Toxicity by descent: A comparative approach for chemical hazard assessment

Colbourne, John K.; Shaw, Joseph R.; Sostare, Elena; Rivetti, Claudia; Derelle, Romain; Barnett, Rosemary; Campos, Bruno; LaLone, Carlie A.; Viant, Mark R.; Hodges, Geoff

doi:10.1016/j.envadv.2022.100287

Cited by 21 publications

(23 citation statements)

References 86 publications

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“…Our inclusion of an evolutionary analysis of the putative mKEs is a key element for the modern use of Daphnia as a sentinel for the protection of other animal species—made possible by a high degree of pathway conservation between invertebrates and humans; human gene sets that already serve as biomarkers of chemical exposure (e.g., the U.S. National Toxicology Program’s s1500+ reference gene panel) are enriched by evolutionarily conserved genes across the animal phylogeny. 80 The interpretation of these results for extrapolating hazards to other species reasonably assumes that the induction or malfunction of processes that are shared with humans is reflective of the chemical mixtures’ mechanisms of action, but not necessarily predictive of shared adversity. The differences among species in their physiology, organ systems, adaptive responses to exposures, and life history would contribute to differences in such outcomes.…”

Section: Broadening the Use Of The Sentinel Species Daphniamentioning

confidence: 99%

“…Our framework enables the identification of bioactive chemicals within environmental mixtures that have a measurable biomolecular effect on the sentinel species Daphnia, which may be indicative of hazards to other animals by identifying putative mKEs that are evolutionarily conserved. Our inclusion of an evolutionary analysis of the putative mKEs is a key element for the modern use of Daphnia as a sentinel for the protection of other animal speciesmade possible by a high degree of pathway conservation between invertebrates and humans; human gene sets that already serve as biomarkers of chemical exposure (e.g., the U.S. National Toxicology Program’s s1500+ reference gene panel) are enriched by evolutionarily conserved genes across the animal phylogeny . The interpretation of these results for extrapolating hazards to other species reasonably assumes that the induction or malfunction of processes that are shared with humans is reflective of the chemical mixtures’ mechanisms of action, but not necessarily predictive of shared adversity.…”

Section: Broadening the Use Of The Sentinel Species Daphniamentioning

confidence: 99%

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Daphnia as a Sentinel Species for Environmental Health Protection: A Perspective on Biomonitoring and Bioremediation of Chemical Pollution

Abdullahi

Abdallah

et al. 2022

Environ. Sci. Technol.

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Despite available technology and the knowledge that chemical pollution damages human and ecosystem health, chemical pollution remains rampant, ineffectively monitored, rarely prevented, and only occasionally mitigated. We present a framework that helps address current major challenges in the monitoring and assessment of chemical pollution by broadening the use of the sentinel species Daphnia as a diagnostic agent of water pollution. And where prevention has failed, we propose the application of Daphnia as a bioremediation agent to help reduce hazards from chemical mixtures in the environment. By applying “omics” technologies to Daphnia exposed to real-world ambient chemical mixtures, we show improvements at detecting bioactive components of chemical mixtures, determining the potential effects of untested chemicals within mixtures, and identifying targets of toxicity. We also show that using Daphnia strains that naturally adapted to chemical pollution as removal agents of ambient chemical mixtures can sustainably improve environmental health protection. Expanding the use of Daphnia beyond its current applications in regulatory toxicology has the potential to improve both the assessment and the remediation of environmental pollution.

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Section: Broadening the Use Of The Sentinel Species Daphniamentioning

confidence: 99%

Section: Broadening the Use Of The Sentinel Species Daphniamentioning

confidence: 99%

Daphnia as a Sentinel Species for Environmental Health Protection: A Perspective on Biomonitoring and Bioremediation of Chemical Pollution

Abdullahi

Abdallah

et al. 2022

Environ. Sci. Technol.

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“…Ultimately, the data acquired from the experiments described above, as well as any subsequent metabolomics and proteomics data, would ideally be used in cross-species comparisons. As previously noted 26 , such cross-species studies are powerful and capable of determining how individual chemicals interfere with conserved biological pathways. Thus, the protocol described above can be used to find evolutionary commonalities in response to individual toxicants across phyla and help inform chemical safety regulation.…”

Section: Extensive Characterization Of the Olfaction Response Inmentioning

confidence: 99%

“…Moreover, the fly shows remarkable genetic similarity to humans, including functional homologs to over 65% of human diseases 23 , 24 , 25 and an even greater conservation of important functional pathways 26 . These features, combined with their relatively short life cycle, low maintenance cost, and readily observable behavioral responses, make Drosophila well-suited for use as a toxicological model 27 , 28 , 29 , 30 .…”

Section: Introductionmentioning

confidence: 99%

Assessment of Chemical Toxicity in Adult <em>Drosophila Melanogaster</em>

Holsopple

Smoot

Popodi

et al. 2023

JoVE

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Human industries generate hundreds of thousands of chemicals, many of which have not been adequately studied for environmental safety or effects on human health.This deficit of chemical safety information is exacerbated by current testing methods in mammals that are expensive, labor-intensive, and time-consuming. Recently, scientists and regulators have been working to develop new approach methodologies (NAMs) for chemical safety testing that are cheaper, more rapid, and reduce animal suffering. One of the key NAMs to emerge is the use of invertebrate organisms as replacements for mammalian models to elucidate conserved chemical modes of action across distantly related species, including humans. To advance these efforts, here, we describe a method that uses the fruit fly, Drosophila melanogaster, to assess chemical safety. The protocol describes a simple, rapid, and inexpensive procedure to measure the viability and feeding behavior of exposed adult flies. In addition, the protocol can be easily adapted to generate samples for genomic and metabolomic approaches.Overall, the protocol represents an important step forward in establishing Drosophila as a standard model for use in precision toxicology. safety testing in these systems is expensive, time-consuming, and often causes unacceptable levels of suffering to the test animal 9 .

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“…Taking knowledge from one (or a handful of) species and using the information to predict or infer the effect in another species for which there are no empirical data is termed cross‐species extrapolation . Methods developed to inform species extrapolation have more recently relied on advances in bioinformatics and concepts in evolutionary biology to make significant developments in this important area of toxicology (Colbourne et al, 2022; LaLone et al, 2021; Rivetti et al, 2020; van den Berg et al, 2021). These advances contribute to addressing the complex challenge of predicting chemical susceptibility across species, which ultimately will need to consider factors beyond pathway conservation including stressor exposure, organism life stage, life history, and so on.…”

Section: Introductionmentioning

confidence: 99%

From Protein Sequence to Structure: The Next Frontier in Cross‐Species Extrapolation for Chemical Safety Evaluations

LaLone

Blatz

Jensen

et al. 2023

Enviro Toxic and Chemistry

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Computational screening for potentially bioactive molecules using advanced molecular modeling approaches including molecular docking and molecular dynamic simulation is mainstream in certain fields like drug discovery. Significant advances in computationally predicting protein structures from sequence information have also expanded the availability of structures for nonmodel species. Therefore, the objective of the present study was to develop an analysis pipeline to harness the power of these bioinformatics approaches for cross-species extrapolation for evaluating chemical safety. The Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) tool compares protein-sequence similarity across species for conservation of known chemical targets, providing an initial line of evidence for extrapolation of toxicity knowledge. However, with the development of structural models from tools like the Iterative Threading ASSEmbly Refinement (ITASSER), analyses of protein structural conservation can be included to add further lines of evidence and generate protein models across species. Models generated through such a pipeline could then be used for advanced molecular modeling approaches in the context of species extrapolation. Two case examples illustrating this pipeline from SeqAPASS sequences to I-TASSERgenerated protein structures were created for human liver fatty acid-binding protein (LFABP) and androgen receptor (AR). Ninety-nine LFABP and 268 AR protein models representing diverse species were generated and analyzed for conservation using template modeling (TM)-align. The results from the structural comparisons were in line with the sequence-based SeqAPASS workflow, adding further evidence of LFABL and AR conservation across vertebrate species. The present study lays the foundation for expanding the capabilities of the web-based SeqAPASS tool to include structural comparisons for species extrapolation, facilitating more rapid and efficient toxicological assessments among species with limited or no existing toxicity data.

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Toxicity by descent: A comparative approach for chemical hazard assessment

Cited by 21 publications

References 86 publications

Daphnia as a Sentinel Species for Environmental Health Protection: A Perspective on Biomonitoring and Bioremediation of Chemical Pollution

Daphnia as a Sentinel Species for Environmental Health Protection: A Perspective on Biomonitoring and Bioremediation of Chemical Pollution

Assessment of Chemical Toxicity in Adult <em>Drosophila Melanogaster</em>

From Protein Sequence to Structure: The Next Frontier in Cross‐Species Extrapolation for Chemical Safety Evaluations

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