Abstract
The development and implementation of safe-by-design strategies is key for the safe development of future generations of nanotechnology enabled products. The safety testing of the huge variety of nanomaterials that can be synthetized is unfeasible due to time and cost constraints. Computational modeling facilitates the implementation of alternative testing strategies in a time and cost effective way. The development of predictive nanotoxicology models requires the use of high quality experimental data on the structure, physicochemical properties and bioactivity of nanomaterials. The FP7 Project MODERN has developed and evaluated the main components of a computational framework for the evaluation of the environmental and health impacts of nanoparticles. This chapter describes each of the elements of the framework including aspects related to data generation, management and integration; development of nanodescriptors; establishment of nanostructure-activity relationships; identification of nanoparticle categories; hazard ranking and risk assessment.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Notes
- 1.
- 2.
- 3.
- 4.
- 5.
- 6.
- 7.
- 8.
- 9.
- 10.
*R 2 -squared correlation coefficient; R 2 cv –squared cross-validated correlation coefficient; F – Fisher criterion; s 2 – squared standard deviation.
References
Arts JHE, Hadi M, Irfan M-A, Keene AM, Kreiling R, Lyon D, Maier M, Michel K, Petry T, Sauer UG, Warheit D, Wiench K, Wohlleben W, Landsiedel R (2015) A decision-making framework for the grouping and testing of nanomaterials (DF4nanoGrouping). Regul Toxicol Pharmacol 71:S1–27. doi:10.1016/j.yrtph.2015.03.007
Aruoja V, Dubourguier H-C, Kasemets K, Kahru A (2009) Toxicity of nanoparticles of CuO, ZnO and TiO2 to microalgae Pseudokirchneriella subcapitata. Sci Total Environ 407:1461–1468. doi:10.1016/j.scitotenv.2008.10.053
Aruoja V, Pokhrel S, Sihtmäe M, Mortimer M, Mädler L, Kahru A (2015) Toxicity of 12 metal-based nanoparticles to algae, bacteria and protozoa. Environ Sci Nano 2:630–644. doi:10.1039/C5EN00057B
Bai W, Zhang Z, Tian W, He X, Ma Y, Zhao Y, Chai Z (2009) Toxicity of zinc oxide nanoparticles to zebrafish embryo: a physicochemical study of toxicity mechanism. J Nanopart Res 12:1645–1654. doi:10.1007/s11051-009-9740-9
Bastian M, Heymann S, Jacomy M (2009) Gephi: an open source software for exploring and manipulating networks. ICWSM 8:361–362
Bondarenko O, Juganson K, Ivask A, Kasemets K, Mortimer M, Kahru A (2013) Toxicity of Ag, CuO and ZnO nanoparticles to selected environmentally relevant test organisms and mammalian cells in vitro: a critical review. Arch Toxicol 87:1181–1200. doi:10.1007/s00204-013-1079-4
Brüggemann R, Patil G (2011) Ranking and prioritization for multsi-indicator systems: Introduction to partial order applications. Springer, New York
Chattaraj PK, Giri S, Duley S (2011) Update 2 of: electrophilicity index. Chem Rev 111:PR43–PR75. doi:10.1021/cr100149p
Choi O, Hu Z (2008) Size dependent and reactive oxygen species related nanosilver toxicity to nitrifying bacteria. Environ Sci Technol 42:4583–4588. doi:10.1021/es703238h
Cohen Y, Rallo R, Liu R, Liu HH (2013) In silico analysis of nanomaterials hazard and risk. Acc Chem Res 46:802–812. doi:10.1021/ar300049e
Cronin MTD, Schultz TW (1997) Validation of Vibrio fisheri acute toxicity data: mechanism of action-based QSARs for non-polar narcotics and polar narcotic phenols. Sci Total Environ 204:75–88. doi:10.1016/S0048-9697(97)00179-4
Damoiseaux R, George S, Li M, Pokhrel S, Ji Z, France B, Xia T, Suarez E, Rallo R, Mädler L, Cohen Y, Hoek EMV, Nel A (2011) No time to lose – high throughput screening to assess nanomaterial safety. Nanoscale 3:1345–1360. doi:10.1039/c0nr00618a
Eom HJ, Roca CP, Roh JY, Chatterjee N, Jeong JS, Shim I, Kim HM, Kim PJ, Choi K, Giralt F, Choi J (2015) A systems toxicology approach on the mechanism of uptake and toxicity of MWCNT in Caenorhabditis elegans. Chem Biol Interact 239:153–163. doi:10.1016/j.cbi.2015.06.031
Esteban G, Tellez C, Bautista L (1992) The indicator value of Tetrahymena thermophila populations in the activated sludge process. Acta Protozool 31:129–132
Ewald PP (1921) Die Berechnung optischer und elektrostatischer Gitterpotentiale. Ann Phys 369:253–287. doi:10.1002/andp.19213690304
George S, Pokhrel S, Xia T, Gilbert B, Ji Z, Schowalter M, Rosenauer A, Damoiseaux R, Bradley KA, Mädler L, Nel AE (2010) Use of a rapid cytotoxicity screening approach to engineer a safer zinc oxide nanoparticle through iron doping. ACS Nano 4:15–29. doi:10.1021/nn901503q
George S, Pokhrel S, Ji Z, Henderson BL, Xia T, Li L, Zink JI, Nel AE, Mädler L (2011) Role of Fe doping in tuning the band gap of TiO2 for the photo-oxidation-induced cytotoxicity paradigm. J Am Chem Soc 133:11270–11278. doi:10.1021/ja202836s
Girvan M, Newman MEJ (2002) Community structure in social and biological networks. Proc Natl Acad Sci U S A 99:7821–7826. doi:10.1073/pnas.122653799
Goeman JJ, Bühlmann P (2007) Analyzing gene expression data in terms of gene sets: methodological issues. Bioinformatics 23:980–987. doi:10.1093/bioinformatics/btm051
Grimme S, Antony J, Ehrlich S, Krieg H (2010) A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu. J Chem Phys 132:154104. doi:10.1063/1.3382344
Gupta A, Condit C, Qian X (2010) BioDB: an ontology-enhanced information system for heterogeneous biological information. Data Knowl Eng 69:1084–1102
Hartmann NB, Engelbrekt C, Zhang J, Ulstrup J, Kusk KO, Baun A (2012) The challenges of testing metal and metal oxide nanoparticles in algal bioassays: titanium dioxide and gold nanoparticles as case studies. Nanotoxicology 7:1082–1094
Hastings J, Jeliazkova N, Owen G, Tsiliki G, Munteanu CR, Steinbeck C, Willighagen E (2015) eNanoMapper: harnessing ontologies to enable data integration for nanomaterial risk assessment. J Biomed Semantics 6:10. doi:10.1186/s13326-015-0005-5
Heinlaan M, Ivask A, Blinova I, Dubourguier H-C, Kahru A (2008) Toxicity of nanosized and bulk ZnO, CuO and TiO2 to bacteria Vibrio fischeri and crustaceans Daphnia magna and Thamnocephalus platyurus. Chemosphere 71:1308–1316. doi:10.1016/j.chemosphere.2007.11.047
Hoffmann MR, Martin ST, Choi W, Bahnemann DW (1995) Environmental applications of semiconductor photocatalysis. Chem Rev 95:69–96. doi:10.1021/cr00033a004
Hristozov DR, Gottardo S, Cinelli M, Isigonis P, Zabeo A, Critto A, Van Tongeren M, Tran L, Marcomini A (2014) Application of a quantitative weight of evidence approach for ranking and prioritising occupational exposure scenarios for titanium dioxide and carbon nanomaterials. Nanotoxicology 8:117–131. doi:10.3109/17435390.2012.760013
Ioannidis JPA, Khoury MJ (2011) Improving validation practices in “omics” research. Science 334:1230–1232. doi:10.1126/science.1211811
ISO 21338:2010 – Water quality – Kinetic determination of the inhibitory effects of sediment, other solids and coloured samples on the light emission of Vibrio fischeri (kinetic luminescent bacteria test) [WWW Document], n.d. URL http://www.iso.org/iso/catalogue_detail.htm?csnumber=44880. Accessed 17 Feb 2016
Ivask A, Kurvet I, Kasemets K, Blinova I, Aruoja V, Suppi S, Vija H, Käkinen A, Titma T, Heinlaan M, Visnapuu M, Koller D, Kisand V, Kahru A (2014) Size-dependent toxicity of silver nanoparticles to bacteria, yeast, algae, crustaceans and mammalian cells in vitro. PLoS One 9:e102108. doi:10.1371/journal.pone.0102108
Jacquet-Lagreze E, Siskos J (1982) Assessing a set of additive utility functions for multicriteria decision-making, the UTA method. Eur J Oper Res 10:151–164. doi:10.1016/0377-2217(82)90155-2
Ji Z, Jin X, George S, Xia T, Meng H, Wang X, Suarez E, Zhang H, Hoek EMV, Godwin H, Nel AE, Zink JI (2010) Dispersion and stability optimization of TiO2 nanoparticles in cell culture media. Environ Sci Technol 44:7309–7314. doi:10.1021/es100417s
Kahru A, Dubourguier H-C (2010) From ecotoxicology to nanoecotoxicology. Toxicology 269:105–119. doi:10.1016/j.tox.2009.08.016
Kahru A, Dubourguier H, Blinova I, Ivask A, Kasemets K (2008) Biotests and biosensors for ecotoxicology of metal oxide nanoparticles: a minireview. Sensors 8:5153–5170
Kammler HK, Mädler L, Pratsinis SE (2001) Flame synthesis of nanoparticles. Chem Eng Technol 24:583–596. doi:10.1002/1521-4125(200106)24:6<583::AID-CEAT583>3.0.CO;2-H
Kar S, Gajewicz A, Puzyn T, Roy K (2014) Nano-quantitative structure-activity relationship modeling using easily computable and interpretable descriptors for uptake of magnetofluorescent engineered nanoparticles in pancreatic cancer cells. Toxicol In Vitro 28:600–606. doi:10.1016/j.tiv.2013.12.018
Karlsson HL, Gustafsson J, Cronholm P, Moller L (2009) Size-dependent toxicity of metal oxide particles-A comparison between nano- and micrometer size. Toxicol Lett 188:112–118
Kasemets K, Ivask A, Dubourguier H-C, Kahru A (2009) Toxicity of nanoparticles of ZnO, CuO and TiO2 to yeast Saccharomyces cerevisiae. Toxicol In Vitro 23:1116–1122. doi:10.1016/j.tiv.2009.05.015
Katritzky AR, Lobanov VS, Karelson M (1995) QSPR: the correlation and quantitative prediction of chemical and physical properties from structure. Chem Soc Rev 24:279. doi:10.1039/cs9952400279
Kemmler JA, Pokhrel S, Birkenstock J, Schowalter M, Rosenauer A, Bârsan N, Weimar U, Mädler L (2012) Quenched, nanocrystalline In4Sn3O12 high temperature phase for gas sensing applications. Sens Actuators B 161:740–747. doi:10.1016/j.snb.2011.11.026
Khatri P, Sirota M, Butte AJ (2012) Ten years of pathway analysis: current approaches and outstanding challenges. PLoS Comput Biol 8:e1002375. doi:10.1371/journal.pcbi.1002375
Kohonen T (1990) The self-organizing map. Proc IEEE 78:1464–1480
Krug HF, Wick P (2011) Nanotoxicology: an interdisciplinary challenge. Angew Chem Int Ed Engl 50:1260–1278. doi:10.1002/anie.201001037
Lay JO, Liyanage R, Borgmann S, Wilkins CL (2006) Problems with the “omics”. TrAC Trends Anal Chem 25:1046–1056. doi:10.1016/j.trac.2006.10.007
Linkov I, Satterstrom F, Steevens J, Ferguson E, Pleus R (2007) Multi-criteria decision analysis and environmental risk assessment for nanomaterials. J Nanopart Res 9:543–554
Liu R, Zhang HY, Ji ZX, Rallo R, Xia T, Chang CH, Nel A, Cohen Y (2013) Development of structure-activity relationship for metal oxide nanoparticles. Nanoscale 5:5644–5653. doi:10.1039/c3nr01533e
Long TC, Saleh N, Tilton RD, Lowry GV, Veronesi B (2006) Titanium dioxide (P25) produces reactive oxygen species in immortalized brain microglia (BV2): implications for nanoparticle neurotoxicity †. Environ Sci Technol 40:4346–4352. doi:10.1021/es060589n
Mädler L (2004) Liquid-fed aerosol reactors for one-step synthesis of nano-structured particles. KONA Powder Part J 22:107–120. doi:10.14356/kona.2004014
Marchese Robinson RL, Cronin MTD, Richarz A-N, Rallo R (2015) An ISA-TAB-Nano based data collection framework to support data-driven modelling of nanotoxicology. Beilstein J Nanotechnol 6:1978–1999. doi:10.3762/bjnano.6.202
Mortimer M, Kasemets K, Heinlaan M, Kurvet I, Kahru A (2008) High throughput kinetic Vibrio fischeri bioluminescence inhibition assay for study of toxic effects of nanoparticles. Toxicol In Vitro 22:1412–1417. doi:10.1016/j.tiv.2008.02.011
Mortimer M, Kasemets K, Kahru A (2010) Toxicity of ZnO and CuO nanoparticles to ciliated protozoa Tetrahymena thermophila. Toxicology 269:182–189. doi:10.1016/j.tox.2009.07.007
Mortimer M, Kahru A, Slaveykova VI (2014) Uptake, localization and clearance of quantum dots in ciliated protozoa Tetrahymena thermophila. Environ Pollut 190:58–64. doi:10.1016/j.envpol.2014.03.021
Neese F (2012) The ORCA program system. Wiley Interdiscip Rev Comput Mol Sci 2:73–78. doi:10.1002/wcms.81
Nel A, Mädler L, Velegol D, Xia T, Hoek E, Somasundaran P, Klaessig F, Castranova V, Thompson M (2009) Understanding biophysicochemical interactions at the nano–bio interface. Nat Mater 8:543–557
Netzeva TI, Schultz TW (2005) QSARs for the aquatic toxicity of aromatic aldehydes from Tetrahymena data. Chemosphere 61:1632–1643. doi:10.1016/j.chemosphere.2005.04.040
Newman M (2010) Networks: an introduction. Oxford University Press Inc, New York
Newman M, Girvan M (2004) Finding and evaluating community structure in networks. Phys Rev E 69:026113. doi:10.1103/PhysRevE.69.026113
OECD (2006) OECD Guidelines for the Testing of Chemicals, Section 2, Test No. 201: Freshwater Alga and Cyanobacteria, Growth Inhibition Test. Organization for Economic Cooperation and Development, Paris
Oomen AG, Bleeker EAJ, Bos PMJ, van Broekhuizen F, Gottardo S, Groenewold M, Hristozov D, Hund-Rinke K, Irfan M-A, Marcomini A, Peijnenburg WJGM, Rasmussen K, Jiménez AS, Scott-Fordsmand JJ, van Tongeren M, Wiench K, Wohlleben W, Landsiedel R (2015) Grouping and read-across approaches for risk assessment of nanomaterials. Int J Environ Res Public Health 12:13415–13434. doi:10.3390/ijerph121013415
Parr RG, Pearson RG (1983) Absolute hardness: companion parameter to absolute electronegativity. J Am Chem Soc 105:7512–7516. doi:10.1021/ja00364a005
Parr RG, Donnelly RA, Levy M, Palke WE (1978) Electronegativity: the density functional viewpoint. J Chem Phys 68:3801. doi:10.1063/1.436185
Passagne I, Morille M, Rousset M, Pujalté I, L’azou B (2012) Implication of oxidative stress in size-dependent toxicity of silica nanoparticles in kidney cells. Toxicology 299:112–124. doi:10.1016/j.tox.2012.05.010
Perdew JP, Burke K, Ernzerhof M (1996) Generalized gradient approximation made simple. Phys Rev Lett 77:3865–3868. doi:10.1103/PhysRevLett.77.3865
Plimpton S (1995) Fast parallel algorithms for short-range molecular dynamics. J Comput Phys 117:1–19. doi:10.1006/jcph.1995.1039
Puzyn T, Leszczynska D, Leszczynski J (2009) Toward the development of “Nano-QSARs”: advances and challenges. Small 5:2494–2509
Puzyn T, Rasulev B, Gajewicz A, Hu X, Dasari TP, Michalkova A, Hwang H-M, Toropov A, Leszczynska D, Leszczynski J (2011) Using nano-QSAR to predict the cytotoxicity of metal oxide nanoparticles. Nat Nanotechnol 6:175–178. doi:10.1038/nnano.2011.10
Restrepo G, Weckert M, Brüggemann R, Gerstmann S, Frank H (2008) Ranking of refrigerants. Environ Sci Technol 42:2925–2930. doi:10.1021/es7026289
Rushton EK, Jiang J, Leonard SS, Eberly S, Castranova V, Biswas P, Elder A, Han X, Gelein R, Finkelstein J, Oberdörster G (2010) Concept of assessing nanoparticle hazards considering nanoparticle dosemetric and chemical/biological response metrics. J Toxicol Environ Heal Part A 3:445–461
Savolainen K, Backman U, Brouwer D, Fadeel B, Fernandes T, Kuhlbusch T, Landsiedel R, Lynch I, Pylkkänen L (2013) Nanosafety in Europe 2015–2025: Towards Safe and Sustainable Nanomaterials and Nanotechnology Innovations. Helsinki, Finish Institute of Occupational Health
Singh J (2001) Semiconductor devices. Basic principles. Wiley, New York
Sinha RP, Häder D-P (2002) UV-induced DNA damage and repair: a review. Photochem Photobiol Sci 1:225–236. doi:10.1039/b201230h
Suzuki R, Shimodaira H (2006) Pvclust: an R package for assessing the uncertainty in hierarchical clustering. Bioinformatics 22:1540–1542
Tani, T. 2003. Flame Spray Pyrolysis of Zinc Oxide/silica Particles. PhD Thesis, Swiss Federal Institute of Technology, Zurich. Dissertation ETHNo. 15266, 1-116
Tani T, Mädler L, Pratsinis SE (2002) Homogeneous ZnO nanoparticles by flame spray pyrolysis. J Nanopart Res 4:337–343. doi:10.1023/A:1021153419671
Teoh WY, Amal R, Mädler L (2010) Flame spray pyrolysis: an enabling technology for nanoparticles design and fabrication. Nanoscale 2:1324–1347. doi:10.1039/c0nr00017e
Thomas DG, Pappu RV, Baker NA (2011) NanoParticle Ontology for cancer nanotechnology research. J Biomed Inform 44:59–74. doi:10.1016/j.jbi.2010.03.001
Thomas DG, Gaheen S, Harper SL, Fritts M, Klaessig F, Hahn-Dantona E, Paik D, Pan S, Stafford GA, Freund ET, Klemm JD, Baker NA (2013) ISA-TAB-Nano: a specification for sharing nanomaterial research data in spreadsheet-based format. BMC Biotechnol 13:2. doi:10.1186/1472-6750-13-2
Toropov AA, Toropova AP, Puzyn T, Benfenati E, Gini G, Leszczynska D, Leszczynski J (2013) QSAR as a random event: modeling of nanoparticles uptake in PaCa2 cancer cells. Chemosphere 92:31–37. doi:10.1016/j.chemosphere.2013.03.012
Toropova AP, Toropov AA, Rallo R, Leszczynska D, Leszczynski J (2015) Optimal descriptor as a translator of eclectic data into prediction of cytotoxicity for metal oxide nanoparticles under different conditions. Ecotoxicol Environ Saf 112:39–45. doi:10.1016/j.ecoenv.2014.10.003
von Moos N, Slaveykova VI (2014) Oxidative stress induced by inorganic nanoparticles in bacteria and aquatic microalgae – state of the art and knowledge gaps. Nanotoxicology 8:605–630. doi:10.3109/17435390.2013.809810
Weigend F, Ahlrichs R (2005) Balanced basis sets of split valence, triple zeta valence and quadruple zeta valence quality for H to Rn: design and assessment of accuracy. Phys Chem Chem Phys 7:3297–3305. doi:10.1039/b508541a
Wesselkamper SC, Chen LC, Gordon T (2001) Development of pulmonary tolerance in mice exposed to zinc oxide fumes. Toxicol Sci 60:144–151. doi:10.1093/toxsci/60.1.144
Wolf D, Keblinski P, Phillpot SR, Eggebrecht J (1999) Exact method for the simulation of Coulombic systems by spherically truncated, pairwise r[sup −1] summation. J Chem Phys 110:8254. doi:10.1063/1.478738
Xia T, Kovochich M, Liong M, Mädler L, Gilbert B, Shi H, Yeh J, Zink J, Nel A (2008) Comparison of the mechanism of toxicity of zinc oxide and cerium oxide nanoparticles based on dissolution and oxidative stress properties. ACS Nano 2:2121–2134
Xia T, Zhao Y, Sager T, George S, Pokhrel S, Li N, Schoenfeld D, Meng H, Lin S, Wang X, Wang M, Ji Z, Zink JI, Mädler L, Castranova V, Lin S, Nel AE (2011) Decreased dissolution of ZnO by iron doping yields nanoparticles with reduced toxicity in the rodent lung and zebrafish embryos. ACS Nano 5:1223–1235. doi:10.1021/nn1028482
Zhang H, Ji Z, Xia T, Meng H, Low-Kam C, Liu R, Pokhrel S, Lin S, Wang X, Liao Y-P, Wang M, Li L, Rallo R, Damoiseaux R, Telesca D, Mädler L, Cohen Y, Zink JI, Nel AE (2012) Use of metal oxide nanoparticle band gap to develop a predictive paradigm for oxidative stress and acute pulmonary inflammation. ACS Nano 6:4349–4368. doi:10.1021/nn3010087
Acknowledgments
Authors acknowledge the financial support received from the European Commission through the FP7 MODERN Project (Contract No. 309314). RR also acknowledges the support received from Generalitat de Catalunya (2014SGR 1352).
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2017 Springer International Publishing AG
About this chapter
Cite this chapter
Brehm, M. et al. (2017). An Integrated Data-Driven Strategy for Safe-by-Design Nanoparticles: The FP7 MODERN Project. In: Tran, L., Bañares, M., Rallo, R. (eds) Modelling the Toxicity of Nanoparticles. Advances in Experimental Medicine and Biology, vol 947. Springer, Cham. https://doi.org/10.1007/978-3-319-47754-1_9
Download citation
DOI: https://doi.org/10.1007/978-3-319-47754-1_9
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-47752-7
Online ISBN: 978-3-319-47754-1
eBook Packages: Biomedical and Life SciencesBiomedical and Life Sciences (R0)