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Items: 1 to 50 of 93

1.

The human gut bacteria Christensenellaceae are widespread, heritable, and associated with health.

Waters JL, Ley RE.

BMC Biol. 2019 Oct 28;17(1):83. doi: 10.1186/s12915-019-0699-4. Review.

2.

Expanding the scope and scale of microbiome research.

Knight R, Ley RE, Raes J, Grice EA.

Genome Biol. 2019 Sep 5;20(1):191. doi: 10.1186/s13059-019-1804-2. No abstract available.

3.

Age- and Sex-Dependent Patterns of Gut Microbial Diversity in Human Adults.

de la Cuesta-Zuluaga J, Kelley ST, Chen Y, Escobar JS, Mueller NT, Ley RE, McDonald D, Huang S, Swafford AD, Knight R, Thackray VG.

mSystems. 2019 May 14;4(4). pii: e00261-19. doi: 10.1128/mSystems.00261-19. eCollection 2019 Jul-Aug.

4.

Host diet and evolutionary history explain different aspects of gut microbiome diversity among vertebrate clades.

Youngblut ND, Reischer GH, Walters W, Schuster N, Walzer C, Stalder G, Ley RE, Farnleitner AH.

Nat Commun. 2019 May 16;10(1):2200. doi: 10.1038/s41467-019-10191-3.

5.

Human Salivary Amylase Gene Copy Number Impacts Oral and Gut Microbiomes.

Poole AC, Goodrich JK, Youngblut ND, Luque GG, Ruaud A, Sutter JL, Waters JL, Shi Q, El-Hadidi M, Johnson LM, Bar HY, Huson DH, Booth JG, Ley RE.

Cell Host Microbe. 2019 Apr 10;25(4):553-564.e7. doi: 10.1016/j.chom.2019.03.001.

PMID:
30974084
6.

Virome Diversity Correlates with Intestinal Microbiome Diversity in Adult Monozygotic Twins.

Moreno-Gallego JL, Chou SP, Di Rienzi SC, Goodrich JK, Spector TD, Bell JT, Youngblut ND, Hewson I, Reyes A, Ley RE.

Cell Host Microbe. 2019 Feb 13;25(2):261-272.e5. doi: 10.1016/j.chom.2019.01.019.

PMID:
30763537
7.

Large-scale replicated field study of maize rhizosphere identifies heritable microbes.

Walters WA, Jin Z, Youngblut N, Wallace JG, Sutter J, Zhang W, González-Peña A, Peiffer J, Koren O, Shi Q, Knight R, Glavina Del Rio T, Tringe SG, Buckler ES, Dangl JL, Ley RE.

Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):7368-7373. doi: 10.1073/pnas.1800918115. Epub 2018 Jun 25.

8.

Resilience of small intestinal beneficial bacteria to the toxicity of soybean oil fatty acids.

Di Rienzi SC, Jacobson J, Kennedy EA, Bell ME, Shi Q, Waters JL, Lawrence P, Brenna JT, Britton RA, Walter J, Ley RE.

Elife. 2018 Mar 27;7. pii: e32581. doi: 10.7554/eLife.32581.

9.

Publisher Correction: Enterotypes in the landscape of gut microbial community composition.

Costea PI, Hildebrand F, Arumugam M, Bäckhed F, Blaser MJ, Bushman FD, de Vos WM, Ehrlich SD, Fraser CM, Hattori M, Huttenhower C, Jeffery IB, Knights D, Lewis JD, Ley RE, Ochman H, O'Toole PW, Quince C, Relman DA, Shanahan F, Sunagawa S, Wang J, Weinstock GM, Wu GD, Zeller G, Zhao L, Raes J, Knight R, Bork P.

Nat Microbiol. 2018 Mar;3(3):388. doi: 10.1038/s41564-018-0114-x.

PMID:
29440750
10.

Sphingolipids in host-microbial interactions.

Heaver SL, Johnson EL, Ley RE.

Curr Opin Microbiol. 2018 Jun;43:92-99. doi: 10.1016/j.mib.2017.12.011. Epub 2018 Jan 12. Review.

PMID:
29328957
11.

Enterotypes in the landscape of gut microbial community composition.

Costea PI, Hildebrand F, Arumugam M, Bäckhed F, Blaser MJ, Bushman FD, de Vos WM, Ehrlich SD, Fraser CM, Hattori M, Huttenhower C, Jeffery IB, Knights D, Lewis JD, Ley RE, Ochman H, O'Toole PW, Quince C, Relman DA, Shanahan F, Sunagawa S, Wang J, Weinstock GM, Wu GD, Zeller G, Zhao L, Raes J, Knight R, Bork P.

Nat Microbiol. 2018 Jan;3(1):8-16. doi: 10.1038/s41564-017-0072-8. Epub 2017 Dec 18. Review. Erratum in: Nat Microbiol. 2018 Feb 13;:.

12.

Genomic features of bacterial adaptation to plants.

Levy A, Salas Gonzalez I, Mittelviefhaus M, Clingenpeel S, Herrera Paredes S, Miao J, Wang K, Devescovi G, Stillman K, Monteiro F, Rangel Alvarez B, Lundberg DS, Lu TY, Lebeis S, Jin Z, McDonald M, Klein AP, Feltcher ME, Rio TG, Grant SR, Doty SL, Ley RE, Zhao B, Venturi V, Pelletier DA, Vorholt JA, Tringe SG, Woyke T, Dangl JL.

Nat Genet. 2017 Dec 18;50(1):138-150. doi: 10.1038/s41588-017-0012-9.

13.

The Relationship Between the Human Genome and Microbiome Comes into View.

Goodrich JK, Davenport ER, Clark AG, Ley RE.

Annu Rev Genet. 2017 Nov 27;51:413-433. doi: 10.1146/annurev-genet-110711-155532. Epub 2017 Sep 20. Review.

14.

Alterations to the Gut Microbiome Impair Bone Strength and Tissue Material Properties.

Guss JD, Horsfield MW, Fontenele FF, Sandoval TN, Luna M, Apoorva F, Lima SF, Bicalho RC, Singh A, Ley RE, van der Meulen MC, Goldring SR, Hernandez CJ.

J Bone Miner Res. 2017 Jun;32(6):1343-1353. doi: 10.1002/jbmr.3114. Epub 2017 Mar 27.

15.

Vertical sleeve gastrectomy reduces blood pressure and hypothalamic endoplasmic reticulum stress in mice.

McGavigan AK, Henseler ZM, Garibay D, Butler SD, Jayasinghe S, Ley RE, Davisson RL, Cummings BP.

Dis Model Mech. 2017 Mar 1;10(3):235-243. doi: 10.1242/dmm.027474. Epub 2017 Jan 12.

16.

Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes.

Johnson EL, Heaver SL, Walters WA, Ley RE.

J Mol Med (Berl). 2017 Jan;95(1):1-8. doi: 10.1007/s00109-016-1492-2. Epub 2016 Nov 29. Review.

17.

ABO antigen and secretor statuses are not associated with gut microbiota composition in 1,500 twins.

Davenport ER, Goodrich JK, Bell JT, Spector TD, Ley RE, Clark AG.

BMC Genomics. 2016 Nov 21;17(1):941.

18.

Reply to "Triclocarban and Health: the Jury Is Still Out".

Pischel L, Poole AC, Ley C, Suh G, Goodrich JK, Haggerty TD, Ley RE, Parsonnet J.

mSphere. 2016 Nov 2;1(6). pii: e00255-16. eCollection 2016 Nov-Dec. No abstract available.

19.

Heritable components of the human fecal microbiome are associated with visceral fat.

Beaumont M, Goodrich JK, Jackson MA, Yet I, Davenport ER, Vieira-Silva S, Debelius J, Pallister T, Mangino M, Raes J, Knight R, Clark AG, Ley RE, Spector TD, Bell JT.

Genome Biol. 2016 Sep 26;17(1):189.

20.

Corralling Colonic Flagellated Microbiota.

Ley RE, Gewirtz AT.

N Engl J Med. 2016 Jul 7;375(1):85-7. doi: 10.1056/NEJMcibr1604801. No abstract available.

PMID:
27406353
21.

Reduced diversity and altered composition of the gut microbiome in individuals with myalgic encephalomyelitis/chronic fatigue syndrome.

Giloteaux L, Goodrich JK, Walters WA, Levine SM, Ley RE, Hanson MR.

Microbiome. 2016 Jun 23;4(1):30. doi: 10.1186/s40168-016-0171-4.

22.

Crossover Control Study of the Effect of Personal Care Products Containing Triclosan on the Microbiome.

Poole AC, Pischel L, Ley C, Suh G, Goodrich JK, Haggerty TD, Ley RE, Parsonnet J.

mSphere. 2016 May 18;1(3). pii: e00056-15. doi: 10.1128/mSphere.00056-15. eCollection 2016 May-Jun.

23.

Genetic Determinants of the Gut Microbiome in UK Twins.

Goodrich JK, Davenport ER, Beaumont M, Jackson MA, Knight R, Ober C, Spector TD, Bell JT, Clark AG, Ley RE.

Cell Host Microbe. 2016 May 11;19(5):731-43. doi: 10.1016/j.chom.2016.04.017.

24.

Corrigendum: Dietary emulsifiers impact the mouse gut microbiota promoting colitis and metabolic syndrome.

Chassaing B, Koren O, Goodrich JK, Poole AC, Srinivasan S, Ley RE, Gewirtz AT.

Nature. 2016 Aug 11;536(7615):238. doi: 10.1038/nature18000. Epub 2016 May 4. No abstract available.

PMID:
27144359
25.

Cross-species comparisons of host genetic associations with the microbiome.

Goodrich JK, Davenport ER, Waters JL, Clark AG, Ley RE.

Science. 2016 Apr 29;352(6285):532-5. doi: 10.1126/science.aad9379. Review.

26.

Erratum to: signatures of early frailty in the gut microbiota.

Jackson MA, Jeffery IB, Beaumont M, Bell JT, Clark AG, Ley RE, O'Toole PW, Spector TD, Steves CJ.

Genome Med. 2016 Feb 17;8(1):21. doi: 10.1186/s13073-016-0275-2. No abstract available.

27.

Gut microbiota in 2015: Prevotella in the gut: choose carefully.

Ley RE.

Nat Rev Gastroenterol Hepatol. 2016 Feb;13(2):69-70. doi: 10.1038/nrgastro.2016.4. Review.

PMID:
26828918
28.

Signatures of early frailty in the gut microbiota.

Jackson MA, Jeffery IB, Beaumont M, Bell JT, Clark AG, Ley RE, O'Toole PW, Spector TD, Steves CJ.

Genome Med. 2016 Jan 29;8(1):8. doi: 10.1186/s13073-016-0262-7. Erratum in: Genome Med. 2016;8(1):21. Jackson, Matt [corrected to Jackson, Matthew A].

29.

Methane Emission in a Specific Riparian-Zone Sediment Decreased with Bioelectrochemical Manipulation and Corresponded to the Microbial Community Dynamics.

Friedman ES, McPhillips LE, Werner JJ, Poole AC, Ley RE, Walter MT, Angenent LT.

Front Microbiol. 2016 Jan 11;6:1523. doi: 10.3389/fmicb.2015.01523. eCollection 2015.

30.

Proton pump inhibitors alter the composition of the gut microbiota.

Jackson MA, Goodrich JK, Maxan ME, Freedberg DE, Abrams JA, Poole AC, Sutter JL, Welter D, Ley RE, Bell JT, Spector TD, Steves CJ.

Gut. 2016 May;65(5):749-56. doi: 10.1136/gutjnl-2015-310861. Epub 2015 Dec 30.

31.

Novel Rhizosphere Soil Alleles for the Enzyme 1-Aminocyclopropane-1-Carboxylate Deaminase Queried for Function with an In Vivo Competition Assay.

Jin Z, Di Rienzi SC, Janzon A, Werner JJ, Angenent LT, Dangl JL, Fowler DM, Ley RE.

Appl Environ Microbiol. 2015 Dec 4;82(4):1050-9. doi: 10.1128/AEM.03074-15. Print 2016 Feb 15.

32.

Epithelial Sel1L is required for the maintenance of intestinal homeostasis.

Sun S, Lourie R, Cohen SB, Ji Y, Goodrich JK, Poole AC, Ley RE, Denkers EY, McGuckin MA, Long Q, Duhamel GE, Simpson KW, Qi L.

Mol Biol Cell. 2016 Feb 1;27(3):483-90. doi: 10.1091/mbc.E15-10-0724. Epub 2015 Dec 2.

33.

Potential applications of next generation DNA sequencing of 16S rRNA gene amplicons in microbial water quality monitoring.

Vierheilig J, Savio D, Ley RE, Mach RL, Farnleitner AH, Reischer GH.

Water Sci Technol. 2015;72(11):1962-72. doi: 10.2166/wst.2015.407. Erratum in: Water Sci Technol. 2016;73(7):1768.

34.

TGR5 contributes to glucoregulatory improvements after vertical sleeve gastrectomy in mice.

McGavigan AK, Garibay D, Henseler ZM, Chen J, Bettaieb A, Haj FG, Ley RE, Chouinard ML, Cummings BP.

Gut. 2017 Feb;66(2):226-234. doi: 10.1136/gutjnl-2015-309871. Epub 2015 Oct 28.

35.

Host genetic variation impacts microbiome composition across human body sites.

Blekhman R, Goodrich JK, Huang K, Sun Q, Bukowski R, Bell JT, Spector TD, Keinan A, Ley RE, Gevers D, Clark AG.

Genome Biol. 2015 Sep 15;16:191. doi: 10.1186/s13059-015-0759-1.

36.

Gut-Microbiota-Metabolite Axis in Early Renal Function Decline.

Barrios C, Beaumont M, Pallister T, Villar J, Goodrich JK, Clark A, Pascual J, Ley RE, Spector TD, Bell JT, Menni C.

PLoS One. 2015 Aug 4;10(8):e0134311. doi: 10.1371/journal.pone.0134311. eCollection 2015.

37.

Dietary emulsifiers impact the mouse gut microbiota promoting colitis and metabolic syndrome.

Chassaing B, Koren O, Goodrich JK, Poole AC, Srinivasan S, Ley RE, Gewirtz AT.

Nature. 2015 Mar 5;519(7541):92-6. doi: 10.1038/nature14232. Epub 2015 Feb 25. Erratum in: Nature. 2016 Aug 11;536(7615):238.

38.

The gene-microbe link.

Ley RE.

Nature. 2015 Feb 26;518(7540):S7. doi: 10.1038/518S7a. No abstract available.

PMID:
25715280
39.

Gut microbiota as an epigenetic regulator: pilot study based on whole-genome methylation analysis.

Kumar H, Lund R, Laiho A, Lundelin K, Ley RE, Isolauri E, Salminen S.

MBio. 2014 Dec 16;5(6). pii: e02113-14. doi: 10.1128/mBio.02113-14.

40.

Human genetics shape the gut microbiome.

Goodrich JK, Waters JL, Poole AC, Sutter JL, Koren O, Blekhman R, Beaumont M, Van Treuren W, Knight R, Bell JT, Spector TD, Clark AG, Ley RE.

Cell. 2014 Nov 6;159(4):789-99. doi: 10.1016/j.cell.2014.09.053.

41.

Selection on soil microbiomes reveals reproducible impacts on plant function.

Panke-Buisse K, Poole AC, Goodrich JK, Ley RE, Kao-Kniffin J.

ISME J. 2015 Mar 17;9(4):980-9. doi: 10.1038/ismej.2014.196.

42.

Advancing the microbiome research community.

Huttenhower C, Knight R, Brown CT, Caporaso JG, Clemente JC, Gevers D, Franzosa EA, Kelley ST, Knights D, Ley RE, Mahurkar A, Ravel J; Scientists for Advancement of Microbiome Research, White O.

Cell. 2014 Oct 9;159(2):227-30. doi: 10.1016/j.cell.2014.09.022.

43.

Linking genetic variation in human Toll-like receptor 5 genes to the gut microbiome's potential to cause inflammation.

Leifer CA, McConkey C, Li S, Chassaing B, Gewirtz AT, Ley RE.

Immunol Lett. 2014 Dec;162(2 Pt A):3-9. doi: 10.1016/j.imlet.2014.07.017. Epub 2014 Oct 2. Review.

44.

Intestinal epithelial cell toll-like receptor 5 regulates the intestinal microbiota to prevent low-grade inflammation and metabolic syndrome in mice.

Chassaing B, Ley RE, Gewirtz AT.

Gastroenterology. 2014 Dec;147(6):1363-77.e17. doi: 10.1053/j.gastro.2014.08.033. Epub 2014 Aug 27.

45.

Conducting a microbiome study.

Goodrich JK, Di Rienzi SC, Poole AC, Koren O, Walters WA, Caporaso JG, Knight R, Ley RE.

Cell. 2014 Jul 17;158(2):250-262. doi: 10.1016/j.cell.2014.06.037.

46.

Diet-induced alterations in gut microflora contribute to lethal pulmonary damage in TLR2/TLR4-deficient mice.

Ji Y, Sun S, Goodrich JK, Kim H, Poole AC, Duhamel GE, Ley RE, Qi L.

Cell Rep. 2014 Jul 10;8(1):137-49. doi: 10.1016/j.celrep.2014.05.040. Epub 2014 Jun 19.

47.

Harnessing microbiota to kill a pathogen: the sweet tooth of Clostridium difficile.

Ley RE.

Nat Med. 2014 Mar;20(3):248-9. doi: 10.1038/nm.3494. No abstract available.

PMID:
24603797
48.

Exploring the maize rhizosphere microbiome in the field: A glimpse into a highly complex system.

Peiffer JA, Ley RE.

Commun Integr Biol. 2013 Sep 1;6(5):e25177. doi: 10.4161/cib.25177. Epub 2013 Jun 4.

49.

Innate and adaptive immunity interact to quench microbiome flagellar motility in the gut.

Cullender TC, Chassaing B, Janzon A, Kumar K, Muller CE, Werner JJ, Angenent LT, Bell ME, Hay AG, Peterson DA, Walter J, Vijay-Kumar M, Gewirtz AT, Ley RE.

Cell Host Microbe. 2013 Nov 13;14(5):571-81. doi: 10.1016/j.chom.2013.10.009.

50.

The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria.

Di Rienzi SC, Sharon I, Wrighton KC, Koren O, Hug LA, Thomas BC, Goodrich JK, Bell JT, Spector TD, Banfield JF, Ley RE.

Elife. 2013 Oct 1;2:e01102. doi: 10.7554/eLife.01102.

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