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Zooming in on Inflammatory Bowel Disease: Microbial and Proteomic Features Associated With IBD in Colonic Microenvironments.

Tamburini S, Clemente JC.

Cell Mol Gastroenterol Hepatol. 2016 Jul 26;2(5):540-541. doi: 10.1016/j.jcmgh.2016.07.001. No abstract available.


The lung microbiota in early rheumatoid arthritis and autoimmunity.

Scher JU, Joshua V, Artacho A, Abdollahi-Roodsaz S, Öckinger J, Kullberg S, Sköld M, Eklund A, Grunewald J, Clemente JC, Ubeda C, Segal LN, Catrina AI.

Microbiome. 2016 Nov 17;4(1):60.


Resting energy expenditure in obese women: comparison between measured and estimated values.

Poli VF, Sanches RB, Moraes AD, Fidalgo JP, Nascimento MA, Andrade-Silva SG, Clemente JC, Yi LC, Caranti DA.

Br J Nutr. 2016 Oct;116(7):1306-1313.


Enrichment of the lung microbiome with oral taxa is associated with lung inflammation of a Th17 phenotype.

Segal LN, Clemente JC, Tsay JC, Koralov SB, Keller BC, Wu BG, Li Y, Shen N, Ghedin E, Morris A, Diaz P, Huang L, Wikoff WR, Ubeda C, Artacho A, Rom WN, Sterman DH, Collman RG, Blaser MJ, Weiden MD.

Nat Microbiol. 2016 Apr 4;1:16031. doi: 10.1038/nmicrobiol.2016.31.


Randomised, double-blind, placebo-controlled trial with azithromycin selects for anti-inflammatory microbial metabolites in the emphysematous lung.

Segal LN, Clemente JC, Wu BG, Wikoff WR, Gao Z, Li Y, Ko JP, Rom WN, Blaser MJ, Weiden MD.

Thorax. 2017 Jan;72(1):13-22. doi: 10.1136/thoraxjnl-2016-208599.


The microbiome in early life: implications for health outcomes.

Tamburini S, Shen N, Wu HC, Clemente JC.

Nat Med. 2016 Jul 7;22(7):713-22. doi: 10.1038/nm.4142. Review.


Early-life gut microbiome composition and milk allergy resolution.

Bunyavanich S, Shen N, Grishin A, Wood R, Burks W, Dawson P, Jones SM, Leung DY, Sampson H, Sicherer S, Clemente JC.

J Allergy Clin Immunol. 2016 Oct;138(4):1122-1130. doi: 10.1016/j.jaci.2016.03.041.


Intestinal Microbiota Is Influenced by Gender and Body Mass Index.

Haro C, Rangel-Zúñiga OA, Alcalá-Díaz JF, Gómez-Delgado F, Pérez-Martínez P, Delgado-Lista J, Quintana-Navarro GM, Landa BB, Navas-Cortés JA, Tena-Sempere M, Clemente JC, López-Miranda J, Pérez-Jiménez F, Camargo A.

PLoS One. 2016 May 26;11(5):e0154090. doi: 10.1371/journal.pone.0154090.


Microbiota-driven transcriptional changes in prefrontal cortex override genetic differences in social behavior.

Gacias M, Gaspari S, Santos PM, Tamburini S, Andrade M, Zhang F, Shen N, Tolstikov V, Kiebish MA, Dupree JL, Zachariou V, Clemente JC, Casaccia P.

Elife. 2016 Apr 20;5. pii: e13442. doi: 10.7554/eLife.13442.


Safety of vaginal microbial transfer in infants delivered by caesarean, and expected health outcomes.

Clemente JC, Dominguez-Bello MG.

BMJ. 2016 Mar 31;352:i1707. doi: 10.1136/bmj.i1707. No abstract available.


Partial restoration of the microbiota of cesarean-born infants via vaginal microbial transfer.

Dominguez-Bello MG, De Jesus-Laboy KM, Shen N, Cox LM, Amir A, Gonzalez A, Bokulich NA, Song SJ, Hoashi M, Rivera-Vinas JI, Mendez K, Knight R, Clemente JC.

Nat Med. 2016 Mar;22(3):250-3. doi: 10.1038/nm.4039.


The gut microbial community in metabolic syndrome patients is modified by diet.

Haro C, Garcia-Carpintero S, Alcala-Diaz JF, Gomez-Delgado F, Delgado-Lista J, Perez-Martinez P, Rangel Zuñiga OA, Quintana-Navarro GM, Landa BB, Clemente JC, Lopez-Miranda J, Camargo A, Perez-Jimenez F.

J Nutr Biochem. 2016 Jan;27:27-31. doi: 10.1016/j.jnutbio.2015.08.011.


Changes in vaginal microbiota following antimicrobial and probiotic therapy.

Macklaim JM, Clemente JC, Knight R, Gloor GB, Reid G.

Microb Ecol Health Dis. 2015 Aug 14;26:27799. doi: 10.3402/mehd.v26.27799.


The microbiome of uncontacted Amerindians.

Clemente JC, Pehrsson EC, Blaser MJ, Sandhu K, Gao Z, Wang B, Magris M, Hidalgo G, Contreras M, Noya-Alarcón Ó, Lander O, McDonald J, Cox M, Walter J, Oh PL, Ruiz JF, Rodriguez S, Shen N, Song SJ, Metcalf J, Knight R, Dantas G, Dominguez-Bello MG.

Sci Adv. 2015 Apr 3;1(3). pii: e1500183.


Engineering the Microbiome: a Novel Approach to Immunotherapy for Allergic and Immune Diseases.

Shen N, Clemente JC.

Curr Allergy Asthma Rep. 2015 Jul;15(7):39. doi: 10.1007/s11882-015-0538-9. Review.


Subsistence strategies in traditional societies distinguish gut microbiomes.

Obregon-Tito AJ, Tito RY, Metcalf J, Sankaranarayanan K, Clemente JC, Ursell LK, Zech Xu Z, Van Treuren W, Knight R, Gaffney PM, Spicer P, Lawson P, Marin-Reyes L, Trujillo-Villarroel O, Foster M, Guija-Poma E, Troncoso-Corzo L, Warinner C, Ozga AT, Lewis CM.

Nat Commun. 2015 Mar 25;6:6505. doi: 10.1038/ncomms7505.


Can inflammatory bowel disease be permanently treated with short-term interventions on the microbiome?

Berg D, Clemente JC, Colombel JF.

Expert Rev Gastroenterol Hepatol. 2015 Jun;9(6):781-95. doi: 10.1586/17474124.2015.1013031. Review.


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.


Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences.

Rideout JR, He Y, Navas-Molina JA, Walters WA, Ursell LK, Gibbons SM, Chase J, McDonald D, Gonzalez A, Robbins-Pianka A, Clemente JC, Gilbert JA, Huse SM, Zhou HW, Knight R, Caporaso JG.

PeerJ. 2014 Aug 21;2:e545. doi: 10.7717/peerj.545.


Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity.

Parfrey LW, Walters WA, Lauber CL, Clemente JC, Berg-Lyons D, Teiling C, Kodira C, Mohiuddin M, Brunelle J, Driscoll M, Fierer N, Gilbert JA, Knight R.

Front Microbiol. 2014 Jun 19;5:298. doi: 10.3389/fmicb.2014.00298.

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