Skip to main content

In Silico Methods for Chromosome Damage

  • Protocol
  • First Online:
In Silico Methods for Predicting Drug Toxicity

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2425))

Abstract

Due to the link with serious adverse health effects, genotoxicity is an important toxicological endpoint in each regulatory setting with respect to human health, including for pharmaceuticals. To this extent, a compound potential to induce gene mutations as well as chromosome damage needs to be addressed. For chromosome damage, i.e., the induction of structural or numerical chromosome aberrations, several in vitro and in vivo test methods are available. In order to rapidly collect toxicological data without the need for test material, several in silico tools for chromosome damage have been developed over the last years. In this chapter, a battery of freely available in silico chromosome damage prediction tools for chromosome damage is applied on a dataset of pharmaceuticals. Examples of the different outcomes obtained with the in silico battery are provided and briefly discussed. Furthermore, results for coumarin are presented in more detail as a case study. Overall, it can be concluded that although they are in general less developed than those for mutagenicity, in silico tools for chromosome damage can provide valuable information, especially when combined in a battery.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 139.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 179.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 249.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Griffiths AJF, Wessler SR, Lewontin RC, Gelbart WM, Suzuki DT, Miller JH (2005) Introduction to genetic analysis, 8th edn. Holtzbrinck, Stuttgart, Germany, p 850

    Google Scholar 

  2. Basu AK (2018) DNA damage, mutagenesis and cancer. Int J Mol Sci 19:970

    Article  Google Scholar 

  3. ECVAM (2013) EURL ECVAM strategy to avoid and reduce animal use in genotoxicity testing. In: JRC Scientific and Policy Report. https://doi.org/10.2788/43865

    Chapter  Google Scholar 

  4. European Food Safety Authority (EFSA) (2011) Scientific opinion on genotoxicity testing strategies applicable to food and feed safety assessment. EFSA J 9(9):2379

    Google Scholar 

  5. ICH (2013) ICH guideline S2 (R1) on genotoxicity testing and data interpretation for pharmaceuticals intended for human use. Available at https://www.ema.europa.eu/en/documents/scientific-guideline/ich-guideline-s2-r1-genotoxicity-testing-data-interpretation-pharmaceuticals-intended-human-use-step_en.pdf

  6. Organisation for Economic Co-Operation and Development (2017) Overview on genetic toxicology TGs, OECD series on testing and assessment, no. 238. OECD Publishing, Paris, France, p 60. https://doi.org/10.1787/9789264274761-en

    Book  Google Scholar 

  7. Van Bossuyt M, Raitano G, Honma M, Van Hoeck E, Vanhaecke T, Rogiers V, Mertens B, Benfenati E (2020) New QSAR models to predict chromosome damaging potential based on the in vivo micronucleus test. Toxicol Lett 329:80–84

    Article  Google Scholar 

  8. Benigni R, Serafimova R, Parra Morte JM, Battistelli CL, Bossa C, Giuliani A, Fioravanzo E, Bassan A, Gatnik MF, Rathman J, Yang C, Mostrag-Szlichtyng A, Sacher O, Tcheremenskaia O (2020) Evaluation of the applicability of existing (Q)SAR models for predicting the genotoxicity of pesticides and similarity analysis related with genotoxicity of pesticides for facilitating of grouping and read across: an EFSA funded project. Regul Toxicol Pharmacol 114:104658

    Article  CAS  Google Scholar 

  9. Benigni R, Bossa C, Tcheremenskaia O, Battistelli CL, Crettaz P (2012) The new ISSMIC database on in vivo micronucleus and its role in assessing genotoxicity testing strategies. Mutagenesis 27:87–92. https://doi.org/10.1093/mutage/ger064

    Article  CAS  PubMed  Google Scholar 

  10. Lea IA, Gong H, Paleja A, Rashid A, Fostel J (2017) CEBS: a comprehensive annotated database of toxicological data. Nucleic Acids Res 45:D964–D971. https://doi.org/10.1093/nar/gkw1077

    Article  CAS  PubMed  Google Scholar 

  11. Danish (Q)SAR Database, Division of Diet, Disease Prevention and Toxicology, National Food Institute, Technical University of Denmark, http://qsar.food.dtu.dk

  12. Baderna D, Gadaleta D, Lostaglio E, Selvestrel G, Raitano G, Golbamaki A, Lombardo A, Benfenati E (2020) New in silico models to predict in vitro micronucleus induction as marker of genotoxicity. J Hazard Mater 385:121638

    Article  CAS  Google Scholar 

  13. Toropov AA, Toropova AP, Raitano G, Benfenati E (2019) CORAL: building up QSAR models for the chromosome aberration test. Saudi J Biol Sci 26:1101–1106

    Article  CAS  Google Scholar 

  14. Benigni R, Bossa C, Worth A (2010) Structural analysis and predictive value of the rodent in vivo micronucleus assay results. Mutagenesis 25(4):335–341

    Article  CAS  Google Scholar 

  15. Garg SS, Gupta J, Sharma S, Sahu D (2020) An insight into the therapeutic applications of coumarin compounds and their mechanisms of action. Eur J Pharm Sci 152:105424

    Article  CAS  Google Scholar 

Download references

Acknowledgments

The research for this paper was financially supported by the LIFE VERMEER project (LIFE16 ENV/IT/OOO167).

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Birgit Mertens .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2022 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

About this protocol

Check for updates. Verify currency and authenticity via CrossMark

Cite this protocol

Baderna, D., Van Overmeire, I., Lavado, G.J., Gadaleta, D., Mertens, B. (2022). In Silico Methods for Chromosome Damage. In: Benfenati, E. (eds) In Silico Methods for Predicting Drug Toxicity. Methods in Molecular Biology, vol 2425. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1960-5_8

Download citation

  • DOI: https://doi.org/10.1007/978-1-0716-1960-5_8

  • Published:

  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-1959-9

  • Online ISBN: 978-1-0716-1960-5

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics