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Supplemental Information

QIIME code for bioinformatics and statistical results from the bioinformatics procedures

This file contains the code used in QIIME to analyze the sequencing data, including all steps used in that analysis. This file also contains a table (Table S1), which summarizes results from the bioinformatics statistics.

DOI: 10.7287/peerj.preprints.1282v1/supp-1

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Bruce A Hungate conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Rebecca L Mau conceived and designed the experiments, performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Egbert Schwartz conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

J Gregory Caporaso conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.

Paul Dijkstra conceived and designed the experiments, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Natasja van Gestel conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.

Benjamin J Koch conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Cindy M Liu conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.

Theresa A McHugh conceived and designed the experiments, performed the experiments, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Jane C Marks conceived and designed the experiments, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Ember M Morrissey conceived and designed the experiments, performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Lance B Price conceived and designed the experiments, wrote the paper, reviewed drafts of the paper.

DNA Deposition

The following information was supplied regarding the deposition of DNA sequences:

The sequencing data are deposited at MG-RAST. The project ID is 14151.

The website of the archive is https://metagenomics.anl.gov/

The citation describing the resource is:

Meyer F, Paarmann D, D'Souza M, Olson R, Glass EM, Kubal M, Paczian T, Rodriguez A, Stevens R, Wilke A, Wilkening J, Edwards RA. 2008. The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9:386.

Data Deposition

The following information was supplied regarding the deposition of related data:

A table with raw qPCR data will be published with the final manuscript. A supplementary file with the code used to process sequencing data will also be published with the final manuscript.

Funding

This research was supported by grants from the National Science Foundation (EAR-1124078 and DEB-1321792) and the Department of Energy’s Biological Systems Science Division, Program in Genomic Science. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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