Illinois Wetlands Project

This repository contains open-source code, data, & text files for

For information regarding the project, please visit: Peralta, A.L., Muscarella, M.E. and Matthews, J.W., 2017. Wetland management strategies lead to tradeoffs in ecological structure and function. Elem Sci Anth, 5, p.74. DOI: http://doi.org/10.1525/elementa.253

Raw sequences files can be found at NCBI SRA BioProject ID PRJNA393844.

We address the following questions

• Aim 1.): To what degree does restoration strategy impact plant and soil microbial community composition and the soil environment?

• Aim 2.): How does restoration strategy influence wetland community composition compared to reference floodplain wetland conditions?

Repo Contents

• analyses:: An R Markdown file that includes R script written by Mario Muscarella and Ariane Peralta containing functions used in analysis of plant, soil, and microbial sequence data.

• bin:

  • MothurTools.R: An R script written by Mario Muscarella (Indiana University, now at University of Illinois) containing functions used in the analysis of community sequence data.

• data:: Files associated with plant, soil, and microbial data sets.

• figures:: Figures (of plant, soil, microbes) generated according to R script located in R Markdown file.

• mothur:: Files containing script for bioinformatic analysis of 16S rRNA gene sequences (Illumina MiSeq platform) using mothur pipeline.

Contributors

Dr. Ariane Peralta: Assistant Professor, Department of Biology, East Carolina University. Principal Investigator of the Peralta Lab

Dr. Mario Muscarella: Postdoc in the O'Dwyer Lab at the University of Illinois at Urbana-Champaign