Turnbaugh:Research

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==Key Questions==
==Key Questions==
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#Q1
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#Q2
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==Inactivation of cardiac drugs by gut microbes==
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We are using cell culture, mass spectrometry, and studies in gnotobiotic mice (germ-free and colonized) to determine the mechanism of reduction of digoxin and other cardiac glycosides by members of the gut microbiota, and to determine whether or not it is possible to limit this reaction in vivo.
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==Main segment==
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==Single cell methods for analyzing microbial physiology and gene content==
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INSERT DESCRIPTION
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We are using flow cytometry and microfluidics to analyze complex microbial communities collected from the human gut at single cell resolution. These techniques allow us to determine the baseline physiology, activity, and gene content of gut microbes, and how these factors are shaped by clinically relevant perturbations, i.e. exposure to host-targeted drugs and antibiotics.
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==The role of diet and surgery in shaping the gut microbiome and host metabolic outcomes==
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We are studying how Roux-en-Y gastric bypass surgery re-shapes the gut microbiota, and to what degree these changes contribute to the metabolic outcomes of surgery (in collaboration with Lee Kaplan group at Mass General Hospital). We are also performing experiments on the role of diet in shaping gut microbial ecology.
==Data==
==Data==
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See gordonlab.wustl.edu/SuppData.html
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Data can be analyzed in [http://metagenomics.anl.gov MGRAST]<br>
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Raw datasets are available from [http://www.ncbi.nlm.nih.gov/geo/ GEO] and [http://www.ncbi.nlm.nih.gov/sra NCBI-SRA]<br>
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See Gordon lab website for previous manuscript supporting information [http://gordonlab.wustl.edu/SuppData.html Supplementary Data]
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==Selected Press Articles==
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[http://www.npr.org/blogs/thesalt/2013/02/20/172403779/calorie-counts-fatally-flawed-or-our-best-defense-against-pudge NPR on issues with calorie counts]
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[http://news.sciencemag.org/sciencenow/2013/02/have-we-been-miscounting-calorie.html ScienceNOW article on calorie labels]
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[http://www.thecrimson.com/article/2013/2/21/microbes-personalized-medicine/ Harvard Crimson article on personalized medicine]
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[http://news.harvard.edu/gazette/story/2013/02/go-with-your-gut/ Harvard Gazette piece on our latest paper in Cell]
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[http://www.nature.com/nature/journal/v492/n7429/full/492366a.html Nature 2012 Editor's Choice],
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[http://www.biotechniques.com/news/Microdroplet-PCR-Takes-on-Population-Genomics/biotechniques-333443.html#.UBqLFo5gP8t Biotechniques piece on microfluidics],
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[http://news.harvard.edu/gazette/story/2012/06/life-partner/ Harvard Gazette write-up on the Turnbaugh lab],
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[http://www.boston.com/whitecoatnotes/2012/06/13/human-microbiome-project-provides-census-thousands-microbes-that-live-and/IaliEtwLjSYiicNwhATrKM/story.html Human Microbiome Project],
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[http://www.washington.edu/news/articles/gut-microbe-networks-differ-from-norm-in-obese-people-systems-biology-approach-reveals-2 Systems Biology Paper out in PNAS],
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[http://www.sciencemag.org/content/334/6062/1518/suppl/DC2 Science Podcast on detecting novel associations], [http://www.wired.com/magazine/2011/09/mf_microbiome/ Wired Microbiome Atlas], [http://www.nature.com/news/2010/101124/full/468492a.html Nature News],
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[http://www.npr.org/templates/story/story.php?storyId=120318757 National Public Radio spot 2009],
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[http://www.bryongaskin.net/articles/research/Health/Holly%20Shit%20-%20A%20New%20way%20of%20finding%20out%20how%20diet%20affects%20gut%20microbes.pdf Economist],
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[http://www.nature.com/nature/videoarchive/gutmicrobes/index.html Nature video about obesity],
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[http://www.nytimes.com/2006/08/13/magazine/13obesity.html New York Times Fat Factors],
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[http://www.nature.com/news/2006/061218/full/news061218-6.html Nature News 2006],
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[http://www.npr.org/templates/story/story.php?storyId=6654607 National Public Radio spot 2006],
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[http://www.nature.com/nature/podcast/v444/n7122/nature-2006-12-21.html Nature Podcast transcript 2006]
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==Outreach==
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[http://outreach.mcb.harvard.edu/Microbiome/microbiome.html Microbiome Outreach Module]
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<br>
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<br>

Revision as of 16:06, 25 February 2013

the turnbaugh lab

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Contents

Inactivation of cardiac drugs by gut microbes

We are using cell culture, mass spectrometry, and studies in gnotobiotic mice (germ-free and colonized) to determine the mechanism of reduction of digoxin and other cardiac glycosides by members of the gut microbiota, and to determine whether or not it is possible to limit this reaction in vivo.

Single cell methods for analyzing microbial physiology and gene content

We are using flow cytometry and microfluidics to analyze complex microbial communities collected from the human gut at single cell resolution. These techniques allow us to determine the baseline physiology, activity, and gene content of gut microbes, and how these factors are shaped by clinically relevant perturbations, i.e. exposure to host-targeted drugs and antibiotics.

The role of diet and surgery in shaping the gut microbiome and host metabolic outcomes

We are studying how Roux-en-Y gastric bypass surgery re-shapes the gut microbiota, and to what degree these changes contribute to the metabolic outcomes of surgery (in collaboration with Lee Kaplan group at Mass General Hospital). We are also performing experiments on the role of diet in shaping gut microbial ecology.

Data

Data can be analyzed in MGRAST
Raw datasets are available from GEO and NCBI-SRA
See Gordon lab website for previous manuscript supporting information Supplementary Data

Selected Press Articles

NPR on issues with calorie counts ScienceNOW article on calorie labels Harvard Crimson article on personalized medicine Harvard Gazette piece on our latest paper in Cell Nature 2012 Editor's Choice, Biotechniques piece on microfluidics, Harvard Gazette write-up on the Turnbaugh lab, Human Microbiome Project, Systems Biology Paper out in PNAS, Science Podcast on detecting novel associations, Wired Microbiome Atlas, Nature News, National Public Radio spot 2009, Economist, Nature video about obesity, New York Times Fat Factors, Nature News 2006, National Public Radio spot 2006, Nature Podcast transcript 2006

Outreach

Microbiome Outreach Module


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