User:Peter J. Turnbaugh

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Contact Info

Peter J. Turnbaugh
  • Peter J. Turnbaugh
  • Assistant Professor of Microbiology & Immunology
  • University of California, San Francisco
  • Hooper Foundation
  • San Francisco, CA 94143
  • Email me through OpenWetWare

I am currently an Assistant Professor at UCSF. Prior to this, I was a Bauer Fellow at Harvard, where I started my research group Turnbaugh.


  • 2009, Ph.D. in Genomics, Washington University in St. Louis
  • 2003, B.A. in Molecular Biology, Whitman College

Research interests

  1. The human microbiome
  2. Microbial ecology
  3. Metagenomics

Selected Publications

  1. Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Lozupone CA, Turnbaugh PJ, Fierer N, and Knight R. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4516-22. DOI:10.1073/pnas.1000080107 | PubMed ID:20534432 | HubMed [Illumina_16S]
  2. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, and Knight R. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010 May;7(5):335-6. DOI:10.1038/nmeth.f.303 | PubMed ID:20383131 | HubMed [Qiime_toolkit]
  3. Turnbaugh PJ, Ridaura VK, Faith JJ, Rey FE, Knight R, and Gordon JI. The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice. Sci Transl Med. 2009 Nov 11;1(6):6ra14. DOI:10.1126/scitranslmed.3000322 | PubMed ID:20368178 | HubMed [Diet_and_the_gut_microbiome]
  4. Turnbaugh PJ, Quince C, Faith JJ, McHardy AC, Yatsunenko T, Niazi F, Affourtit J, Egholm M, Henrissat B, Knight R, and Gordon JI. Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. Proc Natl Acad Sci U S A. 2010 Apr 20;107(16):7503-8. DOI:10.1073/pnas.1002355107 | PubMed ID:20363958 | HubMed [Deep_Sequencing_of_Monozygotic_Twins]
  5. Turnbaugh PJ and Gordon JI. The core gut microbiome, energy balance and obesity. J Physiol. 2009 Sep 1;587(Pt 17):4153-8. DOI:10.1113/jphysiol.2009.174136 | PubMed ID:19491241 | HubMed [Core_MicrobiomeReview]
  6. Mahowald MA, Rey FE, Seedorf H, Turnbaugh PJ, Fulton RS, Wollam A, Shah N, Wang C, Magrini V, Wilson RK, Cantarel BL, Coutinho PM, Henrissat B, Crock LW, Russell A, Verberkmoes NC, Hettich RL, and Gordon JI. Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla. Proc Natl Acad Sci U S A. 2009 Apr 7;106(14):5859-64. DOI:10.1073/pnas.0901529106 | PubMed ID:19321416 | HubMed [Erectale]
  7. Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A, Ley RE, Sogin ML, Jones WJ, Roe BA, Affourtit JP, Egholm M, Henrissat B, Heath AC, Knight R, and Gordon JI. A core gut microbiome in obese and lean twins. Nature. 2009 Jan 22;457(7228):480-4. DOI:10.1038/nature07540 | PubMed ID:19043404 | HubMed [Twin_Study]
  8. Turnbaugh PJ and Gordon JI. An invitation to the marriage of metagenomics and metabolomics. Cell. 2008 Sep 5;134(5):708-13. DOI:10.1016/j.cell.2008.08.025 | PubMed ID:18775300 | HubMed [Cell_Review]
  9. Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher JS, Schlegel ML, Tucker TA, Schrenzel MD, Knight R, and Gordon JI. Evolution of mammals and their gut microbes. Science. 2008 Jun 20;320(5883):1647-51. DOI:10.1126/science.1155725 | PubMed ID:18497261 | HubMed [Zoo_Study]
  10. Turnbaugh PJ, Bäckhed F, Fulton L, and Gordon JI. Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome. Cell Host Microbe. 2008 Apr 17;3(4):213-23. DOI:10.1016/j.chom.2008.02.015 | PubMed ID:18407065 | HubMed [Diet_induced_obesity]
  11. Zaneveld J, Turnbaugh PJ, Lozupone C, Ley RE, Hamady M, Gordon JI, and Knight R. Host-bacterial coevolution and the search for new drug targets. Curr Opin Chem Biol. 2008 Feb;12(1):109-14. DOI:10.1016/j.cbpa.2008.01.015 | PubMed ID:18280814 | HubMed [Drug_Targets]
  12. Turnbaugh PJ, Ley RE, Hamady M, Fraser-Liggett CM, Knight R, and Gordon JI. The human microbiome project. Nature. 2007 Oct 18;449(7164):804-10. DOI:10.1038/nature06244 | PubMed ID:17943116 | HubMed [HMP]
  13. Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, and Gordon JI. An obesity-associated gut microbiome with increased capacity for energy harvest. Nature. 2006 Dec 21;444(7122):1027-31. DOI:10.1038/nature05414 | PubMed ID:17183312 | HubMed [obob_Metagenomics]
  14. Ley RE, Turnbaugh PJ, Klein S, and Gordon JI. Microbial ecology: human gut microbes associated with obesity. Nature. 2006 Dec 21;444(7122):1022-3. DOI:10.1038/4441022a | PubMed ID:17183309 | HubMed [Human_Obesity]
  15. Gill SR, Pop M, Deboy RT, Eckburg PB, Turnbaugh PJ, Samuel BS, Gordon JI, Relman DA, Fraser-Liggett CM, and Nelson KE. Metagenomic analysis of the human distal gut microbiome. Science. 2006 Jun 2;312(5778):1355-9. DOI:10.1126/science.1124234 | PubMed ID:16741115 | HubMed [Human_Microbiome]
  16. Gertz J, Riles L, Turnbaugh P, Ho SW, and Cohen BA. Discovery, validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics. Genome Res. 2005 Aug;15(8):1145-52. DOI:10.1101/gr.3859605 | PubMed ID:16077013 | HubMed [Transcription_Factors]
  17. Ley RE, Bäckhed F, Turnbaugh P, Lozupone CA, Knight RD, and Gordon JI. Obesity alters gut microbial ecology. Proc Natl Acad Sci U S A. 2005 Aug 2;102(31):11070-5. DOI:10.1073/pnas.0504978102 | PubMed ID:16033867 | HubMed [Mouse_genetic_obesity]

All Medline abstracts: PubMed | HubMed

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