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      Micronuclei and other erythrocyte nuclear abnormalities in fishes from the Great Lakes Basin, USA

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          Abstract

          Biological markers (biomarkers) sensitive to genotoxic and mutagenic contamination in fishes are widely used to identify exposure effects in aquatic environments. The micronucleus assay was incorporated into a suite of indicators to assess exposure to genotoxic and mutagenic contamination at five Great Lakes Areas of Concern (AOCs), as well as one non‐AOC (reference) site. The assay allowed enumeration of micronuclei as well as other nuclear abnormalities for both site and species comparisons. Erythrocyte abnormality data was also compared to skin and liver tumor prevalence and hepatic transcript abundance. Erythrocyte abnormalities were observed at all sites with variable occurrence and severity among sites and species. Benthic‐oriented brown bullhead ( Ameiurus nebulosus) and white sucker ( Catostomus commersonii) expressed lower rates of erythrocyte abnormalities, but higher rates of skin and liver neoplasms, when compared to pelagic‐oriented largemouth bass ( Micropterus salmoides) or smallmouth bass ( Micropterus dolomieu) at the same site. The reduced erythrocyte abnormalities, increased transcript abundance associated with Phase I and II toxicant responsive pathways, and increased neoplastic lesions among benthic‐oriented taxa may indicate the development of contaminant resistance of these species to more acute effects. Environ. Mol. Mutagen. 58:570–581, 2017. © 2017 This article is a U.S. Government work and is in the public domain in the USA. Environmental and Molecular Mutagenesis published by Wiley Periodicals, Inc. on behalf of Environmental Mutagen Society

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          RNA-Seq analysis in MeV

          Summary: RNA-Seq is an exciting methodology that leverages the power of high-throughput sequencing to measure RNA transcript counts at an unprecedented accuracy. However, the data generated from this process are extremely large and biologist-friendly tools with which to analyze it are sorely lacking. MultiExperiment Viewer (MeV) is a Java-based desktop application that allows advanced analysis of gene expression data through an intuitive graphical user interface. Here, we report a significant enhancement to MeV that allows analysis of RNA-Seq data with these familiar, powerful tools. We also report the addition to MeV of several RNA-Seq-specific functions, addressing the differences in analysis requirements between this data type and traditional gene expression data. These tools include automatic conversion functions from raw count data to processed RPKM or FPKM values and differential expression detection and functional annotation enrichment detection based on published methods. Availability: MeV version 4.7 is written in Java and is freely available for download under the terms of the open-source Artistic License version 2.0. The website (http://mev.tm4.org/) hosts a full user manual as well as a short quick-start guide suitable for new users. Contact: johnq@jimmy.harvard.edu
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            Exactly the same but different: promiscuity and diversity in the molecular mechanisms of action of the aryl hydrocarbon (dioxin) receptor.

            The Ah receptor (AhR) is a ligand-dependent transcription factor that mediates a wide range of biological and toxicological effects that result from exposure to a structurally diverse variety of synthetic and naturally occurring chemicals. Although the overall mechanism of action of the AhR has been extensively studied and involves a classical nuclear receptor mechanism of action (i.e., ligand-dependent nuclear localization, protein heterodimerization, binding of liganded receptor as a protein complex to its specific DNA recognition sequence and activation of gene expression), details of the exact molecular events that result in most AhR-dependent biochemical, physiological, and toxicological effects are generally lacking. Ongoing research efforts continue to describe an ever-expanding list of ligand-, species-, and tissue-specific spectrum of AhR-dependent biological and toxicological effects that seemingly add even more complexity to the mechanism. However, at the same time, these studies are also identifying and characterizing new pathways and molecular mechanisms by which the AhR exerts its actions and plays key modulatory roles in both endogenous developmental and physiological pathways and response to exogenous chemicals. Here we provide an overview of the classical and nonclassical mechanisms that can contribute to the differential sensitivity and diversity in responses observed in humans and other species following ligand-dependent activation of the AhR signal transduction pathway.
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              Oxidative stress in environmental-induced carcinogenesis.

              Reactive oxygen species (ROS) are the more abundant free radicals in nature and have been related with a number of tissue/organ injuries induced by xenobiotics, ischemia, activation of leucocytes, UV exposition, etc. Oxidative stress is caused by an imbalance between ROS production and a biological system's ability to readily detoxify these reactive intermediates or easily repair the resulting damage. Thus, oxidative stress is accepted as a critical pathophysiological mechanism in different frequent human pathologies, including cancer. In fact ROS can cause protein, lipid, and DNA damage, and malignant tumors often show increased levels of DNA base oxidation and mutations. Different lifestyle- and environmental-related factors (including, e.g., tobacco smoking, diet, alcohol, ionizing radiations, biocides, pesticides, viral infections) and other health-related factors (e.g. obesity or the aging process) may be procarcinogenic. In all these cases oxidative stress acts as a critical pathophysiological mechanism. Nevertheless it is important to remark that, in agreement with present knowledge, oxidative/nitrosative/metabolic stress, inflammation, senescence, and cancer are linked concepts that must be discussed in a coordinated manner.
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                Author and article information

                Contributors
                vblazer@usgs.gov
                Journal
                Environ Mol Mutagen
                Environ. Mol. Mutagen
                10.1002/(ISSN)1098-2280
                EM
                Environmental and Molecular Mutagenesis
                John Wiley and Sons Inc. (Hoboken )
                0893-6692
                1098-2280
                04 September 2017
                October 2017
                : 58
                : 8 ( doiID: 10.1002/em.v58.8 )
                : 570-581
                Affiliations
                [ 1 ] School of Natural Resources West Virginia University Morgantown West Virgina 26506
                [ 2 ] U.S. Geological Survey, National Fish Health Research Laboratory Leetown Science Center Kearneysville West Virgina 25430
                [ 3 ] U.S. Geological Survey, West Virginia Cooperative Fish and Wildlife Research Unit West Virginia University Morgantown West Virgina 26506
                [ 4 ]Present address: U.S. Department of Agriculture Cool and Cold Water Aquaculture Research 11861 Leetown Road, Kearneysville West Virgina 25430
                Author notes
                [*] [* ]Correspondence to: Vicki S. Blazer, USGS National Fish Health Research Lab – Leetown Science Center. 11649 Leetown Road, Kearneysville, West Virginia, 25430. E‐mail: vblazer@ 123456usgs.gov
                Author information
                http://orcid.org/0000-0001-6647-9614
                Article
                EM22123
                10.1002/em.22123
                5656883
                28868735
                22294ad6-24bb-41bb-8f7e-644e019b314c
                © 2017 This article is a U.S. Government work and is in the public domain in the USA. Environmental and Molecular Mutagenesis published by Wiley Periodicals, Inc. on behalf of Environmental Mutagen Society

                This is an open access article under the terms of the Creative Commons Attribution‐NonCommercial‐NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.

                History
                : 17 February 2017
                : 20 June 2017
                Page count
                Figures: 5, Tables: 5, Pages: 12, Words: 7605
                Funding
                Funded by: U.S. Geological Survey
                Funded by: U.S. Fish and Wildlife Service
                Categories
                Research Article
                Research Articles
                Custom metadata
                2.0
                em22123
                October 2017
                Converter:WILEY_ML3GV2_TO_NLMPMC version:5.2.1 mode:remove_FC converted:26.10.2017

                Molecular biology
                erythrocyte micronuclei,nuclear abnormalities,white sucker,brown bullhead,bass
                Molecular biology
                erythrocyte micronuclei, nuclear abnormalities, white sucker, brown bullhead, bass

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