Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

作者： Sara M. F. Vliet1, Monique Hazemi2, Donovan Blatz2, Marissa Jensen3, Sally Mayasich4, Thomas R. Transue5, Cody Simmons5, Audrey Wilkinson5, Carlie A. LaLone6 1Office of Research and Development, Center for Computational Toxicology and Exposure, Scientific Computing and Data Curation Division,U.S. Environmental Protection Agency, 2Oak Ridge Institute for Science and Education, 3Swenson College of Science and Engineering, Department of Biology,University of Minnesota Duluth, 4University of Wisconsin-Madison Aquatic Sciences Center, 5General Dynamics Information Technology,Research Triangle Park, 6Office of Research and Development, Center for Computational Toxicology and Exposure, Great Lakes Toxicology and Ecology Division,U.S. Environmental Protection Agency

简介：

Overview

This article presents a protocol for utilizing the US Environmental Protection Agency's SeqAPASS tool, which allows for the rapid analysis of protein conservation across species. The tool is designed to provide customizable predictions of chemical susceptibility, aiding researchers and decision-makers in evaluating chemical safety.

Key Study Components

Area of Science

• Toxicology
• Environmental Science
• Computational Biology

Background

• SeqAPASS is a web-based tool developed for cross-species extrapolation of chemical toxicity.
• The tool simplifies the process of predicting chemical susceptibility based on available species sensitivity data.
• It addresses the challenge of assessing toxicity for species that cannot be tested in laboratory settings.
• SeqAPASS is intended for use by both researchers and decision-makers in the field of chemical safety.

Purpose of Study

• To provide a streamlined protocol for evaluating protein conservation across species.
• To facilitate the extrapolation of toxicity and biological pathway knowledge.
• To enhance the accessibility of chemical safety assessments.

Methods Used

• Utilization of the SeqAPASS web tool for protein conservation analysis.
• Customizable settings for analyzing chemical susceptibility.
• Rapid processing of data for hundreds to thousands of species.
• User-friendly interface for both new and existing users.

Main Results

• Demonstrated the effectiveness of SeqAPASS in predicting chemical susceptibility.
• Provided insights into protein conservation across diverse species.
• Showcased the tool's ability to handle large datasets efficiently.
• Highlighted the importance of cross-species extrapolation in chemical safety.

Conclusions

• SeqAPASS is a valuable resource for researchers assessing chemical toxicity.
• The tool enhances the understanding of species sensitivity and chemical safety.
• Future applications could expand its use in environmental risk assessments.

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