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The assessment of bioaccumulation is an important step to describe the environmental behaviour and the potential risk due to exposure to potentially hazardous chemicals. In the last two decades, several in silico tools have been made available to predict bioconcentration, which is commonly used to assess bioaccumulation in risk assessment frameworks all over the world. However, only a few QSAR studies address the prediction of the biomagnification factor (BMF), which describes the accumulation of chemicals into organisms due to exposure through the diet. No classification models are currently available to this end. In this work, we developed classification QSARs to predict classes based on dietary biomagnification, using three different classifiers (i.e. LDA, ANN and RF). We started from a recently published dataset that includes more than 300 curated dietary BMF values measured in fish. The new models have high-quality performances (accuracy in fitting: from 94 to 96%; accuracy in prediction from 84 to 86%). The good performances of the here proposed QSARs confirm the quality of the original input data and highlight the importance of data curation and data sharing to support the development of new in silico approaches to assist risk assessment and chemicals screening. [ABSTRACT FROM AUTHOR]

Aedes aegypti vector control is of paramount importance owing to the damages induced by the various severe diseases that these insects may transmit, and the increasing risk of important outbreaks of these pathologies. Search for new chemicals efficient against Aedes aegypti, and devoid of side-effects, which have been associated to the currently most used active substance i. e. N,N-diethyl-mtoluamide (DEET), is therefore an important issue. In this context, we developed various Quantitative Structure Activity Relationship (QSAR) models to predict the repellent activity against Aedes aegypti of 43 carboxamides, by using Multiple Linear Regression (MLR) and various machine learning approaches. The easy computation of the four topological descriptors selected in this study, compared to the CODESSA descriptors used in the literature, and the predictive ability of the here proposed MLR and machine learning models developed using the software QSARINS and R, make the here proposed QSARs attractive. As demonstrated in this study, these models can be applied at the screening level, to guide the design of new alternatives to DEET. [ABSTRACT FROM AUTHOR]

Titanium oxide (TiO2) and zinc oxide (ZnO) nanoparticles are among the most widely used in different applications in daily life. In this study, local regression and classification models were developed for a set of ZnO and TiO2nanoparticles tested at different concentrations for their ability to disrupt the lipid membrane in cells. Different regression techniques were applied and compared by checking the robustness of the models and their external predictive ability. Additionally, a simple classification model was developed, which predicts the potential for disruption of the studied nanoparticles with good accuracy (overall accuracy, specificity, and sensitivity >80%) on the basis of two empirical descriptors. The present study demonstrates that empirical descriptors, such as experimentally determined size and tested concentrations, are relevant to modelling the activity of nanoparticles. This information may be useful to screen the potential for harmful effect of nanoparticles in different experimental conditions and to optimize the design of toxicological tests. Results from the present study are useful to support and refine the future application ofin silicotools to nanoparticles, for research and regulatory purposes. [ABSTRACT FROM PUBLISHER]

The determination of the potential endocrine disruption (ED) activity of chemicals such as poly/perfluorinated compounds (PFCs) and brominated flame retardants (BFRs) is still hindered by a limited availability of experimental data. Quantitative structure–activity relationship (QSAR) strategies can be applied to fill this data gap, help in the characterization of the ED potential, and screen PFCs and BFRs with a hazardous toxicological profile. This paper proposes the modelling of T4-TTR (thyroxin-transthyretin) competing potency and relative binding potency toward T4 (logT4-REP) of PFCs and BFRs by regression and classification QSAR models. This study is a follow up of a former work, which analysed separately the interaction of BFRs and PFCs with the carrier TTR. The new results demonstrate the possibility of developing robust and predictive QSARs, which include both BFRs and PFCs in the training set, obtaining larger applicability domains than the existing models developed separately for BFRs and PFCs. The selection of modelling molecular descriptors confirms the importance of structural features, such as the aromatic OH or the molecular length, to increase the binding of the studied chemicals to TTR. Additionally, the need of experimental tests for some chemicals, and in particular for some of the BFRs, is highlighted. [ABSTRACT FROM AUTHOR]

Perfluorinated compounds (PFCs) are a class of emerging pollutants still widely used in different materials as non-adhesives, waterproof fabrics, fire-fighting foams, etc. Their toxic effects include potential for endocrine-disrupting activity, but the amount of experimental data available for these pollutants is limited. The use of predictive strategies such as quantitative structure–activity relationships (QSARs) is recommended under the REACH regulation, to fill data gaps and to screen and prioritize chemicals for further experimentation, with a consequent reduction of costs and number of tested animals. In this study, local classification models for PFCs were developed to predict their T4-TTR (thyroxin-transthyretin) competing potency. The best models were selected by maximizing the sensitivity and external predictive ability. These models, characterized by robustness, good predictive power and a defined applicability domain, were applied to predict the activity of 33 other PFCs of environmental concern. Finally, classification models recently published by our research group for T4-TTR binding of brominated flame retardants and for estrogenic and anti-androgenic activity were applied to the studied perfluorinated chemicals to compare results and to further evaluate the potential for these PFCs to cause endocrine disruption. [ABSTRACT FROM AUTHOR]

Fragrance materials are used as ingredients in many consumer and personal care products. The wide and daily use of these substances, as well as their mainly uncontrolled discharge through domestic sewage, make fragrance materials both potential indoor and outdoor air pollutants which are also connected to possible toxic effects on humans (asthma, allergies, headaches). Unfortunately, little is known about the environmental fate and toxicity of these substances. However, the use of alternative, predictive approaches, such as quantitative structure-activity relationships (QSARs), can help in filling the data gap and in the characterization of the environmental and toxicological profile of these substances. In the proposed study, ordinary least squares regression-based QSAR models were developed for three toxicological endpoints: mouse oral LD50, inhibition of NADH-oxidase (EC50 NADH-Ox) and the effect on mitochondrial membrane potential (EC50 ΔΨm). Theoretical molecular descriptors were calculated by using DRAGON software, and the best QSAR models were developed according to the principles defined by the Organization for Economic Co-operation and Development. [ABSTRACT FROM AUTHOR]

Polycyclic aromatic hydrocarbons (PAHs) are ubiquitous pollutants of high environmental concern. The experimental data of a mutagenicity test on human B-lymphoblastoid cells (alternative to the Ames bacterial test) for a set of 70 oxo-, nitro- and unsubstituted PAHs, detected in particulate matter (PM), were modelled by Quantitative Structure-Activity Relationships (QSAR) classification methods (k-NN, k-Nearest Neighbour, and CART, Classification and Regression Tree) based on different theoretical molecular descriptors selected by Genetic Algorithms. The best models were validated for predictivity both externally and internally. For external validation, Self Organizing Maps (SOM) were applied to split the original data set. The best models, developed on the training set alone, show good predictive performance also on the prediction set chemicals (sensitivity 69.2-87.1%, specificity 62.5-87.5%). The classification of PAHs according to their mutagenicity, based only on a few theoretical molecular descriptors, allows a preliminary assessment of the human health risk, and the prioritisation of these compounds. [ABSTRACT FROM AUTHOR]

The development of QSAR models useful for the prediction of fish bioconcentration factor (BCF) for a wide range of different chemical classes is crucial for the assessment and prioritisation of potentially persistent bioaccumulative and toxic substances. In this study we present QSAR models for BCF developed on a wide range of chemical structural classes of environmental and toxicological interest (such as dyes and various chlorinated and brominated compounds). The aim is to provide valid QSAR models, statistically validated for predictivity, for the prediction of BCF in general, but also for problematical chemical classes such as highly hydrophobic chemicals. Several descriptors, calculated by different commercially available software packages, have been employed in order to take into account relevant information provided by physicochemical properties (octanol/water partition coefficient and water solubility) and molecular features (structural and quantum-chemical molecular descriptors). The best descriptor subsets for the models were selected using the Genetic Algorithm-Variable Subset Selection strategy (GA-VSS) and calculations were performed by ordinary least squares regression. Starting from a data set of 640 compounds (log K ow range from −2.34 to 12.66), we developed linear QSARs, firstly for a data set of 620 compounds (log K ow range from −2.34 to 10.35) and secondly specifically for 87 highly hydrophobic chemicals (log K ow range from 6.00 to 10.35). All these models have been statistically validated (both internally by cross-validation and bootstrap and externally, by “a priori” splitting of available data by Kohonen Map-ANN in training and prediction sets) and their structural chemical domain has been verified by the leverage approach. [Copyright &y& Elsevier]

Nitrated Polycyclic Aromatic Hydrocarbons (nitro-PAHs), ubiquitous environmental pollutants, are recognized mutagens and carcinogens. A set of mutagenicity data (TA100) for 48 nitro-PAHs was modeled by the Quantitative Structure-Activity Relationships (QSAR) regression method, and OECD principles for QSAR model validation were applied. The proposed Multiple Linear Regression (MLR) models are based on two topological molecular descriptors. The models were validated for predictivity by both internal and external validation. For the external validation, three different splitting approaches, D-optimal Experimental Design, Self Organizing Maps (SOM) and Random Selection by activity sampling, were applied to the original data set in order to compare these methodologies and to select the best descriptors able to model each prediction set chemicals independently of the splitting method applied. The applicability domain was verified by the leverage approach. [ABSTRACT FROM AUTHOR]

The tropospheric lifetime of most organic chemicals deriving from terrestrial emissions is mainly controlled by their degradation reaction with OH radicals and ozone during the daytime, and NO3 radicals at night. The studied data set, composed of 399 structurally heterogeneous volatile organic compounds (VOCs), consists of data for the three studied oxidation reactions, available either experimentally or from our herein reported quantitative structure–activity relationships (QSAR) models. A principal component analysis (PCA) model based on these principal oxidative degradations has been proposed to evaluate the overall tropospheric degradability of chemicals. The score of the first principal component can be proposed as an ATmospheric Degradability INdex (ATDIN) and is modelled by theoretical molecular descriptors to obtain a multiple linear regression (MLR) QSAR model with high predictive power, both internally and externally validated. This modelling approach allows a fast and preliminary VOC ranking according to their tendency to be degraded by atmospheric oxidants, starting only from the knowledge of their molecular structure. [Copyright &y& Elsevier]

The rate constant for the nighttime degradation of 114 heterogeneous organic compounds, through reaction with nitrate radicals in the troposphere, is predicted here by quantitative structure–activity relationships modelling. The multiple linear regression approach is based on a variety of theoretical molecular descriptors, selected by the genetic algorithms-variable subset selection procedure. The proposed model, calculated on a limited subset of compounds selected by a D-optimal experimental design and checked for reliability and robustness, has good predictivity, verified by internal (QLMO2=89.6%) and “external” validation (QEXT2=95.7%). The model applicability domain was always verified by the leverage approach in order to propose reliable predicted data. The average root-mean square error for the prediction of log kNO3 was 0.57, similar to (and even smaller than) the typical experimental error range. [Copyright &y& Elsevier]