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Finotti Cordeiro C, Lopardi Franco L, Teixeira Carvalho D, Bonfilio R. Impurities in Active Pharmaceutical Ingredients and Drug Products: A Critical Review. Crit Rev Anal Chem 2024:1-21. [PMID: 39058576 DOI: 10.1080/10408347.2024.2384046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/28/2024]
Abstract
The presence of impurities in active pharmaceutical ingredients (APIs) and drug products represents a risk to patients' health. Such substances are related to diverse side effects and may have mutagenic potential. That's why it is necessary to establish acceptable limits for these by-products, to minimize the risk associated with medicinal therapy. This work focused on presenting a critical review of relevant points related to the presence of impurities in pharmaceuticals. The main legislation and guidelines from the FDA, EMA, ICH, and Pharmacopeias about the subject were evaluated, and recent articles related to the topic were searched in Scopus, ScienceDirect, PubMed, and Web of Science from 2013 to 2023. Additionally, the analytical techniques used for quantifying impurities were discussed, along with relevant tests for assessing the toxicological and mutagenic risks of these by-products. Recent legislation, including ICH Q3A (R2), ICH Q3B (R2), ICH M7 (R2), ICH Q3D (R2), ICH Q3C (R9), ICH Q3E, ICH Q6A, ICH M3 (R2), as well as FDA and EMA guidelines, highlights a comprehensive and effective framework for controlling impurities in pharmaceuticals. Despite this, there remains a lack of harmonization and standardized procedures across different regions. From the review of scientific literature, we observed that advancements in analytical techniques have significantly improved the sensitivity and selectivity in detecting impurities and degradation products. This underscores the ongoing commitment of health agencies and the pharmaceutical industry to ensure the safety and efficacy of medicinal products.
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Affiliation(s)
- Cleydson Finotti Cordeiro
- Faculty of Pharmaceutical Sciences, Federal University of Alfenas (UNIFAL-MG), Alfenas, Minas Gerais, Brazil
| | - Lucas Lopardi Franco
- Faculty of Pharmaceutical Sciences, Federal University of Alfenas (UNIFAL-MG), Alfenas, Minas Gerais, Brazil
| | - Diogo Teixeira Carvalho
- Faculty of Pharmaceutical Sciences, Federal University of Alfenas (UNIFAL-MG), Alfenas, Minas Gerais, Brazil
| | - Rudy Bonfilio
- Faculty of Pharmaceutical Sciences, Federal University of Alfenas (UNIFAL-MG), Alfenas, Minas Gerais, Brazil
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2
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Snodin DJ. Mutagenic impurities in pharmaceuticals: A critical assessment of the cohort of concern with a focus on N-nitrosamines. Regul Toxicol Pharmacol 2023; 141:105403. [PMID: 37116739 DOI: 10.1016/j.yrtph.2023.105403] [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: 03/06/2023] [Revised: 04/20/2023] [Accepted: 04/25/2023] [Indexed: 04/30/2023]
Abstract
The TTC (Threshold of Toxicological Concern; set at 1.5 μg/day for pharmaceuticals) defines an acceptable patient intake for any unstudied chemical posing a negligible risk of carcinogenicity or other toxic effects. A group of high potency mutagenic carcinogens, defined solely by the presence of particular structural alerts, are referred to as the "cohort of concern" (CoC); aflatoxin-like-, N-nitroso-, and alkyl-azoxy compounds are considered to pose a significant carcinogenic risk at intakes below the TTC. Kroes et al.2004, derived values for the TTC and CoC in the context of food components, employing a non-transparent dataset never placed in the public domain. Using a reconstructed all-carcinogen dataset from relevant publications, it is now clear that there are exceptions for all three CoC structural classes. N-Nitrosamines represent 62% of the N-nitroso class in the reconstructed dataset. Employing a contemporary dataset, 20% are negative in rodent carcinogenicity bioassays with less than 50% of N-nitrosamines estimated to fall into the highest risk category. It is recommended that CoC nitrosamines are identified by compound-specific data rather than structural alerts. Thus, it should be possible to distinguish CoC from non-CoC N-nitrosamines in the context of mutagenic impurities described in ICH M7 (R1).
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Affiliation(s)
- David J Snodin
- Xiphora Biopharma Consulting, 9 Richmond Apartments, Redland Court Road, Bristol, BS6 7BG, UK.
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3
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Charoo NA, Dharani S, Khan MA, Rahman Z. Nitroso Impurities in Drug Products: An Overview of Risk Assessment, Regulatory Milieu, and Control Strategy. AAPS PharmSciTech 2023; 24:60. [PMID: 36759424 DOI: 10.1208/s12249-023-02523-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2022] [Accepted: 01/24/2023] [Indexed: 02/11/2023] Open
Abstract
Many nitrosamines have been recognized to be carcinogenic for many decades. Despite the fact that several nitrosamine precursors are frequently used in the manufacturing of pharmaceutical products, their potential presence in pharmaceutical products has previously been overlooked due to a lack of understanding on how they form during the manufacturing process. From the risk assessment, it is clear that nitrosamines or their precursors may be present in any component of the finished dosage form. As a risk mitigation strategy, components with a high potential to form nitrosamine should be avoided. In the absence of suitable alternatives, sufficient measures to maintain nitrosamines below acceptable intake levels must be applied. Excipient manufacturing pathways must be extensively studied in order to identify probable excipient components that may contribute to nitrosamine formation. The manufacturers must not solely rely on pharmacopeial specifications for APIs and excipients, rather, they should also develop and implement additional strategies to control nitrosamine impurities. The formulation can be supplemented with nitrosating inhibitors, such as vitamin C, to stop the generation of nitrosamine. The purpose of this review is to identify key risk factors with regard to nitrosamine formation in pharmaceutical dosage forms and provide an effective control strategy to contain them below acceptable daily intake limits.
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Affiliation(s)
- Naseem A Charoo
- Succor Pharma Solutions, Laboratory Complex, 216, Dubai Science Park, Dubai, UAE
| | - Sathish Dharani
- Irma Lerma Rangel College of Pharmacy, Texas A&M Health Science Center, Texas A&M University, College Station, TX, 77843, USA
| | - Mansoor A Khan
- Irma Lerma Rangel College of Pharmacy, Texas A&M Health Science Center, Texas A&M University, College Station, TX, 77843, USA
| | - Ziyaur Rahman
- Irma Lerma Rangel College of Pharmacy, Texas A&M Health Science Center, Texas A&M University, College Station, TX, 77843, USA.
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4
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Feng E, Ma X, Jiang H, Sheng H, Rowell CE, Kenttämaa HI. Differentiation of Protonated Sulfonate Esters from Isomeric Sulfite Esters and Sulfones by Gas-Phase Ion-Molecule Reactions Followed by Diagnostic Collision-Activated Dissociation in Tandem Mass Spectrometry Experiments. Anal Chem 2022; 94:7928-7935. [PMID: 35613044 DOI: 10.1021/acs.analchem.2c00731] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Sulfonate esters, a class of potentially mutagenic drug impurities, are strictly regulated in pharmaceuticals. On the other hand, sulfite esters and sulfones, analogs of sulfonate esters, have limited safety concerns. However, previously developed analytical methods for sulfonate ester identification cannot be used to differentiate sulfonate esters from the isomeric sulfite esters and sulfones. A tandem mass spectrometric method is introduced here for the differentiation of these compounds. Diisopropoxymethylborane (DIMB) reacts with protonated sulfonate esters, sulfite esters, and sulfones (and many other compounds) in the gas phase to form the product ion [M + H + DIMB - CH3CH(OH)CH3]+. Upon collision-activated dissociation (CAD), these product ions generate diagnostic fragment ions that enable the differentiation of sulfonate esters, sulfite esters, and sulfones from each other. For example, SO2 elimination enabled the unambiguous identification of sulfite esters. On the other hand, elimination of CH3B═O followed by elimination of (CH3)2C═O was only observed for sulfonate esters. Neither type of diagnostic fragment ions was detected for the products of sulfones. However, the product ions formed for sulfones with an additional hydroxyl substituent underwent the elimination of another CH3CH(OH)CH3 molecule, which enabled their identification. Finally, ion-molecule reactions of DIMB with various other functionalities were also examined. Some of them yielded the product ions [M + H + DIMB - CH3CH(OH)CH3]+ but none of these product ions underwent the diagnostic CAD reactions discussed above. Quantum chemical calculations were employed to explore the mechanisms of the reactions. The limits of detection for the diagnostic ion-molecule reaction product ions in high-performance liquid chromatography (HPLC)/mass spectrometry (MS2) experiments were found to range from 0.075 to 1.25 nmol.
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Affiliation(s)
- Erlu Feng
- Department of Chemistry, Purdue University, 560 Oval Dr, West Lafayette, Indiana 47907, United States
| | - Xin Ma
- Department of Chemistry, Purdue University, 560 Oval Dr, West Lafayette, Indiana 47907, United States.,School of Chemistry and Biochemistry, Georgia Institute of Technology, 901 Atlantic Dr, Atlanta, Georgia 30332, United States
| | - Hanning Jiang
- Department of Chemistry, Purdue University, 560 Oval Dr, West Lafayette, Indiana 47907, United States
| | - Huaming Sheng
- Department of Chemistry, Purdue University, 560 Oval Dr, West Lafayette, Indiana 47907, United States.,Merck & Co., Rahway, New Jersey 07065, United States
| | - Caroline E Rowell
- Department of Chemistry, Purdue University, 560 Oval Dr, West Lafayette, Indiana 47907, United States
| | - Hilkka I Kenttämaa
- Department of Chemistry, Purdue University, 560 Oval Dr, West Lafayette, Indiana 47907, United States
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5
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Coppi A, Davies R, Wegesser T, Ishida K, Karmel J, Han J, Aiello F, Xie Y, Corbett MT, Parsons AT, Monticello TM, Minocherhomji S. Characterization of false positive, contaminant-driven mutagenicity in impurities associated with the sotorasib drug substance. Regul Toxicol Pharmacol 2022; 131:105162. [DOI: 10.1016/j.yrtph.2022.105162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 02/14/2022] [Accepted: 03/17/2022] [Indexed: 10/18/2022]
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6
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Abstract
A product recall is the outcome of a careful pharmacovigilance; and it is an integral part of drug regulation. Among various reasons for product recall, the detection of unacceptable levels of carcinogenic impurities is one of the most serious concerns. The genotoxic and carcinogenic potential of N-nitrosamines raises a serious safety concern, and in September 2020, the FDA issued guidance for the pharmaceutical industry regarding the control of nitrosamines in drug products. The FDA database shows that >1400 product lots have been recalled from the market due to the presence of carcinogenic N-nitrosamine impurities at levels beyond the acceptable intake limit of 26.5 ng/day. The drugs that were present in recalled products include valsartan, irbesartan, losartan, metformin, ranitidine, and nizatidine. This perspective provides a critical account of these product recalls with an emphasis on the source and mechanism for the formation of N-nitrosamines in these products.
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Affiliation(s)
- Sonali S Bharate
- Shobhaben Pratapbhai Patel School of Pharmacy & Technology Management, SVKM's NMIMS, V.L. Mehta Road, Vile Parle (W), Mumbai 400056, India
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7
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Otsubo Y, Matsumura S, Ikeda N, Morita O. Hawk-Seq™ differentiates between various mutations in Salmonella typhimurium TA100 strain caused by exposure to Ames test-positive mutagens. Mutagenesis 2021; 36:245-254. [PMID: 33590004 PMCID: PMC8262380 DOI: 10.1093/mutage/geab006] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2020] [Accepted: 02/03/2021] [Indexed: 11/27/2022] Open
Abstract
A precise understanding of differences in genomic mutations according to the mutagenic mechanisms detected in mutagenicity data is required to evaluate the carcinogenicity of environmental mutagens. Recently, we developed a highly accurate genome sequencing method, ‘Hawk-Seq™’, that enables the detection of mutagen-induced genome-wide mutations. However, its applicability to detect various mutagens and identify differences in mutational profiles is not well understood. Thus, we evaluated DNA samples from Salmonella typhimurium TA100 exposed to 11 mutagens, including alkylating agents, aldehydes, an aromatic nitro compound, epoxides, aromatic amines and polycyclic aromatic hydrocarbons (PAHs). We extensively analysed mutagen-induced mutational profiles and studied their association with the mechanisms of mutagens. Hawk-Seq™ sensitively detected mutations induced by all 11 mutagens, including one that increased the number of revertants by approximately 2-fold in the Ames test. Although the sensitivity for less water-soluble mutagens was relatively low, we increased the sensitivity to obtain high-resolution spectra by modifying the exposure protocol. Moreover, two epoxides indicated similar 6- or 96-dimensional mutational patterns; likewise, three SN1-type alkylating agents indicated similar mutational patterns, suggesting that the mutational patterns are compound category specific. Meanwhile, an SN2 type alkylating agent exhibited unique mutational patterns compared to those of the SN1 type alkylating agents. Although the mutational patterns induced by aldehydes, the aromatic nitro compound, aromatic amines and PAHs did not differ substantially from each other, the maximum total base substitution frequencies (MTSFs) were similar among mutagens in the same structural groups. Furthermore, the MTSF was found to be associated with the carcinogenic potency of some direct-acting mutagens. These results indicate that our method can generate high-resolution mutational profiles to identify characteristic features of each mutagen. The detailed mutational data obtained by Hawk-Seq™ can provide useful information regarding mutagenic mechanisms and help identify its association with the carcinogenicity of mutagens without requiring carcinogenicity data.
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Affiliation(s)
- Yuki Otsubo
- R&D Safety Science Research, Kao Corporation, 3-25-14 Tono-machi, Kawasaki-ku, Kawasaki City, Kanagawa 210-0821, Japan
| | - Shoji Matsumura
- R&D Safety Science Research, Kao Corporation, 3-25-14 Tono-machi, Kawasaki-ku, Kawasaki City, Kanagawa 210-0821, Japan
| | - Naohiro Ikeda
- R&D Safety Science Research, Kao Corporation, 3-25-14 Tono-machi, Kawasaki-ku, Kawasaki City, Kanagawa 210-0821, Japan
| | - Osamu Morita
- R&D Safety Science Research, Kao Corporation, 2606 Akabane, Ichikai-Machi, Haga-Gun, Tochigi 321-3497, Japan
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8
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Management of pharmaceutical ICH M7 (Q)SAR predictions - The impact of model updates. Regul Toxicol Pharmacol 2020; 118:104807. [PMID: 33058939 PMCID: PMC7734868 DOI: 10.1016/j.yrtph.2020.104807] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2020] [Revised: 09/29/2020] [Accepted: 10/09/2020] [Indexed: 12/15/2022]
Abstract
Pharmaceutical applicants conduct (Q)SAR assessments on identified and theoretical impurities to predict their mutagenic potential. Two complementary models—one rule-based and one statistical-based—are used, followed by expert review. (Q)SAR models are continuously updated to improve predictions, with new versions typically released on a yearly basis. Numerous releases of (Q)SAR models will occur during the typical 6–7 years of drug development until new drug registration. Therefore, it is important to understand the impact of model updates on impurity mutagenicity predictions over time. Compounds representative of pharmaceutical impurities were analyzed with three rule- and three statistical-based models covering a 4–8 year period, with the individual time frame being dependent on when the individual models were initially made available. The largest changes in the combined outcome of two complementary models were from positive or equivocal to negative and from negative to equivocal. Importantly, the cumulative change of negative to positive predictions was small in all models (<5%) and was further reduced when complementary models were combined in a consensus fashion. We conclude that model updates of the type evaluated in this manuscript would not necessarily require re-running a (Q)SAR prediction unless there is a specific need. However, original (Q)SAR predictions should be evaluated when finalizing the commercial route of synthesis for marketing authorization.
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9
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Li C, Franklin L, Chen R, Mack T, Humora M, Ma B, Hopkins BT, Guzowski J, Zheng F, MacPhee M, Lin Y, Ferguson S, Patience D, Moniz GA, Kiesman WF, O’Brien EM. Process Development and Large-Scale Synthesis of BTK Inhibitor BIIB068. Org Process Res Dev 2020. [DOI: 10.1021/acs.oprd.0c00087] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Chaomin Li
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Lloyd Franklin
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Robbie Chen
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Tamera Mack
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Michael Humora
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Bin Ma
- Medicinal Chemistry, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Brian T. Hopkins
- Medicinal Chemistry, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - John Guzowski
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Fengmei Zheng
- Pharmaceutical Sciences, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Michael MacPhee
- Pharmaceutical Sciences, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Yiqing Lin
- Pharmaceutical Sciences, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Steven Ferguson
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Daniel Patience
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - George A. Moniz
- CMC Management, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - William F. Kiesman
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Erin M. O’Brien
- Chemical Process Development, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States
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10
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Masuda-Herrera MJ, Dobo KL, Kenyon MO, Kenny JD, Galloway SM, Escobar PA, Reddy MV, Jolly RA, Trejo-Martin A, Brown C, Mckeon M, Young M, Bruce S, Pant K, Dutta A, Kulkarni R, Bercu JP. In Vivo Mutagenicity Testing of Arylboronic Acids and Esters. ENVIRONMENTAL AND MOLECULAR MUTAGENESIS 2019; 60:766-777. [PMID: 31335992 DOI: 10.1002/em.22320] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2019] [Revised: 07/09/2019] [Accepted: 07/15/2019] [Indexed: 06/10/2023]
Abstract
Arylboronic acids and esters (referred to collectively as arylboronic compounds) are commonly used intermediates in the synthesis of pharmaceuticals but pose a challenge for chemical syntheses because they are often positive for bacterial mutagenicity in vitro. As such, arylboronic compounds are then typically controlled to levels that are acceptable for mutagenic impurities, that is, the threshold of toxicological concern (TTC). This study used ICH M7 guidance to design and conduct a testing strategy to investigate the in vivo relevance of the in vitro positive findings of arylboronic compounds. Eight arylboronic compounds representing a variety of chemical scaffolds were tested in Sprague Dawley and/or Wistar rats in the in vivo Pig-a (peripheral blood reticulocytes and mature red blood cells) and/or comet assays (duodenum and/or liver). Five of the eight compounds were also tested in the micronucleus (peripheral blood) assay. The arylboronic compounds tested orally demonstrated high systemic exposure; thus the blood and bone marrow were adequately exposed to test article. One compound was administered intravenously due to formulation stability issues. This investigation showed that arylboronic compounds that were mutagenic in vitro were not found to be mutagenic in the corresponding in vivo assays. Therefore, arylboronic compounds similar to the scaffolds tested in this article may be considered non-mutagenic and managed in accordance with the ICH Q3A/Q3B guidelines. Environ. Mol. Mutagen. 2019. © 2019 Wiley Periodicals, Inc.
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Affiliation(s)
| | - Krista L Dobo
- Pfizer Global Research & Development, Groton, Connecticut, 06340
| | | | - Julia D Kenny
- GlaxoSmithKline, Hertfordshire, SG12 0DP, United Kingdom
| | | | | | | | - Robert A Jolly
- Toxicology Division, Eli Lilly and Company, Indianapolis, Indiana
| | | | - Caren Brown
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
| | - Marie Mckeon
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
| | - Megan Young
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
| | - Shannon Bruce
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
| | - Kamala Pant
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
| | - Aparajita Dutta
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
| | - Rohan Kulkarni
- MilliporeSigma BioReliance® Toxicology Services, Rockville, Maryland
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11
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Sami Y, Morita M, Kubota H, Hirabayashi R, Seo R, Nakagawa N. Discovery of a novel orally active TRPV4 inhibitor: Part 1. Optimization from an HTS hit. Bioorg Med Chem 2019; 27:3775-3787. [DOI: 10.1016/j.bmc.2019.05.041] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2019] [Revised: 05/24/2019] [Accepted: 05/27/2019] [Indexed: 10/26/2022]
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12
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Niyonsaba E, Easton MW, Liu JK, Yu Z, Sheng H, Kong JY, Zhang Z, Easterling LF, Milton J, Kenttämaa HI. Identification of Protonated Primary Carbamates by Using Gas-Phase Ion–Molecule Reactions Followed by Collision-Activated Dissociation in Tandem Mass Spectrometry Experiments. Org Process Res Dev 2019. [DOI: 10.1021/acs.oprd.9b00080] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Edouard Niyonsaba
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Mckay W. Easton
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Judy K.Y. Liu
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Zaikuan Yu
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Huaming Sheng
- Department of Analytical Research & Development, Merck & Co., Inc., Rahway, New Jersey 07065, United States
| | - John Y. Kong
- Department of Analytical Research & Development, Merck & Co., Inc., Rahway, New Jersey 07065, United States
| | - Zhoupeng Zhang
- Department of Pharmacokinetics, Pharmacodynamics & Drug Metabolism, Merck & Co., Inc., West Point, Pennsylvania 19486, United States
| | - Leah F. Easterling
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Jacob Milton
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Hilkka I. Kenttämaa
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
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13
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Honma M, Kitazawa A, Cayley A, Williams RV, Barber C, Hanser T, Saiakhov R, Chakravarti S, Myatt GJ, Cross KP, Benfenati E, Raitano G, Mekenyan O, Petkov P, Bossa C, Benigni R, Battistelli CL, Giuliani A, Tcheremenskaia O, DeMeo C, Norinder U, Koga H, Jose C, Jeliazkova N, Kochev N, Paskaleva V, Yang C, Daga PR, Clark RD, Rathman J. Improvement of quantitative structure-activity relationship (QSAR) tools for predicting Ames mutagenicity: outcomes of the Ames/QSAR International Challenge Project. Mutagenesis 2019; 34:3-16. [PMID: 30357358 PMCID: PMC6402315 DOI: 10.1093/mutage/gey031] [Citation(s) in RCA: 75] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Accepted: 09/20/2018] [Indexed: 11/12/2022] Open
Abstract
The International Conference on Harmonization (ICH) M7 guideline allows the use of in silico approaches for predicting Ames mutagenicity for the initial assessment of impurities in pharmaceuticals. This is the first international guideline that addresses the use of quantitative structure–activity relationship (QSAR) models in lieu of actual toxicological studies for human health assessment. Therefore, QSAR models for Ames mutagenicity now require higher predictive power for identifying mutagenic chemicals. To increase the predictive power of QSAR models, larger experimental datasets from reliable sources are required. The Division of Genetics and Mutagenesis, National Institute of Health Sciences (DGM/NIHS) of Japan recently established a unique proprietary Ames mutagenicity database containing 12140 new chemicals that have not been previously used for developing QSAR models. The DGM/NIHS provided this Ames database to QSAR vendors to validate and improve their QSAR tools. The Ames/QSAR International Challenge Project was initiated in 2014 with 12 QSAR vendors testing 17 QSAR tools against these compounds in three phases. We now present the final results. All tools were considerably improved by participation in this project. Most tools achieved >50% sensitivity (positive prediction among all Ames positives) and predictive power (accuracy) was as high as 80%, almost equivalent to the inter-laboratory reproducibility of Ames tests. To further increase the predictive power of QSAR tools, accumulation of additional Ames test data is required as well as re-evaluation of some previous Ames test results. Indeed, some Ames-positive or Ames-negative chemicals may have previously been incorrectly classified because of methodological weakness, resulting in false-positive or false-negative predictions by QSAR tools. These incorrect data hamper prediction and are a source of noise in the development of QSAR models. It is thus essential to establish a large benchmark database consisting only of well-validated Ames test results to build more accurate QSAR models.
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Affiliation(s)
- Masamitsu Honma
- Division of Genetics and Mutagenesis, National Institute of Health Sciences, Tonomachi, Kawasaki-ku, Kanagawa, Japan
| | - Airi Kitazawa
- Division of Genetics and Mutagenesis, National Institute of Health Sciences, Tonomachi, Kawasaki-ku, Kanagawa, Japan
| | - Alex Cayley
- Lhasa Limited, Granary Wharf House, Canal Wharf, Leeds, UK
| | | | - Chris Barber
- Lhasa Limited, Granary Wharf House, Canal Wharf, Leeds, UK
| | - Thierry Hanser
- Lhasa Limited, Granary Wharf House, Canal Wharf, Leeds, UK
| | | | | | | | | | - Emilio Benfenati
- Istituto di Ricerche Farmacologiche Mario Negri IRCCS, Via G. La Masa19 Milano, Italy
| | - Giuseppa Raitano
- Istituto di Ricerche Farmacologiche Mario Negri IRCCS, Via G. La Masa19 Milano, Italy
| | - Ovanes Mekenyan
- Laboratory of Mathematical Chemistry, As. Zlatarov University, Bourgas, Bulgaria
| | - Petko Petkov
- Laboratory of Mathematical Chemistry, As. Zlatarov University, Bourgas, Bulgaria
| | - Cecilia Bossa
- Istituto Superiore di Sanita', Viale Regina Elena, Rome, Italy
| | - Romualdo Benigni
- Istituto Superiore di Sanita', Viale Regina Elena, Rome, Italy.,Alpha-Pretox, Via G. Pascoli, Rome, Italy
| | | | | | | | | | - Ulf Norinder
- Swetox, Karolinska Institutet, Unit of Toxicology Sciences, Södertälje, Sweden.,Department of Computer and Systems Sciences, Stockholm University, SE Kista, Sweden
| | - Hiromi Koga
- Fujitsu Kyushu Systems Limited, Higashihie, Hakata-ku, Fukuoka, Japan
| | - Ciloy Jose
- Fujitsu Kyushu Systems Limited, Higashihie, Hakata-ku, Fukuoka, Japan
| | | | - Nikolay Kochev
- IdeaConsult Ltd., A. Kanchev str., Sofia, Bulgaria.,Department of Analytical Chemistry and Computer Chemistry, University of Plovdiv, Plovdiv, Bulgaria
| | - Vesselina Paskaleva
- Department of Analytical Chemistry and Computer Chemistry, University of Plovdiv, Plovdiv, Bulgaria
| | - Chihae Yang
- Molecular Networks GmbH and Altamira LLC, Neumeyerstrasse Nürnberg, Germany and Candlewood Drive, Columbus, OH, USA
| | | | | | - James Rathman
- Molecular Networks GmbH and Altamira LLC, Neumeyerstrasse Nürnberg, Germany and Candlewood Drive, Columbus, OH, USA.,Chemical and Biomolecular Engineering, The Ohio State University, W. Woodruff Ave. Columbus, OH, USA
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14
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Amberg A, Anger LT, Bercu J, Bower D, Cross KP, Custer L, Harvey JS, Hasselgren C, Honma M, Johnson C, Jolly R, Kenyon MO, Kruhlak NL, Leavitt P, Quigley DP, Miller S, Snodin D, Stavitskaya L, Teasdale A, Trejo-Martin A, White AT, Wichard J, Myatt GJ. Extending (Q)SARs to incorporate proprietary knowledge for regulatory purposes: is aromatic N-oxide a structural alert for predicting DNA-reactive mutagenicity? Mutagenesis 2019; 34:67-82. [PMID: 30189015 DOI: 10.1093/mutage/gey020] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2018] [Revised: 07/02/2018] [Accepted: 07/28/2018] [Indexed: 11/13/2022] Open
Abstract
(Quantitative) structure-activity relationship or (Q)SAR predictions of DNA-reactive mutagenicity are important to support both the design of new chemicals and the assessment of impurities, degradants, metabolites, extractables and leachables, as well as existing chemicals. Aromatic N-oxides represent a class of compounds that are often considered alerting for mutagenicity yet the scientific rationale of this structural alert is not clear and has been questioned. Because aromatic N-oxide-containing compounds may be encountered as impurities, degradants and metabolites, it is important to accurately predict mutagenicity of this chemical class. This article analysed a series of publicly available aromatic N-oxide data in search of supporting information. The article also used a previously developed structure-activity relationship (SAR) fingerprint methodology where a series of aromatic N-oxide substructures was generated and matched against public and proprietary databases, including pharmaceutical data. An assessment of the number of mutagenic and non-mutagenic compounds matching each substructure across all sources was used to understand whether the general class or any specific subclasses appear to lead to mutagenicity. This analysis resulted in a downgrade of the general aromatic N-oxide alert. However, it was determined there were enough public and proprietary data to assign the quindioxin and related chemicals as well as benzo[c][1,2,5]oxadiazole 1-oxide subclasses as alerts. The overall results of this analysis were incorporated into Leadscope's expert-rule-based model to enhance its predictive accuracy.
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Affiliation(s)
- Alexander Amberg
- Sanofi, R&D Preclinical Safety Frankfurt, Industriepark Höchst, Frankfurt am Main, Germany
| | - Lennart T Anger
- Sanofi, R&D Preclinical Safety Frankfurt, Industriepark Höchst, Frankfurt am Main, Germany
| | - Joel Bercu
- Gilead Sciences, Nonclinical Safety and Pathobiology, Foster City, CA, USA
| | | | | | - Laura Custer
- Bristol-Myers Squibb, Drug Safety Evaluation, New Brunswick, NJ, USA
| | - James S Harvey
- GlaxoSmithKline Pre-Clinical Development, Ware, Hertfordshire, UK
| | | | - Masamitsu Honma
- National Institute of Health Sciences, Division of Genetics & Mutagenesis, Kamiyoga, Setagaya-ku, Tokyo, Japan
| | | | - Robert Jolly
- Toxicology Division, Eli Lilly and Company, Indianapolis, IN, USA
| | - Michelle O Kenyon
- Pfizer Worldwide Research and Development, Drug Safety, Genetic Toxicology, Groton, CT, USA
| | - Naomi L Kruhlak
- U.S. Food and Drug Administration, Center for Drug Evaluation and Research, Silver Spring, MD, USA
| | - Penny Leavitt
- Bristol-Myers Squibb, Drug Safety Evaluation, New Brunswick, NJ, USA
| | | | | | | | - Lidiya Stavitskaya
- U.S. Food and Drug Administration, Center for Drug Evaluation and Research, Silver Spring, MD, USA
| | - Andrew Teasdale
- AstraZeneca, Pharmaceutical Technology and Development, Macclesfield, Cheshire, UK
| | | | - Angela T White
- GlaxoSmithKline Pre-Clinical Development, Ware, Hertfordshire, UK
| | - Joerg Wichard
- Bayer AG, Pharmaceuticals Division, Investigational Toxicology, Muellerstr, Berlin, Germany
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15
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Baldwin AF, North R, Eisenbeis S. Trace Level Quantification of Derivatized Boronic Acids by LC/MS/MS. Org Process Res Dev 2019. [DOI: 10.1021/acs.oprd.8b00377] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Aaron F. Baldwin
- Pharmaceutical Sciences Small Molecule †Analytical Research & Development and ‡Chemical Research & Development, Pfizer, Eastern Point Road, Groton, Connecticut 06340, United States
| | - Robert North
- Pharmaceutical Sciences Small Molecule †Analytical Research & Development and ‡Chemical Research & Development, Pfizer, Eastern Point Road, Groton, Connecticut 06340, United States
| | - Shane Eisenbeis
- Pharmaceutical Sciences Small Molecule †Analytical Research & Development and ‡Chemical Research & Development, Pfizer, Eastern Point Road, Groton, Connecticut 06340, United States
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16
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Norinder U, Myatt G, Ahlberg E. Predicting Aromatic Amine Mutagenicity with Confidence: A Case Study Using Conformal Prediction. Biomolecules 2018; 8:biom8030085. [PMID: 30158463 PMCID: PMC6163496 DOI: 10.3390/biom8030085] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2018] [Revised: 08/16/2018] [Accepted: 08/21/2018] [Indexed: 01/09/2023] Open
Abstract
The occurrence of mutagenicity in primary aromatic amines has been investigated using conformal prediction. The results of the investigation show that it is possible to develop mathematically proven valid models using conformal prediction and that the existence of uncertain classes of prediction, such as both (both classes assigned to a compound) and empty (no class assigned to a compound), provides the user with additional information on how to use, further develop, and possibly improve future models. The study also indicates that the use of different sets of fingerprints results in models, for which the ability to discriminate varies with respect to the set level of acceptable errors.
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Affiliation(s)
- Ulf Norinder
- Swetox, Karolinska Institutet, Unit of Toxicology Sciences, SE-151 36 Södertälje, Sweden.
- Dept. Computer and Systems Sciences, Stockholm Univ., Box 7003, SE-164 07 Kista, Sweden.
| | - Glenn Myatt
- Leadscope, 1393 Dublin Road, Columbus, OH 43215, USA.
| | - Ernst Ahlberg
- Drug Safety and Metabolism, Innovative Medicines and Early Development Biotech Unit, AstraZeneca R&D Gothenburg, SE-431 83 Mölndal, Sweden.
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17
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Bercu J, Galloway S, Parris P, Teasdale A, Masuda-Herrera M, Dobo K, Heard P, Kenyon M, Nicolette J, Vock E, Ku W, Harvey J, White A, Glowienke S, Martin E, Custer L, Jolly R, Thybaud V. Potential impurities in drug substances: Compound-specific toxicology limits for 20 synthetic reagents and by-products, and a class-specific toxicology limit for alkyl bromides. Regul Toxicol Pharmacol 2018; 94:172-182. [DOI: 10.1016/j.yrtph.2018.02.001] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2017] [Revised: 01/29/2018] [Accepted: 02/01/2018] [Indexed: 10/18/2022]
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18
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Galloway SM. International regulatory requirements for genotoxicity testing for pharmaceuticals used in human medicine, and their impurities and metabolites. ENVIRONMENTAL AND MOLECULAR MUTAGENESIS 2017; 58:296-324. [PMID: 28299826 DOI: 10.1002/em.22077] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2016] [Accepted: 02/05/2017] [Indexed: 06/06/2023]
Abstract
The process of developing international (ICH) guidelines is described, and the main guidelines reviewed are the ICH S2(R1) guideline that includes the genotoxicity test battery for human pharmaceuticals, and the ICH M7 guideline for assessing and limiting potentially mutagenic impurities and degradation products in drugs. Key aspects of the guidelines are reviewed in the context of drug development, for example the incorporation of genotoxicity assessment into non-clinical toxicity studies, and ways to develop and assess weight of evidence. In both guidelines, the existence of "thresholds" or non-linear dose responses for genotoxicity plays a part in the strategies. Differences in ICH S2(R1) protocol recommendations from OECD guidelines are highlighted and rationales explained. The use of genotoxicity data during clinical development and in assessment of carcinogenic potential is also described. There are no international guidelines on assessment of potentially genotoxic metabolites, but some approaches to safety assessment are discussed for these. Environ. Mol. Mutagen. 58:296-324, 2017. © 2017 Wiley Periodicals, Inc.
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19
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Gabriel CM, Parmentier M, Riegert C, Lanz M, Handa S, Lipshutz BH, Gallou F. Sustainable and Scalable Fe/ppm Pd Nanoparticle Nitro Group Reductions in Water at Room Temperature. Org Process Res Dev 2017. [DOI: 10.1021/acs.oprd.6b00410] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Christopher M. Gabriel
- Department of Chemistry & Biochemistry, University of California, Santa Barbara 93106, United States
| | | | | | - Marian Lanz
- Novartis Pharma AG, CH-4057 Basel, Switzerland
| | - Sachin Handa
- Department
of Chemistry, University of Louisville, Louisville, Kentucky 40292, United States
| | - Bruce H. Lipshutz
- Department of Chemistry & Biochemistry, University of California, Santa Barbara 93106, United States
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20
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Hicks MB, Salituro L, Mangion I, Schafer W, Xiang R, Gong X, Welch CJ. Assessment of coulometric array electrochemical detection coupled with HPLC-UV for the absolute quantitation of pharmaceuticals. Analyst 2017; 142:525-536. [PMID: 28098264 DOI: 10.1039/c6an02432g] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The use of a coulometric array detector in tandem with HPLC-UV was evaluated for the absolute quantitation of pharmaceutical compounds without standards, an important capability gap in contemporary pharmaceutical research and development. The high-efficiency LC flow-through electrochemical detector system allows for the rapid evaluation of up to 16 different potentials, aiding in the identification and quantitation of electrochemically reactive species. By quantifying the number of electrons added or removed from an analyte during its passage through the detector, the number of moles of the analyte can be established. Herein we demonstrate that molecules containing common electroactive functional groups (e.g. anilines, phenols, parabens and tertiary alkyl amines) can in some cases be reliably quantified in HPLC-EC-UV without the need for authentic standards. Furthermore, the multichannel nature of the CoulArray detector makes it well suited for optimizing the conditions for electrochemical reaction, allowing the impact of changes in potential, flow rate, temperature and pH to be conveniently studied. The electrochemical oxidation of albacivir, zomepirac, diclofenac, rosiglitazone and several other marketed drugs resulted in large linear ranges, predictable recoveries and excellent quantitation using the total moles of electrons and back-calculating using Faraday's law. Importantly, we observed several instances where subtle structural changes within a given class of molecules (e.g. aromatic ring isomers) led to unanticipated changes in electrochemical behavior. Consequently, some care should be taken when applying the technique to the routine quantitation of compound libraries where standards are not available.
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Affiliation(s)
- Michael B Hicks
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Leah Salituro
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Ian Mangion
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Wes Schafer
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Rong Xiang
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Xiaoyi Gong
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
| | - Christopher J Welch
- Department of Process & Analytical Chemistry, Merck & Co., Inc., Rahway, NJ 07065, USA.
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21
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Ford KA, Ryslik G, Chan BK, Lewin-Koh SC, Almeida D, Stokes M, Gomez SR. Comparative evaluation of 11 in silico models for the prediction of small molecule mutagenicity: role of steric hindrance and electron-withdrawing groups. Toxicol Mech Methods 2016; 27:24-35. [PMID: 27813437 DOI: 10.1080/15376516.2016.1174761] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
The goal of this investigation was to perform a comparative analysis on how accurately 11 routinely-used in silico programs correctly predicted the mutagenicity of test compounds that contained either bulky or electron-withdrawing substituents. To our knowledge this is the first study of its kind in the literature. Such substituents are common in many pharmaceutical agents so there is a significant need for reliable in silico programs to predict precisely whether they truly pose a risk for mutagenicity. The predictions from each program were compared to experimental data derived from the Ames II test, a rapid reverse mutagenicity assay with a high degree of agreement with the traditional Ames assay. Eleven in silico programs were evaluated and compared: Derek for Windows, Derek Nexus, Leadscope Model Applier (LSMA), LSMA featuring the in vitro microbial Escherichia coli-Salmonella typhimurium TA102 A-T Suite (LSMA+), TOPKAT, CAESAR, TEST, ChemSilico (±S9 suites), MC4PC and a novel DNA docking model. The presence of bulky or electron-withdrawing functional groups in the vicinity of a mutagenic toxicophore in the test compounds clearly affected the ability of each in silico model to predict non-mutagenicity correctly. This was because of an over reliance on the part of the programs to provide mutagenicity alerts when a particular toxicophore is present irrespective of the structural environment surrounding the toxicophore. From this investigation it can be concluded that these models provide a high degree of specificity (ranging from 71% to 100%) and are generally conservative in their predictions in terms of sensitivity (ranging from 5% t o 78%). These values are in general agreement with most other comparative studies in the literature. Interestingly, the DNA docking model was the most sensitive model evaluated, suggesting a potentially useful new mode of screening for mutagens. Another important finding was that the combination of a quantitative structure-activity relationship and an expert rules system appeared to offer little advantage in terms of sensitivity, despite of the requirement for such a screening paradigm under the ICH M7 regulatory guideline.
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Affiliation(s)
- Kevin A Ford
- a Safety Assessment , Genentech Inc. , South San Francisco , CA , USA
| | - Gregory Ryslik
- b Nonclinical Biostatistics , Genentech Inc. , South San Francisco , CA , USA
| | - Bryan K Chan
- c Discovery Chemistry , Genentech Inc. , South San Francisco , CA , USA
| | | | - Davi Almeida
- a Safety Assessment , Genentech Inc. , South San Francisco , CA , USA
| | - Michael Stokes
- a Safety Assessment , Genentech Inc. , South San Francisco , CA , USA
| | - Stephen R Gomez
- a Safety Assessment , Genentech Inc. , South San Francisco , CA , USA
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22
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Emerce E, Cok I, Sari S, Bostanci O. An investigation of the mutagenic activity of salamide - a major impurity of hydrochlorothiazide. Toxicol Mech Methods 2016; 26:644-649. [PMID: 27790927 DOI: 10.1080/15376516.2016.1222642] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Hydrochlorothiazide is a widely used antihypertensive agent and one of its major impurities, salamide (4-amino-6-chlorobenzene-1,3-disulphonamide), has a chemical structure containing a primary amino group, a functional group that has previously been reported to be associated with carcinogenic activity. It is known that hydrochlorothiazide purity is a challenging problem for the pharmaceutical industry. As there were no prior mutagenicity data for the impurity salamide, the aim was to investigate its mutagenicity in this study. Salamide was tested for mutagenic potential in Salmonella typhimurium TA98, TA100, TA 1535, TA 1537, and E. coli WP2 uvrA + E. coli WP2 [pKM101] strains at six different concentrations, the highest concentration being the 5000 μg/plate. In both the presence and absence of the metabolic activation system, no mutagenic activity was observed. Results indicated that salamide should be classified as an ordinary impurity and controlled according to Q3A(R2) and Q3B(R2) guidelines.
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Affiliation(s)
- Esra Emerce
- a Department of Toxicology, Faculty of Pharmacy , Gazi University , Ankara , Turkey
| | - Ismet Cok
- a Department of Toxicology, Faculty of Pharmacy , Gazi University , Ankara , Turkey
| | - Sibel Sari
- b Department of Molecular Biology, Division of Biology, Faculty of Science , Hacettepe University , Ankara , Turkey
| | - Omur Bostanci
- b Department of Molecular Biology, Division of Biology, Faculty of Science , Hacettepe University , Ankara , Turkey
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23
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Silva T, Mohamed T, Shakeri A, Rao PPN, Martínez-González L, Pérez DI, Martínez A, Valente MJ, Garrido J, Uriarte E, Serrão P, Soares-da-Silva P, Remião F, Borges F. Development of Blood-Brain Barrier Permeable Nitrocatechol-Based Catechol O-Methyltransferase Inhibitors with Reduced Potential for Hepatotoxicity. J Med Chem 2016; 59:7584-97. [PMID: 27463695 DOI: 10.1021/acs.jmedchem.6b00666] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Recent efforts have been focused on the development of centrally active COMT inhibitors, which can be valuable assets for neurological disorders such as Parkinson's disease, due to the severe hepatotoxicity risk associated with tolcapone. New nitrocatechol COMT inhibitors based on naturally occurring caffeic acid and caffeic acid phenethyl ester were developed. All nitrocatechol derivatives displayed potent inhibition of peripheral and cerebral COMT within the nanomolar range. Druglike derivatives 13, 15, and 16 were predicted to cross the blood-brain barrier in vitro and were significantly less toxic than tolcapone and entacapone when incubated at 50 μM with rat primary hepatocytes. Moreover, their unique acidity and electrochemical properties decreased the chances of formation of reactive quinone-imines and, as such, the potential for hepatotoxicity. The binding mode of 16 confirmed that the major interactions with COMT were established via the nitrocatechol ring, allowing derivatization of the side chain for future lead optimization efforts.
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Affiliation(s)
- Tiago Silva
- CIQ/Department of Chemistry and Biochemistry, Faculty of Sciences, University of Porto , Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
| | - Tarek Mohamed
- School of Pharmacy, Health Sciences Campus, University of Waterloo , 200 University Avenue West, Waterloo, Ontario N2L 3G1, Canada
| | - Arash Shakeri
- School of Pharmacy, Health Sciences Campus, University of Waterloo , 200 University Avenue West, Waterloo, Ontario N2L 3G1, Canada
| | - Praveen P N Rao
- School of Pharmacy, Health Sciences Campus, University of Waterloo , 200 University Avenue West, Waterloo, Ontario N2L 3G1, Canada
| | | | - Daniel I Pérez
- Centro de Investigaciónes Biológicas, CSIC, C/Ramiro de Maeztu, 28040 Madrid, Spain
| | - Ana Martínez
- Centro de Investigaciónes Biológicas, CSIC, C/Ramiro de Maeztu, 28040 Madrid, Spain
| | - Maria João Valente
- Laboratory of Toxicology, Department of Biological Sciences, Faculty of Pharmacy, UCIBIO-REQUIMTE , Rua de Jorge Viterbo Ferreira, 4050-313 Porto, Portugal
| | - Jorge Garrido
- Departamento de Engenharia Química, Instituto Superior de Engenharia do Porto (ISEP), Instituto Politécnico Porto , 4200-072 Porto, Portugal
| | - Eugenio Uriarte
- Department of Organic Chemistry, Faculty of Pharmacy, University of Santiago de Compostela , 15782 Santiago de Compostela, Spain
| | - Paula Serrão
- Department of Pharmacology and Therapeutics, Faculty of Medicine, University of Porto , 4200-319 Porto, Portugal.,MedInUP-Center for Drug Discovery and Innovative Medicines, University of Porto, 4200-319, Porto, Portugal
| | - Patrício Soares-da-Silva
- Department of Pharmacology and Therapeutics, Faculty of Medicine, University of Porto , 4200-319 Porto, Portugal.,MedInUP-Center for Drug Discovery and Innovative Medicines, University of Porto, 4200-319, Porto, Portugal
| | - Fernando Remião
- Laboratory of Toxicology, Department of Biological Sciences, Faculty of Pharmacy, UCIBIO-REQUIMTE , Rua de Jorge Viterbo Ferreira, 4050-313 Porto, Portugal
| | - Fernanda Borges
- CIQ/Department of Chemistry and Biochemistry, Faculty of Sciences, University of Porto , Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
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24
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Ahlberg E, Amberg A, Beilke LD, Bower D, Cross KP, Custer L, Ford KA, Van Gompel J, Harvey J, Honma M, Jolly R, Joossens E, Kemper RA, Kenyon M, Kruhlak N, Kuhnke L, Leavitt P, Naven R, Neilan C, Quigley DP, Shuey D, Spirkl HP, Stavitskaya L, Teasdale A, White A, Wichard J, Zwickl C, Myatt GJ. Extending (Q)SARs to incorporate proprietary knowledge for regulatory purposes: A case study using aromatic amine mutagenicity. Regul Toxicol Pharmacol 2016; 77:1-12. [DOI: 10.1016/j.yrtph.2016.02.003] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2015] [Revised: 02/03/2016] [Accepted: 02/05/2016] [Indexed: 11/16/2022]
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25
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Review of the Threshold of Toxicological Concern (TTC) approach and development of new TTC decision tree. ACTA ACUST UNITED AC 2016. [DOI: 10.2903/sp.efsa.2016.en-1006] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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26
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Abstract
A critical evaluation of several recent regulatory risk assessments has been undertaken. These relate to propyl paraben (as a food additive, cosmetic ingredient or pharmaceutical excipient), cobalt (in terms of a safety-based limit for pharmaceuticals) and the cancer Threshold of Toxicological Concern as applied to food contaminants and pharmaceutical impurities. In all cases, a number of concerns can be raised regarding the reliability of the current assessments, some examples being absence of data audits, use of single-dose and/or non-good laboratory practice studies to determine safety metrics, use of a biased data set and questionable methodology and lack of consistency with precedents and regulatory guidance. Drawing on these findings, a set of recommendations is provided to reduce uncertainty and improve the quality and robustness of future regulatory risk assessments.
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Affiliation(s)
- DJ Snodin
- Xiphora Biopharma Consulting, Bristol, UK
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27
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Zarn JA, Hänggi E, Engeli BE. Impact of study design and database parameters on NOAEL distributions used for toxicological concern (TTC) values. Regul Toxicol Pharmacol 2015; 72:491-500. [DOI: 10.1016/j.yrtph.2015.05.015] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2015] [Revised: 04/17/2015] [Accepted: 05/13/2015] [Indexed: 10/23/2022]
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28
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Hansen MM, Jolly RA, Linder RJ. Boronic Acids and Derivatives—Probing the Structure–Activity Relationships for Mutagenicity. Org Process Res Dev 2015. [DOI: 10.1021/acs.oprd.5b00150] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Marvin M. Hansen
- Small Molecule Design and Development and ‡Health/Safety/Environmental, Lilly Research Laboratories, Eli Lilly and Company, Lilly Corporate Center, Indianapolis, Indiana 46285, United States
| | - Robert A. Jolly
- Small Molecule Design and Development and ‡Health/Safety/Environmental, Lilly Research Laboratories, Eli Lilly and Company, Lilly Corporate Center, Indianapolis, Indiana 46285, United States
| | - Ryan J. Linder
- Small Molecule Design and Development and ‡Health/Safety/Environmental, Lilly Research Laboratories, Eli Lilly and Company, Lilly Corporate Center, Indianapolis, Indiana 46285, United States
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29
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An evaluation of in-house and off-the-shelf in silico models: implications on guidance for mutagenicity assessment. Regul Toxicol Pharmacol 2015; 71:388-97. [PMID: 25656493 DOI: 10.1016/j.yrtph.2015.01.010] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2014] [Revised: 01/20/2015] [Accepted: 01/21/2015] [Indexed: 11/22/2022]
Abstract
The evaluation of impurities for genotoxicity using in silico models are commonplace and have become accepted by regulatory agencies. Recently, the ICH M7 Step 4 guidance was published and requires two complementary models for genotoxicity assessments. Over the last ten years, many companies have developed their own internal genotoxicity models built using both public and in-house chemical structures and bacterial mutagenicity data. However, the proprietary nature of internal structures prevents sharing of data and the full OECD compliance of such models. This analysis investigated whether using in-house internal compounds for training models is needed and substantially impacts the results of in silico genotoxicity assessments, or whether using commercial-off-the-shelf (COTS) packages such as Derek Nexus or Leadscope provide adequate performance. We demonstrated that supplementation of COTS packages with a Support Vector Machine (SVM) QSAR model trained on combined in-house and public data does, in fact, improve coverage and accuracy, and reduces the number of compounds needing experimental assessment, i.e., the liability load. This result indicates that there is added value in models trained on both internal and public structures and incorporating such models as part of a consensus approach improves the overall evaluation. Lastly, we optimized an in silico consensus decision-making approach utilizing two COTS models and an internal (SVM) model to minimize false negatives.
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30
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Zeller A, Pfuhler S. N-acetylation of three aromatic amine hair dye precursor molecules eliminates their genotoxic potential. Mutagenesis 2013; 29:37-48. [PMID: 24275315 DOI: 10.1093/mutage/get053] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
N-acetylation has been described as a detoxification reaction for aromatic amines; however, there is only limited data available showing that this metabolic conversion step changes their genotoxicity potential. To extend this database, three aromatic amines, all widely used as precursors in oxidative hair dye formulations, were chosen for this study: p-phenylenediamine (PPD), 2,5-diaminotoluene (DAT) and 4-amino-2-hydroxytoluene (AHT). Aiming at a deeper mechanistic understanding of the interplay between activation and detoxification for this chemical class, we compared the genotoxicity profiles of the parent compounds with those of their N-acetylated metabolites. While PPD, DAT and AHT all show genotoxic potential in vitro, their N-acetylated metabolites completely lack genotoxic potential as shown in the Salmonella typhimurium reversion assay, micronucleus test with cultured human lymphocytes (AHT), chromosome aberration assay with V79 cells (DAT) and Comet assay performed with V79 cells. For the bifunctional aromatic amines studied (PPD and DAT), monoacetylation was sufficient to completely abolish their genotoxic potential. Detoxification through N-acetylation was further confirmed by comparing PPD, DAT and AHT in the Comet assay using standard V79 cells (N-acetyltransferase (NAT) deficient) and two NAT-proficient cell lines,V79NAT1*4 and HaCaT (human keratinocytes). Here we observed a clear shift of dose-response curves towards decreased genotoxicity of the parent aromatic amines in the NAT-proficient cells. These findings suggest that genotoxic effects will only be found at concentrations where the N-acetylation (detoxifying) capacity of the cells is overwhelmed, indicating that a 'first-pass' effect in skin could be taken into account for risk assessment of these topically applied aromatic amines. The findings also indicate that the use of liver S-9 preparations, which generally underestimate Phase II reactions, contributes to the generation of irrelevant positive results in standard genotoxicity tests for this chemical class.
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Affiliation(s)
- Andreas Zeller
- The Procter and Gamble Co., Cosmital SA, Route de Chésalles 21, 1723 Marly, Switzerland
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Mutagenic impurities in pharmaceuticals: a critique of the derivation of the cancer TTC (Threshold of Toxicological Concern) and recommendations for structural-class-based limits. Regul Toxicol Pharmacol 2013; 67:299-316. [PMID: 23988886 DOI: 10.1016/j.yrtph.2013.08.014] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2013] [Revised: 08/15/2013] [Accepted: 08/16/2013] [Indexed: 11/20/2022]
Abstract
The cancer TTC (Threshold of Toxicological Concern) concept is currently employed as an aid to risk assessment of potentially mutagenic impurities (PMIs) in food, cosmetics and other sectors. Within the pharmaceutical industry the use of one default cancer TTC limit of 1.5 μg/day for PMIs is being increasingly questioned. Its derivation, originally in the context of foodstuffs, can be broken down into five key elements: dataset composition; determination of carcinogenicity/mutagenicity status and carcinogenic potency (based on TD₅₀s) of compounds in the dataset; linear extrapolation of carcinogenic potencies; evaluation of the more potent compounds in each structural category, and presence of representative structural alerts amongst the more potent compounds. A detailed evaluation reveals that the derivation process is distorted by the use of the lowest statistically significant TD₅₀s (which can produce a false-carcinogen phenomenon) and by employing linear extrapolation for non-mutagenic carcinogens. By correcting for these two factors, it is concluded that only around 50% of conventional structural-alert categories were adequately addressed and that limits higher than the default value appear to be justified in many cases. Using similar criteria for PMIs in pharmaceuticals, four distinct potency categories of conventional structural alerts can be distinguished, ranging from alerts with questionable validity to those with high potency, which are considered to provide a range of flexible and pragmatic limits for such impurities.
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