2
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Developmental pyrethroid exposure disrupts molecular pathways for circadian rhythms and MAP kinase in mouse brain

      Preprint
      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Neurodevelopmental disorders (NDDs) are a category of pervasive disorders of the developing nervous system with few or no recognized biomarkers. A significant portion of the risk for NDDs, including attention deficit hyperactivity disorder (ADHD), is contributed by the environment, and exposure to pyrethroid pesticides during pregnancy has been identified as a potential risk factor for NDD in the unborn child. We recently showed that low-dose developmental exposure to the pyrethroid pesticide deltamethrin in mice causes male-biased changes to ADHD- and NDD-relevant behaviors as well as the striatal dopamine system. Here, we used an integrated multiomics approach to determine the broadest possible set of biological changes in the mouse brain caused by developmental pyrethroid exposure (DPE). Using a litter-based, split-sample design, we exposed mouse dams during pregnancy and lactation to deltamethrin (3 mg/kg or vehicle every 3 days) at a concentration well below the EPA-determined benchmark dose used for regulatory guidance. We raised male offspring to adulthood, euthanized them, and pulverized and divided whole brain samples for split-sample transcriptomics, kinomics and multiomics integration. Transcriptome analysis revealed alterations to multiple canonical clock genes, and kinome analysis revealed changes in the activity of multiple kinases involved in synaptic plasticity, including the mitogen-activated protein (MAP) kinase ERK. Multiomics integration revealed a dysregulated protein-protein interaction network containing primary clusters for MAP kinase cascades, regulation of apoptosis, and synaptic function. These results demonstrate that DPE causes a multi-modal biophenotype in the brain relevant to ADHD and identifies new potential mechanisms of action.

          Related collections

          Most cited references92

          • Record: found
          • Abstract: found
          • Article: found
          Is Open Access

          Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

          In comparative high-throughput sequencing assays, a fundamental task is the analysis of count data, such as read counts per gene in RNA-seq, for evidence of systematic changes across experimental conditions. Small replicate numbers, discreteness, large dynamic range and the presence of outliers require a suitable statistical approach. We present DESeq2, a method for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates. This enables a more quantitative analysis focused on the strength rather than the mere presence of differential expression. The DESeq2 package is available at http://www.bioconductor.org/packages/release/bioc/html/DESeq2.html. Electronic supplementary material The online version of this article (doi:10.1186/s13059-014-0550-8) contains supplementary material, which is available to authorized users.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            Gene Ontology: tool for the unification of biology

            Genomic sequencing has made it clear that a large fraction of the genes specifying the core biological functions are shared by all eukaryotes. Knowledge of the biological role of such shared proteins in one organism can often be transferred to other organisms. The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing. To this end, three independent ontologies accessible on the World-Wide Web (http://www.geneontology.org) are being constructed: biological process, molecular function and cellular component.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

              Rapid advances in next-generation sequencing technologies have dramatically changed our ability to perform genome-scale analyses. The human reference genome used for most genomic analyses represents only a small number of individuals, limiting its usefulness for genotyping. We designed a novel method, HISAT2, for representing and searching an expanded model of the human reference genome, in which a large catalogue of known genomic variants and haplotypes is incorporated into the data structure used for searching and alignment. This strategy for representing a population of genomes, along with a fast and memory-efficient search algorithm, enables more detailed and accurate variant analyses than previous methods. We demonstrate two initial applications of HISAT2: HLA typing, a critical need in human organ transplantation, and DNA fingerprinting, widely used in forensics. These applications are part of HISAT-genotype, with performance not only surpassing earlier computational methods, but matching or exceeding the accuracy of laboratory-based assays.
                Bookmark

                Author and article information

                Journal
                bioRxiv
                BIORXIV
                bioRxiv
                Cold Spring Harbor Laboratory
                28 November 2023
                : 2023.08.28.555113
                Affiliations
                [1 ]Department of Neurosciences, University of Toledo College of Medicine and Life Sciences, Toledo, OH 43614
                [2 ]Department of Medicine, University of Toledo College of Medicine and Life Sciences, Toledo, OH 43614
                [3 ]Department of Environmental Health, Emory Rollins School of Public Health, Atlanta, GA 30322
                [4 ]Department of Environmental Health Sciences, Mailman School of Public Health, Columbia University, New York, NY 10032 (current)
                [5 ]Department of Zoology and Physiology, University of Wyoming, Laramie, WY 82071 (current)
                Author notes
                [†]

                Equal contribution.

                Author Contributions:

                JPB and GWM designed the exposure study, and JPB and REM designed the multiomics strategy and experiments. All samples were collected in the lab of GWM by JPB and transferred to the lab of JPB. MAC processed all samples, distributed them to the core facilities, and performed the initial analysis of all data. JHN, ASI, KA, and WGR participated in the final analysis of all data and assembly of Figures 13 under the guidance of JPB, RS, and REM. NS and JPB created Figure 4. JPB, MAC, and JHN interpreted all results. NS, CNN, and BPK performed background research and assisted in manuscript preparation. KLN provided experimental, administrative, and managerial support. All authors participated in writing the manuscript and approved the final version.

                [* ]Corresponding author: James P. Burkett, 3000 Arlington Ave, Block Health Sciences #185, Toledo, OH 43614 419-383-4203 james.burkett@ 123456utoledo.edu
                Author information
                http://orcid.org/0009-0008-8708-0117
                http://orcid.org/0000-0003-3684-3539
                http://orcid.org/0000-0003-4868-4002
                http://orcid.org/0000-0002-7368-5763
                http://orcid.org/0000-0002-3691-3851
                http://orcid.org/0000-0001-5584-1032
                http://orcid.org/0000-0001-8984-1284
                http://orcid.org/0000-0001-5776-2506
                http://orcid.org/0000-0001-6921-7150
                http://orcid.org/0000-0002-6357-5499
                Article
                10.1101/2023.08.28.555113
                10515776
                37745438
                b7c79d2c-f40a-49b2-9299-940dfa167ea5

                This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License, which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator.

                History
                Funding
                Funded by: NIH, deArce-Koch Memorial Endowment Fund, UToledo Medical Student Research Program
                Award ID: R00ES027869
                Award ID: R01ES023839
                Categories
                Article

                developmental disorders,environmental factors,exposure,circadian rhythms,multiomics integration

                Comments

                Comment on this article