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QIIME allows analysis of high-throughput community sequencing data
- J. Caporaso, Justin Kuczynski, +24 authors R. Knight
- Biology, Medicine
- Nature Methods
- 1 May 2010
Supplementary Figure 1 Overview of the analysis pipeline. Supplementary Table 1 Details of conventionally raised and conventionalized mouse samples. Supplementary Discussion Expanded discussion of… Expand
An obesity-associated gut microbiome with increased capacity for energy harvest
- P. Turnbaugh, R. Ley, M. Mahowald, V. Magrini, E. Mardis, J. Gordon
- Biology, Medicine
- Nature
- 21 December 2006
The worldwide obesity epidemic is stimulating efforts to identify host and environmental factors that affect energy balance. Comparisons of the distal gut microbiota of genetically obese mice and… Expand
Microbial ecology: Human gut microbes associated with obesity
- R. Ley, Peter J. Turnbaugh, S. Klein, J. Gordon
- Biology, Medicine
- Nature
- 21 December 2006
Two groups of beneficial bacteria are dominant in the human gut, the Bacteroidetes and the Firmicutes. Here we show that the relative proportion of Bacteroidetes is decreased in obese people by… Expand
A core gut microbiome in obese and lean twins
- P. Turnbaugh, M. Hamady, +12 authors J. Gordon
- Biology, Medicine
- Nature
- 24 October 2008
The human distal gut harbours a vast ensemble of microbes (the microbiota) that provide important metabolic capabilities, including the ability to extract energy from otherwise indigestible dietary… Expand
Obesity alters gut microbial ecology.
- R. Ley, F. Bäckhed, P. Turnbaugh, C. Lozupone, R. Knight, J. Gordon
- Biology, Medicine
- Proceedings of the National Academy of Sciences…
- 2 August 2005
We have analyzed 5,088 bacterial 16S rRNA gene sequences from the distal intestinal (cecal) microbiota of genetically obese ob/ob mice, lean ob/+ and wild-type siblings, and their ob/+ mothers, all… Expand
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
- E. Bolyen, J. Rideout, +109 authors J. Caporaso
- Engineering, Medicine
- Nature Biotechnology
- 1 August 2019
QIIME 2 development was primarily funded by NSF Awards 1565100 to J.G.C. and 1565057 to R.K. Partial support was also provided by the following: grants NIH U54CA143925 (J.G.C. and T.P.) and… Expand
Evolution of Mammals and Their Gut Microbes
Mammals are metagenomic in that they are composed of not only their own gene complements but also those of all of their associated microbes. To understand the coevolution of the mammals and their… Expand
Structure, Function and Diversity of the Healthy Human Microbiome
- C. Huttenhower, D. Gevers, +245 authors Owen R. White
- Biology, Medicine
- Nature
- 17 May 2012
Studies of the human microbiome have revealed that even healthy individuals differ remarkably in the microbes that occupy habitats such as the gut, skin and vagina. Much of this diversity remains… Expand
Defining the core Arabidopsis thaliana root microbiome
- Derek S. Lundberg, S. Lebeis, +13 authors J. Dangl
- Biology, Medicine
- Nature
- 2 August 2012
Land plants associate with a root microbiota distinct from the complex microbial community present in surrounding soil. The microbiota colonizing the rhizosphere (immediately surrounding the root)… Expand
Host-Bacterial Mutualism in the Human Intestine
- F. Bäckhed, R. Ley, J. Sonnenburg, D. Peterson, J. Gordon
- Biology, Medicine
- Science
- 25 March 2005
The distal human intestine represents an anaerobic bioreactor programmed with an enormous population of bacteria, dominated by relatively few divisions that are highly diverse at the… Expand
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