/GulfStreamMicrobiomes

Analysis of Gulf Stream Sargassum-associated Microbiomes

Primary LanguageRGNU General Public License v3.0GPL-3.0

Gulf Stream Sargassum-asscociated Microbiomes

This repository contains open-source code, data, & text files for the gulf stream microbiomes project

Project: Characterizing microbial community composition associated with Sargassum communities

Raw sequence files can be found at NCBI SRA BioProject ID ().

Goals

  • Aim 1): Characterize patterns of microbial community composition (bacterioplankton, microeukaryotes) associated with pelagic Sargassum

Contents

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

  • bin:

    • MothurTools.R: An R script written by Mario Muscarella. R script contains functions used in the analysis of community sequence data.

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

  • figures:: Figures (of zooplankton and bacterioplankton structure and function) 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.

Funding Sources

North Carolina Ocean Energy Program

Contributors

Dr. Lindsay Dubbs (website): Principal Investigator, Research Assistant Professor Co-Director, Outer Banks Field Site, Institute for the Environment, University of North Carolina-Chapel Hill. Led and funded examination of pelagic Sargassum community primary productivity and nutrient cycling in the Gulf Stream.

Claire Johnson: Co-Investigator, Graduate Student in the Environment, Ecology, and Energy Program, University of North Carolina-Chapel Hill. Member of the Dubbs Lab. Institute for the Environment, UNC-Chapel Hill. Led and conducted field sampling and processing to study nutrient cycling and nitrogen fixation by the Sargassum community in the Gulf Stream.

Dr. Mario Muscarella: Assistant Professor, Institute or Arctic Biology, University of Alaska Fairbanks. Principal Investigator of the Muscarella Lab. Analyzed data and interpreted results.

Dr. Ariane Peralta (website): Co-Investigator. Associate Professor, Department of Biology, East Carolina University. Designed microbiome sampling and lab protocols, analyzed data, and interpreted results.