This repository contains open-source code, data, & text files.
Raw amplicon sequence files can be found at NCBI SRA BioProject ID PRJNA1172654
For information regarding the project, please visit: Davis, K. A., McKinney, M. M. S., Gittman, R. K., & Peralta, A. L. (2024). Evaluating Plant-Microbe Associations in Response to Environmental Stressors to Enhance Salt Marsh Restoration. bioRxiv, 2024-10. https://doi.org/10.1101/2024.10.14.618360
- Aim: This study examines examine how salinity stressors influence plant-microbe relationships, where we hypothesize that the presence of microbes will buffer salinity stressor effects.
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analyses: An R Markdown file that includes R script written by Ariane Peralta, Kai Davis.
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bin:
- MothurTools.R: An R script written by Dr. Mario E. Muscarella (website) containing functions used in the analysis of community sequence data.
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data: Files associated with amplicon data sets, plant biomass and plant height.
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figures: Figures (microbes-16S rRNA amplicon, plant biomass, plant height) generated according to R script located in R Markdown file.
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mothur: Files containing script for bioinformatic analysis of 16S rRNA gene sequences (Illumina MiSeq platform) using mothur pipeline.
This work was supported by the National Science Foundation grant #1845845 and #2009185 to A.L.P..
Dr. Ariane Peralta (website): Associate Professor, Department of Biology, East Carolina University
Kai A. Davis (website): Research Technician, Undergraduate Researcher, Department of Biology, East Carolina University
Dr. Rachel Gittman (website): Associate Professor, Department of Biology, East Carolina University
Mary-Margaret McKinney (website): Integrated Coastal Sciences PhD Program, Integrated Coastal Programs, East Carolina University