San Antonio, Christine; Poynton, Helen; Krick, Keegan; Hannigan, Robyn (2024): Seawater carbonate chemistry and calcification and innate immune system gene expression in juvenile American lobsters, Homarus americanus [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.974334
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Published: 2024-12-30 • DOI registered: 2025-01-28
Abstract:
We evaluated the effects of OA and OW on early benthic juvenile lobster transcriptomics using RNA sequencing and RT-qPCR through two distinct aquarium experiments. Lobsters were reared under OW/OA conditions aligned with values predicted for 2100: decrease in pH by 0.3–0.4 units; mean sea surface warming of 2.89 ◦C. RNA was isolated from carapace hypodermal tissue in both experiments.
This dataset is included in the OA-ICC data compilation maintained in the framework of the IAEA Ocean Acidification International Coordination Centre (see https://oa-icc.ipsl.fr). Original data were extracted from tables in the related paper (see Related to) by the OA-ICC data curator. In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2024) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2024-12-30.
Related to:
San Antonio, Christine; Poynton, Helen; Krick, Keegan; Hannigan, Robyn (2025): Ocean warming and acidification alter calcification and innate immune system gene expression in juvenile American lobsters, Homarus americanus. Comparative Biochemistry and Physiology Part D: Genomics & Proteomics, 54, 101404, https://doi.org/10.1016/j.cbd.2024.101404
References:
Nisumaa, Anne-Marin; Pesant, Stephane; Bellerby, Richard G J; Delille, Bruno; Middelburg, Jack J; Orr, James C; Riebesell, Ulf; Tyrrell, Toby; Wolf-Gladrow, Dieter A; Gattuso, Jean-Pierre (2010): EPOCA/EUR-OCEANS data compilation on the biological and biogeochemical responses to ocean acidification. Earth System Science Data, 2(2), 167-175, https://doi.org/10.5194/essd-2-167-2010
Yang, Yan; Brockmann, Patrick; Galdino, Carolina; Schindler, Uwe; Gazeau, Frédéric (2024): An update of data compilation on the biological response to ocean acidification and overview of the OA-ICC data portal. Earth System Science Data, 16(8), 3771-3780, https://doi.org/10.5194/essd-16-3771-2024
Yang, Yan; Hansson, L; Gattuso, Jean-Pierre (2016): Data compilation on the biological response to ocean acidification: an update. Earth System Science Data, 8(1), 79-87, https://doi.org/10.5194/essd-8-79-2016
Related code / software:
Gattuso, Jean-Pierre; Epitalon, Jean-Marie; Lavigne, Héloïse; Orr, James; Gentili, Bernard; Hagens, Mathilde; Hofmann, Andreas; Mueller, Jens-Daniel; Proye, Aurélien; Rae, James; Soetaert, Karline (2024): seacarb: seawater carbonate chemistry with R. R package version 3.3.3. https://cran.r-project.org/web/packages/seacarb/index.html
Further details:
Transcriptome sequence of American Lobster under climate change scenarios (2024). Bioproject, https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA1195061
Project(s):
Parameter(s):
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
80 data points