This README_Onthank_et_al_2021.txt file was generated on 2020-12-01 by Kirt L. Onthank GENERAL INFORMATION 1. Title of Dataset: Impact of short- and long-term exposure to elevated seawater pCO2 on metabolic rate and hypoxia tolerance in Octopus rubescens 2. Author Information A. Principal Investigator Contact Information Name: Kirt L. Onthank Institution: Walla Walla University Address: Department of Biological Sciences, 115 W Whitman Dr., College Place, WA 99324 Email: Kirt.Onthank@wallawalla.edu 3. Date of data collection: 2014-06-01 - 2015-08-30 4. Geographic location of data collection: Skagit County and Island County, Washington, USA 5. Information about funding sources that supported the collection of the data: This work was funded by a grant from the M.J. Murdock Charitable Trust (grant 2013260:MNL:2/27/2014). SHARING/ACCESS INFORMATION 1. Licenses/restrictions placed on the data: Creative Commons Attribution 4.0 (https://creativecommons.org/licenses/by/4.0/legalcode) 2. Links to publications that cite or use the data: https://www.journals.uchicago.edu/doi/10.1086/712207 3. Links to other publicly accessible locations of the data: NA 4. Links/relationships to ancillary data sets: NA 5. Was data derived from another source? yes/no No A. If yes, list source(s): 6. Recommended citation for this dataset: Onthank KL, Trueblood LA, Schrock-Duff T, Kore LG (2021) Impact of short- and long-term exposure to elevated seawater pCO2 on metabolic rate and hypoxia tolerance in Octopus rubescens. Physiological and Biochemical Zoology 94(1):1-11. DATA & FILE OVERVIEW 1. File List: Pcrit_2014.csv Seawater_ph_2015.csv Shapefiles.zip Long_Term_RMR_2014.csv Short_Term_RMR_2014.csv Octopus_hypercapnia.pdf Octopus_hypercapnia.Rmd treatment_carbonate_2014.csv GPS_waypoints.zip Pcrit_Analysis.pdf Pcrit_data.zip Pcrit_Analysis.Rmd 2. Relationship between files, if important: RMarkdown Analysis files Octopus_hypercapnia.Rmd Octopus_hypercapnia.pdf is the knitted version of this markdown. Pcrit_Analysis.Rmd Pcrit_Analysis.pdf is the knitted version of this markdown. Datasets Pcrit_2014.csv Seawater_ph_2015.csv Shapefiles.zip Long_Term_RMR_2014.csv Short_Term_RMR_2014.csv treatment_carbonate_2014.csv GPS_waypoints.zip Pcrit_data.zip The File "Octopus_hypercapnia.Rmd" requires the following files: Seawater_ph_2015.csv Shapefiles.zip Long_Term_RMR_2014.csv Short_Term_RMR_2014.csv GPS_waypoints.zip The File "Pcrit_Analysis.Rmd" requires the following files: Pcrit_data.zip 3. Additional related data collected that was not included in the current data package: NA 4. Are there multiple versions of the dataset? yes/no No DATA-SPECIFIC INFORMATION FOR: Pcrit_2014.csv This dataset contains the critical oxygen pressures measured for each octopus in the study. This dataset will actually be generated from the raw data in the Pcrit_data.zip compressed directory using the commands in the Pcrit_Analysis.Rmd file. 1. Number of variables: 3 2. Number of cases/rows: 14 3. Variable List: octo: This is an identifier for the individual octopus Pc: critical oxygen pressure measured for that specific octopus pco2: treatment carbon dioxide partial pressure 4. Missing data codes: NA 5. Specialized formats or other abbreviations used: DATA-SPECIFIC INFORMATION FOR: Seawater_ph_2015.csv This dataset contains the in-situ seawater pH values determined for various geographic locations near Rosario Beach Marine Laboratory in the Salish Sea. 1. Number of variables: 5 2. Number of cases/rows: 59 3. Variable List: station: ID of location of pH measurement. This ID matches IS in the GPS_waypoints gpx files level: are the measurements from shallow or deep samples s: salinity t: temperature ph: pH measureed by spectrophotometric pH method. 4. Missing data codes: NA 5. Specialized formats or other abbreviations used: DATA-SPECIFIC INFORMATION FOR: Pcrit_data.zip This compressed directory includes raw log files from a PyroScience Firesting O2 oxygen meter. Information on fields can be found in the FirestingO2 manual: https://www.pyroscience.com/en/downloads/legacy?file=files/website_data/Downloads/Manuals/Manual_FireStingTO2.pdf&cid=16920 DATA-SPECIFIC INFORMATION FOR: Shapefiles.zip This compressed directory includes the shapefiles necessary to produce the maps in figures that appear in this paper. For a technical description of shapefiles, see http://www.esri.com/library/whitepapers/pdfs/shapefile.pdf. Specifically, these files contain coastlines of the regions of the study. DATA-SPECIFIC INFORMATION FOR: Long_Term_RMR_2014.csv This dataset contains the routine metabolic rates measure for octopuses in long-term treatments (either control or elevated CO2). 1. Number of variables: 8 2. Number of cases/rows: 20 3. Variable List: date: The date the routine metabolic rate measurement was taken. octo: The octopus ID from which the routine metabolic rate was taken. mass: The mass of the octopus in grams. treat: The treatment the octopus was in. week: The number of weeks the octopus has been in the treatment when the routine metabolic rate measurement was taken. resp_mean: The mean routine respiration rate taken over a continuous 20 hour period (23 hours in the respirometer minus the first three hours). resp_sd: The standard deviation of routine respiration rate taken over a continuous 20 hour period (23 hours in the respirometer minus the first three hours). pco2: The carbon dioxide pressure of the treatment the octopus was in in microatmospheres 4. Missing data codes: NA 5. Specialized formats or other abbreviations used: DATA-SPECIFIC INFORMATION FOR: Short_Term_RMR_2014.csv This dataset contains routine metabolic rate measurements for octopuses after short-term exposure to treatments (<24hrs) 1. Number of variables: 6 2. Number of cases/rows: 44 3. Variable List: octopusID: Identification of the octopus. mass: mass of the octopus in grams. pco2: the carbon dioxide partial pressure (pCO2) of the treatment. resp: the mean routine metabolic rate (RMR). dataset: This field indicates which dataset a measurement belongs to. Data was collected in 2014 by Dr. Lloyd Trueblood ("l" in the dataset field), or in 2015 by Dr. Kirt Onthank ("k" in the dataset field). run: RMR was measured twice for each octopus, once at a low pCO2 and again at a high pCO2. This field indicates if this was the first or second RMR measurement on this octopus. 4. Missing data codes: 5. Specialized formats or other abbreviations used: DATA-SPECIFIC INFORMATION FOR: treatment_carbonate_2014.csv 1. Number of variables: 7 2. Number of cases/rows: 36 3. Variable List: dates, date on which measurements were taken. ph_low, pH of low pH treatment on the measurement date using the m-cresol purple spectrophotometric method alk_low, total alkalinity of the low pH treatment on the measurement date using the open-cell titration method. ph_high, pH of high pH treatment on the measurement date using the m-cresol purple spectrophotometric method alk_high, total alkalinity of the high pH treatment on the measurement date using the open-cell titration method. ph_sw, pH of the treatment kept in flow-through seawater system on the measurement date using the m-cresol purple spectrophotometric method alk_sw, total alkalinity of the treatment kept in flow-through seawater system on the measurement date using the open-cell titration method. 4. Missing data codes: 5. Specialized formats or other abbreviations used: DATA-SPECIFIC INFORMATION FOR: GPS_waypoints.zip This compressed directory contains geographic coordinates for each pH sampling location in .gpx format. Information on the gpx format can be found at https://www.topografix.com/gpx.asp. Point names in these files correspond to the "station" variable in Seawater_ph_2015.csv.