G. Vale

Overview on modern approaches to speed up protein identification workflows relying on enzymatic cleavage and mass spectrometry-based techniques.

Recent tools addressed to accelerate the different steps of the sample treatment for protein identification in modern workflows are reviewed and critically commented in this manuscript. Heating, microspin columns, ultrasonic energy, high pressure, infrared energy, microwave energy, alternating electric fields and microreactors are outlined as useful tools that can be used to accelerate all or some of the following steps for in-gel or in-liquid based approaches for protein identification: (i) protein dissolution/denaturation, (ii) protein reduction, (iii) protein alkylation and (iv) protein digestion. The advantages and drawbacks, along with the main differences among the different tools are also commented. Future prospects for hyphenation of methods are also discussed. Researchers are informed also in this work regarding the main problems to be found when implementing any of the above mentioned methods.

Manufactured nanoparticles in the aquatic environment-biochemical responses on freshwater organisms: A critical overview.

The enormous investments in nanotechnology have led to an exponential increase of new manufactured nano-enabled materials whose impact in the aquatic systems is still largely unknown. Ecotoxicity and nanosafety studies mostly resulted in contradictory results and generally failed to clearly identify biological patterns that could be related specifically to nanotoxicity. Generation of reactive oxygen species (ROS) is one of the most discussed nanotoxicity mechanism in literature. ROS can induce oxidative stress (OS), resulting in cyto- and genotoxicity. The ROS overproduction can trigger the induction of anti-oxidant enzymes such as catalase (CAT), superoxide dismutase (SOD) and glutathione peroxidases (GPx), which are used as biomarkers of response. A critical overview of the biochemical responses induced by the presence of NPs on freshwater organisms is performed with a strong interest on indicators of ROS and general stress. A special focus will be given to the NPs transformations, including aggregation, and dissolution, in the exposure media and the produced biochemical endpoints.

Ultrasonic-assisted enzymatic digestion (USAED) for total elemental determination and elemental speciation: A tutorial

Due to its potential as sample treatment for Analytical Chemistry, the Ultrasonic-Assisted Enzymatic Digestion (USAED) for total elemental determination and elemental speciation is described under the most recent achievements published in literature, focusing on the variables that critically affect the performance of this relatively new sample treatment, such as the type of enzymes or the type of ultrasonic system used for the acceleration of the solid-liquid extraction process. Moreover, analytical chemists are aware of common errors produced in data interpretation concerning USAED. In addition, a guide for the rapid application of this methodology is also provided along with detailed explanations. Finally, future trends regarding USAED are also given and commented.

Determination of Cd and Pb in biological reference materials by electrothermal atomic absorption spectrometry: A comparison of three ultrasonic-based sample treatment procedures

Three different ultrasonic-based sample treatment approaches, the automated ultrasonic slurry sampling, the ultrasonic assisted acid solid-liquid extraction (ASLE) and the enzymatic probe sonication (EPS) were compared and discussed for the determination of Cd and Pb by ET-AAS in biological reference materials. The sample mass chosen to perform the analysis was 10mg and the liquid volume was 1ml of nitric acid 1M. The best results were obtained with the slurry procedure with which it was possible accurate and precise determination of the Cd and Pb content in four of the five reference materials studied. Optimum performance (total metal extraction) of ASLE assisted by ultrasound for Cd was only achieved in two of the four materials assessed whereas total Pb recovery was only possible in three of the five samples. Total extraction with the enzymatic probe sonication was only obtained for Cd in oyster tissue. Neither ASLE nor EPS were able to extract Cd or Pb from spruce needles. Pb concentration obtained after EPS was found to be highly dependent from sample centrifugation speed and time.

Enzymatic probe sonication as a tool for solid-liquid extraction for total selenium determination by electrothermal-atomic absorption spectrometry.

A new fast and reproducible approach is described for the application of the enzymatic probe sonication (EPS) methodology [J.L. Capelo, P. Ximénez-Embún, Y. Madrid-Albarrán, C. Cámara, Anal. Chem. 76 (2004) 233-237] for total selenium determination by electrothermal atomic absorption spectrometry, ET-AAS. Ni(NO3)2 and Pd(NO3)2 were studied as matrix modifiers in conjunction with H2O2, being best results obtained with Pd(NO3)2 plus H2O2. The presence of H2O2 as matrix modifier increases up to 66% the time-life of the graphite tubes, by avoiding the building-up of carbonaceous residues. BCR-414 plankton and ERM-CE 278 mussel tissue reference materials were used for proof-of-the-methodology. Different enzymes, protease XIV, substilisin and trypsin were studied. The use of fresh enzyme was found critical. Good Se recoveries were obtained for oyster tissue, 111%; BCR-414 plankton, 106% and ERM-CE 278 mussel tissue, 93%, when protease XIV was used. Data regarding microwave digestion versus EPS methodology is also presented and discussed.

An assessment of the ultrasonic probe‐based enhancement of protein cleavage with immobilized trypsin

The use of ultrasonic probe, in conjunction with immobilized trypsin, has been explored in this work for potential enhancement of protein digestion. Several solid supports commonly used to immobilize trypsin were subjected to different ultrasonication amplitudes and time in order to investigate their mechanical resistance to ultrasonic energy when provided by the ultrasonic probe. Glass beads and magnetic particles were found to remain intact in most conditions studied. It was found that immobilized trypsin cannot be reused after ultrasonication since the enzymatic activity was greatly diminished. For comparative purposes, vortex shaking was also explored for protein cleavage. Four standard proteins – bovine serum albumin, α‐lactalbumin, carbonic anhydrase and ovalbumin – were successfully identified using peptide mass fingerprint, or peptide fragment fingerprint. In addition, the performance of the classical protein cleavage (overnight, 12 h) and the ultrasonic methods was found to be similar when the digestion of a complex proteome, human plasma, was assessed through 18‐O quantification. The digestion yields found were 90–117% for the ultrasonic and 5–21% for the vortex when those methods were compared with the classical overnight digestion.

Effects of nanoparticles in species of aquaculture interest

AbstractRecently, it was observed that there is an increasing application of nanoparticles (NPs) in aquaculture. Manufacturers are trying to use nano-based tools to remove the barriers about waterborne food, growth, reproduction, and culturing of species, their health, and water treatment in order to increase aquaculture production rates, being the safe-by-design approach still unapplied. We reviewed the applications of NPs in aquaculture evidencing that the way NPs are applied can be very different: some are direclty added to feed, other to water media or in aquaculture facilities. Traditional toxicity data cannot be easily used to infer on aquaculture mainly considering short-term exposure scenarios, underestimating the potential exposure of aquacultured species. The main outputs are (i) biological models are not recurrent, and in the case, testing protocols are frequently different; (ii) most data derived from toxicity studies are not specifically designed on aquaculture needs, thus contact time, exposure concentrations, and other ancillary conditions do not meet the required standard for aquaculture; (iii) short-term exposure periods are investigated mainly on species of indirect aquaculture interest, while shrimp and fish as final consumers in aquaculture plants are underinvestigated (scarce or unknown data on trophic chain transfer of NPs): little information is available about the amount of NPs accumulated within marketed organisms; (iv) how NPs present in the packaging of aquacultured products can affect their quality remained substantially unexplored. NPs in aquaculture are a challenging topic that must be developed in the near future to assure human health and environmental safety. Graphical abstractᅟ

Ultrasonic energy as a tool to overcome some drawbacks in the determination of lead in brain tissue and urine of rats

An ultrasonic assisted solid-liquid extraction method was developed to determine the level of lead in the brain and urine of rats. Lead was determined by electrothermal atomic absorption spectrometry with longitudinal-Zeeman background correction. Several analytical drawbacks were addressed and overcome, namely small brain sample mass and the formation of precipitate in the urine samples. Utrasonication provided by an ultrasonic probe succeeded in extracting lead from brain samples. Furthermore, it was demonstrated that the formation of a precipitate lowered the lead content in the liquid phase of the urine. Lead was back extracted from the precipitate to the liquid phase with the aid of ultrasonic energy and acidifying the urine with 10% v/v nitric acid. A microwave-assisted acid digestion protocol was used to check the completeness of the lead extraction. The within bath and between bath precision was 5% (n=9) and 7% (n=3) respectively. The limit of quantification was 1.05 μg g(-1) for brain samples and 2.1 μg L(-1) for urine samples. A total of 6 samples of urine and 12 samples of brain from control rats and another 6 samples of urine and 12 samples of brain from rats fed with tap water rich in lead acetate were used in this research. Lead levels in brain and urine from exposed rats ranged from 1.9 ± 0.2 μg g(-1) to 3.5 ± 0.2 μg g(-1) and from 752 ± 56 μg L(-1) to 60.9 ± 1.2 mg L(-1) respectively. Statistically significant differences of levels of lead in brain and urine were found between exposed and non exposed rats.

A mesofluidic platform integrating on-chip probe ultrasonication for multiple sample pretreatment involving denaturation, reduction, and digestion in protein identification assays by mass spectrometry.

The integration of ultrasound (US)-assisted sample processing on-chip in a lab-on-a-valve (LOV) format for automated high-throughput shotgun proteomic assays is herein presented for the first time. The proof of concept of this system was demonstrated with the analysis of three proteins and sera from patients with lymphoma or myeloma.