total of 463 glycopeptides assigned to 173 glycoproteins were finally identified from only 2 µL human serum by the p-TpBDH-OH. Compared with p-TpBDH, abundant hydrophilic and nitrogen-containing affinity sites of p-TpBDH-OH facilitate effective hydrophilic interaction between the polymeric material and glycopeptides. All the results demonstrate the functionalized hydrophilic covalent organic polymer has great potential in large-scale N-glycoproteomic research.

Preparation and evaluation of maltose modified polymer-silica composite based on cross-linked poly glycidyl methacrylate as high performance liquid chromatography stationary phase.

A new maltose modified polymer-silica composite was fabricated and applied as high performance liquid chromatography (HPLC) stationary phase. The cross-linked poly glycidyl methacrylate (pGMA) layer was chemically bonded to the outer surface as well as pore inner surface of silica beads via in-situ polymerization, and then maltose was modified onto the polymer layer via a [3 + 2] "click" reaction. The porous spherical silica (4 µm diameter) with 300 Å pore size was selected as the matrix so that the 3.25 nm-thick polymer layer fabricated on the pore inner surface would not affect its permeability. The typical 'U-shape' retention curves indicated a mixed-mode retention mechanism of the as-synthesized stationary phase. Both polar and non-polar analytes could be well separated on the stationary phase with column efficiency reaching 123809 plates/m for guanosine in hydrophilic interaction liquid chromatography (HILIC) mode and 46808 plates/m for fluorene in reversed-phase liquid chromatography (RPLC) mode, respectively. Nucleotides and their bases were baseline separated with good peak shape without any buffer salt in mobile phase, suggesting the effective shielding of the silanol groups. The packing material also showed excellent chromatographic repeatability with intraday RSDs of the retention time of five nucleosides less than 0.048% (n = 3) and interday RSDs less than 0.33% (n = 7) and great pH stability (from 1.5 to 10.2). Finally, the stationary phase was applied to the separation of ginseng extract.

Preparation and evaluation of open-tubular capillary columns modified with metal-organic framework incorporated polymeric porous layer for liquid chromatography.

An open tubular capillary liquid phase chromatographic column (1 m × 25 µm i.d.× 375 µm o.d.) was prepared by incorporating metal organic framework particles modified with vancomycin directly into zwitterionic polymer coating synthesized by the copolymerization of [2-(methacryloyloxy)ethyl]dimethyl-(3-sulfopropyl) ammonium hydroxide and N,N'-methylenebisacrylamide. The incorporation of IRMOF-3 (isoreticular metal organic framework-3) particles improved selectivity of zwitterionic polymer coating with absolute column efficiency reaching 79900 plates for p-xylene. Besides strong hydrophilic interaction, the separation of neutral, basic, and acidic compounds demonstrates that π-π stacking interaction and the coordination effect of unsaturated Zn2+ of MOF also contribute to separation of various analytes. The RSD values (run-to-run, day-to-day, column-to-column, n = 3) of retention time of neutral compounds were less than 0.71%, 0.69% and 3.08% respectively, suggesting good repeatability. In addition, the column was applied to the analysis of the trypsin digest of bovine serum albumin, revealing the potential in separating biological samples.