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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.

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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

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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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