This repository contains the data and code for the meta-analysis conducted in:
“A meta‑analysis of the stony coral tissue loss disease microbiome finds key bacteria in unaffected and lesion tissue in diseased colonies”
S. M. Rosales et al. (2025), ISME Communications :contentReference[https://doi.org/10.1038/s43705-023-00220-0]
- 🔎 Largest meta-analysis to date on the microbiome of Stony Coral Tissue Loss Disease (SCTLD)
- Examined 17 studies (16 SCTLD + 1 Rapid Tissue Loss)
- Compared microbiomes in:
- Apparently Healthy (AH) corals across different disease zones (vulnerable, endemic, epidemic)
- Diseased coral tissue – Diseased Unaffected (DU) vs. Disease Lesion (DL)
- 🧬 Key findings:
- AH corals in endemic/epidemic zones had bacterial changes that might indicate compromised health or resistance
- DU samples: dominated by Flavobacteriales and Synechococcales
- DL samples: enriched in Rhodobacterales and Peptostreptococcales–Tissierellales, with the latter potentially involved in tissue loss via phospholipase C/α-toxin pathways.
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Data/- Compiled ASV tables, taxonomy assignments, and metadata across all included studies.
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Notebooks/- Jupyter notebooks (R/Python) for data cleaning, processing, and meta-analysis workflows.
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DADA2_output- Notebooks of Qiime2 analysis of each study and then merged.
- **`## 🛠️ Reproducing the Analysis
- Clone the repo
git clone https://github.com/srosales712/SCTLD_microbiome_meta_analysis.git cd SCTLD_microbiome_meta_analysis