Wyatt Shea N University of Victoria http://www.uvic.ca/ https://ror.org/04s5mat29 McNabb Brandon J 0000-0003-3996-5099 University of Victoria http://www.uvic.ca/ https://ror.org/04s5mat29 Varela Diana E dvarela@sfu.ca University of Victoria http://www.uvic.ca/ https://ror.org/04s5mat29 2025 Seawater carbonate chemistry and morphology and nutrient physiology of the cosmopolitan marine diatom Thalassiosira rotula dataset https://doi.org/10.1594/PANGAEA.974439 2025-01-09T02:45:22 We investigated the effect of decreased pH on the morphology and nutrient physiology of the cosmopolitan marine diatom Thalassiosira rotula (CCMP3362) by acclimating unialgal cultures to two different CO2 gas concentrations under optimal light, temperature and nutrient conditions. 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 downloaded from UVic Research Data Collection (see Source) 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 2025-01-08. Wyatt Shea N McNabb Brandon J 0000-0003-3996-5099 Varela Diana E dvarela@sfu.ca 2024 Morphological and physiological responses of the cosmopolitan marine diatom Thalassiosira rotula to acidification journal article Diatom Research 39(2) https://doi.org/10.1080/0269249X.2024.2369049 61-74 Wyatt Shea N McNabb Brandon J 0000-0003-3996-5099 Varela Diana E dvarela@sfu.ca 2024 Morphological and physiological responses of the cosmopolitan marine diatom Thalassiosira rotula to acidification dataset Borealis https://doi.org/10.5683/SP3/IUEQIN Nisumaa Anne-Marin annemarin@gmail.com Pesant Stephane pesant@ebi.ac.uk 0000-0002-4936-5209 Bellerby Richard G J Richard.Bellerby@niva.no http://www2.bjerknes.uib.no/pages.asp?pid=21&kat=5&lang=2 Delille Bruno bruno.delille@uliege.be 0000-0003-0502-8101 Middelburg Jack J jmiddelburg@nioo.knaw.nl 0000-0003-3601-9072 Orr James C j.orr@iaea.org 0000-0002-8707-7080 Riebesell Ulf uriebesell@geomar.de https://www.geomar.de/uriebesell/ 0000-0002-9442-452X Tyrrell Toby t.tyrrell@noc.soton.ac.uk Wolf-Gladrow Dieter A dieter.wolf-gladrow@awi.de https://www.awi.de/en/about-us/organisation/staff/single-view/dieter-wolf-gladrow.html 0000-0001-9531-8668 Gattuso Jean-Pierre jean-pierre.gattuso@imev-mer.fr 0000-0002-4533-4114 2010 EPOCA/EUR-OCEANS data compilation on the biological and biogeochemical responses to ocean acidification journal article Earth System Science Data 2(2) https://doi.org/10.5194/essd-2-167-2010 167-175 Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 Brockmann Patrick Galdino Carolina Schindler Uwe uschindler@pangaea.de https://blog.thetaphi.de/ 0000-0002-1900-4162 Gazeau Frédéric frederic.gazeau@imev-mer.fr 0000-0001-8807-4597 2024 An update of data compilation on the biological response to ocean acidification and overview of the OA-ICC data portal journal article Earth System Science Data 16(8) https://doi.org/10.5194/essd-16-3771-2024 3771-3780 Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 Hansson L Gattuso Jean-Pierre jean-pierre.gattuso@imev-mer.fr 0000-0002-4533-4114 2016 Data compilation on the biological response to ocean acidification: an update journal article Earth System Science Data 8(1) https://doi.org/10.5194/essd-8-79-2016 79-87 Gattuso Jean-Pierre jean-pierre.gattuso@imev-mer.fr 0000-0002-4533-4114 Epitalon Jean-Marie Lavigne Héloïse hlavigne@naturalsciences.be Orr James James.Orr@lsce.ipsl.fr Gentili Bernard bernard.gentili@orange.fr http://omtab.obs-vlfr.fr/personnes/z_gent_be/gentili.php Hagens Mathilde 0000-0003-3980-1043 Hofmann Andreas Mueller Jens-Daniel Proye Aurélien Rae James 0000-0003-3904-2526 Soetaert Karline karline.soetaert@nioz.nl 0000-0003-4603-7100 2024 seacarb: seawater carbonate chemistry with R. R package version 3.3.3 other https://cran.r-project.org/web/packages/seacarb/index.html OA-ICC Ocean Acidification International Coordination Centre https://www.iaea.org/services/oa-icc/science-and-collaboration/data-access-and-management International Atomic Energy Agency IAEA http://www.iaea.org https://ror.org/02zt1gg83 403 CC-BY-4.0 Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ Type of study Study type type Varela Diana E dvarela@sfu.ca Study type Species, unique identification Species UID species Varela Diana E dvarela@sfu.ca Species UID Species, unique identification (URI) Species UID (URI) species Varela Diana E dvarela@sfu.ca Species UID (URI) Species, unique identification (Semantic URI) Species UID (Semantic URI) species Varela Diana E dvarela@sfu.ca Species UID (Semantic URI) Sample ID Sample ID Varela Diana E dvarela@sfu.ca Sample ID Treatment: partial pressure of carbon dioxide T:pCO2 µatm treatment partial pressure carbon dioxide http://purl.obolibrary.org/obo/CHEBI_16526 Energy Density http://dbpedia.org/resource/Energy_density Force Per Area Varela Diana E dvarela@sfu.ca T:pCO2 [µatm] pH, total scale pHT Varela Diana E dvarela@sfu.ca pHT Growth rate µ 1/day growth rate http://purl.obolibrary.org/obo/PATO_0001492 Frequency http://dbpedia.org/resource/Frequency Varela Diana E dvarela@sfu.ca µ [1/day] Cell density Cells #/ml cell density Varela Diana E dvarela@sfu.ca Cells [#/ml] Cell, length Cell l µm cell Length L http://dbpedia.org/resource/Length Varela Diana E dvarela@sfu.ca Cell l [µm] Cell, diameter Cell diam µm cell diameter http://purl.obolibrary.org/obo/PATO_0001334 Length L http://dbpedia.org/resource/Length Varela Diana E dvarela@sfu.ca Cell diam [µm] Cell surface area Cell surface area µm**2 Area http://dbpedia.org/resource/Area Varela Diana E dvarela@sfu.ca Cell surface area [µm**2] Cell biovolume Cell biovol µm**3 Volume http://dbpedia.org/resource/Volume Varela Diana E dvarela@sfu.ca Cell biovol [µm**3] Cell surface area/cell volume ratio Cell SA/cell vol 1/µm ratio Inverse Length Varela Diana E dvarela@sfu.ca Cell SA/cell vol [1/µm] Chlorophyll a Chl a µg/l hdl:10013/epic.32187.d001 chlorophyll a http://purl.obolibrary.org/obo/CHEBI_18230 Density http://dbpedia.org/resource/Density Varela Diana E dvarela@sfu.ca Chl a [µg/l] Carbon, organic, particulate POC µmol/l carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 organic particulate Molar Concentration Varela Diana E dvarela@sfu.ca POC [µmol/l] Nitrogen, organic, particulate PON µmol/l nitrogen N https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:25555 organic particulate Molar Concentration Varela Diana E dvarela@sfu.ca PON [µmol/l] Biogenic silica bSiO2 µmol/l biogenic silica http://purl.obolibrary.org/obo/CHEBI_64389 Molar Concentration Varela Diana E dvarela@sfu.ca bSiO2 [µmol/l] Carbon/Nitrogen ratio C/N mol/mol carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 nitrogen N https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:25555 ratio Varela Diana E dvarela@sfu.ca C/N [mol/mol] Silicon/Carbon, molar ratio Si/C silicon Si https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27573 carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 ratio Varela Diana E dvarela@sfu.ca Si/C Silicon/Nitrogen, molar ratio Si/N silicon Si https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27573 nitrogen N https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:25555 ratio Varela Diana E dvarela@sfu.ca Si/N Carbon, organic, particulate/Chlorophyll a ratio POC/Chl a carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 organic particulate chlorophyll a http://purl.obolibrary.org/obo/CHEBI_18230 ratio Varela Diana E dvarela@sfu.ca POC/Chl a Carbon utilization rate rhoC µmol/l/day Reaction Rate Varela Diana E dvarela@sfu.ca rhoC [µmol/l/day] Nitrate utilization rate rhoNO3 µmol/l/day Reaction Rate Varela Diana E dvarela@sfu.ca rhoNO3 [µmol/l/day] Silicon utilization rate rhoSi µmol/l/day Reaction Rate Varela Diana E dvarela@sfu.ca rhoSi [µmol/l/day] Carbon utilization/nitrate utilization ratio rhoC/rhoNO3 ratio Varela Diana E dvarela@sfu.ca rhoC/rhoNO3 Silicon utilization/carbon utilization ratio rhoSi/rhoC ratio Varela Diana E dvarela@sfu.ca rhoSi/rhoC Silicon utilization/nitrate utilization, ratio rhoSi/rhoNO3 ratio Varela Diana E dvarela@sfu.ca rhoSi/rhoNO3 Chlorophyll a Chl a fg/µm**3 chlorophyll a http://purl.obolibrary.org/obo/CHEBI_18230 Density http://dbpedia.org/resource/Density Varela Diana E dvarela@sfu.ca Chl a [fg/µm**3] Carbon, organic, particulate POC fg/µm**3 carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 organic particulate Volume http://dbpedia.org/resource/Volume Density http://dbpedia.org/resource/Density Varela Diana E dvarela@sfu.ca POC [fg/µm**3] Nitrogen, organic, particulate PON fg/µm**3 nitrogen N https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:25555 organic particulate Volume http://dbpedia.org/resource/Volume Density http://dbpedia.org/resource/Density Varela Diana E dvarela@sfu.ca PON [fg/µm**3] Biogenic silica quota, per volume bSiO2/V fmol/µm**3 Volume http://dbpedia.org/resource/Volume Molar Concentration Varela Diana E dvarela@sfu.ca bSiO2/V [fmol/µm**3] Biogenic silica per surface area bSiO2/SA fmol/µm*2 biogenic silica http://purl.obolibrary.org/obo/CHEBI_64389 surface area https://en.wikipedia.org/wiki/Surface_area Varela Diana E dvarela@sfu.ca bSiO2/SA [fmol/µm*2] Carbon utilization rate, per volume rhoC/V fmol/µm**3/day Volume http://dbpedia.org/resource/Volume Reaction Rate Varela Diana E dvarela@sfu.ca rhoC/V [fmol/µm**3/day] Nitrate utilization rate, per volume rhoNO3/V fmol/µm**3/day Volume http://dbpedia.org/resource/Volume Reaction Rate Varela Diana E dvarela@sfu.ca rhoNO3/V [fmol/µm**3/day] Silicon utilization rate, per volume rhoSi/V fmol/µm**3/day Volume http://dbpedia.org/resource/Volume Reaction Rate Varela Diana E dvarela@sfu.ca rhoSi/V [fmol/µm**3/day] Chlorophyll a per cell Chl a/cell fmol/# chlorophyll a http://purl.obolibrary.org/obo/CHEBI_18230 cell Varela Diana E dvarela@sfu.ca Chl a/cell [fmol/#] Carbon, organic, particulate, per cell POC/cell ng/# carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 organic particulate cell Varela Diana E dvarela@sfu.ca POC/cell [ng/#] Nitrogen, organic, particulate, per cell PON/cell pg/# nitrogen N https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:25555 organic particulate cell Varela Diana E dvarela@sfu.ca PON/cell [pg/#] Biogenic silica, per cell bSiO2/cell fmol/# biogenic silica http://purl.obolibrary.org/obo/CHEBI_64389 cell Varela Diana E dvarela@sfu.ca bSiO2/cell [fmol/#] Carbon utilization rate, per cell rhoC/cell pmol/#/day cell Varela Diana E dvarela@sfu.ca rhoC/cell [pmol/#/day] Nitrate utilization rate, per cell rhoNO3/cell pmol/#/day cell Varela Diana E dvarela@sfu.ca rhoNO3/cell [pmol/#/day] Silicon utilization rate, per cell rhoSi/cell pmol/#/day cell Varela Diana E dvarela@sfu.ca rhoSi/cell [pmol/#/day] Chlorophyll a, per mass carbon Chl a/C µg/µmol chlorophyll a http://purl.obolibrary.org/obo/CHEBI_18230 Varela Diana E dvarela@sfu.ca Chl a/C [µg/µmol] Carbon, organic, particulate, per mass carbon POC/C µmol/µmol carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 organic particulate Varela Diana E dvarela@sfu.ca POC/C [µmol/µmol] Nitrogen, organic, particulate, per mass carbon PON/C µmol/µmol nitrogen N https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:25555 organic particulate Varela Diana E dvarela@sfu.ca PON/C [µmol/µmol] Biogenic silica quota, per mass carbon bSiO2/C µmol/µmol Varela Diana E dvarela@sfu.ca bSiO2/C [µmol/µmol] Carbon utilization rate, per mass carbon rhoC/C µmol/µmol/day Frequency http://dbpedia.org/resource/Frequency Varela Diana E dvarela@sfu.ca rhoC/C [µmol/µmol/day] Nitrate utilization rate, per mass carbon rhoNO3/C µmol/µmol/day Frequency http://dbpedia.org/resource/Frequency Varela Diana E dvarela@sfu.ca rhoNO3/C [µmol/µmol/day] Silicon utilization rate, per mass carbon rhoSi/C µmol/µmol/day Frequency http://dbpedia.org/resource/Frequency Varela Diana E dvarela@sfu.ca rhoSi/C [µmol/µmol/day] Temperature, water Temp °C Temperature Θ http://dbpedia.org/resource/Temperature water http://purl.obolibrary.org/obo/CHEBI_15377 Varela Diana E dvarela@sfu.ca Temp [°C] Salinity Sal salinity http://purl.obolibrary.org/obo/PATO_0085001 Varela Diana E dvarela@sfu.ca Sal Phosphate [PO4]3- µmol/kg phosphate http://purl.obolibrary.org/obo/CHEBI_26020 Molar Concentration Varela Diana E dvarela@sfu.ca [PO4]3- [µmol/kg] Silicate Si(OH)4 µmol/kg Molar Concentration Varela Diana E dvarela@sfu.ca Si(OH)4 [µmol/kg] pH, total scale pHT Potentiometric Varela Diana E dvarela@sfu.ca pHT (Potentiometric) pH, standard deviation pH std dev ± standard deviation std dev https://en.wikipedia.org/wiki/Standard_deviation Varela Diana E dvarela@sfu.ca pH std dev [±] Carbon, inorganic, dissolved DIC µmol/kg carbon C https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:27594 dissolved http://purl.obolibrary.org/obo/PATO_0001986 Molar Concentration Varela Diana E dvarela@sfu.ca DIC [µmol/kg] Alkalinity, total AT µmol/kg total https://www.oxforddictionaries.com/definition/american_english/total Molar Concentration Varela Diana E dvarela@sfu.ca AT [µmol/kg] pH, total scale pHT Calculated using CO2SYS Varela Diana E dvarela@sfu.ca pHT (Calculated using CO2SYS) Partial pressure of carbon dioxide (water) at sea surface temperature (wet air) pCO2water_SST_wet µatm partial pressure carbon dioxide http://purl.obolibrary.org/obo/CHEBI_16526 water http://purl.obolibrary.org/obo/CHEBI_15377 Energy Density http://dbpedia.org/resource/Energy_density Force Per Area Calculated using CO2SYS Varela Diana E dvarela@sfu.ca using CT and TA measurements pCO2water_SST_wet [µatm] (using CT and TA measurements,...) Partial pressure of carbon dioxide (water) at sea surface temperature (wet air) pCO2water_SST_wet µatm partial pressure carbon dioxide http://purl.obolibrary.org/obo/CHEBI_16526 water http://purl.obolibrary.org/obo/CHEBI_15377 Energy Density http://dbpedia.org/resource/Energy_density Force Per Area Calculated using CO2SYS Varela Diana E dvarela@sfu.ca using only the TA and measured electrode pHT pCO2water_SST_wet [µatm] (using only the TA and measure...) Carbonate system computation flag CSC flag Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 CSC flag pH, total scale pHT Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 pHT Carbon dioxide CO2 µmol/kg carbon dioxide http://purl.obolibrary.org/obo/CHEBI_16526 Molar Concentration Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 CO2 [µmol/kg] Fugacity of carbon dioxide (water) at sea surface temperature (wet air) fCO2water_SST_wet µatm fugacity https://en.wikipedia.org/wiki/Fugacity carbon dioxide http://purl.obolibrary.org/obo/CHEBI_16526 water http://purl.obolibrary.org/obo/CHEBI_15377 Energy Density http://dbpedia.org/resource/Energy_density Force Per Area Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 fCO2water_SST_wet [µatm] Partial pressure of carbon dioxide (water) at sea surface temperature (wet air) pCO2water_SST_wet µatm partial pressure carbon dioxide http://purl.obolibrary.org/obo/CHEBI_16526 water http://purl.obolibrary.org/obo/CHEBI_15377 Energy Density http://dbpedia.org/resource/Energy_density Force Per Area Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 pCO2water_SST_wet [µatm] Bicarbonate ion [HCO3]- µmol/kg Molar Concentration Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 [HCO3]- [µmol/kg] Carbonate ion [CO3]2- µmol/kg Molar Concentration Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 [CO3]2- [µmol/kg] Aragonite saturation state Omega Arg aragonite saturation state Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 Omega Arg Calcite saturation state Omega Cal Yang Yan yangyan@xmu.edu.cn http://mel.xmu.edu.cn/en/ 0000-0003-4900-5606 Omega Cal CurationLevelC Enhanced curation https://wiki.pangaea.de/wiki/Curation_levels citable Biomass/Abundance/Elemental composition Bottles or small containers/Aquaria (<20 L) Chromista Growth/Morphology Heterokontophyta Laboratory experiment Laboratory strains Not applicable Ocean acidification Other metabolic rates Pelagos Phytoplankton Primary production/Photosynthesis Single species Thalassiosira rotula author10403 author10414 author107699 author107700 author109241 author109242 author21564 author21728 author22144 author22148 author22159 author22414 author22445 author24922 author27217 author28754 author29138 author29176 author32865 author34379 author39204 author48750 author51658 author55788 author56746 author59171 author59172 author59173 author69140 curlevel30 inst20253 inst21116 journal16590 journal4465 license21 method557 method6506 param103569 param105041 param105045 param128289 param130787 param130823 param132272 param132297 param132309 param138558 param139627 param151033 param16065 param171883 param173149 param185520 param18664 param18846 param2136 param25505 param25506 param49312 param49313 param510559 param510679 param520676 param520680 param526818 param5342 param534369 param536400 param536401 param536402 param536403 param536404 param536405 param536406 param536407 param536408 param536409 param536410 param536411 param536412 param536413 param536414 param536415 param536416 param536417 param536418 param536419 param54293 param54294 param716 param717 param80104 param80107 param80114 param82111 param82364 param82365 param82366 param87073 param87459 pi21728 pi48750 project4173 ref124625 ref128879 ref131383 ref131384 ref31273 ref79258 term1073209 term1073484 term1073490 term1073493 term1073584 term1073594 term1073966 term2606205 term2663825 term2698012 term37764 term38253 term38338 term38477 term38478 term38548 term38841 term38844 term38858 term38860 term38871 term38887 term38889 term38890 term38892 term39425 term40551 term40552 term40646 term41013 term43298 term43704 term43770 term43792 term43821 term43834 term43838 term43854 term43863 term43972 term43984 term43995 term44030 term44031 term44419 term48166 term49384 term49506 term50714 term71036 term73928 term74199