The Ecotoxicology Database (ECOTOX) provides information on effects of single chemicals to ecologically-relevant species.

Abstract The dataset was compiled by the Geological and Bioregional Assessment Program from multiple sources referenced within the dataset and/or metadata. The processes undertaken to compile this …Show full descriptionAbstract The dataset was compiled by the Geological and Bioregional Assessment Program from multiple sources referenced within the dataset and/or metadata. The processes undertaken to compile this dataset are described in the History field in this metadata statement. Attribution Geological and Bioregional Assessment Program History Physico-chemical data were compiled from US EPA Estimation Programme Interface (EPI Suite). Estimated properties were based on the Simplified Molecular Input Line-Entry System (SMILES), Biowin models 1-7, PHYSPROP. Ecotoxicology data were compiled from chemical safety data sheets, eChemPortal, USEPA ECOTOX, OECD SIDS, ECHA assessments, USEPA (2015/6) reaxys database, NICNAS/IMAP assessments, ECOSAR 2.0.

description: The PMN Ecotox Database contains fielded information on ecological studies submitted under TSCA Section 5 in premanufacture and other exemption notices.; abstract: The PMN Ecotox Database contains fielded information on ecological studies submitted under TSCA Section 5 in premanufacture and other exemption notices.

Database contains lab results from ecotoxicological samples taken during fieldwork.

Please not that the database is currently not available, but we are working on it for the new version of data.npolar.no.

Abbreviations used in the database, see enclosed document.

Laboratories:

NILU = Norsk institutt for Luftforskning

NMBU=Norges miljø-og biovitenskapelige universitet

GLIER = Great Lakes Institute for Environmental Research, CA

NWRI = National Water research Institute, CA

NLET = National Laboratory for Environmental Testing, CA

Quality

Lab results from various scientific sample collections

Abstract

The dataset was compiled by the Geological and Bioregional Assessment Program from multiple sources referenced within the dataset and/or metadata. The processes undertaken to compile this dataset are described in the History field in this metadata statement.

Attribution

Geological and Bioregional Assessment Program

History

Physico-chemical data were compiled from US EPA Estimation Programme Interface (EPI Suite). Estimated properties were based on the Simplified Molecular Input Line-Entry System (SMILES), Biowin models 1-7, PHYSPROP. Ecotoxicology data were compiled from chemical safety data sheets, eChemPortal, USEPA ECOTOX, OECD SIDS, ECHA assessments, USEPA (2015/6) reaxys database, NICNAS/IMAP assessments, ECOSAR 2.0.

The ECOTOXicology Knowledgebase (ECOTOX) has been in development since the early 1980s and is maintained by the U.S. EPA Great Lakes Toxicology and Ecology Division. ECOTOX includes curated data from toxicity tests from aquatic and terrestrial species, with results available on the web-based application: www.epa.gov/ecotox. This paper includes overview summaries of the entirety of the data currently included in ECOTOX (as of September 2020 update), with the source data for these summaries included in this Excel file. This dataset is associated with the following publication: Olker, J., C. Elonen, A. Pilli, A. Anderson, B. Kinzinger, S. Erickson, M. Skopinski, A. Pomplun, C. LaLone, C. Russom, and D. Hoff. The ECOTOXicology Knowledgebase: A Curated Database of Ecologically Relevant Toxicity Tests to Support Environmental Research and Risk Assessment. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY. Society of Environmental Toxicology and Chemistry, Pensacola, FL, USA, 41(6): 1520-1539, (2022).

The database was developed under the contract CT/EFSA/PPR/2010/03 with the purpose to provide a compilation in IUCLID 5.2 of ecotoxicological endpoints of the active substances and plant protection products (PPPs). It was developed to support the revision of guidance documents on aquatic and terrestrial ecotoxicology. The database for all Tier 1 studies where higher tier studies we also available in the dossier submitted under Directive 91/414/EEC for aquatic organisms, bees, non target arthropods, non target plants and soil organisms. The variables include report metadata, active substance, species tested, description of the experimental conditions and endpoint values (e.g LC50, NOEC, EC50, ER50) according to OECD harmonised templates for Effects on biotic systems. The database includes data extraction for 5745 ecotoxicological endpoint and 1625 risk assessment endpoints.

The Format XML export from IUCLID 5.2. with author names removed. XSD is included. The study was outsourced after a procurement procedure.

The transcriptomes of a male individual and a female individual were sequenced from seven different taxonomical groups: Gammarus fossarum A, G. fossarum B, G. fossarum C, Gammarus wautieri, Gammarus pulex, Echinogammarus berilloni and Echinogammarus marinus. Control quality of reads was performed by FastQC version V0.11.2.

ToxRefDB was developed by the National Center for Computational Toxicology (NCCT) in partnership with EPA's Office of Pesticide Programs (OPP), to store data from in vivo animal toxicity studies. The database:

-Contains pesticide registration toxicity data that used to be stored as hard-copy and scanned documents by OPP. -Currently includes chronic, cancer, sub-chronic, developmental, and reproductive studies on hundreds of chemicals (many are pesticide active ingredients). -Provides data that is accessible and computable. -Provides reference toxicity data for Agency research and retrospective analyses. -Provides toxicity endpoints for development of ToxCast predictive signatures that will be used for primary research applications. -Contains only certain hazard information and does not represent all information needed for a complete risk assessment for pesticides or other chemicals. -Effect designation should not be taken as determination that existing EPA risk assessments and risk management decisions need revisions.

For example, in addition to studies in ToxRefDB, for purposes of registration or tolerance determination, EPA evaluated information on other mammalian toxicity effects, metabolism, aquatic life, wildlife and plant toxicity studies, and use patterns, environmental fate and persistence, and pesticide residue levels.

Statistical inferences play a critical role in ecotoxicology. Historically, Null Hypothesis Significance Testing (NHST) has been the dominant method for inference in ecotoxicology. As a brief and informal definition of the NHST approach, researchers compare (or “test”) an experimental treatment or observation against a hypothesis of no relationship or effect (the “null hypothesis”) using the collected data to see if the observed values are statistically “significant” given predefined error rates. The resulting probability of observing a value equal to or greater than the observed value assuming the null hypothesis is true is the p-value. Criticisms of NHST have existed for almost a century and more recently these have grown to the point where statisticians, including the American Statistical Association, have felt the need to clarify the role of NHST and p-values in science beyond their current common use. These limitations also exist in ecotoxicology. For example, a review of the 2010 Environmental Toxicology and Chemistry (ETC) volume found many authors did not correctly report p-values. We repeated this review looking at the 2019 volume of ETC and the incorrect reporting of p-values still occurred almost a decade later.

Data set includes empirical results from 60 h, 10 d, and 21 d exposures of female fathead minnows to the fungicide imazalil as well as simulations from predictive models anchored to an established adverse outcome pathway (https://aopwiki.org/aops/25). Contents are organized into multiple tabs: (1) Simulated effects on plasma 17b-estradiol and vitellogenin used to inform experimental design. (2) Model simulations based on nominal concentrations used in the 60 h, 10 d, and 21 d exposures. (3) Biological effects data from the 60 h experiment. (4) Analytical exposure verification from the 60 h experiment. (5) Biological effects data from the 10 d exposure. (6) Biological effects data from 21 d exposure. (7) Analytical exposure verification from the 10 d and 21 d exposures. (8) Reproduction data from the 10 d and 21 d exposures. (9) Simulated reproduction results based on nominal exposure concentrations used in the 10 d and 21 d exposures. (10) Histopathology evaluations for selected females from the 10 d and 21 d exposures. This dataset is associated with the following publication: Villeneuve, D., B. Blackwell, C. Blanksma, J. Cavallin, W. Cheng, R. Conolly, K. Conrow, D. Feifarek, L. Heinis, K. Jensen, M. Kahl, R. Milsk, S. Poole, E. Randolph, T. Saari, K. Watanabe, and G. Ankley. Case Study in 21st-Century Ecotoxicology: Using In Vitro Aromatase Inhibition Data to Predict Reproductive Outcomes in Fish In Vivo. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY. Society of Environmental Toxicology and Chemistry, Pensacola, FL, USA, 42(1): 100-116, (2023).

We sequenced the transcriptomes of a male individual and a female individual for seven different taxonomical groups: Gammarus fossarum A, G. fossarum B, G. fossarum C, Gammarus wautieri, Gammarus pulex, Echinogammarus berilloni and Echinogammarus marinus. For each sample the transcripts were annotated using the Trinotate annotation pipeline43. Swissprot database was used as main database and Amphipods proteins referenced on Uniref were used as custom database. Blastx and Blastp were used for the similarity search step with an e-value cutoff set at 1e-2. Blast results were then used for generate the annotation report with the same e-value cutoff.

Researchers at the U.S. EPA, MED-Duluth have developed a comprehensive toxicity/tissue residue database for aquatic organisms exposed to inorganic and organic chemicals (Jarvinen, A.W., and G.T. Ankley. 1999. Linkage of effects to tissue residues: Development of a comprehensive database for aquatic organisms exposed to inorganic and organic chemicals. SETAC Press, pp. 1-358.) This database is an invaluable resource for use in the systematic investigation of hypotheses related to effect/residue relationships. The database contains more than 3,000 effect and no-effect endpoints for survival, growth and reproductive parameters for invertebrates, fish and aquatic life-stage of amphibians. Data were abstracted from approximately 500 literature references on approximately 200 chemicals and 190 freshwater and marine test species. Survival endpoints account for about 74% of the total amount of data, with growth and reproduction accounting for 19 and 7% respectively.

CEC Fish Ecotoxicity Database (CFED) of No Observed Adverse Effects Concentrations (NOAECs) and Lowest Observed Adverse Effects Concentrations (LOAECs) from published laboratory assays on single-CEC effects in freshwater fish from chronic aqueous exposures. The list of chemicals included were from:James, Andrew C., Ruth Sofield, Maya Faber, Dave Wark, Amy Simmons, Louisa Harding, Sandra O'Neill. 2023. The screening and prioritization of contaminants of emerging concern in the marine environment based on multiple biological response measures, Science of The Total Environment, Volume 886,163712. ISSN 0048-9697. https://doi.org/10.1016/j.scitotenv.2023.163712.All High Priority chemicals that had fish toxicity data in the USEPA Ecotox database and were not already evaluated by Gefell (as reported in Elliott et al. 2022. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9542151/#ieam4561-suppl-0001) were evaluated in this work. A subset of Watch List chemicals from James et al. (2023) were evaluated. The data was used to produce Screening Values (SV) following the methods of https://digitalmedia.fws.gov/digital/collection/document/id/2250/rec/2 for freshwater fish. When toxicity information was available in the USEPA Ecotox database, marine SVs were also produced.

ADORE is a benchmark dataset for machine learning for ecotixicology, covering acute aquatic toxicity in three relevant taxonomic groups (fish, crustaceans, and algae). The core dataset describes ecotoxicological experiments and is expanded with phylogenetic and species-specific data on the species as well as chemical properties and molecular representations. Apart from challenging other researchers to try and achieve the best model performances across the whole dataset, we propose specific relevant challenges on subsets of the data and include datasets and splittings corresponding to each of these challenge as well as in-depth characterization and discussion of train-test splitting approaches.

The dataset contains acute toxicity data (lethal concentration 50; LC50 or effective concentration 50; EC50) on 2,408 chemicals in 203 different species of algae, crustaceans, and fish. This encompasses a total of 33K data points, 26K of which are on fish (140 species).

The task is to predict the ecotoxicological outcome based on historic ecotoxicity data.

ADORE was originally published in Nature ScientificData: Schür, Christoph, Lilian Gasser, Fernando Perez-Cruz, Kristin Schirmer, and Marco Baity-Jesi. 2023. “A Benchmark Dataset for Machine Learning in Ecotoxicology.” Scientific Data 10 (1): 718. https://doi.org/10.1038/s41597-023-02612-2.

This database contains biomarker lab results from NPI's researchers.

This data compiles the toxicity data on stygofauna and other aquatic subterranean organisms in one (eco)toxicological database. A total of 46 studies were found, containing 472 toxic endpoints covering 43 different stressors. These compounds were tested on subterranean organisms from four phyla, 12 orders, 24 genera, and 55 species. The studies included were published between 1976 and July of 2023, in 13 different countries. The suitability of the studies was assessed in order to indicate the completeness of reporting and their suitability for use in hazard and risk assessment. This compilation provides a valuable source of data for future development of toxicity testing protocols for groundwater organisms, and to support decision-making, ecological risk assessments and the derivation of water quality criteria for the protection of groundwater ecosystems. The database will be updated regularly.The database was founded on literature searches using Google Scholar, Web of Science and Scopus, reference lists of the scientific/peer reviewed literature, as well as generic internet searches. An example of the search criteria used in Scopus can be seen below.· “Stygofauna” OR “Stygo” OR “Hypogean” OR “Groundwater organism” OR “Groundwater invertebrate” OR “Stygobite”o AND· “Toxicity” OR “Ecotoxicity” OR “Dose-response” OR “Sensitivity”Searches were conducted in English and identified several studies written in German and French that had English abstracts or keywords. Studies in languages other than English were translated using Google translate. The current database (version 2023.12) includes papers published prior to December 2023. The criteria for the inclusion of data from a study into the database was the availability of one of the following toxicity endpoints: Lethal concentration (LC), Effect concentration (EC), Inhibition concentration (IC), Lethal temperature (Ltemp), Effect temperature (Etemp), Lethal time (Ltime), Effect time (Etime), No observable effect concentration (NOEC), and Lowest observed effect concentration” (LOEC). Where available, the effect of the EC is mentioned.

COI Sequences and Phylogenetic tree

Ecotoxicological studies have provided extensive insights into the lethal and sublethal effects of environmental contaminants. These insights are critical for environmental regulatory frameworks, which rely on knowledge of toxicity for developing policies to manage contaminants. While varied approaches have been applied to ecotoxicological questions, perspectives related to the evolutionary history of focal species or populations have received little consideration. Here, we evaluate chloride toxicity from the perspectives of both macroevolution and contemporary evolution. First, by mapping chloride toxicity values derived from the literature onto a phylogeny of macroinvertebrates, fish, and amphibians, we tested whether macroevolutionary relationships across species and taxa are predictive of chloride sensitivity. Next, we conducted chloride exposure tests for two amphibian species to assess whether potential contemporary evolutionary change associated with environmental chloride contamination influences chloride sensitivity across local populations. We show that explicitly evaluating both macro- and contemporary evolution can provide important and even qualitatively different insights from those obtained via traditional ecotoxicological studies. While macroevolutionary perspectives can help forecast toxicological endpoints for species with untested sensitivities, contemporary evolutionary perspectives demonstrate the need to consider the environmental context of exposed populations when measuring toxicity. Accounting for divergence among populations of interest can provide more accurate and relevant information related to the sensitivity of populations that may be evolving in response to selection from contaminant exposure. Our data shows that approaches accounting for and specifically examining variation among natural populations should become standard practice in ecotoxicology.

The global ecotoxicology services market is expected to reach $XX million by 2033, expanding at a CAGR of XX% during the forecast period from 2023 to 2033. The growing regulatory landscape for environmental protection, the increasing demand for accurate ecotoxicological data for environmental risk assessment, and the rising pharmaceutical and agricultural sectors are key factors driving the market growth. Moreover, the increasing awareness about the potential adverse effects of chemicals on the environment and human health has led to stringent government regulations, mandating environmental impact assessments and ecotoxicological testing. The market for ecotoxicology services is segmented by type, application, and region. The aquatic organisms segment holds the largest market share due to the increased emphasis on marine conservation and the stringent regulations governing wastewater discharge. By application, the chemical registration and management segment dominates the market due to the need for ecotoxicological data for regulatory compliance in chemical manufacturing and importation. North America accounts for the largest regional market share due to the presence of established regulatory frameworks and well-developed environmental monitoring programs. The Asia-Pacific region is expected to witness the fastest growth during the forecast period debido a the rapid industrialization and urbanization in the region. Ecotoxicology services play a vital role in ensuring the safety of chemicals and products in the environment. The market for these services is driven by increasing regulatory compliance requirements, concerns about environmental health, and the need for sustainable solutions.