Dataset for: Transcriptomic responses to Deepwater Horizon oil in mahi-mahi (Coryphaena hippurus) embryos reveals time and oil-dependent linkages between molecular initiating events and developmental toxicity

Relationship of Effects of Cardiac Outcomes in Fish for Validation of Ecological Risk (RECOVER)

DOI:
10.7266/N7GX48ND
 
UDI:
R4.x258.258:0001
Last Update:
Jul 14 2016 17:49 UTC
 
Dataset Author(s):
Elvis Genbo Xu, Ph.D.
Point of Contact:
Munoz-Bustamante, Madeline
University of Miami / Rosenstiel School of Marine and Atmospheric Science
4600 Rickenbacker Cswy
Miami, Florida  33149
USA
mbustamante@rsmas.miami.edu
Funding Source:
RFP-IV
 
Extent Description:
Dataset contains strictly laboratory measurements, mahi-mahi broodstock were collected by hook and line near Miami, FL.

Identified Submitted In-Review Available
3 3 3 3

Suggested Citation:

Elvis Genbo Xu, Ph.D.. 2016. Dataset for: Transcriptomic responses to Deepwater Horizon oil in mahi-mahi (Coryphaena hippurus) embryos reveals time and oil-dependent linkages between molecular initiating events and developmental toxicity. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7GX48ND

Abstract:

Total mRNA profiles of 24, 48, 96 hpf mahi-mah larvae after slick and source oil exposure were generated by deep sequencing, in triplicate, using Illumina HiSeq2500.

Purpose:

To help identify molecular mechanisms and pathways potentially involved in the developmental toxicity for fish exposed to Deepwater Horizon (DWH) oil, transcriptomic profiles in mahi-mahi (Coryphaena hippurus) embryos exposed to different DWH oils (source and artificially weathered oil) were evaluated at different critical windows of development using High Throughput Sequencing (HTS).

Theme Keywords:

Mahi Mahi, mRNA sequencing, time-course, embryos, Coryphaena hippurus

Dataset Downloads:

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Dataset for: Transcriptomic responses to Deepwater Horizon oil in mahi-mahi (Coryphaena hippurus) embryos reveals time and oil-dependent linkages between molecular initiating events and developmental toxicity



Identification Information
Distribution Information
Metadata Maintenance Information

Metadata: 
  File identifier: 
      R4.x258.258-0001-metadata.xml
  Language: 
      eng; USA
  Character set: 
    Character set code: 
      utf8
  Hierarchy level: 
    Scope code: 
      dataset
  Metadata author: 
    Responsible party: 
      Individual name: 
          Daniel Schlenk
      Organisation name: 
          University of California Riverside / Department of Environmental Sciences
      Position name: 
          Professor
      Contact info: 
        Contact: 
          Phone: 
            Telephone: 
              Voice: 
                  9518272018
              Facsimile: 
          Address: 
            Address: 
              Delivery point: 
                  900 University Avenue
                  Geology 2258
              City: 
                  Riverside
              Administrative area: 
                  California
              Postal code: 
                  92521
              Country: 
                  USA
              Electronic mail address: 
                  daniel.schlenk@ucr.edu
      Role: 
        Role code: 
          pointOfContact
  Date stamp: 
      2020-08-13T17:00:37+00:00
  Metadata standard name: 
      ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
  Metadata standard version: 
      ISO 19115-2:2009(E)
  Dataset URI: 
      https://data.gulfresearchinitiative.org/metadata/R4.x258.258:0001
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Identification info: Data identification: Citation: Citation: Title: Dataset for: Transcriptomic responses to Deepwater Horizon oil in mahi-mahi (Coryphaena hippurus) embryos reveals time and oil-dependent linkages between molecular initiating events and developmental toxicity Alternate title: Time-course mRNA sequencing on Mahi-mahi embryos Date: Date: Date: 2016-07-08 Date type: Date type code: publication Identifier: Identifier: Code: Anchor: xlink: https://dx.doi.org/10.7266/N7GX48ND title: DOI doi:10.7266/N7GX48ND Abstract: Total mRNA profiles of 24, 48, 96 hpf mahi-mah larvae after slick and source oil exposure were generated by deep sequencing, in triplicate, using Illumina HiSeq2500. Purpose: To help identify molecular mechanisms and pathways potentially involved in the developmental toxicity for fish exposed to Deepwater Horizon (DWH) oil, transcriptomic profiles in mahi-mahi (Coryphaena hippurus) embryos exposed to different DWH oils (source and artificially weathered oil) were evaluated at different critical windows of development using High Throughput Sequencing (HTS). Status: Progress code: completed Point of contact: Responsible party: Individual name: Madeline Munoz-Bustamante Organisation name: University of Miami / Rosenstiel School of Marine and Atmospheric Science Position name: Program Manager Contact info: Contact: Phone: Telephone: Voice: Facsimile: Address: Address: Delivery point: 4600 Rickenbacker Cswy City: Miami Administrative area: Florida Postal code: 33149 Country: USA Electronic mail address: mbustamante@rsmas.miami.edu Role: Role code: pointOfContact Point of contact: Responsible party: Individual name: Daniel Schlenk Organisation name: University of California Riverside / Department of Environmental Sciences Position name: Professor Contact info: Contact: Phone: Telephone: Voice: 9518272018 Facsimile: Address: Address: Delivery point: 900 University Avenue Geology 2258 City: Riverside Administrative area: California Postal code: 92521 Country: USA Electronic mail address: daniel.schlenk@ucr.edu Role: Role code: pointOfContact Point of contact: Responsible party: Individual name: Elvis Genbo Xu Organisation name: University of California Riverside / Department of Environmental Sciences Position name: Postdoctoral Fellow Contact info: Contact: Phone: Telephone: Voice: 9513137643 Facsimile: Address: Address: Delivery point: 900 University Ave City: Riverside Administrative area: California Postal code: 92521 Country: USA Electronic mail address: genboxu@126.com Role: Role code: pointOfContact Descriptive keywords: Keywords: Keyword: Mahi Mahi Keyword: mRNA sequencing Keyword: time-course Keyword: embryos Keyword: Coryphaena hippurus Type: Keyword type code: theme Descriptive keywords: Keywords: Keyword: inapplicable Type: Keyword type code: place Resource constraints: title: Cite As Constraints: Use limitation: Elvis Genbo Xu, Ph.D.. 2016. Dataset for: Transcriptomic responses to Deepwater Horizon oil in mahi-mahi (Coryphaena hippurus) embryos reveals time and oil-dependent linkages between molecular initiating events and developmental toxicity. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7GX48ND Resource constraints: title: CC0 License Legal constraints: Use constraints: Restriction code: licenceUnrestricted Other constraints: This information is released under the Creative Commons license - No Rights Reserved - CC0 1.0 Universal (https://creativecommons.org/publicdomain/zero/1.0/). The person who associated a work with this deed has dedicated the work to the public domain by waiving all of his or her rights to the work worldwide under copyright law, including all related and neighboring rights, to the extent allowed by law. You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission. Resource constraints: title: Liability and Warranty Legal constraints: Other constraints: All materials on this website are made available to GRIIDC and in turn to you "as-is." Content may only be submitted by an individual who represents and warrants that s/he has sufficient rights to be able to make the content available under a CC0 waiver. There is no warranty (expressed or implied) to these materials, their title, accuracy, non-infringement of third party rights, or fitness for any particular purpose, including the performance or results you may obtain from their use. Use these materials at your own risk. Under no circumstances shall GRIIDC be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use or the inability to use either this website or the materials available via this website. If you are dissatisfied with any website feature, content, or terms of use, your sole and exclusive remedy is to discontinue use. Aggregation Info: AggregateInformation: Aggregate Data Set Name: title: Related Publication Citation Citation: Title: Xu, E. G., Mager, E. M., Grosell, M., Pasparakis, C., Schlenker, L. S., Stieglitz, J. D., … Schlenk, D. (2016). Time- and oil-dependent transcriptomic and physiological responses to Deepwater Horizon oil in mahi-mahi (Coryphaena hippurus) embryos and larvae. Environ. Sci. Technol. doi:10.1021/acs.est.6b02205 Date: inapplicable Aggregate Data Set Identifier: title: Related Publication DOI Identifier: Code: Anchor: xlink: https://dx.doi.org/10.1021/acs.est.6b02205 title: DOI doi:10.1021/acs.est.6b02205 Association Type: Association type code: crossReference Aggregation Info: AggregateInformation: Aggregate Data Set Name: title: Related Publication Citation Citation: Title: Xu, E. G., Mager, E. M., Grosell, M., Hazard, E. S., Hardiman, G., & Schlenk, D. (2017). Novel transcriptome assembly and comparative toxicity pathway analysis in mahi-mahi (Coryphaena hippurus) embryos and larvae exposed to Deepwater Horizon oil. Scientific Reports, 7, 44546. doi:10.1038/srep44546 Date: inapplicable Aggregate Data Set Identifier: title: Related Publication DOI Identifier: Code: Anchor: xlink: https://dx.doi.org/10.1038/srep44546 title: DOI doi:10.1038/srep44546 Association Type: Association type code: crossReference Aggregation Info: AggregateInformation: Aggregate Data Set Name: title: Related Publication Citation Citation: Title: Xu, E. G., Mager, E. M., Grosell, M., Stieglitz, J. D., Hazard, E. S., Hardiman, G., & Schlenk, D. (2017). Developmental transcriptomic analyses for mechanistic insights into critical pathways involved in embryogenesis of pelagic mahi-mahi (Coryphaena hippurus). PLOS ONE, 12(7), e0180454. doi:10.1371/journal.pone.0180454 Date: inapplicable Aggregate Data Set Identifier: title: Related Publication DOI Identifier: Code: Anchor: xlink: https://dx.doi.org/10.1371/journal.pone.0180454 title: DOI doi:10.1371/journal.pone.0180454 Association Type: Association type code: crossReference Language: eng; USA Topic category: Topic category code: biota Extent: Extent: Description: Dataset contains strictly laboratory measurements, mahi-mahi broodstock were collected by hook and line near Miami, FL. Supplemental Information: total mRNA profiles, Run, BioSample, Sample name, MBases, Size (MBytes), Experiment, SRA Sample, transcript count, p-value, q-value, GeneID, concentration (g/l), slick = slick oil, mass = source HEWAF oil, Sample, Developmental Stage (24, 48 and 96 hours post fertilization (hpf)), treatment (control = 0 g/L, slick = 1 g/L, mass = 1 g/L)|||||
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Distribution info: Distribution: Distributor: Distributor: Distributor contact: Responsible party: Organisation name: NCBI Contact info: Contact: Phone: Telephone: Voice: 3014962475 Address: Address: Delivery point: National Library of Medicine 8600 Rockville Pike City: Bethesda Administrative area: Maryland Postal code: 20894 Country: USA Electronic mail address: info@ncbi.nlm.nih.gov Online Resource: Online Resource: Linkage: URL: https://www.ncbi.nlm.nih.gov Role: Role code: distributor Distributor format: Format: Name: Version: inapplicable File decompression technique: Distributor transfer options: Digital transfer options: Transfer size: Online: Online Resource: Linkage: URL: http://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP072499 Protocol: http Name: missing Description: missing Function: missing
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Metadata maintenance: Maintenance information: Maintenance and update frequency: unknown Maintenance note: This ISO metadata record was automatically generated from information provided to GRIIDC for dataset: R4.x258.258:0001 on 2020-08-13T19:47:33-05:00
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