Nano-risk Science: application of toxicogenomics in an adverse outcome pathway framework for risk assessment of multi-walled carbon nanotubes

BackgroundA diverse class of engineered nanomaterials (ENMs) exhibiting a wide array of physical-chemical properties that are associated with toxicological effects in experimental animals is in commercial use. However, an integrated framework for human health risk assessment (HHRA) of ENMs has yet to be established. Rodent 2-year cancer bioassays, clinical chemistry, and histopathological endpoints are still considered the ‘gold standard’ for detecting substance-induced toxicity in animal models. However, the use of data derived from alternative toxicological tools, such as genome-wide expression profiling and in vitro high-throughput assays, are gaining acceptance by the regulatory community for hazard identification and for understanding the underlying mode-of-action. Here, we conducted a case study to evaluate the application of global gene expression data in deriving pathway-based points of departure (PODs) for multi-walled carbon nanotube (MWCNT)-induced lung fibrosis, a non-cancer endpoint of regulatory importance.MethodsGene expression profiles from the lungs of mice exposed to three individual MWCNTs with different physical-chemical properties were used within the framework of an adverse outcome pathway (AOP) for lung fibrosis to identify key biological events linking MWCNT exposure to lung fibrosis. Significantly perturbed pathways were categorized along the key events described in the AOP. Benchmark doses (BMDs) were calculated for each perturbed pathway and were used to derive transcriptional BMDs for each MWCNT.ResultsSimilar biological pathways were perturbed by the different MWCNT types across the doses and post-exposure time points studied. The pathway BMD values showed a time-dependent trend, with lower BMDs for pathways perturbed at the earlier post-exposure time points (24 h, 3d). The transcriptional BMDs were compared to the apical BMDs derived by the National Institute for Occupational Safety and Health (NIOSH) using alveolar septal thickness and fibrotic lesions endpoints. We found that regardless of the type of MWCNT, the BMD values for pathways associated with fibrosis were 14.0–30.4 μg/mouse, which are comparable to the BMDs derived by NIOSH for MWCNT-induced lung fibrotic lesions (21.0–27.1 μg/mouse).ConclusionsThe results demonstrate that transcriptomic data can be used to as an effective mechanism-based method to derive acceptable levels of exposure to nanomaterials in product development when epidemiological data are unavailable.

[1]  Andrew Williams,et al.  Integrating toxicogenomics into human health risk assessment: Lessons learned from the benzo[a]pyrene case study , 2015, Critical reviews in toxicology.

[2]  M. Waters,et al.  Characterizing and predicting carcinogenicity and mode of action using conventional and toxicogenomics methods. , 2010, Mutation research.

[3]  Vittorio Fortino,et al.  Inhalation of rod-like carbon nanotubes causes unconventional allergic airway inflammation , 2014, Particle and Fibre Toxicology.

[4]  Douglas E. Evans,et al.  Exposure and emissions monitoring during carbon nanofiber production--Part I: elemental carbon and iron-soot aerosols. , 2011, The Annals of occupational hygiene.

[5]  M Methner,et al.  Nanoparticle Emission Assessment Technique (NEAT) for the Identification and Measurement of Potential Inhalation Exposure to Engineered Nanomaterials—Part B: Results from 12 Field Studies , 2010, Journal of occupational and environmental hygiene.

[6]  Shareen H. Doak,et al.  Dextran Coated Ultrafine Superparamagnetic Iron Oxide Nanoparticles: Compatibility with Common Fluorometric and Colorimetric Dyes , 2011, Analytical chemistry.

[7]  Jürgen Pauluhn,et al.  Subchronic 13-week inhalation exposure of rats to multiwalled carbon nanotubes: toxic effects are determined by density of agglomerate structures, not fibrillar structures. , 2010, Toxicological sciences : an official journal of the Society of Toxicology.

[8]  Biao Hu,et al.  Regulation of Found in Inflammatory Zone 1 Expression in Bleomycin-Induced Lung Fibrosis: Role of IL-4/IL-13 and Mediation via STAT-61 , 2004, The Journal of Immunology.

[9]  T. Wynn,et al.  Fibrosis is regulated by Th2 and Th17 responses and by dynamic interactions between fibroblasts and macrophages. , 2011, American journal of physiology. Gastrointestinal and liver physiology.

[10]  Julian Dymacek,et al.  Integrated miRNA and mRNA analysis of time series microarray data , 2014, BCB.

[11]  Lang Tran,et al.  ITS-NANO - Prioritising nanosafety research to develop a stakeholder driven intelligent testing strategy , 2014, Particle and Fibre Toxicology.

[12]  Helinor Johnston,et al.  Development of in vitro systems for nanotoxicology: methodological considerations , 2009, Critical reviews in toxicology.

[13]  M. Fujimoto,et al.  Cell Adhesion Molecules Regulate Fibrotic Process via Th1/Th2/Th17 Cell Balance in a Bleomycin-Induced Scleroderma Model , 2010, The Journal of Immunology.

[14]  Richard S Paules,et al.  An overview of toxicogenomics. , 2002, Current issues in molecular biology.

[15]  Takeshi Johkoh,et al.  American Thoracic Society Documents An Official ATS / ERS / JRS / ALAT Statement : Idiopathic Pulmonary Fibrosis : Evidence-based Guidelines for Diagnosis and Management , 2011 .

[16]  R. Thompson,et al.  Interleukin 1 receptor antagonist (IL-1ra) prevents or cures pulmonary fibrosis elicited in mice by bleomycin or silica. , 1993, Cytokine.

[17]  Russell S. Thomas,et al.  Application of transcriptional benchmark dose values in quantitative cancer and noncancer risk assessment. , 2011, Toxicological sciences : an official journal of the Society of Toxicology.

[18]  Patrick A. Cooke,et al.  Molecular Characterization of the Cytotoxic Mechanism of Multiwall Carbon Nanotubes and Nano-onions on Human Skin Fibroblast , 2005 .

[19]  Andrew Williams,et al.  Impact of Genomics Platform and Statistical Filtering on Transcriptional Benchmark Doses (BMD) and Multiple Approaches for Selection of Chemical Point of Departure (PoD) , 2015, PloS one.

[20]  R. Puri,et al.  IL-13 signaling through the IL-13alpha2 receptor is involved in induction of TGF-beta1 production and fibrosis. , 2006, Nature medicine.

[21]  W. McKinney,et al.  Carbon nanotube dosimetry: from workplace exposure assessment to inhalation toxicology , 2013, Particle and Fibre Toxicology.

[22]  U. Vogel,et al.  Carbon black nanoparticles induce biphasic gene expression changes associated with inflammatory responses in the lungs of C57BL/6 mice following a single intratracheal instillation , 2015, Toxicology and Applied Pharmacology.

[23]  Yong Qian,et al.  System-based identification of toxicity pathways associated with multi-walled carbon nanotube-induced pathological responses. , 2013, Toxicology and applied pharmacology.

[24]  Vincent Castranova,et al.  Single-walled Carbon Nanotubes: Geno- and Cytotoxic Effects in Lung Fibroblast V79 Cells , 2007, Journal of toxicology and environmental health. Part A.

[25]  Susan Hester,et al.  Utilizing toxicogenomic data to understand chemical mechanism of action in risk assessment. , 2013, Toxicology and applied pharmacology.

[26]  Nianqiang Wu,et al.  Mouse pulmonary dose- and time course-responses induced by exposure to multi-walled carbon nanotubes. , 2010, Toxicology.

[27]  Michael D Waters,et al.  Case study on the utility of hepatic global gene expression profiling in the risk assessment of the carcinogen furan. , 2014, Toxicology and applied pharmacology.

[28]  Michael B. Black,et al.  Cross-species comparisons of transcriptomic alterations in human and rat primary hepatocytes exposed to 2,3,7,8-tetrachlorodibenzo-p-dioxin. , 2012, Toxicological sciences : an official journal of the Society of Toxicology.

[29]  J. Y. Liu,et al.  TNF-alpha receptor knockout mice are protected from the fibroproliferative effects of inhaled asbestos fibers. , 1998, The American journal of pathology.

[30]  Daniel Krewski,et al.  Technical guide for applications of gene expression profiling in human health risk assessment of environmental chemicals. , 2015, Regulatory toxicology and pharmacology : RTP.

[31]  Yong Qian,et al.  Multiwalled Carbon Nanotube-Induced Gene Signatures in the Mouse Lung: Potential Predictive Value for Human Lung Cancer Risk and Prognosis , 2012, Journal of toxicology and environmental health. Part A.

[32]  Jiri Aubrecht,et al.  Comparison of toxicogenomics and traditional approaches to inform mode of action and points of departure in human health risk assessment of benzo[a]pyrene in drinking water , 2015, Critical reviews in toxicology.

[33]  Yong Qian,et al.  Multi-walled carbon nanotube-induced gene expression in vitro: concordance with in vivo studies. , 2015, Toxicology.

[34]  Andrew Williams,et al.  Environmental and Molecular Mutagenesis 52:425^439 (2011) Research Article Pulmonary Response to Surface-Coated Nanotitanium Dioxide Particles Includes Induction of Acute Phase Response Genes, Inflammatory Cascades, and Changes in MicroRNAs: A Toxicogenom , 2022 .

[35]  S. Akira,et al.  IL-1R1/MyD88 signaling and the inflammasome are essential in pulmonary inflammation and fibrosis in mice. , 2007, The Journal of clinical investigation.

[36]  Yong Qian,et al.  mRNA and miRNA regulatory networks reflective of multi-walled carbon nanotube-induced lung inflammatory and fibrotic pathologies in mice. , 2015, Toxicological sciences : an official journal of the Society of Toxicology.

[37]  Andrew Williams,et al.  Application of biclustering of gene expression data and gene set enrichment analysis methods to identify potentially disease causing nanomaterials , 2015, Beilstein journal of nanotechnology.

[38]  L. Michel,et al.  A role for dendritic cells in bleomycin-induced pulmonary fibrosis in mice? , 2010, American journal of respiratory and critical care medicine.

[39]  Q. Ma,et al.  Suppression of basal and carbon nanotube-induced oxidative stress, inflammation and fibrosis in mouse lungs by Nrf2 , 2016, Nanotoxicology.

[40]  Dongmei Wu,et al.  Exposure of pregnant mice to carbon black by intratracheal instillation: toxicogenomic effects in dams and offspring. , 2012, Mutation research.

[41]  A. Rao,et al.  Intravenously delivered graphene nanosheets and multiwalled carbon nanotubes induce site-specific Th2 inflammatory responses via the IL-33/ST2 axis , 2013, International journal of nanomedicine.

[42]  Maria Dusinska,et al.  Toxicity screenings of nanomaterials: challenges due to interference with assay processes and components of classic in vitro tests , 2015, Nanotoxicology.

[43]  Dongmei Wu,et al.  Transcriptomic Analysis Reveals Novel Mechanistic Insight into Murine Biological Responses to Multi-Walled Carbon Nanotubes in Lungs and Cultured Lung Epithelial Cells , 2013, PloS one.

[44]  Andrew Williams,et al.  Application of bi-clustering of gene expression data and gene set enrichment analysis methods to identify potentially disease causing nanomaterials , 2017, Data in brief.

[45]  Vincent Castranova,et al.  Pulmonary fibrotic response to aspiration of multi-walled carbon nanotubes , 2011, Particle and Fibre Toxicology.

[46]  M. Hodson,et al.  Identification of the cystic fibrosis gene. , 1990, BMJ.

[47]  P. Baron,et al.  Exposure to Carbon Nanotube Material: Aerosol Release During the Handling of Unrefined Single-Walled Carbon Nanotube Material , 2004, Journal of toxicology and environmental health. Part A.

[48]  T. Wynn,et al.  Pulmonary fibrosis: pathogenesis, etiology and regulation , 2009, Mucosal Immunology.

[49]  R Damoiseaux,et al.  No time to lose--high throughput screening to assess nanomaterial safety. , 2011, Nanoscale.

[50]  Alexandra Kroll,et al.  Current in vitro methods in nanoparticle risk assessment: limitations and challenges. , 2009, European journal of pharmaceutics and biopharmaceutics : official journal of Arbeitsgemeinschaft fur Pharmazeutische Verfahrenstechnik e.V.

[51]  Vincent Castranova,et al.  Quantitative techniques for assessing and controlling the dispersion and biological effects of multiwalled carbon nanotubes in mammalian tissue culture cells. , 2010, ACS nano.

[52]  K. Morgan Gene expression analysis reveals chemical-specific profiles. , 2002, Toxicological sciences : an official journal of the Society of Toxicology.

[53]  Chunying Chen,et al.  Multiwall carbon nanotubes directly promote fibroblast-myofibroblast and epithelial-mesenchymal transitions through the activation of the TGF-β/Smad signaling pathway. , 2015, Small.

[54]  Sharon Munn,et al.  Adverse outcome pathway development II: best practices. , 2014, Toxicological sciences : an official journal of the Society of Toxicology.

[55]  David Y Lai,et al.  Toward toxicity testing of nanomaterials in the 21st century: a paradigm for moving forward. , 2012, Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology.

[56]  Andrew Leask,et al.  TGF‐β signaling and the fibrotic response , 2004, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[57]  Anna A Shvedova,et al.  Sequential Exposure to Carbon Nanotubes and Bacteria Enhances Pulmonary Inflammation and Infectivity. Materials and Methods , 2022 .

[58]  Steven K. Gibb Toxicity testing in the 21st century: a vision and a strategy. , 2008, Reproductive toxicology.

[59]  P. Tchounwou,et al.  Multi-walled carbon nanotubes induce cytotoxicity, genotoxicity and apoptosis in normal human dermal fibroblast cells. , 2010, Ethnicity & disease.

[60]  Young Hee Lee,et al.  Monitoring multiwalled carbon nanotube exposure in carbon nanotube research facility. , 2008, Inhalation toxicology.

[61]  R. Puri,et al.  Therapeutic Attenuation of Pulmonary Fibrosis Via Targeting of IL-4- and IL-13-Responsive Cells 1 , 2003, The Journal of Immunology.

[62]  J. Bailar,et al.  Toxicity Testing in the 21st Century: A Vision and a Strategy , 2010, Journal of toxicology and environmental health. Part B, Critical reviews.

[63]  Jeffrey S Gift,et al.  Introduction to benchmark dose methods and U.S. EPA's benchmark dose software (BMDS) version 2.1.1. , 2011, Toxicology and applied pharmacology.

[64]  U. Vogel,et al.  Pulmonary instillation of low doses of titanium dioxide nanoparticles in mice leads to particle retention and gene expression changes in the absence of inflammation. , 2013, Toxicology and applied pharmacology.

[65]  B. van Ravenzwaay,et al.  Inhalation toxicity of multiwall carbon nanotubes in rats exposed for 3 months. , 2009, Toxicological sciences : an official journal of the Society of Toxicology.

[66]  Vincent Castranova,et al.  INHALATION EXPOSURE TO CARBON NANOTUBES (CNT) AND CARBON NANOFIBERS (CNF): METHODOLOGY AND DOSIMETRY , 2015, Journal of toxicology and environmental health. Part B, Critical reviews.

[67]  U. Vogel,et al.  Carbon black nanoparticle intratracheal installation results in large and sustained changes in the expression of miR‐135b in mouse lung , 2012, Environmental and molecular mutagenesis.

[68]  G. Bae,et al.  Exposure assessment of carbon nanotube manufacturing workplaces , 2010, Inhalation toxicology.

[69]  Bruce C Allen,et al.  BMDExpress: a software tool for the benchmark dose analyses of genomic data , 2007, BMC Genomics.

[70]  H. Takano,et al.  Role of interleukin-6 in bleomycin-induced lung inflammatory changes in mice. , 2008, American journal of respiratory cell and molecular biology.

[71]  P. M. Williams,et al.  Confounding experimental considerations in nanogenotoxicology. , 2009, Mutagenesis.

[72]  Melvin E. Andersen,et al.  Incorporating New Technologies Into Toxicity Testing and Risk Assessment: Moving From 21st Century Vision to a Data-Driven Framework , 2013, Toxicological sciences : an official journal of the Society of Toxicology.

[73]  Division on Earth Toxicity Testing in the 21st Century: A Vision and a Strategy , 2007 .

[74]  L. Tsui,et al.  Identification of the cystic fibrosis gene: genetic analysis. , 1989, Science.

[75]  Neelam Azad,et al.  Reactive oxygen species-mediated p38 MAPK regulates carbon nanotube-induced fibrogenic and angiogenic responses , 2013, Nanotoxicology.

[76]  Peng Wang,et al.  Multiwall carbon nanotubes mediate macrophage activation and promote pulmonary fibrosis through TGF-β/Smad signaling pathway. , 2013, Small.

[77]  M. Schubauer-Berigan,et al.  Occupational exposure assessment in carbon nanotube and nanofiber primary and secondary manufacturers: mobile direct-reading sampling. , 2013, The Annals of occupational hygiene.

[78]  Jerry L. Campbell,et al.  Formaldehyde: integrating dosimetry, cytotoxicity, and genomics to understand dose-dependent transitions for an endogenous compound. , 2010, Toxicological sciences : an official journal of the Society of Toxicology.

[79]  Craig A. Poland,et al.  Asbestos, carbon nanotubes and the pleural mesothelium: a review of the hypothesis regarding the role of long fibre retention in the parietal pleura, inflammation and mesothelioma , 2010, Particle and Fibre Toxicology.

[80]  Nicklas Raun Jacobsen,et al.  Transcriptional profiling identifies physicochemical properties of nanomaterials that are determinants of the in vivo pulmonary response , 2015, Environmental and molecular mutagenesis.

[81]  G. Ramesh,et al.  Pulmonary Biocompatibility Assessment of Inhaled Single-wall and Multiwall Carbon Nanotubes in BALB/c Mice* , 2011, The Journal of Biological Chemistry.

[82]  Jacob S. Lamson,et al.  Carbon black nanoparticle instillation induces sustained inflammation and genotoxicity in mouse lung and liver , 2012, Particle and Fibre Toxicology.

[83]  J. Nagy,et al.  Respiratory toxicity of multi-wall carbon nanotubes. , 2005, Toxicology and applied pharmacology.

[84]  Lee Bennett,et al.  Prediction of compound signature using high density gene expression profiling. , 2002, Toxicological sciences : an official journal of the Society of Toxicology.

[85]  D. Istance Organization for Economic Co-operation and Development , 1966, Nature.

[86]  R. Robbins,et al.  Bleomycin stimulates lung fibroblast and epithelial cell lines to release eosinophil chemotactic activity. , 2000, The European respiratory journal.

[87]  Meiying Wang,et al.  NADPH Oxidase-Dependent NLRP3 Inflammasome Activation and its Important Role in Lung Fibrosis by Multiwalled Carbon Nanotubes. , 2015, Small.

[88]  R. Egan,et al.  The role of IL‐5 in bleomycin‐induced pulmonary fibrosis , 1998, Journal of leukocyte biology.

[89]  Sharon Munn,et al.  Adverse outcome pathway (AOP) development I: strategies and principles. , 2014, Toxicological sciences : an official journal of the Society of Toxicology.

[90]  Andrew Williams,et al.  MWCNTs of different physicochemical properties cause similar inflammatory responses, but differences in transcriptional and histological markers of fibrosis in mouse lungs. , 2015, Toxicology and applied pharmacology.

[91]  Pedro Romero,et al.  Toxicogenomics and cancer risk assessment: a framework for key event analysis and dose-response assessment for nongenotoxic carcinogens. , 2010, Regulatory toxicology and pharmacology : RTP.

[92]  Ivana Fenoglio,et al.  Towards predicting the lung fibrogenic activity of nanomaterials: experimental validation of an in vitro fibroblast proliferation assay , 2013, Particle and Fibre Toxicology.

[93]  T. Wynn,et al.  Bleomycin and IL-1β–mediated pulmonary fibrosis is IL-17A dependent , 2010, The Journal of experimental medicine.

[94]  Minnamari Vippola,et al.  A Single Aspiration of Rod-like Carbon Nanotubes Induces Asbestos-like Pulmonary Inflammation Mediated in Part by the IL-1 Receptor. , 2015, Toxicological sciences : an official journal of the Society of Toxicology.

[95]  Andrew Williams,et al.  Hepatic and Pulmonary Toxicogenomic Profiles in Mice Intratracheally Instilled With Carbon Black Nanoparticles Reveal Pulmonary Inflammation, Acute Phase Response, and Alterations in Lipid Homeostasis , 2012, Toxicological sciences : an official journal of the Society of Toxicology.

[96]  D. Lison,et al.  Towards predicting the lung fibrogenic activity of MWCNT: Key role of endocytosis, kinase receptors and ERK 1/2 signaling , 2016, Nanotoxicology.