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Sahoo AK, Chivukula N, Madgaonkar SR, Ramesh K, Marigoudar SR, Sharma KV, Samal A. Leveraging integrative toxicogenomic approach towards development of stressor-centric adverse outcome pathway networks for plastic additives. Arch Toxicol 2024:10.1007/s00204-024-03825-z. [PMID: 39097536 DOI: 10.1007/s00204-024-03825-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2024] [Accepted: 07/24/2024] [Indexed: 08/05/2024]
Abstract
Plastics are widespread pollutants found in atmospheric, terrestrial and aquatic ecosystems due to their extensive usage and environmental persistence. Plastic additives, that are intentionally added to achieve specific functionality in plastics, leach into the environment upon plastic degradation and pose considerable risk to ecological and human health. Limited knowledge concerning the presence of plastic additives throughout plastic life cycle has hindered their effective regulation, thereby posing risks to product safety. In this study, we leveraged the adverse outcome pathway (AOP) framework to understand the mechanisms underlying plastic additives-induced toxicities. We first identified an exhaustive list of 6470 plastic additives from chemicals documented in plastics. Next, we leveraged heterogenous toxicogenomics and biological endpoints data from five exposome-relevant resources, and identified associations between 1287 plastic additives and 322 complete and high quality AOPs within AOP-Wiki. Based on these plastic additive-AOP associations, we constructed a stressor-centric AOP network, wherein the stressors are categorized into ten priority use sectors and AOPs are linked to 27 disease categories. We visualized the plastic additives-AOP network for each of the 1287 plastic additives and made them available in a dedicated website: https://cb.imsc.res.in/saopadditives/ . Finally, we showed the utility of the constructed plastic additives-AOP network by identifying highly relevant AOPs associated with benzo[a]pyrene (B[a]P), bisphenol A (BPA), and bis(2-ethylhexyl) phthalate (DEHP) and thereafter, explored the associated toxicity pathways in humans and aquatic species. Overall, the constructed plastic additives-AOP network will assist regulatory risk assessment of plastic additives, thereby contributing towards a toxic-free circular economy for plastics.
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Affiliation(s)
- Ajaya Kumar Sahoo
- Computational Biology Group, The Institute of Mathematical Sciences (IMSc), CIT Campus, Taramani, Chennai, 600113, India
- Homi Bhabha National Institute (HBNI), Mumbai, 400094, India
| | - Nikhil Chivukula
- Computational Biology Group, The Institute of Mathematical Sciences (IMSc), CIT Campus, Taramani, Chennai, 600113, India
- Homi Bhabha National Institute (HBNI), Mumbai, 400094, India
| | - Shreyes Rajan Madgaonkar
- Computational Biology Group, The Institute of Mathematical Sciences (IMSc), CIT Campus, Taramani, Chennai, 600113, India
- Homi Bhabha National Institute (HBNI), Mumbai, 400094, India
| | - Kundhanathan Ramesh
- Computational Biology Group, The Institute of Mathematical Sciences (IMSc), CIT Campus, Taramani, Chennai, 600113, India
| | | | - Krishna Venkatarama Sharma
- Ministry of Earth Sciences, National Centre for Coastal Research, Government of India, Pallikaranai, Chennai, 600100, India
| | - Areejit Samal
- Computational Biology Group, The Institute of Mathematical Sciences (IMSc), CIT Campus, Taramani, Chennai, 600113, India.
- Homi Bhabha National Institute (HBNI), Mumbai, 400094, India.
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2
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Zhao J, Gao J, Ma S, Chen X, Wang J. Predicting the potential risks posed by antidepressants as emerging contaminants in fish based on network pharmacological analysis. Toxicol In Vitro 2024; 99:105872. [PMID: 38851602 DOI: 10.1016/j.tiv.2024.105872] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2024] [Revised: 05/23/2024] [Accepted: 06/05/2024] [Indexed: 06/10/2024]
Abstract
This study conducted a network pharmacology-based analysis to simultaneously discern a broad spectrum of potential environmental risks and health effects of antidepressants, a common class of pharmaceutical emerging contaminants (PECs) possessing a complex pharmacological profile, and in silico predict the adverse phenotypes potentially occurring in fish associated with exposure to antidepressants and their mixtures under realistic exposure scenarios. Results showed that 24 of the included 39 antidepressants had been detected worldwide in water environment across 50 countries. Using the environmentally realistic exposure scenario for China as an example, the predicted blood concentrations of antidepressant residues that were generated based on the Fish Plasma Model ranged from 37.89 (Alprazolam) to 16,772.05 (Sertraline) ng/L in exposed fish. Hazard-based bioactivity network without regard to concentration data was composed of 148 potential targets and 701 antidepressant-target interactions. After filtering each antidepressant-target interaction node using the predicted drug concentrations in the blood of fish under realistic exposure scenarios in China, an environmental risk-based network was refined and showed that 11 targets, including muscarinic acetylcholine receptor M1, alpha-2B adrenergic receptor, serotonin 2 A receptor, etc. might be modulated by antidepressants at concentrations equal to or below the environmental exposure levels and their mixtures in fish. Environmentally relevant concentrations of antidepressants in water samples from China might perturb the behavior, stress response, phototaxis, and development in exposed fish.
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Affiliation(s)
- Jinru Zhao
- Hubei Province Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan, China
| | - Jian Gao
- Hubei Province Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan, China
| | - Sijia Ma
- Hubei Province Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan, China
| | - Xintong Chen
- Hubei Province Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan, China
| | - Jun Wang
- Hubei Province Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan, China.
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Aurisano N, Fantke P, Chiu WA, Judson R, Jang S, Unnikrishnan A, Jolliet O. Probabilistic Reference and 10% Effect Concentrations for Characterizing Inhalation Non-cancer and Developmental/Reproductive Effects for 2,160 Substances. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:8278-8288. [PMID: 38697947 PMCID: PMC11097392 DOI: 10.1021/acs.est.4c00207] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2024] [Revised: 04/22/2024] [Accepted: 04/23/2024] [Indexed: 05/05/2024]
Abstract
Chemicals assessment and management frameworks rely on regulatory toxicity values, which are based on points of departure (POD) identified following rigorous dose-response assessments. Yet, regulatory PODs and toxicity values for inhalation exposure (i.e., reference concentrations [RfCs]) are available for only ∼200 chemicals. To address this gap, we applied a workflow to determine surrogate inhalation route PODs and corresponding toxicity values, where regulatory assessments are lacking. We curated and selected inhalation in vivo data from the U.S. EPA's ToxValDB and adjusted reported effect values to chronic human equivalent benchmark concentrations (BMCh) following the WHO/IPCS framework. Using ToxValDB chemicals with existing PODs associated with regulatory toxicity values, we found that the 25th %-ile of a chemical's BMCh distribution (POD p 25 BMC h ) could serve as a suitable surrogate for regulatory PODs (Q2 ≥ 0.76, RSE ≤ 0.82 log10 units). We applied this approach to derive POD p 25 BMC h for 2,095 substances with general non-cancer toxicity effects and 638 substances with reproductive/developmental toxicity effects, yielding a total coverage of 2,160 substances. From these POD p 25 BMC h , we derived probabilistic RfCs and human population effect concentrations. With this work, we have expanded the number of chemicals with toxicity values available, thereby enabling a much broader coverage for inhalation risk and impact assessment.
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Affiliation(s)
- Nicolò Aurisano
- Quantitative
Sustainability Assessment, Department of Environmental and Resource
Engineering, Technical University of Denmark, Bygningstorvet 115, Kgs., Lyngby 2800, Denmark
| | - Peter Fantke
- Quantitative
Sustainability Assessment, Department of Environmental and Resource
Engineering, Technical University of Denmark, Bygningstorvet 115, Kgs., Lyngby 2800, Denmark
| | - Weihsueh A. Chiu
- Department
of Veterinary Integrative Biosciences, College of Veterinary Medicine
and Biomedical Sciences, Texas A&M University, College Station, Texas 77843, United
States
| | - Richard Judson
- National
Center for Computational Toxicology, U.S.
Environmental Protection Agency, Research Triangle Park, Durham, North Carolina 27711, United States
| | - Suji Jang
- Department
of Veterinary Integrative Biosciences, College of Veterinary Medicine
and Biomedical Sciences, Texas A&M University, College Station, Texas 77843, United
States
| | - Aswani Unnikrishnan
- National
Center for Computational Toxicology, U.S.
Environmental Protection Agency, Research Triangle Park, Durham, North Carolina 27711, United States
| | - Olivier Jolliet
- Quantitative
Sustainability Assessment, Department of Environmental and Resource
Engineering, Technical University of Denmark, Bygningstorvet 115, Kgs., Lyngby 2800, Denmark
- Department
of Environmental Health Sciences, School of Public Health, University of Michigan, Ann Arbor, Michigan 48109, United States
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Vitucci ECM, Oladeji O, Presto AA, Cannon CL, Johnson NM. The application of PTR-MS and non-targeted analysis to characterize VOCs emitted from a plastic recycling facility fire. JOURNAL OF EXPOSURE SCIENCE & ENVIRONMENTAL EPIDEMIOLOGY 2024:10.1038/s41370-024-00681-y. [PMID: 38710768 DOI: 10.1038/s41370-024-00681-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2023] [Revised: 04/15/2024] [Accepted: 04/17/2024] [Indexed: 05/08/2024]
Abstract
BACKGROUND On April 11th, 2023, the My Way Trading (MWT) recycling facility in Richmond, Indiana caught fire, mandating the evacuation of local residents and necessitating the U.S. Environmental Protection Agency (EPA) to conduct air monitoring. The EPA detected elevated levels of plastic combustion-related air pollutants, including hydrogen cyanide and benzene. OBJECTIVE We aimed to identify these and other volatile organic compounds (VOCs) present as well as to identify the potential hazard of each compound for various human health effects. METHODS To identify the VOCs, we conducted air monitoring at sites within and bordering the evacuation zone using proton transfer reaction mass spectrometry (PTR-MS) and non-targeted analysis (NTA). To facilitate risk assessment of the emitted VOCs, we used the EPA Hazard Comparison Dashboard. RESULTS We identified 46 VOCs, within and outside the evacuation zone, with average detection levels above local background levels measured in Middletown, OH. Levels of hydrogen cyanide and 4 other VOCs were at least 1.8-fold higher near the incidence site in comparison to background levels and displayed unique temporal and spatial patterns. The 46 VOCs identified had the highest hazardous potential for eye and skin irritation, with approximately 45% and 39%, respectively, of the VOCs classified as high and very high hazards for these endpoints. Notably, all detected VOC levels were below the hazard thresholds set for single VOC exposures; however, hazard thresholds for exposure to VOC mixtures are currently unclear. IMPACT This study serves as a proof-of-concept that PTR-MS coupled with NTA can facilitate rapid identification and hazard assessment of VOCs emitted following anthropogenic disasters. Furthermore, it demonstrates that this approach may augment future disaster responses to quantify additional VOCs present in complex combustion mixtures.
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Affiliation(s)
- Eva C M Vitucci
- Department of Environmental and Occupational Health, Interdisciplinary Faculty of Toxicology, Texas A&M University, College Station, TX, 77843, USA
| | - Oladayo Oladeji
- Department of Mechanical Engineering, Carnegie Mellon University, Pittsburgh, PA, 15213, USA
| | - Albert A Presto
- Department of Mechanical Engineering, Carnegie Mellon University, Pittsburgh, PA, 15213, USA
| | - Carolyn L Cannon
- Department of Microbial Pathogenesis and Immunology, School of Medicine, Texas A&M University, Bryan, TX, 77807, USA
| | - Natalie M Johnson
- Department of Environmental and Occupational Health, Interdisciplinary Faculty of Toxicology, Texas A&M University, College Station, TX, 77843, USA.
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Chivukula N, Ramesh K, Subbaroyan A, Sahoo AK, Dhanakoti GB, Ravichandran J, Samal A. ViCEKb: Vitiligo-linked Chemical Exposome Knowledgebase. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 913:169711. [PMID: 38160837 DOI: 10.1016/j.scitotenv.2023.169711] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2023] [Revised: 12/23/2023] [Accepted: 12/25/2023] [Indexed: 01/03/2024]
Abstract
Vitiligo is a complex disease wherein the environmental factors, in conjunction with the underlying genetic predispositions, trigger the autoimmune destruction of melanocytes, ultimately leading to depigmented patches on the skin. While genetic factors have been extensively studied, the knowledge on environmental triggers remains sparse and less understood. To address this knowledge gap, we present the first comprehensive knowledgebase of vitiligo-triggering chemicals namely, Vitiligo-linked Chemical Exposome Knowledgebase (ViCEKb). ViCEKb involves an extensive and systematic manual effort in curation of published literature and subsequent compilation of 113 unique chemical triggers of vitiligo. ViCEKb standardizes various chemical information, and categorizes the chemicals based on their evidences and sources of exposure. Importantly, ViCEKb contains a wide range of metrics necessary for different toxicological evaluations. Notably, we observed that ViCEKb chemicals are present in a variety of consumer products. For instance, Propyl gallate is present as a fragrance substance in various household products, and Flutamide is used in medication to treat prostate cancer. These two chemicals have the highest level of evidence in ViCEKb, but are not regulated for their skin sensitizing effects. Furthermore, an extensive cheminformatics-based investigation revealed that ViCEKb chemical space is structurally diverse and comprises unique chemical scaffolds in comparison with skin specific regulatory lists. For example, Neomycin and 2,3,5-Triglycidyl-4-aminophenol have unique chemical scaffolds and the highest level of evidence in ViCEKb, but are not regulated for their skin sensitizing effects. Finally, a transcriptomics-based analysis of ViCEKb chemical perturbations in skin cell samples highlighted the commonality in their linked biological processes. Overall, we present the first comprehensive effort in compilation and exploration of various chemical triggers of vitiligo. We believe such a resource will enable in deciphering the complex etiology of vitiligo and aid in the characterization of human chemical exposome. ViCEKb is freely available for academic research at: https://cb.imsc.res.in/vicekb.
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Affiliation(s)
- Nikhil Chivukula
- The Institute of Mathematical Sciences (IMSc), Chennai, India; Homi Bhabha National Institute (HBNI), Mumbai, India
| | | | - Ajay Subbaroyan
- The Institute of Mathematical Sciences (IMSc), Chennai, India; Homi Bhabha National Institute (HBNI), Mumbai, India
| | - Ajaya Kumar Sahoo
- The Institute of Mathematical Sciences (IMSc), Chennai, India; Homi Bhabha National Institute (HBNI), Mumbai, India
| | | | - Janani Ravichandran
- The Institute of Mathematical Sciences (IMSc), Chennai, India; Homi Bhabha National Institute (HBNI), Mumbai, India
| | - Areejit Samal
- The Institute of Mathematical Sciences (IMSc), Chennai, India; Homi Bhabha National Institute (HBNI), Mumbai, India.
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6
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Forner-Piquer I, Baig AH, Kortenkamp A. Disruption of the thyroid hormone system and patterns of altered thyroid hormones after gestational chemical exposures in rodents - a systematic review. Front Endocrinol (Lausanne) 2024; 14:1323284. [PMID: 38352246 PMCID: PMC10863050 DOI: 10.3389/fendo.2023.1323284] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Accepted: 11/30/2023] [Indexed: 02/16/2024] Open
Abstract
We present a comprehensive overview of changes in thyroxine (T4) and thyroid stimulating hormone (TSH) serum concentrations after pre-gestational, gestational and/or lactation exposures of rodents to various chemicals that affect the thyroid hormone system. We show that T4 and TSH changes consistent with the idealized view of the hypothalamic-pituitary-thyroid (HPT) feedback loop (T4 decrements accompanied by TSH increases) are observed with only a relatively small set of chemicals. Most substances affect concentrations of various thyroid hormones without increasing TSH. Studies of altered T4 concentrations after gestational exposures are limited to a relatively small set of chemicals in which pesticides, pharmaceuticals and industrial chemicals are under-represented. Our risk-of-bias analysis exposed deficits in T4/TSH analytics as a problem area. By relating patterns of T4 - TSH changes to mode-of-action (MOA) information, we found that chemicals capable of disrupting the HPT feedback frequently affected thyroid hormone synthesis, while substances that produced T4 serum decrements without accompanying TSH increases lacked this ability, but often induced liver enzyme systems responsible for the elimination of TH by glucuronidation. Importantly, a multitude of MOA leads to decrements of serum T4. The current EU approaches for identifying thyroid hormone system-disrupting chemicals, with their reliance on altered TH serum levels as indicators of a hormonal mode of action and thyroid histopathological changes as indicators of adversity, will miss chemicals that produce T4/T3 serum decreases without accompanying TSH increases. This is of concern as it may lead to a disregard for chemicals that produce developmental neurotoxicity by disrupting adequate T4/T3 supply to the brain, but without increasing TSH.
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Affiliation(s)
| | | | - Andreas Kortenkamp
- Centre for Pollution Research and Policy, Department of Life Sciences, College of Health, Medicine and Life Sciences, Brunel University London, Uxbridge, United Kingdom
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7
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Phelps DW, Palekar AI, Conley HE, Ferrero G, Driggers JH, Linder KE, Kullman SW, Reif DM, Sheats MK, DeWitt JC, Yoder JA. Legacy and emerging per- and polyfluoroalkyl substances suppress the neutrophil respiratory burst. J Immunotoxicol 2023; 20:2176953. [PMID: 36788734 PMCID: PMC10361455 DOI: 10.1080/1547691x.2023.2176953] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Accepted: 02/01/2023] [Indexed: 02/16/2023] Open
Abstract
Per- and polyfluoroalkyl substances (PFASs) are used in a multitude of processes and products, including nonstick coatings, food wrappers, and fire-fighting foams. These chemicals are environmentally-persistent, ubiquitous, and can be detected in the serum of 98% of Americans. Despite evidence that PFASs alter adaptive immunity, few studies have investigated their effects on innate immunity. The report here presents results of studies that investigated the impact of nine environmentally-relevant PFASs [e.g. perfluorooctanoic acid (PFOA), perfluorooctane sulfonic acid potassium salt (PFOS-K), perfluorononanoic acid (PFNA), perfluorohexanoic acid (PFHxA), perfluorohexane sulfonic acid (PFHxS), perfluorobutane sulfonic acid (PFBS), ammonium perfluoro(2-methyl-3-oxahexanoate) (GenX), 7H-perfluoro-4-methyl-3,6-dioxa-octane sulfonic acid (Nafion byproduct 2), and perfluoromethoxyacetic acid sodium salt (PFMOAA-Na)] on one component of the innate immune response, the neutrophil respiratory burst. The respiratory burst is a key innate immune process by which microbicidal reactive oxygen species (ROS) are rapidly induced by neutrophils in response to pathogens; defects in the respiratory burst can increase susceptibility to infection. The study here utilized larval zebrafish, a human neutrophil-like cell line, and primary human neutrophils to ascertain whether PFAS exposure inhibits ROS production in the respiratory burst. It was observed that exposure to PFHxA and GenX suppresses the respiratory burst in zebrafish larvae and a human neutrophil-like cell line. GenX also suppressed the respiratory burst in primary human neutrophils. This report is the first to demonstrate that these PFASs suppress neutrophil function and support the utility of employing zebrafish larvae and a human cell line as screening tools to identify chemicals that may suppress human immune function.
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Affiliation(s)
- Drake W. Phelps
- Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
- Comparative Medicine Institute, North Carolina State University, Raleigh, NC
- Center for Environmental and Health Effects of PFAS, North Carolina State University, Raleigh, NC
| | - Anika I. Palekar
- Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
| | - Haleigh E. Conley
- Comparative Medicine Institute, North Carolina State University, Raleigh, NC
- Department of Clinical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
| | - Giuliano Ferrero
- Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
- Center for Environmental and Health Effects of PFAS, North Carolina State University, Raleigh, NC
| | - Jacob H. Driggers
- Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
| | - Keith E. Linder
- Department of Population Health and Pathobiology, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
- Center for Human Health and the Environment, North Carolina State University, Raleigh, NC
| | - Seth W. Kullman
- Center for Environmental and Health Effects of PFAS, North Carolina State University, Raleigh, NC
- Center for Human Health and the Environment, North Carolina State University, Raleigh, NC
- Department of Biological Sciences, College of Sciences, North Carolina State University, Raleigh, NC
- Toxicology Program, North Carolina State University, Raleigh, NC
| | - David M. Reif
- Center for Environmental and Health Effects of PFAS, North Carolina State University, Raleigh, NC
- Center for Human Health and the Environment, North Carolina State University, Raleigh, NC
- Department of Biological Sciences, College of Sciences, North Carolina State University, Raleigh, NC
- Toxicology Program, North Carolina State University, Raleigh, NC
| | - M. Katie Sheats
- Department of Clinical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
| | - Jamie C. DeWitt
- Center for Environmental and Health Effects of PFAS, North Carolina State University, Raleigh, NC
- Center for Human Health and the Environment, North Carolina State University, Raleigh, NC
- Department of Pharmacology and Toxicology, Brody School of Medicine, East Carolina University, Greenville, NC
| | - Jeffrey A. Yoder
- Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC
- Comparative Medicine Institute, North Carolina State University, Raleigh, NC
- Center for Environmental and Health Effects of PFAS, North Carolina State University, Raleigh, NC
- Center for Human Health and the Environment, North Carolina State University, Raleigh, NC
- Toxicology Program, North Carolina State University, Raleigh, NC
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Zhang Y, Tong Y, Cheng F, Shi J, Huang J, Yu M, You J. Occurrence of emerging contaminants in pet hair and indoor air: integrative health risk assessment using multiple ToxCast endpoints. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2023; 25:1839-1849. [PMID: 37427597 DOI: 10.1039/d3em00182b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/11/2023]
Abstract
Indoor exposome is a growing concern, including a mixture of legacy and emerging contaminants. Recent studies suggest that indoor pollutants may accumulate in pet hair, a part of indoor exposome, increasing health risks to pet owners; however, the source and hazards of pollutants associated with pet hair are largely unknown. Here, we found that hydrophobic pollutants often had higher indoor concentrations than hydrophilic ones, and polycyclic aromatic hydrocarbons (PAHs) were the most dominant fractions (61.1%) in indoor air exposome while polycyclic musks (PCMs) had the highest concentrations among all contaminant classes in indoor dust (1559 ± 1598 ng g-1 dw) and pet hair (2831 ± 2458 ng g-1 dw). The levels of hygiene-related contaminants (PCMs, current-use pesticides (CUPs), and antibiotics) were higher in pet hair than dust due to direct contact during applications. Health risk assessment using toxicity thresholds from high-throughput screening data showed that human health risks from the five classes of indoor contaminants (PAHs, PCMs, organophosphate esters, CUPs, and antibiotics) via inhalation, ingestion, and dermal contact were within acceptable limits, but the children may be exposed to a higher risk than the adults. The thresholds estimated from the ToxCast data using endpoint sensitivity distribution make the exposome risk assessment feasible in the absence of benchmarks, which is beneficial for including a mixture of emerging pollutants in risk assessment.
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Affiliation(s)
- Ying Zhang
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
| | - Yujun Tong
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
| | - Fei Cheng
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
| | - Jingwen Shi
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
| | - Jiehui Huang
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
| | - Minqi Yu
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
| | - Jing You
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 511443, China.
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9
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Dorne JLCM, Cortiñas‐Abrahantes J, Spyropoulos F, Darney K, Lautz L, Louisse J, Kass GEN, Carnesecchi E, Liem AKD, Tarazona JV, Billat P, Beaudoin R, Zeman F, Bodin C, Smith A, Nathanail A, Di Nicola MR, Kleiner J, Terron A, Parra‐Morte JM, Verloo D, Robinson T. TKPlate 1.0: An Open-access platform for toxicokinetic and toxicodynamic modelling of chemicals to implement new approach methodologies in chemical risk assessment. EFSA J 2023; 21:e211101. [PMID: 38027439 PMCID: PMC10644227 DOI: 10.2903/j.efsa.2023.e211101] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2023] Open
Abstract
This publication is linked to the following EFSA Supporting Publications articles: http://onlinelibrary.wiley.com/doi/10.2903/sp.efsa.2023.EN-8441/full, http://onlinelibrary.wiley.com/doi/10.2903/sp.efsa.2023.EN-8440/full, http://onlinelibrary.wiley.com/doi/10.2903/sp.efsa.2023.EN-8437/full.
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10
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Martin R, Hazemi M, Flynn K, Villeneuve D, Wehmas L. Short-Term Transcriptomic Points of Departure Are Consistent with Chronic Points of Departure for Three Organophosphate Pesticides across Mouse and Fathead Minnow. TOXICS 2023; 11:820. [PMID: 37888672 PMCID: PMC10611195 DOI: 10.3390/toxics11100820] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Revised: 09/20/2023] [Accepted: 09/22/2023] [Indexed: 10/28/2023]
Abstract
New approach methods (NAMs) can reduce the need for chronic animal studies. Here, we apply benchmark dose (concentration) (BMD(C))-response modeling to transcriptomic changes in the liver of mice and in fathead minnow larvae after short-term exposures (7 days and 1 day, respectively) to several dose/concentrations of three organophosphate pesticides (OPPs): fenthion, methidathion, and parathion. The mouse liver transcriptional points of departure (TPODs) for fenthion, methidathion, and parathion were 0.009, 0.093, and 0.046 mg/Kg-bw/day, while the fathead minnow larva TPODs were 0.007, 0.115, and 0.046 mg/L, respectively. The TPODs were consistent across both species and reflected the relative potencies from traditional chronic toxicity studies with fenthion identified as the most potent. Moreover, the mouse liver TPODs were more sensitive than or within a 10-fold difference from the chronic apical points of departure (APODs) for mammals, while the fathead minnow larva TPODs were within an 18-fold difference from the chronic APODs for fish species. Short-term exposure to OPPs significantly impacted acetylcholinesterase mRNA abundance (FDR p-value <0.05, |fold change| ≥2) and canonical pathways (IPA, p-value <0.05) associated with organism death and neurological/immune dysfunctions, indicating the conservation of key events related to OPP toxicity. Together, these results build confidence in using short-term, molecular-based assays for the characterization of chemical toxicity and risk, thereby reducing reliance on chronic animal studies.
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Affiliation(s)
- Rubia Martin
- Office of Research and Development, Center for Computational Toxicology and Exposure, Chemical Characterization and Exposure Division, Oak Ridge Institute for Science and Education, U.S. Environmental Protection Agency, Durham, NC 27709, USA;
| | - Monique Hazemi
- Office of Research and Development, Center for Computational Toxicology and Exposure, Great Lakes Ecology Division, Oak Ridge Institute for Science and Education, U.S. Environmental Protection Agency, Duluth, MN 55804, USA;
| | - Kevin Flynn
- Office of Research and Development, Center for Computational Toxicology and Exposure, Great Lakes Ecology Division, U.S. Environmental Protection Agency, Duluth, MN 55804, USA; (K.F.); (D.V.)
| | - Daniel Villeneuve
- Office of Research and Development, Center for Computational Toxicology and Exposure, Great Lakes Ecology Division, U.S. Environmental Protection Agency, Duluth, MN 55804, USA; (K.F.); (D.V.)
| | - Leah Wehmas
- Office of Research and Development, Center for Computational Toxicology and Exposure, Chemical Characterization and Exposure Division, U.S. Environmental Protection Agency, Durham, NC 27709, USA
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11
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Zheng J, Yang J, Zhao F, Peng B, Wang Y, Fang M. CIL-ExPMRM: An Ultrasensitive Chemical Isotope Labeling Assisted Pseudo-MRM Platform to Accelerate Exposomic Suspect Screening. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:10962-10973. [PMID: 37469223 DOI: 10.1021/acs.est.3c01830] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/21/2023]
Abstract
Exposome is the future of next-generation environmental health to establish the association between environmental exposure and diseases. However, due to low concentrations of exposure chemicals, exposome has been hampered by lacking an effective analytical platform to characterize its composition. In this study, by combining the benefit of chemical isotope labeling and pseudo-multiple reaction monitoring (CIL-pseudo-MRM), we have developed one highly sensitive and high-throughput platform (CIL-ExPMRM) by isotope labeling urinary exposure biomarkers. Dansyl chloride (DnsCl), N-methylphenylethylamine (MPEA), and their isotope-labeled forms were used to derivatize polar hydroxyl and carboxyl compounds, respectively. We have programmed a series of scripts to optimize MRM transition parameters, curate the MRM database (>70,000 compounds), predict accurate retention time (RT), and automize dynamic MRMs. This was followed by an automated MRM peak assignment, peak alignment, and statistical analysis. A computational pipeline was eventually incorporated into a user-friendly website interface, named CIL-ExPMRM (http://www.exposomemrm.com/). The performance of this platform has been validated with a relatively low false positive rate (10.7%) across instrumental platforms. CIL-ExPMRM has systematically overcome key bottlenecks of exposome studies to some extent and outperforms previous methods due to its independence of MS/MS availability, accurate RT prediction, and collision energy optimization, as well as the ultrasensitivity and automated robust intensity-based quantification. Overall, CIL-ExPMRM has great potential to advance the exposomic studies based on urinary biomarkers.
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Affiliation(s)
- Jie Zheng
- Singapore Phenome Center, Lee Kong Chian School of Medicine, Nanyang Technological University, 639798 Singapore
| | - Junjie Yang
- School of Civil and Environmental Engineering, Nanyang Technological University, 639798 Singapore
| | - Fanrong Zhao
- School of Civil and Environmental Engineering, Nanyang Technological University, 639798 Singapore
| | - Bo Peng
- School of Civil and Environmental Engineering, Nanyang Technological University, 639798 Singapore
| | - Yulan Wang
- Singapore Phenome Center, Lee Kong Chian School of Medicine, Nanyang Technological University, 639798 Singapore
| | - Mingliang Fang
- School of Civil and Environmental Engineering, Nanyang Technological University, 639798 Singapore
- Department of Environmental Science and Engineering, Fudan University, Shanghai 200433, China
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12
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Underhill V, Fiuza A, Allison G, Poudrier G, Lerman-Sinkoff S, Vera L, Wylie S. Outcomes of the Halliburton Loophole: Chemicals regulated by the Safe Drinking Water Act in US fracking disclosures, 2014-2021. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 322:120552. [PMID: 36368552 PMCID: PMC10187986 DOI: 10.1016/j.envpol.2022.120552] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 10/24/2022] [Accepted: 10/28/2022] [Indexed: 05/18/2023]
Abstract
Hydraulic fracturing (fracking) has enabled the United States to lead the world in gas and oil production over the past decade; 17.6 million Americans now live within a mile of an oil or gas well (Czolowski et al., 2017). This major expansion in fossil fuel production is possible in part due to the 2005 Energy Policy Act and its "Halliburton Loophole," which exempts fracking activity from regulation under the Safe Drinking Water Act (SDWA). To begin quantifying the environmental and economic impacts of this loophole, this study undertakes an aggregate analysis of chemicals that would otherwise be regulated by SDWA within FracFocus, an industry-sponsored fracking disclosure database. This paper quantifies the total disclosures and total mass of these chemicals used between 2014 and 2021, examines trends in their use, and investigates which companies most use and supply them. We find that 28 SDWA-regulated chemicals are reported in FracFocus, and 62-73% of all disclosures (depending on year) report at least one SDWA-regulated chemical. Of these, 19,700 disclosures report using SDWA-regulated chemicals in masses that exceed their reportable quantities as defined under the Comprehensive Environmental Response, Compensation, and Liability Act (CERCLA). Finally, while the most common direct-supplier category is "company name not reported," Halliburton is the second-most named direct supplier of SWDA regulated chemicals. Halliburton is also the supplier most frequently associated with fracks that use SDWA regulated chemicals. These results show the necessity of a more robust and federally mandated disclosure system and suggest the importance of revisiting exemptions such as the Halliburton Loophole.
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Affiliation(s)
- Vivian Underhill
- Social Science Environmental Health Research Institute, Northeastern University, USA.
| | - Angelica Fiuza
- Bouvé College of Health Sciences, Northeastern University, USA
| | | | - Grace Poudrier
- Department of Sociology & Anthropology, Northeastern University, USA
| | | | - Lourdes Vera
- Department of Sociology and Department of Environment and Sustainability, University at Buffalo, USA
| | - Sara Wylie
- Department of Sociology & Anthropology and Department of Health Sciences, Northeastern University, USA
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13
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Wang JQ, He ZC, Peng W, Han TH, Mei Q, Wang QZ, Ding F. Dissecting the Enantioselective Neurotoxicity of Isocarbophos: Chiral Insight from Cellular, Molecular, and Computational Investigations. Chem Res Toxicol 2023; 36:535-551. [PMID: 36799861 DOI: 10.1021/acs.chemrestox.2c00418] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
Abstract
Chiral organophosphorus pollutants are found abundantly in the environment, but the neurotoxicity risks of these asymmetric chemicals to human health have not been fully assessed. Using cellular, molecular, and computational toxicology methods, this story is to explore the static and dynamic toxic actions and its stereoselective differences of chiral isocarbophos toward SH-SY5Y nerve cells mediated by acetylcholinesterase (AChE) and further dissect the microscopic basis of enantioselective neurotoxicity. Cell-based assays indicate that chiral isocarbophos exhibits strong enantioselectivity in the inhibition of the survival rates of SH-SY5Y cells and the intracellular AChE activity, and the cytotoxicity of (S)-isocarbophos is significantly greater than that of (R)-isocarbophos. The inhibitory effects of isocarbophos enantiomers on the intracellular AChE activity are dose-dependent, and the half-maximal inhibitory concentrations (IC50) of (R)-/(S)-isocarbophos are 6.179/1.753 μM, respectively. Molecular experiments explain the results of cellular assays, namely, the stereoselective toxic actions of isocarbophos enantiomers on SH-SY5Y cells are stemmed from the differences in bioaffinities between isocarbophos enantiomers and neuronal AChE. In the meantime, the modes of neurotoxic actions display that the key amino acid residues formed strong noncovalent interactions are obviously different, which are related closely to the molecular structural rigidity of chiral isocarbophos and the conformational dynamics and flexibility of the substrate binding domain in neuronal AChE. Still, we observed that the stable "sandwich-type π-π stacking" fashioned between isocarbophos enantiomers and aromatic Trp-86 and Tyr-337 residues is crucial, which notably reduces the van der Waals' contribution (ΔGvdW) in the AChE-(S)-isocarbophos complexes and induces the disparities in free energies during the enantioselective neurotoxic conjugations and thus elucidating that (S)-isocarbophos mediated by synaptic AChE has a strong toxic effect on SH-SY5Y neuronal cells. Clearly, this effort can provide experimental insights for evaluating the neurotoxicity risks of human exposure to chiral organophosphates from macroscopic to microscopic levels.
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Affiliation(s)
- Jia-Qi Wang
- School of Water and Environment, Chang'an University, Xi'an 710054, China
- Key Laboratory of Subsurface Hydrology and Ecological Effect in Arid Region of Ministry of Education, Chang'an University, Xi'an 710054, China
| | - Zhi-Cong He
- School of Water and Environment, Chang'an University, Xi'an 710054, China
- Key Laboratory of Subsurface Hydrology and Ecological Effect in Arid Region of Ministry of Education, Chang'an University, Xi'an 710054, China
| | - Wei Peng
- State Key Laboratory of Physical Chemistry of Solid Surfaces and Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - Tian-Hao Han
- School of Water and Environment, Chang'an University, Xi'an 710054, China
- School of Environment, Nanjing University, Nanjing 210023, China
| | - Qiong Mei
- School of Water and Environment, Chang'an University, Xi'an 710054, China
- Key Laboratory of Subsurface Hydrology and Ecological Effect in Arid Region of Ministry of Education, Chang'an University, Xi'an 710054, China
- School of Land Engineering, Chang'an University, Xi'an 710054, China
| | - Qi-Zhao Wang
- School of Water and Environment, Chang'an University, Xi'an 710054, China
- Key Laboratory of Subsurface Hydrology and Ecological Effect in Arid Region of Ministry of Education, Chang'an University, Xi'an 710054, China
| | - Fei Ding
- School of Water and Environment, Chang'an University, Xi'an 710054, China
- Key Laboratory of Subsurface Hydrology and Ecological Effect in Arid Region of Ministry of Education, Chang'an University, Xi'an 710054, China
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14
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Carstens KE, Freudenrich T, Wallace K, Choo S, Carpenter A, Smeltz M, Clifton MS, Henderson WM, Richard AM, Patlewicz G, Wetmore BA, Paul Friedman K, Shafer T. Evaluation of Per- and Polyfluoroalkyl Substances (PFAS) In Vitro Toxicity Testing for Developmental Neurotoxicity. Chem Res Toxicol 2023; 36:402-419. [PMID: 36821828 PMCID: PMC10249374 DOI: 10.1021/acs.chemrestox.2c00344] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/25/2023]
Abstract
Per- and polyfluoroalkyl substances (PFAS) are a diverse set of commercial chemicals widely detected in humans and the environment. However, only a limited number of PFAS are associated with epidemiological or experimental data for hazard identification. To provide developmental neurotoxicity (DNT) hazard information, the work herein employed DNT new approach methods (NAMs) to generate in vitro screening data for a set of 160 PFAS. The DNT NAMs battery was comprised of the microelectrode array neuronal network formation assay (NFA) and high-content imaging (HCI) assays to evaluate proliferation, apoptosis, and neurite outgrowth. The majority of PFAS (118/160) were inactive or equivocal in the DNT NAMs, leaving 42 active PFAS that decreased measures of neural network connectivity and neurite length. Analytical quality control indicated 43/118 inactive PFAS samples and 10/42 active PFAS samples were degraded; as such, careful interpretation is required as some negatives may have been due to loss of the parent PFAS, and some actives may have resulted from a mixture of parent and/or degradants of PFAS. PFAS containing a perfluorinated carbon (C) chain length ≥8, a high C:fluorine ratio, or a carboxylic acid moiety were more likely to be bioactive in the DNT NAMs. Of the PFAS positives in DNT NAMs, 85% were also active in other EPA ToxCast assays, whereas 79% of PFAS inactives in the DNT NAMs were active in other assays. These data demonstrate that a subset of PFAS perturb neurodevelopmental processes in vitro and suggest focusing future studies of DNT on PFAS with certain structural feature descriptors.
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Affiliation(s)
- Kelly E Carstens
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Theresa Freudenrich
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Kathleen Wallace
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Seline Choo
- Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, Tennessee 37830, United States
| | - Amy Carpenter
- Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, Tennessee 37830, United States
| | - Marci Smeltz
- Center for Environmental Measurement and Modeling, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Matthew S Clifton
- Center for Environmental Measurement and Modeling, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - W Matthew Henderson
- Center for Environmental Measurement and Modeling, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Ann M Richard
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Grace Patlewicz
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Barbara A Wetmore
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Katie Paul Friedman
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
| | - Timothy Shafer
- Center for Computational Toxicology and Exposure, ORD, US EPA, Research Triangle Park, North Carolina 27711, United States
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15
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Magurany KA, Chang X, Clewell R, Coecke S, Haugabrooks E, Marty S. A Pragmatic Framework for the Application of New Approach Methodologies in One Health Toxicological Risk Assessment. Toxicol Sci 2023; 192:kfad012. [PMID: 36782355 PMCID: PMC10109535 DOI: 10.1093/toxsci/kfad012] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/15/2023] Open
Abstract
Globally, industries and regulatory authorities are faced with an urgent need to assess the potential adverse effects of chemicals more efficiently by embracing new approach methodologies (NAMs). NAMs include cell and tissue methods (in vitro), structure-based/toxicokinetic models (in silico), methods that assess toxicant interactions with biological macromolecules (in chemico), and alternative models. Increasing knowledge on chemical toxicokinetics (what the body does with chemicals) and toxicodynamics (what the chemicals do with the body) obtained from in silico and in vitro systems continues to provide opportunities for modernizing chemical risk assessments. However, directly leveraging in vitro and in silico data for derivation of human health-based reference values has not received regulatory acceptance due to uncertainties in extrapolating NAM results to human populations, including metabolism, complex biological pathways, multiple exposures, interindividual susceptibility and vulnerable populations. The objective of this article is to provide a standardized pragmatic framework that applies integrated approaches with a focus on quantitative in vitro to in vivo extrapolation (QIVIVE) to extrapolate in vitro cellular exposures to human equivalent doses from which human reference values can be derived. The proposed framework intends to systematically account for the complexities in extrapolation and data interpretation to support sound human health safety decisions in diverse industrial sectors (food systems, cosmetics, industrial chemicals, pharmaceuticals etc.). Case studies of chemical entities, using new and existing data, are presented to demonstrate the utility of the proposed framework while highlighting potential sources of human population bias and uncertainty, and the importance of Good Method and Reporting Practices.
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Affiliation(s)
| | | | - Rebecca Clewell
- 21st Century Tox Consulting, Chapel Hill, North Carolina 27517, USA
| | - Sandra Coecke
- European Commission Joint Research Centre, Ispra, Italy
| | - Esther Haugabrooks
- Coca-Cola Company (formerly Physicians Committee for Responsible Medicine), Atlanta, Georgia 30313, USA
| | - Sue Marty
- The Dow Chemical Company, Midland, Michigan 48667, USA
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16
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Nicola MRD, Cattaneo I, Nathanail AV, Carnesecchi E, Astuto MC, Steinbach M, Williams AJ, Charles S, Gestin O, Lopes C, Lamonica D, Tarazona JV, Dorne JLCM. The use of new approach methodologies for the environmental risk assessment of food and feed chemicals. CURRENT OPINION IN ENVIRONMENTAL SCIENCE & HEALTH 2023; 31:1-8. [PMID: 36741274 PMCID: PMC9890323 DOI: 10.1016/j.coesh.2022.100416] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
New Approach Methodologies (NAMs) provide tools for supporting both human and environmental risk assessment (HRA and ERA). This short review provides recent insights regarding the use of NAMs in ERA of food and feed chemicals. We highlight the usefulness of tiered methods supporting weight-of-evidence approaches in relation to problem formulation (i.e., data availability, time, and resource availability). In silico models, including quantitative structure activity relationship models, support filling data gaps when no chemical property or ecotoxicological data are available, and biologically-based models (e.g., toxicokinetic-toxicodynamic models, dynamic energy models, physiologically-based models and species sensitivity distributions) are applicable in more data rich situations, including landscape-based modelling approaches. Particular attention is given to provide practical examples to apply the approaches described in real-world settings. We conclude with future perspectives, with regards to the need for addressing complex challenges such as chemical mixtures and multiple stressors in a wide range of organisms and ecosystems.
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Affiliation(s)
- Matteo Riccardo Di Nicola
- IRCCS San Raffaele Hospital, Unit of Dermatology, Milan, Italy
- Asociación Herpetológica Española, Madrid, Spain
| | | | | | | | | | | | - Antony John Williams
- Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency (U.S. EPA), Research Triangle Park, NC, USA
| | - Sandrine Charles
- University of Lyon, University Lyon 1, UMR CNRS 5558, Villeurbanne, France
| | - Ophélia Gestin
- University of Lyon, University Lyon 1, UMR CNRS 5558, Villeurbanne, France
- INRAE, Riverly, Ecotoxicology, Lyon, France
- University of La Rochelle, UMRi 7266, La Rochelle, France
| | - Christelle Lopes
- University of Lyon, University Lyon 1, UMR CNRS 5558, Villeurbanne, France
| | - Dominique Lamonica
- University of Lyon, University Lyon 1, UMR CNRS 5558, Villeurbanne, France
| | - Jose Vicente Tarazona
- Spanish National Environmental Health Centre, Instituto de Salud Carlos III, Ministry of Science and Innovation, 28220 Majadahonda, Madrid, Spain
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17
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Lizarraga LE, Suter GW, Lambert JC, Patlewicz G, Zhao JQ, Dean JL, Kaiser P. Advancing the science of a read-across framework for evaluation of data-poor chemicals incorporating systematic and new approach methods. Regul Toxicol Pharmacol 2022; 137:105293. [PMID: 36414101 DOI: 10.1016/j.yrtph.2022.105293] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2022] [Revised: 10/18/2022] [Accepted: 11/09/2022] [Indexed: 11/21/2022]
Abstract
The assessment of human health hazards posed by chemicals traditionally relies on toxicity studies in experimental animals. However, most chemicals currently in commerce do not meet the minimum data requirements for hazard identification and dose-response analysis in human health risk assessment. Previously, we introduced a read-across framework designed to address data gaps for screening-level assessment of chemicals with insufficient in vivo toxicity information (Wang et al., 2012). It relies on inference by analogy from suitably tested source analogues to a target chemical, based on structural, toxicokinetic, and toxicodynamic similarity. This approach has been used for dose-response assessment of data-poor chemicals relevant to the U.S. EPA's Superfund program. We present herein, case studies of the application of this framework, highlighting specific examples of the use of biological similarity for chemical grouping and quantitative read-across. Based on practical knowledge and technological advances in the fields of read-across and predictive toxicology, we propose a revised framework. It includes important considerations for problem formulation, systematic review, target chemical analysis, analogue identification, analogue evaluation, and incorporation of new approach methods. This work emphasizes the integration of systematic methods and alternative toxicity testing data and tools in chemical risk assessment to inform regulatory decision-making.
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Affiliation(s)
- Lucina E Lizarraga
- Center for Public Health and Environmental Assessment, U.S. Environmental Protection Agency, 26 W. Martin L. King Drive, Cincinnati, OH, 45268, USA.
| | - Glenn W Suter
- Office of Research and Development, Emeritus, U.S. Environmental Protection Agency, 26 W. Martin L. King Drive, Cincinnati, OH, 45268, USA
| | - Jason C Lambert
- Center for Computational Toxicology & Exposure (CCTE), U.S. Environmental Protection Agency, Research Triangle Park, NC, 27709, USA
| | - Grace Patlewicz
- Center for Computational Toxicology & Exposure (CCTE), U.S. Environmental Protection Agency, Research Triangle Park, NC, 27709, USA
| | - Jay Q Zhao
- Center for Public Health and Environmental Assessment, U.S. Environmental Protection Agency, 26 W. Martin L. King Drive, Cincinnati, OH, 45268, USA
| | - Jeffry L Dean
- Center for Public Health and Environmental Assessment, U.S. Environmental Protection Agency, 26 W. Martin L. King Drive, Cincinnati, OH, 45268, USA
| | - Phillip Kaiser
- Center for Public Health and Environmental Assessment, U.S. Environmental Protection Agency, 26 W. Martin L. King Drive, Cincinnati, OH, 45268, USA
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18
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Wu L, Yan B, Han J, Li R, Xiao J, He S, Bo X. TOXRIC: a comprehensive database of toxicological data and benchmarks. Nucleic Acids Res 2022; 51:D1432-D1445. [PMID: 36400569 PMCID: PMC9825425 DOI: 10.1093/nar/gkac1074] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2022] [Revised: 10/10/2022] [Accepted: 10/26/2022] [Indexed: 11/20/2022] Open
Abstract
The toxic effects of compounds on environment, humans, and other organisms have been a major focus of many research areas, including drug discovery and ecological research. Identifying the potential toxicity in the early stage of compound/drug discovery is critical. The rapid development of computational methods for evaluating various toxicity categories has increased the need for comprehensive and system-level collection of toxicological data, associated attributes, and benchmarks. To contribute toward this goal, we proposed TOXRIC (https://toxric.bioinforai.tech/), a database with comprehensive toxicological data, standardized attribute data, practical benchmarks, informative visualization of molecular representations, and an intuitive function interface. The data stored in TOXRIC contains 113 372 compounds, 13 toxicity categories, 1474 toxicity endpoints covering in vivo/in vitro endpoints and 39 feature types, covering structural, target, transcriptome, metabolic data, and other descriptors. All the curated datasets of endpoints and features can be retrieved, downloaded and directly used as output or input to Machine Learning (ML)-based prediction models. In addition to serving as a data repository, TOXRIC also provides visualization of benchmarks and molecular representations for all endpoint datasets. Based on these results, researchers can better understand and select optimal feature types, molecular representations, and baseline algorithms for each endpoint prediction task. We believe that the rich information on compound toxicology, ML-ready datasets, benchmarks and molecular representation distribution can greatly facilitate toxicological investigations, interpretation of toxicological mechanisms, compound/drug discovery and the development of computational methods.
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Affiliation(s)
| | | | - Junshan Han
- Department of Bioinformatics, Institute of Health Service and Transfusion Medicine, Beijing 100850, China
| | - Ruijiang Li
- Department of Bioinformatics, Institute of Health Service and Transfusion Medicine, Beijing 100850, China
| | - Jian Xiao
- Department of Pharmacy, Xiangya Hospital, Central South University, Changsha 410008, Hunan, China,Institute for Rational and Safe Medication Practices, National Clinical Research Center for Geriatric Disorders, Xiangya Hospital, Central South University, Changsha 410008, Hunan, China
| | - Song He
- Correspondence may also be addressed to Song He. Tel: +86 01066931450;
| | - Xiaochen Bo
- To whom correspondence should be addressed. Tel: +86 01066931207; ;
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19
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Thayer KA, Angrish M, Arzuaga X, Carlson LM, Davis A, Dishaw L, Druwe I, Gibbons C, Glenn B, Jones R, Phillip Kaiser J, Keshava C, Keshava N, Kraft A, Lizarraga L, Persad A, Radke EG, Rice G, Schulz B, Shaffer RM, Shannon T, Shapiro A, Thacker S, Vulimiri SV, Williams AJ, Woodall G, Yost E, Blain R, Duke K, Goldstone AE, Hartman P, Hobbie K, Ingle B, Lemeris C, Lin C, Lindahl A, McKinley K, Soleymani P, Vetter N. Systematic evidence map (SEM) template: Report format and methods used for the US EPA Integrated Risk Information System (IRIS) program, Provisional Peer Reviewed Toxicity Value (PPRTV) program, and other "fit for purpose" literature-based human health analyses. ENVIRONMENT INTERNATIONAL 2022; 169:107468. [PMID: 36174483 DOI: 10.1016/j.envint.2022.107468] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Revised: 08/01/2022] [Accepted: 08/09/2022] [Indexed: 05/03/2023]
Abstract
BACKGROUND Systematic evidence maps (SEMs) are gaining visibility in environmental health for their utility to serve as problem formulation tools and assist in decision-making, especially for priority setting. SEMs are now routinely prepared as part of the assessment development process for the US Environmental Protection Agency (EPA) Integrated Risk Information System (IRIS) and Provisional Peer Reviewed Toxicity Value (PPRTV) assessments. SEMs can also be prepared to explore the available literature for an individual chemical or groups of chemicals of emerging interest. OBJECTIVES This document describes the typical methods used to produce SEMs for the IRIS and PPRTV Programs, as well as "fit for purpose" applications using a variety of examples drawn from existing analyses. It is intended to serve as an example base template that can be adapted as needed for the specific SEM. The presented methods include workflows intended to facilitate rapid production. The Populations, Exposures, Comparators and Outcomes (PECO) criteria are typically kept broad to identify mammalian animal bioassay and epidemiological studies that could be informative for human hazard identification. In addition, a variety of supplemental content is tracked, e.g., studies presenting information on in vitro model systems, non-mammalian model systems, exposure-level-only studies in humans, pharmacokinetic models, and absorption, distribution, metabolism, and excretion (ADME). The availability of New Approach Methods (NAMs) evidence is also tracked (e.g., high throughput, transcriptomic, in silico, etc.). Genotoxicity studies may be considered as PECO relevant or supplemental material, depending on the topic and context of the review. Standard systematic review practices (e.g., two independent reviewers per record) and specialized software applications are used to search and screen the literature and may include the use of machine learning software. Mammalian bioassay and epidemiological studies that meet the PECO criteria after full-text review are briefly summarized using structured web-based extraction forms with respect to study design and health system(s) assessed. Extracted data is available in interactive visual formats and can be downloaded in open access formats. Methods for conducting study evaluation are also presented which is conducted on a case-by-case basis, depending on the usage of the SEM.
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Affiliation(s)
- Kristina A Thayer
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Michelle Angrish
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Xabier Arzuaga
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Laura M Carlson
- Center for Public Health and Environmental Assessment, Health & Environmental Effects Assessment Division, US EPA, NC, USA.
| | - Allen Davis
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Laura Dishaw
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Ingrid Druwe
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Catherine Gibbons
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Barbara Glenn
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Ryan Jones
- Center for Public Health and Environmental Assessment, Health & Environmental Effects Assessment Division, US EPA, NC, USA.
| | - J Phillip Kaiser
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Channa Keshava
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Nagalakshmi Keshava
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Andrew Kraft
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Lucina Lizarraga
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Amanda Persad
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Elizabeth G Radke
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Glenn Rice
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | | | - Rachel M Shaffer
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Teresa Shannon
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | - Andrew Shapiro
- Center for Public Health and Environmental Assessment, Health & Environmental Effects Assessment Division, US EPA, NC, USA.
| | - Shane Thacker
- Center for Public Health and Environmental Assessment, Health & Environmental Effects Assessment Division, US EPA, NC, USA.
| | - Suryanarayana V Vulimiri
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
| | | | - George Woodall
- Center for Public Health and Environmental Assessment, Health & Environmental Effects Assessment Division, US EPA, NC, USA.
| | - Erin Yost
- Center for Public Health and Environmental Assessment, Chemical & Pollutant Assessment Division, US EPA, DC, USA.
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Sinclair G, Thillainadarajah I, Meyer B, Samano V, Sivasupramaniam S, Adams L, Willighagen EL, Richard AM, Walker M, Williams AJ. Wikipedia on the CompTox Chemicals Dashboard: Connecting Resources to Enrich Public Chemical Data. J Chem Inf Model 2022; 62:4888-4905. [PMID: 36215146 PMCID: PMC9597659 DOI: 10.1021/acs.jcim.2c00886] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
The online encyclopedia
Wikipedia aggregates a large amount of
data on chemistry, encompassing well over 20,000 individual Wikipedia
pages and serves the general public as well as the chemistry community.
Many other chemical databases and services utilize these data, and
previous projects have focused on methods to index, search, and extract
it for review and use. We present a comprehensive effort that combines
bulk automated data extraction over tens of thousands of pages, semiautomated
data extraction over hundreds of pages, and fine-grained manual extraction
of individual lists and compounds of interest. We then correlate these
data with the existing contents of the U.S. Environmental Protection
Agency’s (EPA) Distributed Structure-Searchable Toxicity (DSSTox)
database. This was performed with a number of intentions including
ensuring as complete a mapping as possible between the Dashboard and
Wikipedia so that relevant snippets of the article are loaded for
the user to review. Conflicts between Dashboard content and Wikipedia
in terms of, for example, identifiers such as chemical registry numbers,
names, and InChIs and structure-based collisions such as SMILES were
identified and used as the basis of curation of both DSSTox and Wikipedia.
This work also allowed us to evaluate available data for sets of chemicals
of interest to the Agency, such as synthetic cannabinoids, and expand
the content in DSSTox as appropriate. This work also led to improved
bidirectional linkage of the detailed chemistry and usage information
from Wikipedia with expert-curated structure and identifier data from
DSSTox for a new list of nearly 20,000 chemicals. All of this work
ultimately enhances the data mappings that allow for the display of
the introduction of the Wikipedia article in the community-accessible
web-based EPA Comptox Chemicals Dashboard, enhancing the user experience
for the thousands of users per day accessing the resource.
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Affiliation(s)
- Gabriel Sinclair
- ORAU Student Services Contractor to Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Inthirany Thillainadarajah
- Senior Environmental Employment Program, US Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Brian Meyer
- Senior Environmental Employment Program, US Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Vicente Samano
- Senior Environmental Employment Program, US Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Sakuntala Sivasupramaniam
- Senior Environmental Employment Program, US Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Linda Adams
- Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Egon L Willighagen
- Department of Bioinformatics─BiGCaT, Maastricht University, 6229 ER Maastricht, The Netherlands
| | - Ann M Richard
- Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
| | - Martin Walker
- Martin Walker, SUNY Potsdam─Chemistry, 44 Pierrepont Avenue, Potsdam, New York 13676, United States
| | - Antony J Williams
- Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Research Triangle Park, North Carolina 27711, United States
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Hubbard HF, Ring CL, Hong T, Henning CC, Vallero DA, Egeghy PP, Goldsmith MR. Exposure Prioritization ( Ex Priori): A Screening-Level High-Throughput Chemical Prioritization Tool. TOXICS 2022; 10:569. [PMID: 36287849 PMCID: PMC9609548 DOI: 10.3390/toxics10100569] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Revised: 09/24/2022] [Accepted: 09/25/2022] [Indexed: 06/16/2023]
Abstract
To estimate potential chemical risk, tools are needed to prioritize potential exposures for chemicals with minimal data. Consumer product exposures are a key pathway, and variability in consumer use patterns is an important factor. We designed Ex Priori, a flexible dashboard-type screening-level exposure model, to rapidly visualize exposure rankings from consumer product use. Ex Priori is Excel-based. Currently, it is parameterized for seven routes of exposure for 1108 chemicals present in 228 consumer product types. It includes toxicokinetics considerations to estimate body burden. It includes a simple framework for rapid modeling of broad changes in consumer use patterns by product category. Ex Priori rapidly models changes in consumer user patterns during the COVID-19 pandemic and instantly shows resulting changes in chemical exposure rankings by body burden. Sensitivity analysis indicates that the model is sensitive to the air emissions rate of chemicals from products. Ex Priori's simple dashboard facilitates dynamic exploration of the effects of varying consumer product use patterns on prioritization of chemicals based on potential exposures. Ex Priori can be a useful modeling and visualization tool to both novice and experienced exposure modelers and complement more computationally intensive population-based exposure models.
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Affiliation(s)
| | - Caroline L. Ring
- Chemical Characterization and Exposure Division, Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Durham, NC 27713, USA
| | - Tao Hong
- ICF International, 2635 Meridian Parkway, Durham, NC 27713, USA
| | - Cara C. Henning
- ICF International, 2635 Meridian Parkway, Durham, NC 27713, USA
| | - Daniel A. Vallero
- Chemical Characterization and Exposure Division, Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Durham, NC 27713, USA
| | - Peter P. Egeghy
- Chemical Characterization and Exposure Division, Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Durham, NC 27713, USA
| | - Michael-Rock Goldsmith
- Chemical Characterization and Exposure Division, Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency, Durham, NC 27713, USA
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22
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Jameson LE, Conrow KD, Pinkhasova DV, Boulanger HL, Ha H, Jourabchian N, Johnson SA, Simeone MP, Afia IA, Cahill TM, Orser CS, Leung MC. Comparison of State-Level Regulations for Cannabis Contaminants and Implications for Public Health. ENVIRONMENTAL HEALTH PERSPECTIVES 2022; 130:97001. [PMID: 36102653 PMCID: PMC9472674 DOI: 10.1289/ehp11206] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Revised: 06/29/2022] [Accepted: 07/28/2022] [Indexed: 05/22/2023]
Abstract
BACKGROUND The presence of contaminants in cannabis presents a potential health hazard to recreational users and susceptible patients with medical conditions. Because of the federally illegal status of cannabis, there are no unified regulatory guidelines mitigating the public health risk of cannabis contaminants. OBJECTIVE To inform further research and provide solutions to the public health risk of cannabis contaminants at a national level, we examined the current landscape of state-level contaminant regulations, and cannabis contaminants of concern, as well as patient populations susceptible to contaminants. METHODS We examined the regulatory documents for medical and recreational cannabis in all legalized U.S. jurisdictions and compiled a complete list of regulated contaminants, namely, pesticides, inorganics, solvents, microbes, and mycotoxins. We data mined the compliance testing records of 5,654 cured flower and 3,760 extract samples that accounted for ∼6% of California's legal cannabis production in 2020-2021. We also reviewed the publicly available medical cannabis use reports to tabulate the susceptible patient populations. RESULTS As of 18 May 2022, 36 states and the District of Columbia listed a total of 679 cannabis contaminants as regulated in medical or recreational cannabis, including 551 pesticides, 74 solvents, 12 inorganics, 21 microbes, 5 mycotoxins, and 16 other contaminants. Different jurisdictions showed significant variations in regulated contaminants and action levels ranging up to four orders of magnitude. A failure rate of 2.3% was identified for flowers and 9.2% for extracts in the California samples. Insecticides and fungicides were the most prevalent categories of detected contaminants, with boscalid and chlorpyrifos being the most common. The contaminant concentrations fell below the regulatory action levels in many legalized jurisdictions, indicating a higher risk of contaminant exposure. Cannabis use reports indicated usage in several patient populations susceptible to contamination toxicity, including cancer (44,318) and seizure (21,195) patients. DISCUSSION Although individual jurisdictions can implement their policies and regulations for legalized cannabis, this study demonstrates the urgent need to mitigate the public health risk of cannabis contamination by introducing national-level guidelines based on conventional risk assessment methodologies and knowledge of patients' susceptibility in medical use. https://doi.org/10.1289/EHP11206.
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Affiliation(s)
- Laura E. Jameson
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
| | - Kendra D. Conrow
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
| | - Dorina V. Pinkhasova
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
- Pharmacology and Toxicology Program, New College of Interdisciplinary Arts and Sciences, ASU, Glendale, Arizona, USA
| | - Haleigh L. Boulanger
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
- Biological Data Science Program, New College of Interdisciplinary Arts and Sciences, ASU, Glendale, Arizona, USA
| | - Hyunji Ha
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
- Biological Data Science Program, New College of Interdisciplinary Arts and Sciences, ASU, Glendale, Arizona, USA
| | | | | | | | | | - Thomas M. Cahill
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
| | - Cindy S. Orser
- ASU Library Data Science and Analytics, ASU, Tempe, Arizona, USA
| | - Maxwell C.K. Leung
- School of Mathematical and Natural Sciences, New College of Interdisciplinary Arts and Sciences, Arizona State University (ASU), Glendale, Arizona, USA
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El-Masri H, Paul Friedman K, Isaacs K, Wetmore BA. Advances in computational methods along the exposure to toxicological response paradigm. Toxicol Appl Pharmacol 2022; 450:116141. [PMID: 35777528 PMCID: PMC9619339 DOI: 10.1016/j.taap.2022.116141] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2022] [Revised: 05/27/2022] [Accepted: 06/23/2022] [Indexed: 10/17/2022]
Abstract
Human health risk assessment is a function of chemical toxicity, bioavailability to reach target biological tissues, and potential environmental exposure. These factors are complicated by many physiological, biochemical, physical and lifestyle factors. Furthermore, chemical health risk assessment is challenging in view of the large, and continually increasing, number of chemicals found in the environment. These challenges highlight the need to prioritize resources for the efficient and timely assessment of those environmental chemicals that pose greatest health risks. Computational methods, either predictive or investigative, are designed to assist in this prioritization in view of the lack of cost prohibitive in vivo experimental data. Computational methods provide specific and focused toxicity information using in vitro high throughput screening (HTS) assays. Information from the HTS assays can be converted to in vivo estimates of chemical levels in blood or target tissue, which in turn are converted to in vivo dose estimates that can be compared to exposure levels of the screened chemicals. This manuscript provides a review for the landscape of computational methods developed and used at the U.S. Environmental Protection Agency (EPA) highlighting their potentials and challenges.
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Affiliation(s)
- Hisham El-Masri
- Center for Computational Toxicology and Exposure, Office of Research and Development, U. S. Environmental Protection Agency, Research Triangle Park, NC, USA.
| | - Katie Paul Friedman
- Center for Computational Toxicology and Exposure, Office of Research and Development, U. S. Environmental Protection Agency, Research Triangle Park, NC, USA
| | - Kristin Isaacs
- Center for Computational Toxicology and Exposure, Office of Research and Development, U. S. Environmental Protection Agency, Research Triangle Park, NC, USA
| | - Barbara A Wetmore
- Center for Computational Toxicology and Exposure, Office of Research and Development, U. S. Environmental Protection Agency, Research Triangle Park, NC, USA
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Pogrmic-Majkic K, Samardzija Nenadov D, Tesic B, Fa Nedeljkovic S, Kokai D, Stanic B, Andric N. Mapping DEHP to the adverse outcome pathway network for human female reproductive toxicity. Arch Toxicol 2022; 96:2799-2813. [PMID: 35790550 PMCID: PMC9352620 DOI: 10.1007/s00204-022-03333-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2022] [Accepted: 06/15/2022] [Indexed: 01/09/2023]
Abstract
Adverse outcome pathways (AOPs) and AOP networks are tools for mechanistic presentation of toxicological effects across different levels of biological organization. These tools are used to better understand how chemicals impact human health. In this study, a four-step workflow was used to derive the AOP network of human female reproductive toxicity (HFRT-AOP) from five AOPs available in the AOP-Wiki and ten AOPs obtained from the literature. Standard network analysis identified key events (KEs) that are point of convergence and divergence, upstream and downstream KEs, and bottlenecks across the network. To map di-(2-ethylhexyl) phthalate (DEHP) to the HFRT-AOP network, we extracted DEHP target genes and proteins from the Comparative Toxicogenomic and the CompTox Chemicals Dashboard databases. Enriched GO terms analysis was used to identify relevant biological processes in the ovary that are DEHP targets, whereas screening of scientific literature was performed manually and automatically using AOP-helpFinder. We combined this information to map DEHP to HFRT-AOP network to provide insight on the KEs and system-level perturbations caused by this endocrine disruptor and the emergent paths. This approach can enable better understanding of the toxic mechanism of DEHP-induced human female reproductive toxicity and reveal potential novel DEHP female reproductive targets for experimental studies.
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Affiliation(s)
- Kristina Pogrmic-Majkic
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia.
| | - Dragana Samardzija Nenadov
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia
| | - Biljana Tesic
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia
| | - Svetlana Fa Nedeljkovic
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia
| | - Dunja Kokai
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia
| | - Bojana Stanic
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia
| | - Nebojsa Andric
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Trg Dositeja Obradovica 2, 21000, Novi Sad, Serbia
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25
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Dorne JLCM, Cirlini M, Louisse J, Pedroni L, Galaverna G, Dellafiora L. A Computational Understanding of Inter-Individual Variability in CYP2D6 Activity to Investigate the Impact of Missense Mutations on Ochratoxin A Metabolism. Toxins (Basel) 2022; 14:toxins14030207. [PMID: 35324704 PMCID: PMC8950366 DOI: 10.3390/toxins14030207] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Revised: 03/09/2022] [Accepted: 03/10/2022] [Indexed: 02/04/2023] Open
Abstract
Cytochrome P-450 (CYP) enzymes have a key role in the metabolism of xenobiotics of food origin, and their highly polymorphic nature concurs with the diverse inter-individual variability in the toxicokinetics (TK) and toxicodynamics (TD) of food chemicals. Ochratoxin A is a well-known mycotoxin which contaminates a large variety of food and is associated with food safety concerns. It is a minor substrate of CYP2D6, although the effects of CYP2D6 polymorphisms on its metabolism may be overlooked. Insights on this aspect would provide a useful mechanistic basis for a more science-based hazard assessment, particularly to integrate inter-individual differences in CYP2D6 metabolism. This work presents a molecular modelling approach for the analysis of mechanistic features with regard to the metabolic capacity of CYP2D6 variants to oxidise a number of substrates. The outcomes highlighted that a low-frequency CYP2D6 variant (CYP2D6*110) is likely to enhance ochratoxin A oxidation with possible consequences on TK and TD. It is therefore recommended to further analyse such TK and TD consequences. Generally speaking, we propose the identification of mechanistic features and parameters that could provide a semi-quantitative means to discriminate ligands based on the likelihood to undergo transformation by CYP2D6 variants. This would support the development of a fit-for-purpose pipeline which can be extended to a tool allowing for the bulk analysis of a large number of compounds. Such a tool would ultimately include inter-phenotypic differences of polymorphic xenobiotic-metabolising enzymes in the hazard assessment and risk characterisation of food chemicals.
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Affiliation(s)
- Jean Lou C. M. Dorne
- Scientific Committee and Emerging Risks Unit, European Food Safety Authority, Via Carlo Magno 1A, 43124 Parma, Italy;
| | - Martina Cirlini
- Department of Food and Drug, University of Parma, 43124 Parma, Italy; (L.P.); (G.G.)
- Correspondence: (M.C.); (L.D.); Tel.: +39-0521-906079 (L.D.)
| | - Jochem Louisse
- Wageningen Food Safety Research, P.O. Box 230, 6700 AE Wageningen, The Netherlands;
| | - Lorenzo Pedroni
- Department of Food and Drug, University of Parma, 43124 Parma, Italy; (L.P.); (G.G.)
| | - Gianni Galaverna
- Department of Food and Drug, University of Parma, 43124 Parma, Italy; (L.P.); (G.G.)
| | - Luca Dellafiora
- Department of Food and Drug, University of Parma, 43124 Parma, Italy; (L.P.); (G.G.)
- Correspondence: (M.C.); (L.D.); Tel.: +39-0521-906079 (L.D.)
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Brack W, Barcelo Culleres D, Boxall ABA, Budzinski H, Castiglioni S, Covaci A, Dulio V, Escher BI, Fantke P, Kandie F, Fatta-Kassinos D, Hernández FJ, Hilscherová K, Hollender J, Hollert H, Jahnke A, Kasprzyk-Hordern B, Khan SJ, Kortenkamp A, Kümmerer K, Lalonde B, Lamoree MH, Levi Y, Lara Martín PA, Montagner CC, Mougin C, Msagati T, Oehlmann J, Posthuma L, Reid M, Reinhard M, Richardson SD, Rostkowski P, Schymanski E, Schneider F, Slobodnik J, Shibata Y, Snyder SA, Fabriz Sodré F, Teodorovic I, Thomas KV, Umbuzeiro GA, Viet PH, Yew-Hoong KG, Zhang X, Zuccato E. One planet: one health. A call to support the initiative on a global science-policy body on chemicals and waste. ENVIRONMENTAL SCIENCES EUROPE 2022; 34:21. [PMID: 35281760 PMCID: PMC8902847 DOI: 10.1186/s12302-022-00602-6] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Accepted: 02/25/2022] [Indexed: 05/08/2023]
Abstract
The chemical pollution crisis severely threatens human and environmental health globally. To tackle this challenge the establishment of an overarching international science-policy body has recently been suggested. We strongly support this initiative based on the awareness that humanity has already likely left the safe operating space within planetary boundaries for novel entities including chemical pollution. Immediate action is essential and needs to be informed by sound scientific knowledge and data compiled and critically evaluated by an overarching science-policy interface body. Major challenges for such a body are (i) to foster global knowledge production on exposure, impacts and governance going beyond data-rich regions (e.g., Europe and North America), (ii) to cover the entirety of hazardous chemicals, mixtures and wastes, (iii) to follow a one-health perspective considering the risks posed by chemicals and waste on ecosystem and human health, and (iv) to strive for solution-oriented assessments based on systems thinking. Based on multiple evidence on urgent action on a global scale, we call scientists and practitioners to mobilize their scientific networks and to intensify science-policy interaction with national governments to support the negotiations on the establishment of an intergovernmental body based on scientific knowledge explaining the anticipated benefit for human and environmental health.
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Affiliation(s)
- Werner Brack
- UFZ Helmholtz Centre for Environmental Research, Permoserstraße 15, 04318 Leipzig, Germany
- Faculty Biological Sciences, Goethe University Frankfurt, Max-von-der-Laue-Straße 13, 60438 Frankfurt, Germany
| | - Damia Barcelo Culleres
- Catalan Institute of Water Research, Carrer Emili Grahit 101, 17003 Girona, Spain
- Spanish National Research Council, Institute for Environmental Assessment & Water Research, Water & Soil Quality Research Group, Jordi Girona 18-26, 08034 Barcelona, Spain
| | | | - Hélène Budzinski
- Université de Bordeaux, 351 crs de la Libération, 33405 Talence, France
| | - Sara Castiglioni
- Department of Environmental Sciences, Istituto di Ricerche Farmacologiche Mario Negri IRCCS, Via Mario Negri 2, 20156 Milan, Italy
| | - Adrian Covaci
- Toxicological Center, University of Antwerp, Universiteitsplen 1, 2610 Wilrijk, Belgium
| | - Valeria Dulio
- INERIS - Direction Milieu et Impacts sur le Vivant (MIV), Parc technologique ALATA, 60550 Verneuil-en-Halatte, France
| | - Beate I. Escher
- UFZ Helmholtz Centre for Environmental Research, Permoserstraße 15, 04318 Leipzig, Germany
- Center for Applied Geoscience, Eberhard Karls University of Tübingen, 72076 Tübingen, Germany
| | - Peter Fantke
- Quantitative Sustainability Assessment, Department of Technology, Management and Economics, Technical University of Denmark, Produktionstorvet 424, 2800 Kgs. Lyngby, Denmark
| | - Faith Kandie
- Department of Biological Sciences, Moi University, 3900-30100 Eldoret, Kenya
| | - Despo Fatta-Kassinos
- Department of Civil and Environmental Engineering and Nireas-International Water Research Center, University of Cyprus, P.O. Box 20537, 1678 Nicosia, Cyprus
| | - Félix J. Hernández
- Research Institute for Pesticides and Water, University Jaume I, 12006 Castellon, Spain
| | - Klara Hilscherová
- RECETOX, Faculty of Science, Masaryk University, Kotlarska 2, Brno, Czech Republic
| | - Juliane Hollender
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland
- Institute of Biogeochemistry and Pollutant Dynamics, ETH Zurich, 8092 Zurich, Switzerland
| | - Henner Hollert
- Faculty Biological Sciences, Goethe University Frankfurt, Max-von-der-Laue-Straße 13, 60438 Frankfurt, Germany
| | - Annika Jahnke
- UFZ Helmholtz Centre for Environmental Research, Permoserstraße 15, 04318 Leipzig, Germany
- RWTH Aachen University, Worringerweg 1, 52074 Aachen, Germany
| | | | - Stuart J. Khan
- School of Civil & Environmental Engineering, University of New South Wales, Sydney, NSW 2052 Australia
| | - Andreas Kortenkamp
- Centre for Pollution Research and Policy, Department of Life Sciences, College of Health, Medicine and Life Sciences, Brunel University London, Uxbridge, UB8 3PH UK
| | - Klaus Kümmerer
- Institute for Sustainable Chemistry, Leuphana University Lüneburg, Universitätsallee 1, 21335 Lüneburg, Germany
| | - Brice Lalonde
- The French Water Academy, 51 rue Salvador-Allende, 92027 Nanterre, France
| | - Marja H. Lamoree
- Department Environment & Health, Vrije Universiteit Amsterdam, De Boelelaan 1085, 1081 HV Amsterdam, The Netherlands
| | - Yves Levi
- The French Water Academy, 51 rue Salvador-Allende, 92027 Nanterre, France
| | - Pablo Antonio Lara Martín
- Departamento de Química Física, Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz – European Universities of the Seas, Campus Río San Pedro, 11510 Puerto Real, Cádiz Spain
| | | | - Christian Mougin
- Université Paris-Saclay, INRAE, AgroParisTech, UMR ECOSYS, 78026 Versailles, France
| | - Titus Msagati
- Institute for Nanotechnology and Water Sustainability (iNanoWS), College of Science, Engineering and Technology (CSET), University of South Africa, Pretoria, South Africa
| | - Jörg Oehlmann
- Faculty Biological Sciences, Goethe University Frankfurt, Max-von-der-Laue-Straße 13, 60438 Frankfurt, Germany
| | - Leo Posthuma
- RIVM-National Institute for Public Health and the Environment, PO Box 1, 3720 BA Bilthoven, The Netherlands
- Department of Environmental Science, Radbound University Nijmegen, Nijmegen, The Netherlands
| | - Malcolm Reid
- Norwegian Institute for Water Research, Environmental Chemistry and Technology, Oslo, Norway
| | | | - Susan D. Richardson
- Department of Chemistry & Biochemistry, University of South Carolina, Columbia, SC 29208 USA
| | - Pawel Rostkowski
- NILU-Norwegian Institute for Air Research, P.O. Box 100, 2027 Kjeller, Norway
| | - Emma Schymanski
- University of Luxembourg, 6 avenue du Swing, 4367 Belvaux, Luxembourg
| | - Flurina Schneider
- Faculty Biological Sciences, Goethe University Frankfurt, Max-von-der-Laue-Straße 13, 60438 Frankfurt, Germany
- Institute for Social-Ecological Research (ISOE), Hamburger Alee 45, 60486 Frankfurt, Germany
| | | | - Yasuyuki Shibata
- Environmental Safety Center, Tokyo University of Science, 12-1 Ichigaya-Funagawara, Shinjuku, Tokyo 162-0826 Japan
| | - Shane Allen Snyder
- Nanyang Environment and Water Research Institute, Nanyang Technological University, Singapore, Singapore
| | | | | | - Kevin V. Thomas
- Queensland Alliance for Environmental Health Sciences (QAEHS), The University of Queensland, 20 Cornwall Street, Woolloongabba, QLD 4102 Australia
| | | | - Pham Hung Viet
- VNU Key Laboratory of Analytical Technology for Environmental Quality, Vietnam National University, 334 Nguyen Trai, Hanoi, Vietnam
| | - Karina Gin Yew-Hoong
- Department of Civil and Environmental Engineering, National University of Singapore, 1 Engineering Drive 2, Singapore, Singapore
| | - Xiaowei Zhang
- Centre of Chemical Safety and Risks, School of the Environment, Nanjing University, Nanjing, China
| | - Ettore Zuccato
- Department of Environmental Sciences, Istituto di Ricerche Farmacologiche Mario Negri IRCCS, Via Mario Negri 2, 20156 Milan, Italy
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Astuto MC, Di Nicola MR, Tarazona JV, Rortais A, Devos Y, Liem AKD, Kass GEN, Bastaki M, Schoonjans R, Maggiore A, Charles S, Ratier A, Lopes C, Gestin O, Robinson T, Williams A, Kramer N, Carnesecchi E, Dorne JLCM. In Silico Methods for Environmental Risk Assessment: Principles, Tiered Approaches, Applications, and Future Perspectives. Methods Mol Biol 2022; 2425:589-636. [PMID: 35188648 DOI: 10.1007/978-1-0716-1960-5_23] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
This chapter aims to introduce the reader to the basic principles of environmental risk assessment of chemicals and highlights the usefulness of tiered approaches within weight of evidence approaches in relation to problem formulation i.e., data availability, time and resource availability. In silico models are then introduced and include quantitative structure-activity relationship (QSAR) models, which support filling data gaps when no chemical property or ecotoxicological data are available. In addition, biologically-based models can be applied in more data rich situations and these include generic or species-specific models such as toxicokinetic-toxicodynamic models, dynamic energy budget models, physiologically based models, and models for ecosystem hazard assessment i.e. species sensitivity distributions and ultimately for landscape assessment i.e. landscape-based modeling approaches. Throughout this chapter, particular attention is given to provide practical examples supporting the application of such in silico models in real-world settings. Future perspectives are discussed to address environmental risk assessment in a more holistic manner particularly for relevant complex questions, such as the risk assessment of multiple stressors and the development of harmonized approaches to ultimately quantify the relative contribution and impact of single chemicals, multiple chemicals and multiple stressors on living organisms.
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Affiliation(s)
| | | | | | - A Rortais
- European Food Safety Authority, Parma, Italy
| | - Yann Devos
- European Food Safety Authority, Parma, Italy
| | | | | | | | | | | | | | | | | | | | | | - Antony Williams
- Center for Computational Toxicology and Exposure, Office of Research and Development, U.S. Environmental Protection Agency (U.S. EPA), Research Triangle Park, NC, USA
| | - Nynke Kramer
- Institute for Risk Assessment Sciences (IRAS), Utrecht University, Utrecht, The Netherlands
| | - Edoardo Carnesecchi
- Institute for Risk Assessment Sciences (IRAS), Utrecht University, Utrecht, The Netherlands
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Hernandez‐Jerez AF, Adriaanse P, Aldrich A, Berny P, Coja T, Duquesne S, Focks A, Marinovich M, Millet M, Pelkonen O, Pieper S, Tiktak A, Topping CJ, Widenfalk A, Wilks M, Wolterink G, Gundert‐Remy U, Louisse J, Rudaz S, Testai E, Lostia A, Dorne J, Parra Morte JM. Scientific Opinion of the Scientific Panel on Plant Protection Products and their Residues (PPR Panel) on testing and interpretation of comparative in vitro metabolism studies. EFSA J 2021; 19:e06970. [PMID: 34987623 PMCID: PMC8696562 DOI: 10.2903/j.efsa.2021.6970] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
EFSA asked the Panel on Plant Protection Products and their residues to deliver a Scientific Opinion on testing and interpretation of comparative in vitro metabolism studies for both new active substances and existing ones. The main aim of comparative in vitro metabolism studies of pesticide active substances is to evaluate whether all significant metabolites formed in the human in vitro test system, as a surrogate of the in vivo situation, are also present at comparable level in animal species tested in toxicological studies and, therefore, if their potential toxicity has been appropriately covered by animal studies. The studies may also help to decide which animal model, with regard to a particular compound, is the most relevant for humans. In the experimental strategy, primary hepatocytes in suspension or culture are recommended since hepatocytes are considered the most representative in vitro system for prediction of in vivo metabolites. The experimental design of 3 × 3 × 3 (concentrations, time points, technical replicates, on pooled hepatocytes) will maximise the chance to identify unique (UHM) and disproportionate (DHM) human metabolites. When DHM and UHM are being assessed, test item-related radioactivity recovery and metabolite profile are the most important parameters. Subsequently, structural characterisation of the assigned metabolites is performed with appropriate analytical techniques. In toxicological assessment of metabolites, the uncertainty factor approach is the first alternative to testing option, followed by new approach methodologies (QSAR, read-across, in vitro methods), and only if these fail, in vivo animal toxicity studies may be performed. Knowledge of in vitro metabolites in human and animal hepatocytes would enable toxicological evaluation of all metabolites of concern, and, furthermore, add useful pieces of information for detection and evaluation of metabolites in different matrices (crops, livestock, environment), improve biomonitoring efforts via better toxicokinetic understanding, and ultimately, develop regulatory schemes employing physiologically based or physiology-mimicking in silico and/or in vitro test systems to anticipate the exposure of humans to potentially hazardous substances in plant protection products.
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