Screening of biomarkers in rat urine using LC/electrospray ionization-MS and two-way data analysis

Biofluids, like urine, form very complex matrixes containing a large number of potential biomarkers, that is, changes of endogenous metabolites in response to xenobiotic exposure. This paper describes a fast and sensitive method of screening biomarkers in rat urine. Biomarkers for phospholipidosis, induced by an antidepressant drug, were studied. Urine samples from rats exposed to citalopram were analyzed using solid-phase extraction (SPE) and liquid chromatography mass spectrometry (LC/MS) analysis detecting negative ions. A fast iterative method, called Gentle, was used for the automatic curve resolution, and metabolic fingerprints were obtained. After peak alignment principal component analysis (PCA) was performed for pattern recognition, PCA loadings were studied as a means of discovering potential biomarkers. In this study a number of potential biomarkers of phospholipidosis in rats are discussed. They are reported by their retention time and base peak, as their identification is not within the scope of the study. In addition to the fact that it was possible to differentiate control samples from dosed samples, the data were very easy to interpret, and signals from xenobiotic-related substances were easily removed without affecting the endogenous compounds. The proposed method is a complement or an alternative to NMR for metabolomic applications.     

Chemical concentration measurement in blood serum and urine samples using liquid-core optical fiber Raman spectroscopy

We report measurements of chemical concentrations in clinical blood serum and urine samples using liquid-core optical fiber (LCOF) Raman spectroscopy to increase the collected signal strength. Both Raman and absorption spectra were acquired in the near-infrared region using the LCOF geometry. Spectra of 71 blood serum and 61 urine samples were regressed via partial least squares against reference analyzer values. Significant correlation was found between predicted and reference concentrations for 13 chemicals. Using absorption data to normalize the LCOF enhancement made the results more accurate. The experimental geometry is well suited for high-volume and automated chemical analysis of clear biofluids.     

Limitations of using Raman microscopy for the analysis of high-content-carbon-filled ethylene propylene diene monomer rubber

The effects of laser irradiation on changes to the surface chemistry and structure of a commercially available ethylene propylene diene monomer (EPDM) rubber sample after Raman microscopy analysis was investigated. The Raman measurements were carried out with different levels of laser power on the sample, ranging from 4.55 mW to 0.09 mW. The surface of the EPDM was analyzed before and after laser exposure using X-ray photoelectron spectroscopy (XPS) and attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopy. The techniques have surface probe depths of approximately < or = 10 nm and 1 microm, respectively. Both sets of analysis show that ingredients of the blended EPDM rubber "bloom" to the surface as a result of local heating that takes place due to the absorption of laser by carbon black during the Raman analysis. Scanning electron microscopy (SEM) analysis was also performed on the Raman analyzed areas to visually illustrate the effects created due to laser light exposure (i.e., burning marks). The change in surface chemistry also occurs in regions a few millimeters from the exposed sites, indicating that the effect is quite long range. However, this phenomenon has no major influence, as far as XPS or ATR-FTIR results disclose, on the backbone structure of the rubber sample. The results indicate that precautions should be taken when analyzing complex blended polymer samples using Raman spectroscopy.     

Generation of ultrahigh peak capacity LC separations via elevated temperatures and high linear mobile-phase velocities

The use of a combination of ultraperformance liquid chromatography at approximately 11,000 psi on sub 2-microm particles combined with reversed-phase gradient chromatography at a temperature of 90 degrees C is described as applied to the analysis of endogenous and drug metabolites in human and animal urine. By using elevated temperatures, back pressures can be reduced while maintaining high flow rates and chromatographic efficiency, with peaks 1-3 s wide at the base. Application to urine samples provided a peak capacity of approximately 700 for a 10-min analysis and greater than approximately 1000 in 1 h. Despite the narrow nature of the peaks, good quality mass spectra were also obtained, allowing the identification of typical drug and endogenous metabolites. These ultra-high-resolution chromatograms should be ideal for the analysis of complex samples in, for example, metabolite identification, impurity identification, and metabonomic/metabolomic studies. Applications in natural product analysis and proteomics can also be envisaged.     

Monitoring diet effects via biofluids and their implications for metabolomics studies

The effect of diet on metabolites found in rat urine samples has been investigated using nuclear magnetic resonance (NMR) and a new ambient ionization mass spectrometry experiment, extractive electrospray ionization mass spectrometry (EESI-MS). Urine samples from rats with three different dietary regimens were readily distinguished using multivariate statistical analysis on metabolites detected by NMR and MS. To observe the effect of diet on metabolic pathways, metabolites related to specific pathways were also investigated using multivariate statistical analysis. Discrimination is increased by making observations on restricted compound sets. Changes in diet at 24-h intervals led to predictable changes in the spectral data. Principal component analysis was used to separate the rats into groups according to their different dietary regimens using the full NMR, EESI-MS data or restricted sets of peaks in the mass spectra corresponding only to metabolites found in the urea cycle and metabolism of amino groups pathway. By contrast, multivariate analysis of variance from the score plots showed that metabolites of purine metabolism obscure the classification relative to the full metabolite set. These results suggest that it may be possible to reduce the number of statistical variables used by monitoring the biochemical variability of particular pathways. It should also be possible by this procedure to reduce the effect of diet in the biofluid samples for such purposes as disease detection.     

Lectin-based affinity capture for MALDI-MS analysis of bacteria

Immobilized lectins have now been incorporated into affinity surfaces that can be used to isolate broad classes of samples for mass spectrometric analysis. A carbohydrate and a bacterial species that displays the carbohydrate binding motif were isolated and concentrated out of solutions containing salt, urea, buffers, and other contaminants that are deleterious to MALDI mass spectrometry. Concanavalin A was immobilized to a gold foil via a self-assembled monolayer. Samples in phosphate buffer or urine were applied to the capture surface and allowed to interact. The capture surface was then washed to remove salts and other unbound components and subjected to matrix-assisted laser desorption/ionization on a time-of-flight mass spectrometer. The lectin-derivatized surface allowed samples to be concentrated and readily characterized at relatively low levels.     

Sampling and Raman confocal microspectroscopic analysis of airborne particulate matter using poly(dimethylsiloxane) solid-phase microextraction fibers

Commercial poly(dimethylsiloxane) (PDMS) 7-microm solid-phase microextraction (SPME) fibers were used for sampling and Raman spectroscopic analysis of a tailpipe diesel exhaust, candle smoke, cigarette smoke, and asbestos dust. Samples were collected via direct exposure of the SPME fiber to contaminated air. The mass loading for SPME fibers was varied by changing the sampling time. Results indicate that PDMS-coated fibers provide a simple, fast, reusable, and cost-effective air sampling tool for airborne particulates. The PDMS coating was stable; Raman bands of the PDMS coating were observed exactly at the same wavenumber positions before and after air sampling. Raman spectroscopic analysis resulted in identification of several characteristic bands allowing chemical speciation of particulates. The advantage of the SPME fiber is the open bed geometry allowing for application of various spectroscopic methods of particulate analysis. This paper describes the first-ever combined application of SPME technology with Raman confocal microspectroscopy for sampling and analysis of airborne particulates. Advantages of the combination of solid-phase microextraction and Raman microspectroscopy for airborne particulate analysis are discussed. Challenges associated with combined SPME sampling and Raman analysis of single particles are also described.     

Feasibility of a wide area illumination scheme for reliable Raman measurement of petroleum products

A newly developed Raman collection scheme, a wide area illumination (WAI) scheme, was employed to demonstrate its utility for the analysis of petroleum products. For this purpose, the compositional analysis of simulated naphtha samples was attempted. The WAI scheme utilized a laser beam that illuminated a sample in a circular fashion with a diameter of 6 mm and a focal length of 250 mm. The reproducibility of the Raman measurement can be improved due to decreased sensitivity of the sample position as well as orientation with regard to the focal plane, as shown in a previous study. Near-infrared (NIR) spectroscopy, widely adopted in the field of petroleum refining, was also employed to compare with the prediction results obtained using the WAI scheme. Since the Raman spectral feature is more distinct and selective, the resulting calibration accuracy could be improved as long as reproducible Raman spectra could be collected. Overall prediction results using Raman spectroscopy were superior to those from NIR spectroscopy. The feasibility of the WAI scheme for reliable Raman analysis of petroleum products such as naphtha was demonstrated in this paper.     

Characterization of differences between blood sample matrices in untargeted metabolomics

Large-scale proteomic and metabolomic technologies are increasingly gaining attention for their use in the diagnosis of human disease. In order to ensure the statistical power of relevant markers, such analyses must incorporate a large number of representative samples. While in a best-case scenario these samples are collected through a study design that is specifically tailored for the desired analysis, often studies must rely upon the analysis of large numbers of previously banked samples that may or may not have complete and accurate documentation of their associated collection and storage methods. In this study, several human blood matrices were analyzed and compared for the quality of metabolomic output. The sample types that were tested include plasma prepared with a variety of anticoagulants and serum collected by venipuncture and capillary blood collection protocols. Analysis with liquid chromatography-mass spectrometry (LC-MS) revealed only subtle differences between the various plasma preparation methods. Differences between the serum and plasma samples appear to be largely peptide/protein-based and are consistent with the biological distinction of the two matrices. Interestingly, the small molecule lysophosphatidylinositol was found to be in higher abundance in plasma, as a possible consequence of the effect of the intrinsic clotting cascade on adjacent metabolic pathways. Comparison of the small-molecule profiles of the capillary- and venipuncture-collected samples revealed 23 statistically significant compound differences between these sample types. Most of these features can be attributed to surfactants and detergents used to pretreat the skin in order to maintain the sterility of sample collection. However, several have identical mass and molecular formulas as endogenous human metabolites and could be erroneously attributed to actual metabolic perturbations. Understanding the extent of these matrix effects is important for control of systematic bias and ensuring the quality of metabolomic analysis.     

Safety considerations for sample analysis using a near-infrared (785 nm) Raman laser source

Raman spectroscopy is often considered a nondestructive analytical technique; however, this is not always the case. The 300-mW 785-nm near-infrared (NIR) laser source used with many commercially available instruments has sufficient power to burn samples. This destructive potential is of special concern if the sample is irreplaceable (e.g., fine art, forensic evidence, or for in vivo medical diagnostics) or a hazardous energetic material (explosive or pyrophoric samples). This study quantifies the heat resulting from illuminating an extensive color array with a 785-nm NIR laser and relates these values to the hazards associated with Raman analysis. In general, darker colors were found to be more problematic. Since visible colors are not ideally correlated with absorptive characteristics at 785 nm, predictions based on thermography are not perfect; however, this approximation gives a useful method for predicting the thermal response of unknown samples to NIR exposure. Additionally, experimental studies evaluated the analysis of flammable organic solvents, propellants, military explosives, mixtures containing military explosives, shock-sensitive explosives, and gunpowders (i.e., smokeless, black, and Pyrodex powders). Safety guidelines for analysis are presented.     

Characterization and quantitation of a tertiary mixture of salts by Raman spectroscopy in simulated hydrothermal vent fluid

This article will demonstrate that Raman spectroscopy can be a useful tool for monitoring the chemical composition of hydrothermal vent fluids in the deep ocean. Hydrothermal vent systems are difficult to study because they are commonly found at depths greater than 1000 m under high pressure (200-300 bar) and venting fluid temperatures are up to 400 degrees C. Our goal in this study was to investigate the use of Raman spectroscopy to characterize and quantitate three Raman-active salts that are among the many chemical building blocks of deep ocean vent chemistry. This paper presents initial sampling and calibration studies as part of a multiphase project to design, develop, and deploy a submersible deep sea Raman instrument for in situ analysis of hydrothermal vent systems. Raman spectra were collected from designed sets of seawater solutions of carbonate, sulfate, and nitrate under different physical conditions of temperature and pressure. The role of multivariate analysis techniques to preprocess the spectral signals and to develop optimal calibration models to accurately estimate the concentrations of a set of mixtures of simulated seawater are discussed. The effects that the high-pressure and high-temperature environment have upon the Raman spectra of the analytes were also systematically studied. Information gained from these lab experiments is being used to determine design criteria and performance attributes for a deployable deep sea Raman instrument to study hydrothermal vent systems in situ.     

Quantitative detection of trichloroacetic acid in human urine using isotope dilution high-performance liquid chromatography-electrospray ionization tandem mass spectrometry

The chemical disinfection of drinking water to control microbial contaminants results in the formation of disinfection byproducts (DBPs). The volatile trihalomethanes and the nonvolatile haloacetic acids (HAAs) are the most prevalent DBPs. It is important to monitor human exposure to HAAs because of their potential adversehealth effects, such as cancer. Among the HAAs, urinary trichloroacetic acid (TCAA) is a potential valid biomarker for assessing chronic ingestion exposure to HAAs from drinking water. We have developed a rugged, high-throughput, sensitive, accurate, and precise assay for the measurement of trace levels of TCAA in human urine using a simple solid-phase extraction (SPE) cleanup followed by isotope dilution high-performance liquid chromatography tandem mass spectrometry (HPLC-MS/MS). TCAA is extracted from the urine using SPE, separated from other extract components by reversed-phase HPLC, and analyzed by negative ion electrospray ionization-isotope dilution-MS/MS using a multiple reaction monitoring experiment. The method is simple and fast and is not labor intensive (sample preparation and analysis can be performed in approximately 15 min) with a limit of detection of 0.5 ng/mL in 1 mL of urine.     

MMSAT: automated quantification of metabolites in selected reaction monitoring experiments

Selected reaction monitoring (SRM) is a mass spectrometry-based approach commonly used to increase analytical sensitivity and selectively for specific compounds in complex metabolomic samples. While the goal of well-designed SRM methods is to monitor for unique precursor-product ion pairs, in practice this is not always possible due to the diversity of the metabome and the resolution limits of mass spectrometers that are capable of SRM. Isobaric or near-isobaric precursor ions with different chromatographic properties but identical product ions often arise in complex samples. Without analytical standards, such metabolites will go undetected by conventional data analysis methods. Furthermore, a single SRM method may include simultaneous monitoring of tens to hundreds of different metabolites across multiple samples making quantification of all detected ions a challenging task. To facilitate the analysis of SRM data from complex metabolomic samples, we have developed the Metabolite Mass Spectrometry Analysis Tool (MMSAT). MMSAT is a web-based tool that objectively quantifies every metabolite peak detected in a set of samples and aligns peaks across multiple samples to enable quantitative comparison of each metabolite between samples. The analysis incorporates quantification of multiple peaks/ions that have different chromatographic retention times but are detected within a single SRM transition. We compare the performance of MMSAT against existing tools using a human glioblastoma tissue extract and illustrate its ability to automatically quantify multiple precursors within each of three different transitions. The Web-interface and source code is avaliable at http://www.cancerresearch.unsw.edu.au/crcweb.nsf/page/MMSAT .     

High-throughput bioanalytical LC/MS/MS determination of benzodiazepines in human urine: 1000 samples per 12 hours.

The analytical capabilities of liquid chromatography tandem mass spectrometry for sensitive and highly selective determination of target compounds in complex biological samples makes it well suited for high-throughput analysis. We report the fast separation of six benzodiazepines isolated from human urine via selected reaction monitoring liquid chromatography/mass spectrometry using short dwell times to accommodate fast-eluting chromatographic peaks. The analytes were extracted from human urine samples along with their deuterium-labeled internal standards by a simple liquid-liquid extraction in 96-well plates. Using four autosamplers coupled to one chromatographic column and one tandem mass spectrometer operated in the turbo ion spray mode with positive ion detection, 1152 samples (12 96-well plates) were analyzed in less than 12 h. Through an electronic switching box designed and constructed in-house, the autosamplers were synchronized with the mass spectrometer so that injections were made as soon as the mass spectrometer was ready to collect data. Each run required 30 s to complete with another 7-8 s for the data system to load the next data file to be collected. Chromatographic integrity and ion current response remained relatively constant for the duration of the analyses. The results show acceptable precision and accuracy and demonstrate the feasibility of using fast separations with tandem mass spectrometry for high-throughout analysis of biological samples containing multiple analytes.     

Pharmacokinetics and tissue distribution of amphotericin B following oral administration of three lipid-based formulations to rats

The objective of this study was to assess the pharmacokinetics and tissue distribution of amphotericin B (AmB) in rats following oral administration of three lipid-based formulations (iCo-009, iCo-010 and iCo-011). The lipid-based formulations were administered to rats at a dose of 10?mg/kg and blood samples were withdrawn at predose, 1, 2, 4, 6, 8, 10, 12, 24, 48 and 72?h, after which the animals were sacrificed and the body organs were collected for AmB quantification using a validated HPLC method. Plasma pharmacokinetics parameters were determined using non-compartmental analysis. The disappearance of AmB from plasma was the slowest following the administration of iCo-010 with MRT of 63?h followed by iCo-009 then iCo-011 (36 and 27?h). The AUC_0-24h of iCo-009 and iCo-010 was 1.5–2-fold higher than that of iCo-011. The kidney exposure was comparable between iCo-009 and iCo-010 and was higher than that of iCo-011. The lung exposure was the highest following iCo-010 administration as compared to that of iCo-009. The distribution of AmB from plasma to tissues resulted in a high accumulation of AmB overtime with slow back-distribution to plasma. The pharmacokinetics profiles varied among the three formulations, despite the similarity in lipid composition between iCo-010 and iCo-011 and the presence of Peceol® as a common component in the formulations. The administration of oral iCo-010 could lead to higher steady state concentrations in the tissues after multiple dosing, which could lead to enhanced eradication of tissue borne fungal and parasitic infections.     

Surface-enhanced Raman signatures of pigmentation of cyanobacteria from within geological samples in a spectroscopic-microfluidic flow cell

A simple surface-enhanced Raman spectroscopy (SERS) microflow cell was developed to investigate distributions of scytonemin pigment within cyanobacteria from samples of rock collected from an arctic desert that contained endolithic cyanobacteria. The assay, which has future potential use in a variety of applications, including astrobiology and analysis of microorganisms in remote environments, involved studying SERS spectra of bacteria from within geological samples. By using a dispersed colloidal substrate in the microfluidic device, surface enhancement of the order >10(5) was obtained for the determination of the pigment in the microorganisms when compared to the native Raman spectra. The SERS assay, which had a nM sensitivity for scytonemin, showed that the concentration of pigment was highest in samples that had experienced the highest stress environments, as a result of high doses of UV irradiation.     

Raman spectroscopy-based creatinine measurement in urine samples from a multipatient population

Spectroscopic methods of urinalysis offer several advantages over chemical methods, including less sample contact and higher information content. In particular, urine creatinine has been the subject of several spectroscopic studies. We report the first use of Raman spectroscopy to measure creatinine concentrations in unaltered urine samples from a multipatient population. Using near-infrared excitation and a hybrid linear analysis calibration method, a root mean squared error of cross-validation (RMSECV) of 4.9 mg/dL was obtained. The error in the reference chemical method was 1.1 mg/dL. This result shows that the Raman spectroscopy can measure creatinine at clinical levels even in the presence of patient-to-patient variations. Because most assays in urine require creatinine concentration in order to correct for fluctuations in water content, measurement of creatinine is the first step towards more extensive Raman-based urinalysis.     

Quantitative evaluation of the sensitivity of library-based Raman spectral correlation methods

Library-based Raman spectral correlation methods are widely used in surveillance applications in multiple areas including the pharmaceutical industry, where Raman spectroscopy is commonly used in verification screening of incoming raw materials. While these spectral correlation methods are rapid and require little or no sample preparation, their sensitivity to the presence of contaminants has not been adequately evaluated. This is particularly important when dealing with pharmaceutical excipients, which are susceptible to economically motivated adulteration by substances having similar physical/chemical/spectroscopic properties. We report a novel approach to evaluating the sensitivity of library-based Raman spectral correlation methods to contaminants in binary systems using a hit-quality index model. We examine three excipient/contaminant systems, glycerin/diethylene glycol, propylene glycol/diethylene glycol, and lactose/melamine and find that the sensitivity to contaminant for each system is 18%, 32%, and 4%, respectively. These levels are well-correlated to the minimum contaminant composition that can be detected by both verification and identification methods. Our studies indicate that the most important factor that determines the sensitivity of a spectral correlation measurement to the presence of contaminant is the relative Raman scattering cross section of the contaminant.     

Analysis of perchlorate in human urine using ion chromatography and electrospray tandem mass spectrometry

Because of health concerns surrounding widespread exposure to perchlorate, we developed a sensitive and selective method for quantifying perchlorate in human urine using ion chromatography coupled with electrospray ionization tandem mass spectrometry. Perchlorate was quantified using a stable isotope-labeled internal standard ((18)O(4)-perchlorate) with excellent assay precision (coefficient of variation <5% for repetitively analyzed quality control material). Analytical accuracy was established by blind analysis of certified proficiency testing materials prepared in synthetic urine matrix; calculated amounts deviated minimally from true amounts, with percent differences ranging from 2% to 5%. Selective chromatography and tandem mass spectrometry reduced the need for sample cleanup, resulting in a rugged and rapid method capable of routinely analyzing 75 samples/day. The lowest reportable level (0.025 ng/mL) was sufficiently sensitive to detect perchlorate in all human urine samples evaluated to date, with a linear response range from 0.025 to 100 ng/mL. This selective, sensitive, and rapid method will help elucidate any potential associations between human exposure to low levels of perchlorate and adverse health effects.     

Supercritical fluid extraction of potential migrants from paper and board intended for use as food packaging materials

The optimization of supercritical fluid extraction using CO2 for the extraction of contaminants in 15 samples of recycled paper and board (P&B) has been studied. An experimental design was used for simultaneous optimization of the variables involved in both the extraction step and the collection of the extract. Methanol was used as modifier. Several plastisizers such as diethyl phthalate, diisobutyl phthalate, di-n-butyl phthalate, dioctyl adipate, and diethylhexyl phthalate (from 2 to 100 microg/g of paper) were found in the recycled P&B samples. A discriminate analysis applied to all results obtained allow us to classify the samples in three different groups according to the content of recycled pulp (0, 10-30, and > 80% of recycled pulp), the sample thickness (from <300 to >600 microm), and the surface treatment of the paper. The analytical behavior and the results are discussed.