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

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

This repository contains data and data analysis for the manuscript:

Variation in susceptibility among three Caribbean coral species and their algal symbionts indicates the threatened Acropora cervicornis is particularly susceptible to elevated nutrients and heat stress

Authors: Ana M. Palacio-Castro, Caroline E. Dennison, Stephanie M. Rosales, Andrew C. Baker

Journal: Coral Reefs doi:XXX

Description:

In this study, we examined the effects of pre-exposure to elevated nutrients (NH4 and NH4 + PO4 for >2 months at 26 °C), followed by heat stress (31.5 °C for 3-weeks) on three Caribbean corals: A. cervicornis, O. faveolata, and S. siderea.

We aimed to compare the effects of these combined stressors on coral survivorship, and associated algal symbiont communities (community composition, abundance, and function).

Repository content:

0.LabNotebooks: Contains daily note entries during the experiment

Acer_Nut- Notebook.pdf: Pdf document with A. cervicornis notes (collection, maintenance, molecular work... )

Nut_Ofav-Ssid_NoteBook.pdf: Pdf document with O. faveolata and S. siderea notes (collection, maintenance, molecular work... )

1.Temperature:

Contains raw temperature data (Day_Tem.csv) and code (Temperature.Rmd) for Figure 1

2.Mortality: Contains raw mortality data and code for Figure 2

Mortatily_Script.Rmd: code for survivorship analysis and Figure 2

Data/Acer_Mortality.csv: Raw mortality data for A. cervicornis

Data/Ofav_Mortality.csv: Raw mortality data for O. faveolata

Data/Ssid_Mortality.csv: Raw mortality data for S. siderea

3.YII:

Contains raw photochemical efficiency (Fv/Fm) data and code for Figure 3

YII_Script.Rmd: code for Fv/Fm analysis and Figure 3

YII_Data/All_YII_data.csv: YII values for all coral species

4.Chla_Sym2: Contains raw values of Chlorophyll-a and Symbiodiniaceae cell counts, as well as code for Figure 4 and 5

Blasting.Rmd: code for Chlorophyll-a and Symbiodiniaceae areal density analysis (Figures 4 and 5)

Data/data.csv: Data and metadata with Chlorophyll-a values (ug Chlorophyll-a 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 (Acer, Ofav and Ssid) you can find:

1.spp_SH_calculation.Rmd: code to calculate the symbiont to host cell ratio using files in qPCR-Raw/, and metadata in Sample_Plates.csv

2.Spp_Nut_SH_analysis.Rmd: data analysis of the symbiont to host cell ratio, Durusdinium proportion and figures S1 (O.faveolata) and S1 (S. siderea)

qPCR-Raw/: Contains the outputs from each plate run in qPCR