Development and Initial Testing of EcoToxChip, a Novel Toxicogenomics Tool for Environmental Management and Chemical Risk Assessment

Author:

Crump Doug1ORCID,Hickey Gordon2,Boulanger Emily2,Masse Anita3,Head Jessica A.2ORCID,Hogan Natacha3,Maguire Steve4,Xia Jianguo2,Hecker Markus3,Basu Niladri2ORCID

Affiliation:

1. National Wildlife Research Centre Environment and Climate Change Canada Ottawa Ontario Canada

2. Department of Natural Resource Sciences McGill University Montreal Quebec Canada

3. Toxicology Centre and School of the Environment and Sustainability University of Saskatchewan Saskatoon Saskatchewan Canada

4. University of Sydney Business School Sydney New South Wales Australia

Abstract

AbstractNew approach methods (NAMs) are increasingly important to help accelerate the pace of ecological risk assessment and offer more ethical, affordable, and efficient alternatives to traditional toxicity tests. In the present study, we describe the development, technical characterization, and initial testing of a toxicogenomics tool, EcoToxChip (384‐well quantitative polymerase chain reaction [qPCR] array), to support chemical management and environmental monitoring for three laboratory model species—fathead minnow (Pimephales promelas), African clawed frog (Xenopus laevis), and Japanese quail (Coturnix japonica). Chip design, including gene selection, was informed by a diverse end‐user group and quality control metrics (e.g., primer assay, reverse transcription, and PCR efficiency) performed well based on a priori established criteria. Correlation with RNA sequencing (seq) data provided additional confidence in this novel toxicogenomics tool. Although the present study represents an initial testing of only 24 EcoToxChips for each of the model species, the results provide increased confidence in the robustness/reproducibility of EcoToxChips for evaluating perturbations in gene expression associated with chemical exposure and thus, this NAM, combined with early‐life stage toxicity testing, could augment current efforts for chemical prioritization and environmental management. Environ Toxicol Chem 2023;42:1763–1771. © 2023 SETAC

Publisher

Wiley

Subject

Health, Toxicology and Mutagenesis,Environmental Chemistry

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