Upcycling Human Excrement: The Gut Microbiome to Soil Microbiome Axis (supporting data)

This archive contains the supporting data and code for Meilander et al., 2024: Upcycling Human Excrement: The Gut Microbiome to Soil Microbiome Axis.

Clicking the links below will open the corresponding files using QIIME 2 View (https://view.qiime2.org). 

Summaries of master data files:

Summary of master feature table (asv-table.qzv)

Tabulated view of sample metadata (sample-metadata.qzv)

Summary of ASV sequences observed in at least 10 samples: (asv-seqs-ms10.qzv)

PCoA plots:

Bray-Curtis Emperor plot (braycurtis.qzv)

Jaccard Emperor plot (jaccard.qzv)

Unweighted UniFrac Emperor plot (unweighted_unifrac.qzv)

Weighted UniFrac Emperor plot (weighted_unifrac.qzv)

Taxonomy barplots:

Taxonomy bar plot for Bucket 2 only (taxa-bar-plots-bucket2-gtdb-r214.1-weighted-stool-taxonomy.qzv)

Taxonomy bar plot for Bucket 3 only (taxa-bar-plots-bucket3-gtdb-r214.1-weighted-stool-taxonomy.qzv)

Taxonomy bar plot for all samples (taxa-bar-plots-gtdb-r214.1-weighted-stool-taxonomy.qzv)

q2-fmt "raincloud plots":

Raincloud plot (hec-raincloud.qzv)

The linked .qzv files are also contained in the gut-to-soil-qiime2.zip zip file, along with all relevant data artifacts (.qza files).

The .qzv files are also maintained outside of the .zip file to facilitate their viewing with QIIME 2 View.

Code for generating figures 1 and 2 (and corresponding supplemental figures):

gut-to-soil-manuscript-figures-main.zip (also see: https://github.com/caporaso-lab/gut-to-soil-manuscript-figures)

Code for generating ridgeline plots (Figure S6):

gut-to-soil-ridgeline-plots-main.zip (also see: https://github.com/caporaso-lab/gut-to-soil-ridgeline-plots)