Genomic and Genotoxic Responses to Controlled Weathered-Oil Exposures Confirm and Extend Field Studies on Impacts of the Deepwater Horizon Oil Spill on Native Killifish
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{"title"=>"Genomic and genotoxic responses to controlled weathered-Oil exposures confirm and extend field studies on impacts of the deepwater horizon oil spill on native killifish", "type"=>"journal", "authors"=>[{"first_name"=>"Whitney", "last_name"=>"Pilcher", "scopus_author_id"=>"54788399700"}, {"first_name"=>"Scott", "last_name"=>"Miles", "scopus_author_id"=>"8301417500"}, {"first_name"=>"Song", "last_name"=>"Tang", "scopus_author_id"=>"56670627700"}, {"first_name"=>"Greg", "last_name"=>"Mayer", "scopus_author_id"=>"7201807480"}, {"first_name"=>"Andrew", "last_name"=>"Whitehead", "scopus_author_id"=>"12800200000"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-84930078755", "sgr"=>"84930078755", "issn"=>"19326203", "doi"=>"10.1371/journal.pone.0106351", "pmid"=>"25208076", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "pui"=>"608758551"}, "id"=>"e87e9f5c-ef1b-3c16-af91-3f6b452bd9c7", "abstract"=>"To understand the ecotoxicological impacts of the Deepwater Horizon oil spill, field studies provide a context for ecological realism but laboratory-based studies offer power for connecting biological effects with specific causes. As a complement to field studies, we characterized genome-wide gene expression responses of Gulf killifish (Fundulus grandis) to oil-contaminated waters in controlled laboratory exposures. Transcriptional responses to the highest concentrations of oiled water in the laboratory were predictive of field-observed responses that coincided with the timing and location of major oiling. The transcriptional response to the low concentration (∼ 10-fold lower than the high concentration) was distinct from the high concentration and was not predictive of major oiling in the field. The high concentration response was characterized by activation of the molecular signaling pathway that facilitates oil metabolism and oil toxicity. The high concentration also induced DNA damage. The low concentration invoked expression of genes that may support a compensatory response, including genes associated with regulation of transcription, cell cycle progression, RNA processing, DNA damage, and apoptosis. We conclude that the gene expression response detected in the field was a robust indicator of exposure to the toxic components of contaminating oil, that animals in the field were exposed to relatively high concentrations that are especially damaging to early life stages, and that such exposures can damage DNA.", "link"=>"http://www.mendeley.com/research/genomic-genotoxic-responses-controlled-weatheredoil-exposures-confirm-extend-field-studies-impacts-d", "reader_count"=>43, "reader_count_by_academic_status"=>{"Unspecified"=>3, "Professor > Associate Professor"=>4, "Researcher"=>7, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>13, "Other"=>2, "Student > Master"=>7, "Student > Bachelor"=>4, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>3, "Professor > Associate Professor"=>4, "Researcher"=>7, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>13, "Other"=>2, "Student > Master"=>7, "Student > Bachelor"=>4, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>4, "Engineering"=>1, "Environmental Science"=>12, "Agricultural and Biological Sciences"=>23, "Medicine and Dentistry"=>2, "Veterinary Science and Veterinary Medicine"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>23}, "Unspecified"=>{"Unspecified"=>4}, "Environmental Science"=>{"Environmental Science"=>12}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>1}}, "reader_count_by_country"=>{"Colombia"=>1, "United States"=>2, "Brazil"=>1}, "group_count"=>2}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1669589"], "description"=>"<p>Stacked bars represent the average number of cells showing strand breakage within each of four categories of severity (low, moderately-low, moderately-high, and high DNA damage as assessed by tail moment) for each treatment and time point. Comet images are representative of each category of damage. P-values are indicated for results from post-hoc tests that compare treated to control samples across all days within each severity level. Results from post-hoc tests indicate that, relative to control, DNA damage was elevated in the 25% WAF treatment, especially for high levels of damage.</p>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167245, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351.g002", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_DNA_strand_breakage_comet_assay_after_1_day_3_days_and_7_days_exposure_to_a_control_treatment_a_2_5_WAF_treatment_and_a_25_WAF_treatment_/1167245", "title"=>"DNA strand breakage (comet assay) after 1 day, 3 days, and 7 days exposure to a control treatment, a 2.5% WAF treatment, and a 25% WAF treatment.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-09-10 03:28:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1669588"], "description"=>"<p>Location of field sampling sites, which include Grand Terre (GT), Bay St. Louis (BSL), Belle Fontaine Point (BFP), Bayou La Batre (BLB), Mobile Bay (MB), and Fort Morgan (FMA). The star indicates the DWH spill site.</p>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167244, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351.g001", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Location_of_the_field_study_sampling_sites_from_the_experiments_reported_in_Whitehead_et_al_20_/1167244", "title"=>"Location of the field study sampling sites from the experiments reported in Whitehead et. al, [20].", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-09-10 03:28:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1669597"], "description"=>"<p>Genes up-regulated at high concentrations (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0106351#pone-0106351-g002\" target=\"_blank\">Fig. 2</a> cluster 1) are colored red, genes that are up- and down-regulated in the low concentration only are colored yellow and blue, respectively. Lines represent interactions between genes, and blue lines highlight genes that directly interact with AHR/ARNT/TCDD/BAP. The same figure, but including names for all genes, is supplied as Figure S2 in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0106351#pone.0106351.s001\" target=\"_blank\">File S1</a>.</p>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167248, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351.g004", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Gill_gene_interaction_network_connected_by_aryl_hydrocarbon_receptor_AHR_and_aryl_hydrocarbon_receptor_nuclear_translocator_ARNT_hubs_and_model_toxicants_benzo_a_pyrene_BaP_and_2_3_7_8_tetrachlorodibenzo_p_dioxin_TCDD_/1167248", "title"=>"Gill gene interaction network connected by aryl hydrocarbon receptor (AHR) and aryl hydrocarbon receptor nuclear translocator (ARNT) hubs and model toxicants benzo-a-pyrene (BaP) and 2,3,7,8-tetrachlorodibenzo-<i>p</i>-dioxin (TCDD).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-09-10 03:28:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1669590"], "description"=>"<p>Each row represents a gene, and columns represent consecutive sampling times (1 day, 3 days, 7 days) within a WAF treatment. Cell color indicates an up regulation (yellow) or down-regulation (blue) compared to the control treatment. Genes are grouped by patterns of co-regulation. Four patterns of co-regulation were observed relative to the control for both tissues, including up-regulated for all WAF concentrations (cluster 1a), up-regulated for the high and tidal concentrations only (cluster 1b), up-regulated for the low concentration only (cluster 2a), and down-regulated for the low concentration only (cluster 2b). Scale indicates fold-level of up- or down-regulation.</p>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167246, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351.g003", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Patterns_of_expression_for_significantly_WAF_responsive_genes_across_treatments_and_time_points_for_gill_A_and_liver_B_/1167246", "title"=>"Patterns of expression for significantly WAF-responsive genes across treatments and time points for gill (A) and liver (B).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-09-10 03:28:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1669604"], "description"=>"<div><p>To understand the ecotoxicological impacts of the Deepwater Horizon oil spill, field studies provide a context for ecological realism but laboratory-based studies offer power for connecting biological effects with specific causes. As a complement to field studies, we characterized genome-wide gene expression responses of Gulf killifish (<i>Fundulus grandis</i>) to oil-contaminated waters in controlled laboratory exposures. Transcriptional responses to the highest concentrations of oiled water in the laboratory were predictive of field-observed responses that coincided with the timing and location of major oiling. The transcriptional response to the low concentration (∼10-fold lower than the high concentration) was distinct from the high concentration and was not predictive of major oiling in the field. The high concentration response was characterized by activation of the molecular signaling pathway that facilitates oil metabolism and oil toxicity. The high concentration also induced DNA damage. The low concentration invoked expression of genes that may support a compensatory response, including genes associated with regulation of transcription, cell cycle progression, RNA processing, DNA damage, and apoptosis. We conclude that the gene expression response detected in the field was a robust indicator of exposure to the toxic components of contaminating oil, that animals in the field were exposed to relatively high concentrations that are especially damaging to early life stages, and that such exposures can damage DNA.</p></div>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167255, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genomic_and_Genotoxic_Responses_to_Controlled_Weathered_Oil_Exposures_Confirm_and_Extend_Field_Studies_on_Impacts_of_the_Deepwater_Horizon_Oil_Spill_on_Native_Killifish_/1167255", "title"=>"Genomic and Genotoxic Responses to Controlled Weathered-Oil Exposures Confirm and Extend Field Studies on Impacts of the Deepwater Horizon Oil Spill on Native Killifish", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-09-10 03:28:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1669600"], "description"=>"<p>Gill data are illustrated in left column panels, and liver data in right column panels. Principal component 1 (PC1) is plotted following PC analysis, and the proportion (%) of the transcriptional variation across sites and time accounted for by PC1 are indicated in brackets for each plot. Panels arranged by row represent different subsets of genes selected from the laboratory study, including the high-concentration responsive genes (row 1), and all the genes that were differentially expressed in the low concentration only (row 2). In the field study, liver responses were profiled across 6 sites at 3 time points, including Grand Terre Island (GT), Bay St. Louis (BSL), Bayou La Batre (BLB), Belle Fontaine Point (BFP), Mobile Bay (MB) and Fort Morgan Alabama (FMA) <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0106351#pone.0106351-Whitehead2\" target=\"_blank\">[20]</a>, before, during, and after (points at base, middle, and tip of arrows, respectively) peak oiling in 2010. The GT site was the only site directly oiled, and oil arrived between the first and second time-points. Gill responses were profiled at the oil-impacted GT site and two reference sites (BSL and BLB), at the same three time-points, plus an additional time-point at the GT site during summer 2011, one year after the third sampling time-point.</p>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167251, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351.g006", "stats"=>{"downloads"=>0, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Trajectories_for_transcriptional_change_through_time_and_across_sites_in_the_field_study_20_for_subsets_of_genes_identified_in_the_laboratory_study_reported_here_/1167251", "title"=>"Trajectories for transcriptional change through time and across sites in the field study [20] for subsets of genes identified in the laboratory study reported here.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-09-10 03:28:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1669599"], "description"=>"<p>Genes up-regulated at high concentrations (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0106351#pone-0106351-g002\" target=\"_blank\">Fig. 2</a> cluster 1) are colored red, genes that are up- and down-regulated in the low concentration only are colored yellow and blue, respectively. Lines represent interactions between genes, and blue lines highlight genes that directly interact with AHR/ARNT/TCDD/BAP.</p>", "links"=>[], "tags"=>["gene expression response", "rna", "Deepwater Horizon oil spill", "field studies", "exposure", "DNA damage", "concentration", "cell cycle progression"], "article_id"=>1167250, "categories"=>["Biological Sciences"], "users"=>["Whitney Pilcher", "Scott Miles", "Song Tang", "Greg Mayer", "Andrew Whitehead"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0106351.g005", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Liver_gene_interaction_network_connected_by_aryl_hydrocarbon_receptor_AHR_and_aryl_hydrocarbon_receptor_nuclear_translocator_ARNT_hubs_and_model_toxicants_benzo_a_pyrene_BaP_and_2_3_7_8_tetrachlorodibenzo_p_dioxin_TCDD_/1167250", "title"=>"Liver gene interaction network connected by aryl hydrocarbon receptor (AHR) and aryl hydrocarbon receptor nuclear translocator (ARNT) hubs and model toxicants benzo-a-pyrene (BaP) and 2,3,7,8-tetrachlorodibenzo-<i>p</i>-dioxin (TCDD).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-09-10 03:28:52"}

PMC Usage Stats | Further Information

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Relative Metric

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