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de Bruin-Hoegée M, van Damme IM, van Groningen T, van der Riet-van Oeveren D, Noort D, van Asten AC. Elucidation of in Vitro Chlorinated Tyrosine Adducts in Blood Plasma as Selective Biomarkers of Chlorine Exposure. Chem Res Toxicol 2022; 35:1070-1079. [PMID: 35622957 PMCID: PMC9214762 DOI: 10.1021/acs.chemrestox.2c00053] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Chlorine is a widely available industrial chemical and involved in a substantial number of cases of poisoning. It has also been used as a chemical warfare agent in military conflicts. To enable forensic verification, the persistent biomarkers 3-chlorotyrosine and 3,5-dichlorotyrosine in biomedical samples could be detected. An important shortfall of these biomarkers, however, is the relatively high incidence of elevated levels of chlorinated tyrosine residues in individuals with inflammatory diseases who have not been exposed to chlorine. Therefore, more reliable biomarkers are necessary to distinguish between endogenous formation and exogeneous exposure. The present study aims to develop a novel diagnostic tool for identifying site-specific chlorinated peptides as a more unambiguous indicator of exogeneous chlorine exposure. Human blood plasma was exposed in vitro to various chlorine concentrations, and the plasma proteins were subsequently digested by pronase, trypsin, or pepsin. After sample preparation, the digests were analyzed by liquid chromatography tandem mass spectrometry (LC-MS/MS) and liquid chromatography high-resolution tandem mass spectrometry (LC-HRMS/MS). In line with other studies, low levels of 3-chlorotyrosine and 3,5-dichlorotyrosine were found in blank plasma samples in this study. Therefore, 50 site-specific biomarkers were identified, which could be used as more unambiguous biomarkers for chlorine exposure. Chlorination of the peptides TY*ETTLEK, Y*KPGQTVK, Y*QQKPGQAPR, HY*EGSTVPEK, and Y*LY*EIAR could already be detected at moderate in vitro chlorine exposure levels. In addition, the latter two peptides were found to have dichlorinated fragments. Especially, Y*LY*EIAR, with a distinct chlorination pattern in the MS spectra, could potentially be used to differentiate exogeneous exposure from endogenous causes as other studies reported that this part of human serum albumin is nitrated rather than chlorinated under physiological conditions. In conclusion, trypsin digestion combined with high-resolution MS analysis of chlorinated peptides could constitute a valuable technique for the forensic verification of exposure to chlorine.
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Affiliation(s)
- Mirjam de Bruin-Hoegée
- van 't Hoff Institute for Molecular Sciences, Faculty of Science, University of Amsterdam, P.O. Box 94157, Amsterdam 1090GD, The Netherlands.,TNO Defence, Safety and Security, Dep. CBRN Protection, Lange Kleiweg 137, Rijswijk 2288GJ, The Netherlands
| | - Irene M van Damme
- van 't Hoff Institute for Molecular Sciences, Faculty of Science, University of Amsterdam, P.O. Box 94157, Amsterdam 1090GD, The Netherlands
| | - Tomas van Groningen
- TNO Defence, Safety and Security, Dep. CBRN Protection, Lange Kleiweg 137, Rijswijk 2288GJ, The Netherlands
| | | | - Daan Noort
- TNO Defence, Safety and Security, Dep. CBRN Protection, Lange Kleiweg 137, Rijswijk 2288GJ, The Netherlands
| | - Arian C van Asten
- van 't Hoff Institute for Molecular Sciences, Faculty of Science, University of Amsterdam, P.O. Box 94157, Amsterdam 1090GD, The Netherlands.,CLHC, Amsterdam Center for Forensic Science and Medicine, University of Amsterdam, P.O. Box 94157, Amsterdam 1090GD, The Netherlands
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Moran A, Toffolo G, Schiavon M, Vella A, Klaus K, Cobelli C, Nair KS. A novel triple-tracer approach to assess postprandial protein turnover. Am J Physiol Endocrinol Metab 2018; 315:E469-E477. [PMID: 29870679 PMCID: PMC6230707 DOI: 10.1152/ajpendo.00012.2018] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Insulin and nutrients have profound effects on proteome homeostasis. Currently no reliable methods are available to measure postprandial protein turnover. A triple-tracer method was developed using phenylalanine stable isotope tracers to estimate appearance rates of ingested (Ra meal) and endogenous phenylalanine and the rate of phenylalanine disposal (Rd). This was compared with the "traditional" dual-tracer method, using one (1-CM)- and two (2-CM)-compartment models. For both methods, [13C6]phenylalanine was given orally, and [15N]phenylalanine was constantly infused; the triple-tracer method added [2H5]phenylalanine, infused at rates to mimic meal [13C6]phenylalanine appearance. Additionally, incorporation of meal-derived phenylalanine into specific proteins was measured after purification by two-dimensional electrophoresis. The triple-tracer approach reduced modeling errors, allowing improved reconstruction of Ra meal with a tracer-to-tracee ratio that was more constant and better estimated Rd. The 2-CM better described phenylalanine kinetics and Rd than 1-CM. Thus, the triple-tracer approach using 2-CM is superior for measuring non-steady-state postprandial protein turnover. This novel approach also allows measurement of postprandial synthesis rates of specific plasma proteins. We offer a valid non-steady-state model to measure postprandial protein turnover and synthesis of plasma proteins that can safely be applied in adults, children, and pregnant women.
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Affiliation(s)
- Antoinette Moran
- Department of Pediatrics, University of Minnesota , Minneapolis, Minnesota
| | - Gianna Toffolo
- Department of Electronics and Informatics, University of Padova , Padova , Italy
| | - Michele Schiavon
- Department of Electronics and Informatics, University of Padova , Padova , Italy
| | - Adrian Vella
- Division of Endocrinology, Mayo Clinic , Rochester, Minnesota
| | - Katherine Klaus
- Division of Endocrinology, Mayo Clinic , Rochester, Minnesota
| | - Claudio Cobelli
- Department of Electronics and Informatics, University of Padova , Padova , Italy
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Fernández-Fernández M, Rodríguez-González P, García Alonso JI. A simplified calculation procedure for mass isotopomer distribution analysis (MIDA) based on multiple linear regression. JOURNAL OF MASS SPECTROMETRY : JMS 2016; 51:980-987. [PMID: 27388533 DOI: 10.1002/jms.3809] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2016] [Revised: 06/16/2016] [Accepted: 07/05/2016] [Indexed: 06/06/2023]
Abstract
We have developed a novel, rapid and easy calculation procedure for Mass Isotopomer Distribution Analysis based on multiple linear regression which allows the simultaneous calculation of the precursor pool enrichment and the fraction of newly synthesized labelled proteins (fractional synthesis) using linear algebra. To test this approach, we used the peptide RGGGLK as a model tryptic peptide containing three subunits of glycine. We selected glycine labelled in two 13 C atoms (13 C2 -glycine) as labelled amino acid to demonstrate that spectral overlap is not a problem in the proposed methodology. The developed methodology was tested first in vitro by changing the precursor pool enrichment from 10 to 40% of 13 C2 -glycine. Secondly, a simulated in vivo synthesis of proteins was designed by combining the natural abundance RGGGLK peptide and 10 or 20% 13 C2 -glycine at 1 : 1, 1 : 3 and 3 : 1 ratios. Precursor pool enrichments and fractional synthesis values were calculated with satisfactory precision and accuracy using a simple spreadsheet. This novel approach can provide a relatively rapid and easy means to measure protein turnover based on stable isotope tracers. Copyright © 2016 John Wiley & Sons, Ltd.
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Affiliation(s)
- Mario Fernández-Fernández
- Department of Physical and Analytical Chemistry Faculty of Chemistry, University of Oviedo, Julián Clavería 8, 33006, Oviedo, Spain
| | - Pablo Rodríguez-González
- Department of Physical and Analytical Chemistry Faculty of Chemistry, University of Oviedo, Julián Clavería 8, 33006, Oviedo, Spain
| | - J Ignacio García Alonso
- Department of Physical and Analytical Chemistry Faculty of Chemistry, University of Oviedo, Julián Clavería 8, 33006, Oviedo, Spain.
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van Schalkwijk DB, Pasman WJ, Hendriks HFJ, Verheij ER, Rubingh CM, van Bochove K, Vaes WHJ, Adiels M, Freidig AP, de Graaf AA. Dietary medium chain fatty acid supplementation leads to reduced VLDL lipolysis and uptake rates in comparison to linoleic acid supplementation. PLoS One 2014; 9:e100376. [PMID: 25049048 PMCID: PMC4105472 DOI: 10.1371/journal.pone.0100376] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2013] [Accepted: 05/22/2014] [Indexed: 11/30/2022] Open
Abstract
Dietary medium chain fatty acids (MCFA) and linoleic acid follow different metabolic routes, and linoleic acid activates PPAR receptors. Both these mechanisms may modify lipoprotein and fatty acid metabolism after dietary intervention. Our objective was to investigate how dietary MCFA and linoleic acid supplementation and body fat distribution affect the fasting lipoprotein subclass profile, lipoprotein kinetics, and postprandial fatty acid kinetics. In a randomized double blind cross-over trial, 12 male subjects (age 51±7 years; BMI 28.5±0.8 kg/m2), were divided into 2 groups according to waist-hip ratio. They were supplemented with 60 grams/day MCFA (mainly C8:0, C10:0) or linoleic acid for three weeks, with a wash-out period of six weeks in between. Lipoprotein subclasses were measured using HPLC. Lipoprotein and fatty acid metabolism were studied using a combination of several stable isotope tracers. Lipoprotein and tracer data were analyzed using computational modeling. Lipoprotein subclass concentrations in the VLDL and LDL range were significantly higher after MCFA than after linoleic acid intervention. In addition, LDL subclass concentrations were higher in lower body obese individuals. Differences in VLDL metabolism were found to occur in lipoprotein lipolysis and uptake, not production; MCFAs were elongated intensively, in contrast to linoleic acid. Dietary MCFA supplementation led to a less favorable lipoprotein profile than linoleic acid supplementation. These differences were not due to elevated VLDL production, but rather to lower lipolysis and uptake rates.
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Affiliation(s)
- Daniël B. van Schalkwijk
- TNO, Zeist, the Netherlands
- Analytical Sciences division, The Leiden Amsterdam Centre for Drug Research, Leiden, the Netherlands
- The Netherlands Bioinformatics Centre (NBIC), Nijmegen, The Netherlands
| | | | | | | | | | | | | | - Martin Adiels
- Department of Mathematical Sciences, University of Gothenburg, Gothenburg, Sweden
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Rachdaoui N, Austin L, Kramer E, Previs MJ, Anderson VE, Kasumov T, Previs SF. Measuring proteome dynamics in vivo: as easy as adding water? Mol Cell Proteomics 2009; 8:2653-63. [PMID: 19724074 DOI: 10.1074/mcp.m900026-mcp200] [Citation(s) in RCA: 60] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Proteomics investigations typically yield information regarding static gene expression profiles. The central issues that limit the study of proteome dynamics include how to (i) administer a labeled amino acid in vivo, (ii) measure the isotopic labeling of a protein(s) (which may be low), and (iii) reliably interpret the precursor/product labeling relationships. In this study, we demonstrate the potential of quantifying proteome dynamics by coupling the administration of stable isotopes with mass spectrometric assays. Although the direct administration of a labeled amino acid(s) is typically used to measure protein synthesis, we explain the application of labeled water, comparing (2)H(2)O versus H(2)(18)O for measuring albumin biosynthesis in vivo. This application emphasizes two distinct advantages of using labeled water over a labeled amino acid(s). First, in long term studies (e.g. days or weeks), it is not practical to continuously administer a labeled amino acid(s); however, in the presence of labeled water, organisms will generate labeled amino acids. Second, to calculate rates of protein synthesis in short term studies (e.g. hours), one must utilize a precursor/product labeling ratio; when using labeled water it is possible to reliably identify and easily measure the precursor labeling (i.e. water). We demonstrate that labeled water permits studies of protein synthesis (e.g. albumin synthesis in mice) during metabolic "steady-state" or "non-steady-state" conditions, i.e. integrating transitions between the fed and fasted state or during an acute perturbation (e.g. following a meal), respectively. We expect that the use of labeled water is applicable to wide scale investigations of proteome dynamics and can therein be used to obtain a functional image of gene expression in vivo.
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Affiliation(s)
- Nadia Rachdaoui
- Department Medicine, Case Western Reserve University School of Medicine, Cleveland, Ohio 44106, USA
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Thadikkaran L, Siegenthaler MA, Crettaz D, Queloz PA, Schneider P, Tissot JD. Recent advances in blood-related proteomics. Proteomics 2005; 5:3019-34. [PMID: 16041673 DOI: 10.1002/pmic.200402053] [Citation(s) in RCA: 142] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Blood is divided in two compartments, namely, plasma and cells. The latter contain red blood cells, leukocytes, and platelets. From a descriptive medical discipline, hematology has evolved towards a pioneering discipline where molecular biology has permitted the development of prognostic and diagnostic indicators for disease. The recent advance in MS and protein separation now allows similar progress in the analysis of proteins. Proteomics offers great promise for the study of proteins in plasma/serum, indeed a number of proteomics databases for plasma/serum have been established. This is a very complex body fluid containing lipids, carbohydrates, amino acids, vitamins, nucleic acids, hormones, and proteins. About 1500 different proteins have recently been identified, and a number of potential new markers of diseases have been characterized. Here, examples of the enormous promise of plasma/serum proteomic analysis for diagnostic/prognostic markers and information on disease mechanism are given. Within the blood are also a large number of different blood cell types that potentially hold similar information. Proteomics of red blood cells, until now, has not improved our knowledge of these cells, in contrast to the major progresses achieved while studying platelets and leukocytes. In the future, proteomics will change several aspects of hematology.
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Affiliation(s)
- Lynne Thadikkaran
- Service régional vaudois de transfusion sanguine, Rue du Bugnon 27, CH-1005 Lausanne, Switzerland
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Bouwman F, Renes J, Mariman E. A combination of protein profiling and isotopomer analysis using matrix-assisted laser desorption/ionization-time of flight mass spectrometry reveals an active metabolism of the extracellular matrix of 3T3-L1 adipocytes. Proteomics 2005; 4:3855-63. [PMID: 15540163 DOI: 10.1002/pmic.200400861] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Differential gel electrophoresis followed by matrix-assisted laser desorption/ionization-time of flight (MALDI-TOF) mass spectrometry (MS) is a commonly used protein profiling method. However, observed changes can be explained in multiple ways, one of which is by the protein turnover rate. In order to easily and rapidly obtain information on both the identity and turnover of individual proteins, we applied a combination of protein labeling with L-(ring-2,3,4,5,6 2H5) phenylalanine and MALDI-TOF MS. While the spectrum reveals the identity of a protein, mass isotopomer analysis provides information about the rate of protein labeling as a measure of synthesis or turnover. Using this approach on mature 3T3-L1 adipocytes, we were able to discriminate between rapidly and slowly metabolised proteins. In our isolate, proteins of the cytoskeleton appeared to be slowly metabolised, whereas components of the extracellular matrix, in particular collagen type I alpha 1 (COL1A1) and collagen type I alpha 2 (COL1A2) showed rapid accumulation of newly synthesized proteins. Both proteins appeared to be metabolised in the same ratio as they are present in collagen fibers, i.e. 2:1 (COL1A1: COL1A2). In addition, functionally related proteins were also readily labeled. Taken together, we have shown that a combination of stable isotope labeling and protein profiling by gel electrophoresis and MALDI-TOF analysis can simultaneously provide information on the identity and relative metabolic rate of proteins in eukaryotic cells in a simple, nonhazardous and rapid-throughput way.
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Affiliation(s)
- Freek Bouwman
- Department of Human Biology, Nutrition and Toxicology Research Institute Maastricht, Maastricht University, Maastricht, The Netherlands
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Rand WM. Variability in planning and assessment: statistical considerations and models. J Nutr 2004; 134:1610S-1616S; discussion 1630S-1632S, 1667S-1672S. [PMID: 15173439 DOI: 10.1093/jn/134.6.1610s] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Nutrition researchers are called upon to inform policymakers of the consequences of consuming different amounts of various nutrients: how much is enough, how much is too much, and why. Traditionally, requirements were described by population-average levels and some measure of between-individual variation, whereas toxicities were described by single levels above which a toxic response was likely to occur. These statistics were used to estimate the prevalence of various adverse health effects in individual populations. Recently, accumulated data and improved understanding have led to more complete descriptions of the utilization of a few important nutrients and to the formulation of a model that includes both requirement and toxicity as extremes of the healthy-intake spectrum. This approach is based on estimating the full statistical distributions of individual nutritional deficits and surfeits within a population and using this to derive prevalence curves for specific adverse health effects. This information promises to provide policy planners with better tools to judge the health of populations, design feeding programs, and predict the sequelae of modifications in food supply and dietary habits.
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Affiliation(s)
- William M Rand
- Department of Family Medicine and Community Health, Tufts University School of Medicine, Boston, MA 02111, USA.
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Maruvada P, Srivastava S. Biomarkers for cancer diagnosis: implications for nutritional research. J Nutr 2004; 134:1640S-1645S; discussion 1664S-1666S, 1667S-1672S. [PMID: 15173444 DOI: 10.1093/jn/134.6.1640s] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
The biology of disease progression is a complex process that involves multiple sequential steps leading to cellular changes and metabolic events. These molecular events, which may serve as potential biomarkers, can be analyzed by laboratory methods and used to detect a disease such as cancer or indicate the biological exposure to environmental substances including dietary intake. Identification of the genetic, molecular, and clinical events involved in the disease process enables the development of effective therapeutic and preventive measures and the prediction of prognostic outcomes. This article describes various factors that influence nutritional and cancer biomarker research, draws similarities between them, and discusses the measures that have been adapted to validate cancer biomarkers that can potentially be applied to nutritional biomarker research. Nutritional research suffers from a lack of means to quantify relationships between diet and cancer. Biomarkers of dietary intake or metabolism, therefore, could have potential application in study designs for establishing a causal relationship between diet and disease.
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Affiliation(s)
- Padma Maruvada
- Cancer Biomarkers Research Group, Division of Cancer Prevention, National Cancer Institute, Bethesda, MD 20892, USA
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Current Awareness on Comparative and Functional Genomics. Comp Funct Genomics 2003; 4. [PMCID: PMC2447311 DOI: 10.1002/cfg.231] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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