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Items: 1 to 50 of 279

1.

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
2.

Murine Methyl Donor Deficiency Impairs Early Growth in Association with Dysmorphic Small Intestinal Crypts and Reduced Gut Microbial Community Diversity.

Alves da Silva AV, de Castro Oliveira SB, Di Rienzi SC, Brown-Steinke K, Dehan LM, Rood JK, Carreira VS, Le H, Maier EA, Betz KJ, Aihara E, Ley RE, Preidis GA, Shen L, Moore SR.

Curr Dev Nutr. 2018 Oct 3;3(1):nzy070. doi: 10.1093/cdn/nzy070. eCollection 2019 Jan.

3.

High efficiency of III-nitride micro-light-emitting diodes by sidewall passivation using atomic layer deposition.

Wong MS, Hwang D, Alhassan AI, Lee C, Ley R, Nakamura S, DenBaars SP.

Opt Express. 2018 Aug 6;26(16):21324-21331. doi: 10.1364/OE.26.021324.

PMID:
30119435
4.

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.

5.

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.

6.

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
7.

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
8.

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;:.

9.

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. 2018 Jan;50(1):138-150. doi: 10.1038/s41588-017-0012-9. Epub 2017 Dec 18.

10.

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.

11.

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.

12.

Combining MOSCED with molecular simulation free energy calculations or electronic structure calculations to develop an efficient tool for solvent formulation and selection.

Cox CE, Phifer JR, Ferreira da Silva L, Gonçalves Nogueira G, Ley RT, O'Loughlin EJ, Pereira Barbosa AK, Rygelski BT, Paluch AS.

J Comput Aided Mol Des. 2017 Feb;31(2):183-199. doi: 10.1007/s10822-016-0001-6. Epub 2017 Jan 28.

PMID:
28132112
13.

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.

14.

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.

15.

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.

16.

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.

17.

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.

18.

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
19.

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.

20.

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.

21.

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.

22.

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
23.

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.

24.

Understanding the large solubility of lidocaine in 1-n-butyl-3-methylimidazolium based ionic liquids using molecular simulation.

Ley RT, Paluch AS.

J Chem Phys. 2016 Feb 28;144(8):084501. doi: 10.1063/1.4942025.

PMID:
26931706
25.

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.

26.

Molecularly Tuning the Radicaloid N-H···O═C Hydrogen Bond.

Lu N, Chung WC, Ley RM, Lin KY, Francisco JS, Negishi E.

J Phys Chem A. 2016 Mar 3;120(8):1307-15. doi: 10.1021/acs.jpca.6b00144. Epub 2016 Feb 18.

PMID:
26855203
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. Erratum in: Nat Rev Gastroenterol Hepatol. 2016 Apr;13(4):188.

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.

Microbiota and Host Nutrition across Plant and Animal Kingdoms.

Hacquard S, Garrido-Oter R, González A, Spaepen S, Ackermann G, Lebeis S, McHardy AC, Dangl JL, Knight R, Ley R, Schulze-Lefert P.

Cell Host Microbe. 2015 May 13;17(5):603-16. doi: 10.1016/j.chom.2015.04.009. Review.

38.

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.

39.

The gene-microbe link.

Ley RE.

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

PMID:
25715280
40.

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.

41.

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.

42.

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.

43.

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.

44.

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.

45.

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.

46.

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.

47.

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.

48.

Discordance between changes in the gut microbiota and pathogenicity in a mouse model of spontaneous colitis.

Perez-Muñoz ME, Bergstrom K, Peng V, Schmaltz R, Jimenez-Cardona R, Marsteller N, McGee S, Clavel T, Ley R, Fu J, Xia L, Peterson DA.

Gut Microbes. 2014 May-Jun;5(3):286-95. doi: 10.4161/gmic.28622. Epub 2014 Mar 24.

49.

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
50.

Probiotics, prebiotics, and the host microbiome: the science of translation.

Petschow B, Doré J, Hibberd P, Dinan T, Reid G, Blaser M, Cani PD, Degnan FH, Foster J, Gibson G, Hutton J, Klaenhammer TR, Ley R, Nieuwdorp M, Pot B, Relman D, Serazin A, Sanders ME.

Ann N Y Acad Sci. 2013 Dec;1306:1-17. doi: 10.1111/nyas.12303. Epub 2013 Nov 22. Review.

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