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Items: 1 to 50 of 487

1.

A sparse covarying unit that describes healthy and impaired human gut microbiota development.

Raman AS, Gehrig JL, Venkatesh S, Chang HW, Hibberd MC, Subramanian S, Kang G, Bessong PO, Lima AAM, Kosek MN, Petri WA Jr, Rodionov DA, Arzamasov AA, Leyn SA, Osterman AL, Huq S, Mostafa I, Islam M, Mahfuz M, Haque R, Ahmed T, Barratt MJ, Gordon JI.

Science. 2019 Jul 12;365(6449). pii: eaau4735. doi: 10.1126/science.aau4735.

PMID:
31296739
2.

Effects of microbiota-directed foods in gnotobiotic animals and undernourished children.

Gehrig JL, Venkatesh S, Chang HW, Hibberd MC, Kung VL, Cheng J, Chen RY, Subramanian S, Cowardin CA, Meier MF, O'Donnell D, Talcott M, Spears LD, Semenkovich CF, Henrissat B, Giannone RJ, Hettich RL, Ilkayeva O, Muehlbauer M, Newgard CB, Sawyer C, Head RD, Rodionov DA, Arzamasov AA, Leyn SA, Osterman AL, Hossain MI, Islam M, Choudhury N, Sarker SA, Huq S, Mahmud I, Mostafa I, Mahfuz M, Barratt MJ, Ahmed T, Gordon JI.

Science. 2019 Jul 12;365(6449). pii: eaau4732. doi: 10.1126/science.aau4732.

PMID:
31296738
3.

Mechanisms by which sialylated milk oligosaccharides impact bone biology in a gnotobiotic mouse model of infant undernutrition.

Cowardin CA, Ahern PP, Kung VL, Hibberd MC, Cheng J, Guruge JL, Sundaresan V, Head RD, Barile D, Mills DA, Barratt MJ, Huq S, Ahmed T, Gordon JI.

Proc Natl Acad Sci U S A. 2019 Jun 11;116(24):11988-11996. doi: 10.1073/pnas.1821770116. Epub 2019 May 28.

4.

Author Correction: Transposable elements drive widespread expression of oncogenes in human cancers.

Jang HS, Shah NM, Du AY, Dailey ZZ, Pehrsson EC, Godoy PM, Zhang D, Li D, Xing X, Kim S, O'Donnell D, Gordon JI, Wang T.

Nat Genet. 2019 May;51(5):920. doi: 10.1038/s41588-019-0416-9.

PMID:
30992544
5.

Transposable elements drive widespread expression of oncogenes in human cancers.

Jang HS, Shah NM, Du AY, Dailey ZZ, Pehrsson EC, Godoy PM, Zhang D, Li D, Xing X, Kim S, O'Donnell D, Gordon JI, Wang T.

Nat Genet. 2019 Apr;51(4):611-617. doi: 10.1038/s41588-019-0373-3. Epub 2019 Mar 29. Erratum in: Nat Genet. 2019 May;51(5):920.

PMID:
30926969
6.

A multi-amplicon 16S rRNA sequencing and analysis method for improved taxonomic profiling of bacterial communities.

Schriefer AE, Cliften PF, Hibberd MC, Sawyer C, Brown-Kennerly V, Burcea L, Klotz E, Crosby SD, Gordon JI, Head RD.

J Microbiol Methods. 2018 Nov;154:6-13. doi: 10.1016/j.mimet.2018.09.019. Epub 2018 Sep 29.

PMID:
30273610
7.

Oral Antibiotic Treatment of Mice Exacerbates the Disease Severity of Multiple Flavivirus Infections.

Thackray LB, Handley SA, Gorman MJ, Poddar S, Bagadia P, Briseño CG, Theisen DJ, Tan Q, Hykes BL Jr, Lin H, Lucas TM, Desai C, Gordon JI, Murphy KM, Virgin HW, Diamond MS.

Cell Rep. 2018 Mar 27;22(13):3440-3453.e6. doi: 10.1016/j.celrep.2018.03.001.

8.

Physiological mechanisms of sustained fumagillin-induced weight loss.

An J, Wang L, Patnode ML, Ridaura VK, Haldeman JM, Stevens RD, Ilkayeva O, Bain JR, Muehlbauer MJ, Glynn EL, Thomas S, Muoio D, Summers SA, Vath JE, Hughes TE, Gordon JI, Newgard CB.

JCI Insight. 2018 Mar 8;3(5). pii: 99453. doi: 10.1172/jci.insight.99453.

9.

Spatial organization of a model 15-member human gut microbiota established in gnotobiotic mice.

Mark Welch JL, Hasegawa Y, McNulty NP, Gordon JI, Borisy GG.

Proc Natl Acad Sci U S A. 2017 Oct 24;114(43):E9105-E9114. doi: 10.1073/pnas.1711596114. Epub 2017 Oct 9.

10.

Bangladesh Environmental Enteric Dysfunction (BEED) study: protocol for a community-based intervention study to validate non-invasive biomarkers of environmental enteric dysfunction.

Mahfuz M, Das S, Mazumder RN, Masudur Rahman M, Haque R, Bhuiyan MMR, Akhter H, Sarker MSA, Mondal D, Muaz SSA, Karim ASMB, Borowitz SM, Moskaluk CA, Barratt MJ, Petri WA, Gordon JI, Ahmed T.

BMJ Open. 2017 Aug 11;7(8):e017768. doi: 10.1136/bmjopen-2017-017768.

11.

The Gut Microbiota, Food Science, and Human Nutrition: A Timely Marriage.

Barratt MJ, Lebrilla C, Shapiro HY, Gordon JI.

Cell Host Microbe. 2017 Aug 9;22(2):134-141. doi: 10.1016/j.chom.2017.07.006. Review.

12.

Lactobacillus reuteri induces gut intraepithelial CD4+CD8αα+ T cells.

Cervantes-Barragan L, Chai JN, Tianero MD, Di Luccia B, Ahern PP, Merriman J, Cortez VS, Caparon MG, Donia MS, Gilfillan S, Cella M, Gordon JI, Hsieh CS, Colonna M.

Science. 2017 Aug 25;357(6353):806-810. doi: 10.1126/science.aah5825. Epub 2017 Aug 3.

13.

Food and microbiota in the FDA regulatory framework.

Green JM, Barratt MJ, Kinch M, Gordon JI.

Science. 2017 Jul 7;357(6346):39-40. doi: 10.1126/science.aan0836. No abstract available.

14.

Attenuated Effects of Bile Acids on Glucose Metabolism and Insulin Sensitivity in a Male Mouse Model of Prenatal Undernutrition.

Ma H, Sales VM, Wolf AR, Subramanian S, Matthews TJ, Chen M, Sharma A, Gall W, Kulik W, Cohen DE, Adachi Y, Griffin NW, Gordon JI, Patti ME, Isganaitis E.

Endocrinology. 2017 Aug 1;158(8):2441-2452. doi: 10.1210/en.2017-00288.

15.

Selective depletion of uropathogenic E. coli from the gut by a FimH antagonist.

Spaulding CN, Klein RD, Ruer S, Kau AL, Schreiber HL, Cusumano ZT, Dodson KW, Pinkner JS, Fremont DH, Janetka JW, Remaut H, Gordon JI, Hultgren SJ.

Nature. 2017 Jun 22;546(7659):528-532. doi: 10.1038/nature22972. Epub 2017 Jun 14.

16.

The effects of micronutrient deficiencies on bacterial species from the human gut microbiota.

Hibberd MC, Wu M, Rodionov DA, Li X, Cheng J, Griffin NW, Barratt MJ, Giannone RJ, Hettich RL, Osterman AL, Gordon JI.

Sci Transl Med. 2017 May 17;9(390). pii: eaal4069. doi: 10.1126/scitranslmed.aal4069.

17.

Prior Dietary Practices and Connections to a Human Gut Microbial Metacommunity Alter Responses to Diet Interventions.

Griffin NW, Ahern PP, Cheng J, Heath AC, Ilkayeva O, Newgard CB, Fontana L, Gordon JI.

Cell Host Microbe. 2017 Jan 11;21(1):84-96. doi: 10.1016/j.chom.2016.12.006. Epub 2016 Dec 29.

18.

Impact of the gut microbiota on enhancer accessibility in gut intraepithelial lymphocytes.

Semenkovich NP, Planer JD, Ahern PP, Griffin NW, Lin CY, Gordon JI.

Proc Natl Acad Sci U S A. 2016 Dec 20;113(51):14805-14810. doi: 10.1073/pnas.1617793113. Epub 2016 Dec 1.

19.

Effects of a gut pathobiont in a gnotobiotic mouse model of childhood undernutrition.

Wagner VE, Dey N, Guruge J, Hsiao A, Ahern PP, Semenkovich NP, Blanton LV, Cheng J, Griffin N, Stappenbeck TS, Ilkayeva O, Newgard CB, Petri W, Haque R, Ahmed T, Gordon JI.

Sci Transl Med. 2016 Nov 23;8(366):366ra164.

20.

A microbial perspective of human developmental biology.

Charbonneau MR, Blanton LV, DiGiulio DB, Relman DA, Lebrilla CB, Mills DA, Gordon JI.

Nature. 2016 Jul 7;535(7610):48-55. doi: 10.1038/nature18845.

21.

Childhood undernutrition, the gut microbiota, and microbiota-directed therapeutics.

Blanton LV, Barratt MJ, Charbonneau MR, Ahmed T, Gordon JI.

Science. 2016 Jun 24;352(6293):1533. doi: 10.1126/science.aad9359. Review.

PMID:
27339978
22.

Development of the gut microbiota and mucosal IgA responses in twins and gnotobiotic mice.

Planer JD, Peng Y, Kau AL, Blanton LV, Ndao IM, Tarr PI, Warner BB, Gordon JI.

Nature. 2016 Jun 9;534(7606):263-6. doi: 10.1038/nature17940. Epub 2016 May 25.

23.

Gut bacteria that prevent growth impairments transmitted by microbiota from malnourished children.

Blanton LV, Charbonneau MR, Salih T, Barratt MJ, Venkatesh S, Ilkaveya O, Subramanian S, Manary MJ, Trehan I, Jorgensen JM, Fan YM, Henrissat B, Leyn SA, Rodionov DA, Osterman AL, Maleta KM, Newgard CB, Ashorn P, Dewey KG, Gordon JI.

Science. 2016 Feb 19;351(6275). pii: aad3311. doi: 10.1126/science.aad3311.

24.

Sialylated Milk Oligosaccharides Promote Microbiota-Dependent Growth in Models of Infant Undernutrition.

Charbonneau MR, O'Donnell D, Blanton LV, Totten SM, Davis JC, Barratt MJ, Cheng J, Guruge J, Talcott M, Bain JR, Muehlbauer MJ, Ilkayeva O, Wu C, Struckmeyer T, Barile D, Mangani C, Jorgensen J, Fan YM, Maleta K, Dewey KG, Ashorn P, Newgard CB, Lebrilla C, Mills DA, Gordon JI.

Cell. 2016 Feb 25;164(5):859-71. doi: 10.1016/j.cell.2016.01.024. Epub 2016 Feb 18.

25.

Training the next generation of biomedical investigators in glycosciences.

Agre P, Bertozzi C, Bissell M, Campbell KP, Cummings RD, Desai UR, Estes M, Flotte T, Fogleman G, Gage F, Ginsburg D, Gordon JI, Hart G, Hascall V, Kiessling L, Kornfeld S, Lowe J, Magnani J, Mahal LK, Medzhitov R, Roberts RJ, Sackstein R, Sarkar R, Schnaar R, Schwartz N, Varki A, Walt D, Weissman I.

J Clin Invest. 2016 Feb;126(2):405-8. doi: 10.1172/JCI85905. Epub 2016 Feb 1. Review.

26.

Feeding the brain and nurturing the mind: Linking nutrition and the gut microbiota to brain development.

Goyal MS, Venkatesh S, Milbrandt J, Gordon JI, Raichle ME.

Proc Natl Acad Sci U S A. 2015 Nov 17;112(46):14105-12. doi: 10.1073/pnas.1511465112. Review.

27.

Genetic determinants of in vivo fitness and diet responsiveness in multiple human gut Bacteroides.

Wu M, McNulty NP, Rodionov DA, Khoroshkin MS, Griffin NW, Cheng J, Latreille P, Kerstetter RA, Terrapon N, Henrissat B, Osterman AL, Gordon JI.

Science. 2015 Oct 2;350(6256):aac5992. doi: 10.1126/science.aac5992.

28.

Regulators of gut motility revealed by a gnotobiotic model of diet-microbiome interactions related to travel.

Dey N, Wagner VE, Blanton LV, Cheng J, Fontana L, Haque R, Ahmed T, Gordon JI.

Cell. 2015 Sep 24;163(1):95-107. doi: 10.1016/j.cell.2015.08.059. Erratum in: Cell. 2015 Nov 5;163(4):1037.

29.

Gut DNA viromes of Malawian twins discordant for severe acute malnutrition.

Reyes A, Blanton LV, Cao S, Zhao G, Manary M, Trehan I, Smith MI, Wang D, Virgin HW, Rohwer F, Gordon JI.

Proc Natl Acad Sci U S A. 2015 Sep 22;112(38):11941-6. doi: 10.1073/pnas.1514285112. Epub 2015 Sep 8.

30.

Interactions between Gut Microbiota, Host Genetics and Diet Modulate the Predisposition to Obesity and Metabolic Syndrome.

Ussar S, Griffin NW, Bezy O, Fujisaka S, Vienberg S, Softic S, Deng L, Bry L, Gordon JI, Kahn CR.

Cell Metab. 2015 Sep 1;22(3):516-530. doi: 10.1016/j.cmet.2015.07.007. Epub 2015 Aug 20. Erratum in: Cell Metab. 2016 Mar 8;23(3):564-6.

31.

Cultivating healthy growth and nutrition through the gut microbiota.

Subramanian S, Blanton LV, Frese SA, Charbonneau M, Mills DA, Gordon JI.

Cell. 2015 Mar 26;161(1):36-48. doi: 10.1016/j.cell.2015.03.013.

32.

Characterizing the interactions between a naturally primed immunoglobulin A and its conserved Bacteroides thetaiotaomicron species-specific epitope in gnotobiotic mice.

Peterson DA, Planer JD, Guruge JL, Xue L, Downey-Virgin W, Goodman AL, Seedorf H, Gordon JI.

J Biol Chem. 2015 May 15;290(20):12630-49. doi: 10.1074/jbc.M114.633800. Epub 2015 Mar 20.

33.

Functional characterization of IgA-targeted bacterial taxa from undernourished Malawian children that produce diet-dependent enteropathy.

Kau AL, Planer JD, Liu J, Rao S, Yatsunenko T, Trehan I, Manary MJ, Liu TC, Stappenbeck TS, Maleta KM, Ashorn P, Dewey KG, Houpt ER, Hsieh CS, Gordon JI.

Sci Transl Med. 2015 Feb 25;7(276):276ra24. doi: 10.1126/scitranslmed.aaa4877.

34.

Analysis of gene-environment interactions in postnatal development of the mammalian intestine.

Rakoff-Nahoum S, Kong Y, Kleinstein SH, Subramanian S, Ahern PP, Gordon JI, Medzhitov R.

Proc Natl Acad Sci U S A. 2015 Feb 17;112(7):1929-36. doi: 10.1073/pnas.1424886112.

35.

Where next for microbiome research?

Waldor MK, Tyson G, Borenstein E, Ochman H, Moeller A, Finlay BB, Kong HH, Gordon JI, Nelson KE, Dabbagh K, Smith H.

PLoS Biol. 2015 Jan 20;13(1):e1002050. doi: 10.1371/journal.pbio.1002050. eCollection 2015 Jan.

36.

Identifying strains that contribute to complex diseases through the study of microbial inheritance.

Faith JJ, Colombel JF, Gordon JI.

Proc Natl Acad Sci U S A. 2015 Jan 20;112(3):633-40. doi: 10.1073/pnas.1418781112. Epub 2015 Jan 9.

37.

Genome-wide association study of Arabidopsis thaliana leaf microbial community.

Horton MW, Bodenhausen N, Beilsmith K, Meng D, Muegge BD, Subramanian S, Vetter MM, Vilhjálmsson BJ, Nordborg M, Gordon JI, Bergelson J.

Nat Commun. 2014 Nov 10;5:5320. doi: 10.1038/ncomms6320.

38.

Bacteria from diverse habitats colonize and compete in the mouse gut.

Seedorf H, Griffin NW, Ridaura VK, Reyes A, Cheng J, Rey FE, Smith MI, Simon GM, Scheffrahn RH, Woebken D, Spormann AM, Van Treuren W, Ursell LK, Pirrung M, Robbins-Pianka A, Cantarel BL, Lombard V, Henrissat B, Knight R, Gordon JI.

Cell. 2014 Oct 9;159(2):253-66. doi: 10.1016/j.cell.2014.09.008. Epub 2014 Oct 2.

39.

Members of the human gut microbiota involved in recovery from Vibrio cholerae infection.

Hsiao A, Ahmed AM, Subramanian S, Griffin NW, Drewry LL, Petri WA Jr, Haque R, Ahmed T, Gordon JI.

Nature. 2014 Nov 20;515(7527):423-6. doi: 10.1038/nature13738. Epub 2014 Sep 17.

40.

Distinct contributions of Aire and antigen-presenting-cell subsets to the generation of self-tolerance in the thymus.

Perry JSA, Lio CJ, Kau AL, Nutsch K, Yang Z, Gordon JI, Murphy KM, Hsieh CS.

Immunity. 2014 Sep 18;41(3):414-426. doi: 10.1016/j.immuni.2014.08.007. Epub 2014 Sep 11.

41.

An evolving perspective about the origins of childhood undernutrition and nutritional interventions that includes the gut microbiome.

Ahmed T, Auble D, Berkley JA, Black R, Ahern PP, Hossain M, Hsieh A, Ireen S, Arabi M, Gordon JI.

Ann N Y Acad Sci. 2014 Dec;1332:22-38. doi: 10.1111/nyas.12487. Epub 2014 Aug 12. Review.

42.

Mining the human gut microbiota for effector strains that shape the immune system.

Ahern PP, Faith JJ, Gordon JI.

Immunity. 2014 Jun 19;40(6):815-23. doi: 10.1016/j.immuni.2014.05.012.

43.

Persistent gut microbiota immaturity in malnourished Bangladeshi children.

Subramanian S, Huq S, Yatsunenko T, Haque R, Mahfuz M, Alam MA, Benezra A, DeStefano J, Meier MF, Muegge BD, Barratt MJ, VanArendonk LG, Zhang Q, Province MA, Petri WA Jr, Ahmed T, Gordon JI.

Nature. 2014 Jun 19;510(7505):417-21. doi: 10.1038/nature13421. Epub 2014 Jun 4.

44.

Microbial community dynamics and stability during an ammonia-induced shift to syntrophic acetate oxidation.

Werner JJ, Garcia ML, Perkins SD, Yarasheski KE, Smith SR, Muegge BD, Stadermann FJ, DeRito CM, Floss C, Madsen EL, Gordon JI, Angenent LT.

Appl Environ Microbiol. 2014 Jun;80(11):3375-83. doi: 10.1128/AEM.00166-14. Epub 2014 Mar 21.

45.

Identifying gut microbe-host phenotype relationships using combinatorial communities in gnotobiotic mice.

Faith JJ, Ahern PP, Ridaura VK, Cheng J, Gordon JI.

Sci Transl Med. 2014 Jan 22;6(220):220ra11. doi: 10.1126/scitranslmed.3008051.

46.

Gnotobiotic mouse model of phage-bacterial host dynamics in the human gut.

Reyes A, Wu M, McNulty NP, Rohwer FL, Gordon JI.

Proc Natl Acad Sci U S A. 2013 Dec 10;110(50):20236-41. doi: 10.1073/pnas.1319470110. Epub 2013 Nov 20.

47.

Genetically dictated change in host mucus carbohydrate landscape exerts a diet-dependent effect on the gut microbiota.

Kashyap PC, Marcobal A, Ursell LK, Smits SA, Sonnenburg ED, Costello EK, Higginbottom SK, Domino SE, Holmes SP, Relman DA, Knight R, Gordon JI, Sonnenburg JL.

Proc Natl Acad Sci U S A. 2013 Oct 15;110(42):17059-64. doi: 10.1073/pnas.1306070110. Epub 2013 Sep 23.

48.

Gut microbiota from twins discordant for obesity modulate metabolism in mice.

Ridaura VK, Faith JJ, Rey FE, Cheng J, Duncan AE, Kau AL, Griffin NW, Lombard V, Henrissat B, Bain JR, Muehlbauer MJ, Ilkayeva O, Semenkovich CF, Funai K, Hayashi DK, Lyle BJ, Martini MC, Ursell LK, Clemente JC, Van Treuren W, Walters WA, Knight R, Newgard CB, Heath AC, Gordon JI.

Science. 2013 Sep 6;341(6150):1241214. doi: 10.1126/science.1241214.

49.

Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats.

TerAvest MA, He Z, Rosenbaum MA, Martens EC, Cotta MA, Gordon JI, Angenent LT.

Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.

50.

Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome.

McNulty NP, Wu M, Erickson AR, Pan C, Erickson BK, Martens EC, Pudlo NA, Muegge BD, Henrissat B, Hettich RL, Gordon JI.

PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.

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