Trends in the sample preparation and analysis of nanomaterials as environmental contaminants

Much research on the use of nanomaterials in different applications is being conducted in areas such as water treatment, catalysis, oil processing, medicine, food, sensors, energy storage, building materials, constructions, and others. Nanoparticles are ultra-small particles with exceptional properties, but some nanoparticles and nanomaterials may exhibit harmful properties when leaked into the environment. Due to the lack of analytical methods for the detection and analysis of nanoparticles in complex matrices, not much is known about the potential risks associated with nanomaterials. Therefore, more knowledge is needed of the sampling and analysis of nanomaterials (NMs) as environmental contaminants. This review is undertaken to identify and assess key characteristics in potential sampling and analysis methods for identifying and quantifying the occurrence of NMs in numerous types of environmental media. To select suitable sampling and analysis methods, information on NM sources and transformation in environmental media is essential and thus is also discussed. This provides more information about the negative impacts of NMs on the environment. Challenges and future perspectives on the determination of NMs are also discussed.     

Application of carbon-based nanomaterials in sample preparation: A review

In this paper, a broad overview on the applications of different carbon-based nanomaterials, including nanodiamonds, fullerenes, carbon nanotubes, graphene, carbon nanofibers, carbon nanocones-disks and nanohorns, as well as their functionalized forms, in sample preparation is provided. Particular attention has been paid to graphene because many papers regarding its application in this research field are becoming available. The distinctive properties, derivatization methods and application techniques of these materials were summarized and compared. According to their research status and perspective, these nanomaterials were classified in four groups (I: graphene and carbon nanotubes; II: carbon nanofibers; III: fullerenes; and IV: nanodiamonds, carbon nanocones/disks and carbon nanohorns) and characteristics and future trends of every group were discussed.     

Urine sample preparation for proteomic analysis

Sample preparation for both environmental and more importantly biological matrices is a bottleneck of all kinds of analytical processes. In the case of proteomic analysis this element is even more important due to the amount of cross‐reactions that should be taken into consideration. The incorporation of new post‐translational modifications, protein hydrolysis, or even its degradation is possible as side effects of proteins sample processing. If protocols are evaluated appropriately, then identification of such proteins does not bring difficulties. However, if structural changes are provided without sufficient attention then protein sequence coverage will be reduced or even identification of such proteins could be impossible. This review summarizes obstacles and achievements in protein sample preparation of urine for proteome analysis using different tools for mass spectrometry analysis. The main aim is to present comprehensively the idea of urine application as a valuable matrix. This article is dedicated to sample preparation and application of urine mainly in novel cancer biomarkers discovery.     

Immuno-based sample preparation for trace analysis

Immuno-based sample preparation techniques are based upon molecular recognition. Thanks to the high affinity and high selectivity of the antigen–antibody interaction, they have been shown to be a unique tool in the sampling area. Immuno-based sample preparation methods include the widely encountered immunoaffinity extraction sorbents, so-called immunosorbents, as well as membrane-based or ultrafiltration techniques. This review describes the new developments and applications that have occurred in recent years with emphasis on (i) the antigen–antibody interactions, (ii) and their importance for the properties and use of immunosorbents, (iii) multiresidue extractions, (iv) the on-line coupling to chromatographic or electrophoretic separations, and (v) the high potential for improving MS detection. The recent use of artificial antibodies for sample pretreatment, so-called molecularly imprinted polymers, is also described.     

Comparison of protein precipitation methods for sample preparation prior to proteomic analysis

Protein samples should be free of salt and other disturbing agents and have an appropriate concentration to be suitable for two-dimensional (2D) electrophoresis, the principal step of proteomics. To find the most efficient method for sample preparation, we used human plasma and compared four widely applied precipitation methods, using trichloroacetic acid (TCA), acetone, chloroform/methanol and ammonium sulfate, as well as ultrafiltration. Precipitation with TCA and acetone and ultrafiltration resulted in an efficient sample concentration and desalting. We also found that ammonium sulfate fractionation can efficiently remove albumin, which represents more than 50% of plasma proteins.     

Novel sample preparation approaches in gas chromatographic analysis: Promising ideas

The development of sample preparation procedures is still a dynamic process despite a number of already proposed techniques. The main challenge in this research field is to fully replace classical procedures like liquid‐liquid extraction and solid‐phase extraction in gas chromatographic analysis. Some progress has been already achieved for the last 20 years when miniaturized techniques were incorporated in ISO standards. The current review is focused on novel approaches in sample treatment that appeared since 2010. It includes research studies describing non‐conventional instrumental design available to inspire future progress in the field. A combination of a few extraction principles and supporting with additional treatment are the main core suggested for improvement of sample preparation efficiency. This requires good compatibility of extraction media, assessment of multiple experimental parameters, and potential automatization possibilities.     

Optimization of protein sample preparation for two-dimensional electrophoresis

Optimized 2DE sample preparation protocols that maximize total protein recovery are fundamental to improving proteome capture and increasing the utility of 2DE, which is in part limited by inadequate recovery of proteins with diverse physicochemical properties. Maintaining protein solubility is an important factor for protein recovery, but the multitude of solubility-enhancing agents and the relatively low-throughput nature of 2DE limit the systematic study of sample preparation. In this work, design of experiment (DOE) approaches are used to optimize protein recovery by altering the levels of four solubility-enhancing agents (urea, DTT, CHAPS, and SDS) in the initial suspension solution. Protein recovery is quantified by a total protein concentration assay, which is demonstrated to be representative of SDS-PAGE and 2DE recovery. DOE methodologies are presented as relatively high-throughput procedures for optimizing 2DE sample preparation parameters for a variety of sample types. Optimal suspension solution compositions are shown to vary across a model protein solution (no urea or DTT), Chinese hamster ovary (CHO) cell lysate (8 M urea, ≥2% CHAPS, ≥32.5 mM DTT), and Escherichia coli cell lysate (8 M urea, 4% CHAPS, 65 mM DTT), with optimized conditions increasing 2DE protein recovery at least 50% compared to suboptimal conditions.     

Photopolymerized microtips for sample preparation in proteomic analysis

We demonstrate a novel method for the fabrication of disposable plastic microtips, which we name "EasyTip", by a photopolymerization technique. C18 reversed-phase (C18) and ion metal affinity chromatography (IMAC) beads were immobilized on a plastic pipette tip, made of polypropylene materials, by photo-initiated polymerization. The fabricated EasyTips can be manipulated using commercial pipettes for wash/elution of minute amount of biological samples (< 10 microL) and can be applied for mass spectrometry (MS)-based proteomic analysis, in which the detection sensitivity depends critically on the optimal sample preparation. The recovery of a sample of 25 fmol of tryptic hemoglobin digest loaded in a C18 EasyTip was near 100% and we estimated the loading capacity to be around 0.4-2.0 microg of total proteins or peptides, which is well above a sufficient quantity for MS analysis. The effectiveness of the C18 EasyTips in enhancing the detection sensitivity of matrix-assisted laser desorption/ionization (MALDI)-MS signal, and thus providing a greater sequence coverage, was also demonstrated by the analysis of hemoglobin digest and the in-gel digested epidermal growth factor receptor (EGFR) protein from A431 cell lysate. We also demonstrated the usefulness of the immobilized IMAC EasyTips in extracting the signal of tryptic phosphopeptides of beta-casein (10 pmol) having one and four phosphorylation sites by using an IMAC EasyTip prior to off-line analysis by MS. The combination of IMAC EasyTips and MALDI-MS allowed the unambiguous identification of phosphopeptides based on the phosphatase assay as well as the post-source decay. Compared to other miniaturized devices, this fabrication method is simple, cheap, and requires less human intervention. Moreover, the method of manipulating the EasyTips is straightforward and can be automated readily by a robotic system for high-throughput analysis.     

Three-layer matrix/sample preparation method for MALDI MS analysis of low nanomolar protein samples

A robust and sensitive sample preparation method is presented for matrix-assisted laser desorption ionization (MALDI) mass spectrometric analysis of low nanomolar concentrations of proteins containing high amounts of common salts and buffers. This method involves the production of densely packed sub-micrometer matrix crystals by depositing a matrix solution on top of a matrix seed-layer prepared on a MALDI target. A sub-microliter aliquot of analyte solution is then directly added to the top of the matrix crystals to form a thin-layer. alpha-Cyano-4-hydroxycinnamic acid (4-HCCA) is used as matrix and demonstrated to give better performance than other commonly used matrices, such as 2,5-dihydroxybenzoic acid (DHB), 2-(4-hydroxy-phenylazo) benzoic acid (HABA), or sinapinic acid. This three-layer method is shown to be superior to the other MALDI sample preparation methods, particularly for handling low nanomolar protein solutions containing salts and buffers.     

Iron-based nanomaterials used as magnetic mesoporous nanocomposites to catalyze the preparation of N-sulfonylimines

A new magnetic nanocatalyzed synthetic method for the synthesis of aldimines was evidenced. The reaction was carried out in a Schlenk tube under reflux conditions using various solvents and different nanomaterials as catalysts. In these reactions, an excellent yield of aromatic aldimines was obtained in the presence of silica-coated magnetic nanomaterials. The prepared catalyst was also characterized by Fourier transform infrared spectroscopy, scanning electron microscopy, nitrogen adsorption and desorption studies, energy dispersive X-ray spectroscopy, and small-angle X-ray scattering spectroscopy. It was shown that the magnetic nanocatalysts can be easily separated from the reaction mixture using an external magnet and reused.     

Biological sample collection and preparation for trace element analysis

Great efforts have been expended on developing analytical procedures for trace element measurements and improving their sensitivity and specificity. Curiously enough, the fact that the results might be affected by sample collection and manipulation was slow to emerge. A substantial body of experimental evidence now suggests that inappropriate sampling may be responsible for inconsistencies between the results of different investigators.     

Improved sample preparation for CE-LIF analysis of plant N-glycans

In view of glycomics studies in plants, it is important to have sensitive tools that allow one to analyze and characterize the N-glycans present on plant proteins in different species. Earlier methods combined plant-based sample preparations with CE-LIF N-glycan analysis but suffered from background contaminations, often resulting in non-reproducible results. This publication describes a reproducible and sensitive protocol for the preparation and analysis of plant N-glycans, based on a combination of the 'in-gel release method' and N-glycan analysis on a multicapillary DNA sequencer. Our protocol makes it possible to analyze plant N-glycans starting from low amounts of plant material with highly reproducible results. The developed protocol was validated for different plant species and plant cells.     

Alternative sample preparation prior to two-dimensional electrophoresis protein analysis on solid lipid nanoparticles

The proteins adsorbing onto the surface of intravenously injected drug carriers are regarded as a key factor determining the organ distribution. Depending on the particle surface properties, certain proteins will be preferentially adsorbed, leading to the adherence of the particle to cells with the appropriate receptor. Therefore, the knowledge of the protein adsorption pattern and the correlation to in vivo behavior opens the perspective for the development of intravenous colloidal carriers for drug targeting. After incubation in plasma, the adsorbed proteins were analyzed using two-dimensional polyacrylamide gel electrophoresesis (2-D PAGE, 2-DE). The purpose of the present study was to develop an alternative separation method to separate solid lipid nanoparticles (SLN) carriers from plasma by gel filtration prior to 2-D PAGE. Via the specific absorption coefficients and a two-equation system, elution fractions were identified being practically plasma-free. This allows protein analysis on SLN which are typically in density too close to the density value of water to be separated by the standard centrifugation method. The SLN used for establishing the gel filtration were prepared in a way that they had a sufficiently low density to be additionally separated by centrifugation. The adsorption patterns obtained after separation with both methods were qualitatively and quantitatively identical, showing the suitability of the gel filtration.     

Gel-free sample preparation for the nanoscale LC-MS/MS analysis and identification of low-nanogram protein samples

Protein identification at the low nanogram level could in principle be obtained by most nanoscale LC-MS/MS systems. Nevertheless, the complex sample preparation procedures generally required in biological applications, and the consequent high risk of sample losses, very often hamper practical achievement of such low levels. In fact, the minimal amount of protein required for the identification from a gel band or spot, in general, largely exceeds the theoretical limit of identification reachable by nanoscale LC-MS/MS systems. A method for the identification of low levels of purified proteins, allowing limits of identification down to 1 ng when using standard bore, 75 microm id nanoscale LC-MS/MS systems is here reported. The method comprises an offline two-step sample cleanup, subsequent to protein digestion, which is designed to minimize sample losses, allows high flexibility in the choice of digestion conditions and delivers a highly purified peptide mixture even from "real world" digestion conditions, thus allowing the subsequent nanoscale LC-MS/MS analysis to be performed in automated, unattended operation for long series. The method can be applied to the characterization of low levels of affinity purified proteins.     

Advanced porous organic materials for sample preparation in pharmaceutical analysis

The development of novel sample preparation media plays a crucial role in pharmaceutical analysis. To facilitate the extraction and enrichment of pharmaceutical molecules in complex samples, various functionalized materials have been developed and prepared as adsorbents. Recently, some functionalized porous organic materials have become adsorbents for pharmaceutical analysis due to their unique properties of adsorption and recognition. These advanced porous organic materials, combined with consequent analytical techniques, have been successfully used for pharmaceutical analysis in complex samples such as environmental and biological samples. This review encapsulates the progress of advanced porous materials for pharmaceutical analysis including pesticides, antibiotics, chiral drugs, and other compounds in the past decade. In addition, we also address the limitations and future trends of these porous organic materials in pharmaceutical analysis.     

Recent developments in sample preparation for chromatographic analysis of carbohydrates

Carbohydrates are a very important group of compounds due to their roles as structural materials, sources of energy, biological functions and environmental analytes; they are characterized by their structural diversity and the high number of isomers they present. While many advances have been made in carbohydrate analysis, the sample preparation remains difficult. This review aims to summarize the most important treatments which have been recently developed to be applied prior to the analysis of carbohydrates by chromatographic techniques. Due to the multiplicity of structures and matrices, many different techniques are required for clean-up, fractionation and derivatization. A number of new techniques which could be potentially adequate for carbohydrate characterization have also been revised.     

Fiber-packed needle-type sample preparation device designed for gas chromatographic analysis

A miniaturized sample preparation technique that uses a fine-fiber-packed needle as the extraction medium is reviewed, especially in relation to its application to the analysis of volatile organic compounds by gas chromatography. When the needle was packed longitudinally with a bundle of fine filaments (12 μm o.d.) which were also surface-coated with polymeric materials, successful sample preconcentration was obtained. Improved sensitivity was also established by introducing simultaneous derivatization reactions into the extraction process in the fiber-packed needle. The storage performance of the needle clearly demonstrated the potential of the technique for typical on-site sampling during environmental analysis. In this short review, the fiber-packed extraction needle developed by the authors is summarized along with applications that use the fiber-packed needle as a miniaturized extraction device.     

Focused-microwave-assisted strategies for sample preparation

In this work a general discussion is presented about extraction and digestion procedures, assisted by focused-microwave radiation. Applications involving inorganic, organic, and organometallic analytes in different types of samples are presented, taking into account recent literature data. The main advantages of using focused-microwave radiation are highlighted, such as safety, versatility, control of microwave energy released to the sample, and programmed addition of solutions. All these features can be applied properly in sample preparation for speciation analysis. New routes of development are discussed considering partial digestion by acid-vapor and gradual addition of a liquid sample to hot concentrated acids. Some preliminary results using these strategies are presented to demonstrate their potentiality.