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Omics Approaches in Ecotoxicology and Stress Ecology

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A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Toxicogenomics".

Deadline for manuscript submissions: closed (1 September 2021) | Viewed by 5855

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Special Issue Editor

Dr. Davide Degli Esposti

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Guest Editor

INRAE, UR RiverLy, Ecotoxicology Team, Centre de Lyon-Grenoble, 5 Rue de la Doua CS 20244, 69625 Villeurbanne, France
Interests: protein networks; proteomics; mode of action; adverse outcome pathways; endocrine disruptors; molecular physiology; phylogenomics; crustaceans
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Special Issue Information

Dear Colleagues,

Next-generation sequencing and mass spectrometry technologies have recently expanded the availability of molecular data at a systemic level (-omics data, e.g., transcriptomes, proteomes, metabolomes) beyond classical model organisms in molecular biology. These advancements are allowing the exploration of the molecular basis of new and old questions in stress ecology and ecotoxicology, such as species adaptation or vulnerability to environmental changes; temporal and spatial variability of sensitivity to specific contaminants in natural communities; mode of action of single contaminants or their mixtures in multiple species; the development of molecular biomarkers of exposure or effect in real environmental conditions; and multi- and trans- generational effects of contaminant exposures.

In this Special Issue, we encourage research articles or methodological reviews that explore the use of different -omics approaches to describe: i) the molecular and mechanistic bases of biological responses (e.g., physiology, contaminants’ modes of action) of environmentally relevant animal species exposed to natural or anthropogenic stressors, such as chemical contamination or those associated with global changes; and ii) case studies to identify biomarkers in the context of biomonitoring activities of environmental risk assessment. In particular, we welcome contributions based both on laboratory and in situ studies at different spatial and time scales.

Dr. Davide Degli Esposti
Guest Editor

Manuscript Submission Information

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Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Genes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

Genomics
Proteomics
Transcriptomics
Metabolomics
Lipidomics
Mode of actions
Adaptation
Chemical pollution
Biomarkers
Climate change
Environmental risk assessment
Biomonitoring

Published Papers (2 papers)

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Research

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20 pages, 1669 KiB

Open AccessArticle

Susceptibility of the Non-Targeted Crustacean Eurytemora affinis to the Endocrine Disruptor Tebufenozide: A Transcriptomic Approach

by Caroline Arcanjo, Gauthier Trémolet, Nathalie Giusti-Petrucciani, Aurélie Duflot, Joëlle Forget-Leray and Céline Boulangé-Lecomte

Genes 2021, 12(10), 1484; https://0-doi-org.brum.beds.ac.uk/10.3390/genes12101484 - 24 Sep 2021

Cited by 3 | Viewed by 2049

Abstract

Copepods are zooplanktonic crustaceans ubiquitously widespread in aquatic systems. Although they are not the target, copepods are exposed to a wide variety of pollutants such as insect growth regulators (IGRs). The aim of this study was to investigate the molecular response of a non-targeted organism, the copepod Eurytemora affinis, to an IGR. Adult males and females were exposed to two sub-lethal concentrations of tebufenozide (TEB). Our results indicate a sex-specific response with a higher sensitivity in males, potentially due to a differential activation of stress response pathways. In both sexes, exposure to TEB triggered similar pathways to those found in targeted species by modulating the transcription of early and late ecdysone responsive genes. Among them were genes involved in cuticle metabolism, muscle contraction, neurotransmission, and gametogenesis, whose mis-regulation could lead to moult, locomotor, and reproductive impairments. Furthermore, genes involved in epigenetic processes were found in both sexes, which highlights the potential impact of exposure to TEB on future generations. This work allows identification of (i) potential biomarkers of ecdysone agonists and (ii) further assessment of putative physiological responses to characterize the effects of TEB at higher biological levels. The present study reinforces the suitability of using E. affinis as an ecotoxicological model. Full article

(This article belongs to the Special Issue Omics Approaches in Ecotoxicology and Stress Ecology)

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Review

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11 pages, 1201 KiB

Open AccessReview

Trends in the Application of “Omics” to Ecotoxicology and Stress Ecology

by Joshua Niklas Ebner

Genes 2021, 12(10), 1481; https://0-doi-org.brum.beds.ac.uk/10.3390/genes12101481 - 23 Sep 2021

Cited by 22 | Viewed by 3071

Abstract

Our ability to predict and assess how environmental changes such as pollution and climate change affect components of the Earth’s biome is of paramount importance. This need positioned the fields of ecotoxicology and stress ecology at the center of environmental monitoring efforts. Advances in these interdisciplinary fields depend not only on conceptual leaps but also on technological advances and data integration. High-throughput “omics” technologies enabled the measurement of molecular changes at virtually all levels of an organism’s biological organization and thus continue to influence how the impacts of stressors are understood. This bibliometric review describes literature trends (2000–2020) that indicate that more different stressors than species are studied each year but that only a few stressors have been studied in more than two phyla. At the same time, the molecular responses of a diverse set of non-model species have been investigated, but cross-species comparisons are still rare. While transcriptomics studies dominated until 2016, a shift towards proteomics and multiomics studies is apparent. There is now a wealth of data at functional omics levels from many phylogenetically diverse species. This review, therefore, addresses the question of how to integrate omics information across species. Full article

(This article belongs to the Special Issue Omics Approaches in Ecotoxicology and Stress Ecology)

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