Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data
Version of Record online: 23 OCT 2013
© 2013 The Authors. Methods in Ecology and Evolution © 2013 British Ecological Society.
This is an open access article under the terms of the Creative Commons Attribution-NonCommercial License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
Methods in Ecology and Evolution
Volume 4, Issue 12, pages 1111–1119, December 2013
How to Cite
Eren, A. M., Maignien, L., Sul, W. J., Murphy, L. G., Grim, S. L., Morrison, H. G., Sogin, M. L. (2013), Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data. Methods in Ecology and Evolution, 4: 1111–1119. doi: 10.1111/2041-210X.12114
- Issue online: 9 DEC 2013
- Version of Record online: 23 OCT 2013
- Accepted manuscript online: 4 SEP 2013 08:44AM EST
- Manuscript Accepted: 20 AUG 2013
- Manuscript Received: 8 MAR 2013
- National Institutes of Health. Grant Number: 1UH2DK083993
- Alfred P. Sloan Foundation
|mee312114-sup-0001-FigS1.pdf||application/PDF||68K||Figure S1. Entropy analysis results on ~30 million 101 nucleotide long Bacteroides reads. Bars show the Shannon entropy value for each position.|
|mee312114-sup-0002-FigS2.pdf||application/PDF||8726K||Figure S2. Aerial map of seven sampling stations at Little Sippewissett Marsh, Massachusetts, USA.|
|mee312114-sup-0003-FigS3.pdf||application/PDF||19K||Figure S3. LEfSe analysis results for five categories used to define the origin of samples collected from individuals live in the United States.|
Appendix S1. Oligotyping flowchart and an example analysis to highlight best practices.
Appendix S2. Benchmarking oligotyping with a data set that contained reads from one E. coli strain.
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