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Items: 1 to 50 of 78

1.

Using DNA Metabarcoding To Evaluate the Plant Component of Human Diets: a Proof of Concept.

Reese AT, Kartzinel TR, Petrone BL, Turnbaugh PJ, Pringle RM, David LA.

mSystems. 2019 Oct 8;4(5). pii: e00458-19. doi: 10.1128/mSystems.00458-19.

2.

Cooking shapes the structure and function of the gut microbiome.

Carmody RN, Bisanz JE, Bowen BP, Maurice CF, Lyalina S, Louie KB, Treen D, Chadaideh KS, Maini Rekdal V, Bess EN, Spanogiannopoulos P, Ang QY, Bauer KC, Balon TW, Pollard KS, Northen TR, Turnbaugh PJ.

Nat Microbiol. 2019 Sep 30. doi: 10.1038/s41564-019-0569-4. [Epub ahead of print]

PMID:
31570867
3.

CRISPR-Cas System of a Prevalent Human Gut Bacterium Reveals Hyper-targeting against Phages in a Human Virome Catalog.

Soto-Perez P, Bisanz JE, Berry JD, Lam KN, Bondy-Denomy J, Turnbaugh PJ.

Cell Host Microbe. 2019 Sep 11;26(3):325-335.e5. doi: 10.1016/j.chom.2019.08.008. Epub 2019 Sep 3.

PMID:
31492655
4.

Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.

Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F, Bai Y, Bisanz JE, Bittinger K, Brejnrod A, Brislawn CJ, Brown CT, Callahan BJ, Caraballo-Rodríguez AM, Chase J, Cope EK, Da Silva R, Diener C, Dorrestein PC, Douglas GM, Durall DM, Duvallet C, Edwardson CF, Ernst M, Estaki M, Fouquier J, Gauglitz JM, Gibbons SM, Gibson DL, Gonzalez A, Gorlick K, Guo J, Hillmann B, Holmes S, Holste H, Huttenhower C, Huttley GA, Janssen S, Jarmusch AK, Jiang L, Kaehler BD, Kang KB, Keefe CR, Keim P, Kelley ST, Knights D, Koester I, Kosciolek T, Kreps J, Langille MGI, Lee J, Ley R, Liu YX, Loftfield E, Lozupone C, Maher M, Marotz C, Martin BD, McDonald D, McIver LJ, Melnik AV, Metcalf JL, Morgan SC, Morton JT, Naimey AT, Navas-Molina JA, Nothias LF, Orchanian SB, Pearson T, Peoples SL, Petras D, Preuss ML, Pruesse E, Rasmussen LB, Rivers A, Robeson MS 2nd, Rosenthal P, Segata N, Shaffer M, Shiffer A, Sinha R, Song SJ, Spear JR, Swafford AD, Thompson LR, Torres PJ, Trinh P, Tripathi A, Turnbaugh PJ, Ul-Hasan S, van der Hooft JJJ, Vargas F, Vázquez-Baeza Y, Vogtmann E, von Hippel M, Walters W, Wan Y, Wang M, Warren J, Weber KC, Williamson CHD, Willis AD, Xu ZZ, Zaneveld JR, Zhang Y, Zhu Q, Knight R, Caporaso JG.

Nat Biotechnol. 2019 Sep;37(9):1091. doi: 10.1038/s41587-019-0252-6.

PMID:
31399723
5.

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.

Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F, Bai Y, Bisanz JE, Bittinger K, Brejnrod A, Brislawn CJ, Brown CT, Callahan BJ, Caraballo-Rodríguez AM, Chase J, Cope EK, Da Silva R, Diener C, Dorrestein PC, Douglas GM, Durall DM, Duvallet C, Edwardson CF, Ernst M, Estaki M, Fouquier J, Gauglitz JM, Gibbons SM, Gibson DL, Gonzalez A, Gorlick K, Guo J, Hillmann B, Holmes S, Holste H, Huttenhower C, Huttley GA, Janssen S, Jarmusch AK, Jiang L, Kaehler BD, Kang KB, Keefe CR, Keim P, Kelley ST, Knights D, Koester I, Kosciolek T, Kreps J, Langille MGI, Lee J, Ley R, Liu YX, Loftfield E, Lozupone C, Maher M, Marotz C, Martin BD, McDonald D, McIver LJ, Melnik AV, Metcalf JL, Morgan SC, Morton JT, Naimey AT, Navas-Molina JA, Nothias LF, Orchanian SB, Pearson T, Peoples SL, Petras D, Preuss ML, Pruesse E, Rasmussen LB, Rivers A, Robeson MS 2nd, Rosenthal P, Segata N, Shaffer M, Shiffer A, Sinha R, Song SJ, Spear JR, Swafford AD, Thompson LR, Torres PJ, Trinh P, Tripathi A, Turnbaugh PJ, Ul-Hasan S, van der Hooft JJJ, Vargas F, Vázquez-Baeza Y, Vogtmann E, von Hippel M, Walters W, Wan Y, Wang M, Warren J, Weber KC, Williamson CHD, Willis AD, Xu ZZ, Zaneveld JR, Zhang Y, Zhu Q, Knight R, Caporaso JG.

Nat Biotechnol. 2019 Aug;37(8):852-857. doi: 10.1038/s41587-019-0209-9. No abstract available. Erratum in: Nat Biotechnol. 2019 Sep;37(9):1091.

PMID:
31341288
6.

Meta-Analysis Reveals Reproducible Gut Microbiome Alterations in Response to a High-Fat Diet.

Bisanz JE, Upadhyay V, Turnbaugh JA, Ly K, Turnbaugh PJ.

Cell Host Microbe. 2019 Aug 14;26(2):265-272.e4. doi: 10.1016/j.chom.2019.06.013. Epub 2019 Jul 16.

PMID:
31324413
7.

Precision Medicine Goes Microscopic: Engineering the Microbiome to Improve Drug Outcomes.

Lam KN, Alexander M, Turnbaugh PJ.

Cell Host Microbe. 2019 Jul 10;26(1):22-34. doi: 10.1016/j.chom.2019.06.011. Review.

PMID:
31295421
8.

Discovery and inhibition of an interspecies gut bacterial pathway for Levodopa metabolism.

Maini Rekdal V, Bess EN, Bisanz JE, Turnbaugh PJ, Balskus EP.

Science. 2019 Jun 14;364(6445). pii: eaau6323. doi: 10.1126/science.aau6323.

PMID:
31196984
9.

Nutrient Sensing in CD11c Cells Alters the Gut Microbiota to Regulate Food Intake and Body Mass.

Chagwedera DN, Ang QY, Bisanz JE, Leong YA, Ganeshan K, Cai J, Patterson AD, Turnbaugh PJ, Chawla A.

Cell Metab. 2019 Aug 6;30(2):364-373.e7. doi: 10.1016/j.cmet.2019.05.002. Epub 2019 May 23.

PMID:
31130466
10.

Megaphages infect Prevotella and variants are widespread in gut microbiomes.

Devoto AE, Santini JM, Olm MR, Anantharaman K, Munk P, Tung J, Archie EA, Turnbaugh PJ, Seed KD, Blekhman R, Aarestrup FM, Thomas BC, Banfield JF.

Nat Microbiol. 2019 Apr;4(4):693-700. doi: 10.1038/s41564-018-0338-9. Epub 2019 Jan 28.

11.

How to Determine the Role of the Microbiome in Drug Disposition.

Bisanz JE, Spanogiannopoulos P, Pieper LM, Bustion AE, Turnbaugh PJ.

Drug Metab Dispos. 2018 Nov;46(11):1588-1595. doi: 10.1124/dmd.118.083402. Epub 2018 Aug 15. Review.

PMID:
30111623
12.

Announcement of 2019 Keystone Symposia Conference: "Microbiome: Chemical Mechanisms and Biological Consequences".

Balskus EP, Turnbaugh PJ, Wolan DW.

mSystems. 2018 Jul 24;3(4). pii: e00115-18. doi: 10.1128/mSystems.00115-18. eCollection 2018 Jul-Aug.

13.

A Metabolite-Triggered Tuft Cell-ILC2 Circuit Drives Small Intestinal Remodeling.

Schneider C, O'Leary CE, von Moltke J, Liang HE, Ang QY, Turnbaugh PJ, Radhakrishnan S, Pellizzon M, Ma A, Locksley RM.

Cell. 2018 Jul 12;174(2):271-284.e14. doi: 10.1016/j.cell.2018.05.014. Epub 2018 Jun 7.

14.

Discovery and characterization of a prevalent human gut bacterial enzyme sufficient for the inactivation of a family of plant toxins.

Koppel N, Bisanz JE, Pandelia ME, Turnbaugh PJ, Balskus EP.

Elife. 2018 May 15;7. pii: e33953. doi: 10.7554/eLife.33953.

15.

Pathways and mechanisms linking dietary components to cardiometabolic disease: thinking beyond calories.

Stanhope KL, Goran MI, Bosy-Westphal A, King JC, Schmidt LA, Schwarz JM, Stice E, Sylvetsky AC, Turnbaugh PJ, Bray GA, Gardner CD, Havel PJ, Malik V, Mason AE, Ravussin E, Rosenbaum M, Welsh JA, Allister-Price C, Sigala DM, Greenwood MRC, Astrup A, Krauss RM.

Obes Rev. 2018 Sep;19(9):1205-1235. doi: 10.1111/obr.12699. Epub 2018 May 14. Review.

16.

Broad collateral damage of drugs against the gut microbiome.

Spanogiannopoulos P, Turnbaugh PJ.

Nat Rev Gastroenterol Hepatol. 2018 Aug;15(8):457-458. doi: 10.1038/s41575-018-0028-3. No abstract available.

PMID:
29752457
17.

Grape proanthocyanidin-induced intestinal bloom of Akkermansia muciniphila is dependent on its baseline abundance and precedes activation of host genes related to metabolic health.

Zhang L, Carmody RN, Kalariya HM, Duran RM, Moskal K, Poulev A, Kuhn P, Tveter KM, Turnbaugh PJ, Raskin I, Roopchand DE.

J Nutr Biochem. 2018 Jun;56:142-151. doi: 10.1016/j.jnutbio.2018.02.009. Epub 2018 Feb 15.

18.

Making Millennial Medicine More Meta.

Turnbaugh PJ.

mSystems. 2018 Mar 6;3(2). pii: e00154-17. doi: 10.1128/mSystems.00154-17. eCollection 2018 Mar-Apr.

19.

Combining 16S rRNA gene variable regions enables high-resolution microbial community profiling.

Fuks G, Elgart M, Amir A, Zeisel A, Turnbaugh PJ, Soen Y, Shental N.

Microbiome. 2018 Jan 26;6(1):17. doi: 10.1186/s40168-017-0396-x.

20.

Chemical reaction vector embeddings: towards predicting drug metabolism in the human gut microbiome.

Mallory EK, Acharya A, Rensi SE, Turnbaugh PJ, Bright RA, Altman RB.

Pac Symp Biocomput. 2018;23:56-67.

21.

Regulation of drug metabolism and toxicity by multiple factors of genetics, epigenetics, lncRNAs, gut microbiota, and diseases: a meeting report of the 21st International Symposium on Microsomes and Drug Oxidations (MDO).

Yu AM, Ingelman-Sundberg M, Cherrington NJ, Aleksunes LM, Zanger UM, Xie W, Jeong H, Morgan ET, Turnbaugh PJ, Klaassen CD, Bhatt AP, Redinbo MR, Hao P, Waxman DJ, Wang L, Zhong XB.

Acta Pharm Sin B. 2017 Mar;7(2):241-248. doi: 10.1016/j.apsb.2016.12.006. Epub 2017 Feb 1.

22.

Microbes and Diet-Induced Obesity: Fast, Cheap, and Out of Control.

Turnbaugh PJ.

Cell Host Microbe. 2017 Mar 8;21(3):278-281. doi: 10.1016/j.chom.2017.02.021.

23.

mockrobiota: a Public Resource for Microbiome Bioinformatics Benchmarking.

Bokulich NA, Rideout JR, Mercurio WG, Shiffer A, Wolfe B, Maurice CF, Dutton RJ, Turnbaugh PJ, Knight R, Caporaso JG.

mSystems. 2016 Oct 18;1(5). pii: e00062-16. eCollection 2016 Sep-Oct.

24.

Mirror, mirror on the wall: which microbiomes will help heal them all?

Nayak RR, Turnbaugh PJ.

BMC Med. 2016 May 4;14:72. doi: 10.1186/s12916-016-0622-6.

25.

The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism.

Spanogiannopoulos P, Bess EN, Carmody RN, Turnbaugh PJ.

Nat Rev Microbiol. 2016 Apr;14(5):273-87. doi: 10.1038/nrmicro.2016.17. Epub 2016 Mar 14. Review.

26.

Siri, What Should I Eat?

Jumpertz von Schwartzenberg R, Turnbaugh PJ.

Cell. 2015 Nov 19;163(5):1051-1052. doi: 10.1016/j.cell.2015.11.012.

27.

Marked seasonal variation in the wild mouse gut microbiota.

Maurice CF, Knowles SC, Ladau J, Pollard KS, Fenton A, Pedersen AB, Turnbaugh PJ.

ISME J. 2015 Nov;9(11):2423-34. doi: 10.1038/ismej.2015.53. Epub 2015 May 29.

28.

Gut microbial succession follows acute secretory diarrhea in humans.

David LA, Weil A, Ryan ET, Calderwood SB, Harris JB, Chowdhury F, Begum Y, Qadri F, LaRocque RC, Turnbaugh PJ.

MBio. 2015 May 19;6(3):e00381-15. doi: 10.1128/mBio.00381-15.

29.

Characterization and detection of a widely distributed gene cluster that predicts anaerobic choline utilization by human gut bacteria.

Martínez-del Campo A, Bodea S, Hamer HA, Marks JA, Haiser HJ, Turnbaugh PJ, Balskus EP.

MBio. 2015 Apr 14;6(2). pii: e00042-15. doi: 10.1128/mBio.00042-15.

30.

Dietary Polyphenols Promote Growth of the Gut Bacterium Akkermansia muciniphila and Attenuate High-Fat Diet-Induced Metabolic Syndrome.

Roopchand DE, Carmody RN, Kuhn P, Moskal K, Rojas-Silva P, Turnbaugh PJ, Raskin I.

Diabetes. 2015 Aug;64(8):2847-58. doi: 10.2337/db14-1916. Epub 2015 Apr 6.

31.

Functional characterization of bacteria isolated from ancient arctic soil exposes diverse resistance mechanisms to modern antibiotics.

Perron GG, Whyte L, Turnbaugh PJ, Goordial J, Hanage WP, Dantas G, Desai MM.

PLoS One. 2015 Mar 25;10(3):e0069533. doi: 10.1371/journal.pone.0069533. eCollection 2015.

32.

Diet dominates host genotype in shaping the murine gut microbiota.

Carmody RN, Gerber GK, Luevano JM Jr, Gatti DM, Somes L, Svenson KL, Turnbaugh PJ.

Cell Host Microbe. 2015 Jan 14;17(1):72-84. doi: 10.1016/j.chom.2014.11.010. Epub 2014 Dec 18.

33.

Rapid fucosylation of intestinal epithelium sustains host-commensal symbiosis in sickness.

Pickard JM, Maurice CF, Kinnebrew MA, Abt MC, Schenten D, Golovkina TV, Bogatyrev SR, Ismagilov RF, Pamer EG, Turnbaugh PJ, Chervonsky AV.

Nature. 2014 Oct 30;514(7524):638-41. doi: 10.1038/nature13823. Epub 2014 Oct 1.

34.

Microbial determinants of biochemical individuality and their impact on toxicology and pharmacology.

Patterson AD, Turnbaugh PJ.

Cell Metab. 2014 Nov 4;20(5):761-768. doi: 10.1016/j.cmet.2014.07.002. Epub 2014 Aug 21.

35.

Host-microbial interactions in the metabolism of therapeutic and diet-derived xenobiotics.

Carmody RN, Turnbaugh PJ.

J Clin Invest. 2014 Oct;124(10):4173-81. doi: 10.1172/JCI72335. Epub 2014 Aug 8. Review.

36.

Mechanistic insight into digoxin inactivation by Eggerthella lenta augments our understanding of its pharmacokinetics.

Haiser HJ, Seim KL, Balskus EP, Turnbaugh PJ.

Gut Microbes. 2014 Mar-Apr;5(2):233-8. doi: 10.4161/gmic.27915. Epub 2014 Jan 23.

37.

The intestinal metabolome: an intersection between microbiota and host.

Ursell LK, Haiser HJ, Van Treuren W, Garg N, Reddivari L, Vanamala J, Dorrestein PC, Turnbaugh PJ, Knight R.

Gastroenterology. 2014 May;146(6):1470-6. doi: 10.1053/j.gastro.2014.03.001. Epub 2014 Mar 11. Review.

38.

Diet rapidly and reproducibly alters the human gut microbiome.

David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, Ling AV, Devlin AS, Varma Y, Fischbach MA, Biddinger SB, Dutton RJ, Turnbaugh PJ.

Nature. 2014 Jan 23;505(7484):559-63. doi: 10.1038/nature12820. Epub 2013 Dec 11.

39.

High-resolution microbial community reconstruction by integrating short reads from multiple 16S rRNA regions.

Amir A, Zeisel A, Zuk O, Elgart M, Stern S, Shamir O, Turnbaugh PJ, Soen Y, Shental N.

Nucleic Acids Res. 2013 Dec;41(22):e205. doi: 10.1093/nar/gkt1070. Epub 2013 Nov 7.

40.

Quantifying and identifying the active and damaged subsets of indigenous microbial communities.

Maurice CF, Turnbaugh PJ.

Methods Enzymol. 2013;531:91-107. doi: 10.1016/B978-0-12-407863-5.00005-8.

PMID:
24060117
41.

Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta.

Haiser HJ, Gootenberg DB, Chatman K, Sirasani G, Balskus EP, Turnbaugh PJ.

Science. 2013 Jul 19;341(6143):295-8. doi: 10.1126/science.1235872.

42.

Cancer: An acidic link.

Devkota S, Turnbaugh PJ.

Nature. 2013 Jul 4;499(7456):37-8. doi: 10.1038/nature12404. Epub 2013 Jun 26. No abstract available.

PMID:
23803768
43.

Quantifying the metabolic activities of human-associated microbial communities across multiple ecological scales.

Maurice CF, Turnbaugh PJ.

FEMS Microbiol Rev. 2013 Sep;37(5):830-48. doi: 10.1111/1574-6976.12022. Epub 2013 Apr 22. Review.

44.

Conserved shifts in the gut microbiota due to gastric bypass reduce host weight and adiposity.

Liou AP, Paziuk M, Luevano JM Jr, Machineni S, Turnbaugh PJ, Kaplan LM.

Sci Transl Med. 2013 Mar 27;5(178):178ra41. doi: 10.1126/scitranslmed.3005687.

45.

Xenobiotics shape the physiology and gene expression of the active human gut microbiome.

Maurice CF, Haiser HJ, Turnbaugh PJ.

Cell. 2013 Jan 17;152(1-2):39-50. doi: 10.1016/j.cell.2012.10.052.

46.

Antibiotic exposure promotes fat gain.

Liou AP, Turnbaugh PJ.

Cell Metab. 2012 Oct 3;16(4):408-10. doi: 10.1016/j.cmet.2012.09.009.

47.

Gut microbes make for fattier fish.

Carmody RN, Turnbaugh PJ.

Cell Host Microbe. 2012 Sep 13;12(3):259-61. doi: 10.1016/j.chom.2012.08.006.

48.

Developing a metagenomic view of xenobiotic metabolism.

Haiser HJ, Turnbaugh PJ.

Pharmacol Res. 2013 Mar;69(1):21-31. doi: 10.1016/j.phrs.2012.07.009. Epub 2012 Aug 9. Review.

49.

Taking a metagenomic view of human nutrition.

Dutton RJ, Turnbaugh PJ.

Curr Opin Clin Nutr Metab Care. 2012 Sep;15(5):448-54. doi: 10.1097/MCO.0b013e3283561133. Review.

PMID:
22878238
50.

Microbiology: fat, bile and gut microbes.

Turnbaugh PJ.

Nature. 2012 Jul 4;487(7405):47-8. doi: 10.1038/487047a. No abstract available.

PMID:
22763552

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