DOI: 10.5281/zenodo.4632232
title: Data and data analysis for: Variation in susceptibility among three Caribbean coral species and their algal symbionts indicates Acropora cervicornis is particularly susceptible to elevated nutrients and heat stress

description: Changes in this release: Added color to all graphs to make it easier to track the nutrient treatments Did not drop replicate tank from the models when it was not significant <strong>This repository contains data and data analysis for the manuscript:</strong> Variation in susceptibility among three Caribbean coral species and their algal symbionts indicates the threatened <em>Acropora cervicornis</em> is particularly susceptible to elevated nutrients and heat stress <strong>Authors:</strong> Ana M. Palacio-Castro, Caroline E. Dennison, Stephanie M. Rosales, Andrew C. Baker <strong>Journal:</strong> <em>Coral Reefs</em> doi:XXX <strong>Description:</strong> In this study, we examined the effects of pre-exposure to elevated nutrients (NH4 and NH4 + PO4 for &gt;2 months at 26 °C), followed by heat stress (31.5 °C for 3-weeks) on three Caribbean corals: <em>A. cervicornis</em>, <em>O. faveolata</em>, and <em>S. siderea</em>. We aimed to compare the effects of these combined stressors on coral survivorship, and associated algal symbiont communities (community composition, abundance, and function). <strong>Repository content:</strong> 0.LabNotebooks: Contains daily note entries during the experiment <strong>Acer_Nut- Notebook.pdf:</strong> Pdf document with <em>A. cervicornis</em> notes (collection, maintenance, molecular work... ) <strong>Nut_Ofav-Ssid_NoteBook.pdf:</strong> Pdf document with <em>O. faveolata</em> and <em>S. siderea</em> notes (collection, maintenance, molecular work... ) 1.Temperature: Contains raw temperature data (Day_Tem.csv) and code (Temperature.Rmd) for <strong>Figure 1</strong> 2.Mortality: Contains raw mortality data and code for <strong>Figure 2</strong> <strong>Mortatily_Script.Rmd:</strong> code for survivorship analysis and <strong>Figure 2</strong> Data/<strong>Acer_Mortality.csv:</strong> Raw mortality data for <em>A. cervicornis</em> Data/<strong>Ofav_Mortality.csv:</strong> Raw mortality data for <em>O. faveolata</em> Data/<strong>Ssid_Mortality.csv:</strong> Raw mortality data for <em>S. siderea</em> 3.YII: Contains raw photochemical efficiency (<em>Fv/Fm</em>) data and code for <strong>Figure 3</strong> <strong>YII_Script.Rmd:</strong> code for <em>Fv/Fm</em> analysis and <strong>Figure 3</strong> YII_Data/<strong>All_YII_data.csv:</strong> YII values for all coral species 4.Chla_Sym2: Contains raw values of Chlorophyll-<em>a</em> and Symbiodiniaceae cell counts, as well as code for <strong>Figure 4 and 5</strong> <strong>Blasting.Rmd:</strong> code for Chlorophyll-<em>a</em> and Symbiodiniaceae areal density analysis (<strong>Figures 4 and 5</strong>) Data/<strong>data.csv:</strong> Data and metadata with Chlorophyll-<em>a</em> values (ug Chlorophyll-<em>a</em> cm^-2^ [Chl_a]) and Symbiodiniaceae areal density values (Symbiodiniaceae cells cm^-2^ [Sym.cm2]) 5.SH: Contains raw qPCR values and code to produce the Symbiont to Host cell ratio (S/H). Inside each species folder (<strong>Acer</strong>, <strong>Ofav</strong> and <strong>Ssid</strong>) you can find: <strong>1.spp_SH_calculation.Rmd:</strong> code to calculate the symbiont to host cell ratio using files in <strong>qPCR-Raw/</strong>, and metadata in <strong>Sample_Plates.csv</strong> <strong>2.Spp_Nut_SH_analysis.Rmd:</strong> data analysis of the symbiont to host cell ratio, Durusdinium proportion and figures <strong>S1 (<em>O.faveolata</em>)</strong> and <strong>S1 (<em>S. siderea</em>)</strong> <strong>qPCR-Raw/:</strong> Contains the outputs from each plate run in qPCR