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    • Transcriptomic Response of Juvenile Red King Crab, Paralithodes Camtschaticus, to the Interactive Effects of Ocean Acidification and Warming (NCEI Accession 0170754)

    Metadata Updated: December 1, 2023

    Impacts of elevated carbon dioxide on marine ecosystems depend on physiological responses to consequential decreased pH and increased temperature. Responses to these environmental factors vary among species and life stages, and interactive effects can be significant. To study effects of decreased pH and increased temperature on juvenile red king crab (RKC, Paralithodes camtschaticus) we exposed individuals to three levels of temperature: 11 degrees Celsius (ambient), 13 degrees Celsius, and 14 degrees Celsius, crossed with three levels of pH: 8.0, 7.8 and 7.5, for a total of nine treatments. To better understand the effect of these environmental changes at the level of genome regulation, we analyzed total RNA of whole crabs using Illumina-based RNA-seq whole-transcriptome sequencing. We assembled a RKC transcriptome using Trinity, annotated the transcriptome using Trinotate, and estimated expression levels using bowtie2, samtools and eXpress. Differentially expressed genes were identified using EdgeR. Genes were clustered by expression patterns. Interactive effects were determined by comparing sets of differentially expressed genes using three statistical models to examine the effect of temperature, the effect of pH, and the interaction between temperature and pH in EdgeR. The largest set of differentially expressed genes encoded proteins involved in regulation of extracellular and cuticular structures, including chitin-binding and calcification related proteins.

    Access & Use Information

    License: No license information was provided. If this work was prepared by an officer or employee of the United States government as part of that person's official duties it is considered a U.S. Government Work.

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    Dates

    Metadata Date 2023-09-28T13:06:21Z
    Metadata Created Date March 19, 2021
    Metadata Updated Date December 1, 2023
    Reference Date(s) April 18, 2019 (publication)
    Frequency Of Update asNeeded

    Metadata Source

    Harvested from NOAA/NESDIS/ncei/accessions

    Other Data Resources

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    Additional Metadata

    Resource Type Nongeographicdataset
    Metadata Date 2023-09-28T13:06:21Z
    Metadata Created Date March 19, 2021
    Metadata Updated Date December 1, 2023
    Reference Date(s) April 18, 2019 (publication)
    Responsible Party (Point of Contact)
    Contact Email
    Guid gov.noaa.nodc:0170754
    Access Constraints Cite as: Stillman, Jonathon H.; Fay, Scott A.; Swiney, Katherine M.; Foy, Robert J. (2019). Transcriptomic Response of Juvenile Red King Crab, Paralithodes Camtschaticus, to the Interactive Effects of Ocean Acidification and Warming (NCEI Accession 0170754). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://doi.org/10.25921/gv7k-9315. Accessed [date]., Use liability: NOAA and NCEI cannot provide any warranty as to the accuracy, reliability, or completeness of furnished data. Users assume responsibility to determine the usability of these data. The user is responsible for the results of any application of this data for other than its intended purpose.
    Bbox East Long -152.3965
    Bbox North Lat 57.796
    Bbox South Lat 57.796
    Bbox West Long -152.3965
    Coupled Resource
    Frequency Of Update asNeeded
    Graphic Preview Description Preview graphic
    Graphic Preview File https://www.ncei.noaa.gov/access/metadata/landing-page/bin/gfx?id=gov.noaa.nodc:0170754
    Graphic Preview Type PNG
    Harvest Object Id 88c10d84-6509-4cde-812c-4bf72bea73b5
    Harvest Source Id c084a438-6f6b-470d-93e0-16aeddb9f513
    Harvest Source Title NOAA/NESDIS/ncei/accessions
    Licence accessLevel: Public
    Lineage
    Metadata Language eng
    Metadata Type geospatial
    Old Spatial {"type": "Point", "coordinates": [-152.3965, 57.796]}
    Progress completed
    Spatial Data Service Type
    Spatial Reference System
    Spatial Harvester True
    Temporal Extent Begin 2012-08-07
    Temporal Extent End 2013-01-29

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