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Here, there, and everywhere: How pathogenic E. coli sense and respond to gastrointestinal biogeography.

Woodward SE, Krekhno Z, Finlay BB.

Cell Microbiol. 2019 Aug 27:e13107. doi: 10.1111/cmi.13107. [Epub ahead of print]


Gut microbes, ageing & organ function: a chameleon in modern biology?

Reza MM, Finlay BB, Pettersson S.

EMBO Mol Med. 2019 Sep;11(9):e9872. doi: 10.15252/emmm.201809872. Epub 2019 Aug 14. Review.


The Microbiome Mediates Environmental Effects on Aging.

Finlay BB, Pettersson S, Melby MK, Bosch TCG.

Bioessays. 2019 Oct;41(10):e1800257. doi: 10.1002/bies.201800257. Epub 2019 Jun 3. Review.


The Gut Microbiota-Brain Axis Expands Neurologic Function: A Nervous Rapport.

Bauer KC, Rees T, Finlay BB.

Bioessays. 2019 Oct;41(10):e1800268. doi: 10.1002/bies.201800268. Epub 2019 May 17. Review.


Bacteroides-Derived Sphingolipids Are Critical for Maintaining Intestinal Homeostasis and Symbiosis.

Brown EM, Ke X, Hitchcock D, Jeanfavre S, Avila-Pacheco J, Nakata T, Arthur TD, Fornelos N, Heim C, Franzosa EA, Watson N, Huttenhower C, Haiser HJ, Dillow G, Graham DB, Finlay BB, Kostic AD, Porter JA, Vlamakis H, Clish CB, Xavier RJ.

Cell Host Microbe. 2019 May 8;25(5):668-680.e7. doi: 10.1016/j.chom.2019.04.002.


Persistent Salmonella enterica Serovar Typhimurium Infection Induces Protease Expression During Intestinal Fibrosis.

Ehrhardt K, Steck N, Kappelhoff R, Stein S, Rieder F, Gordon IO, Boyle EC, Braubach P, Overall CM, Finlay BB, Grassl GA.

Inflamm Bowel Dis. 2019 May 9. pii: izz070. doi: 10.1093/ibd/izz070. [Epub ahead of print]


Thinking bigger: How early-life environmental exposures shape the gut microbiome and influence the development of asthma and allergic disease.

Sbihi H, Boutin RC, Cutler C, Suen M, Finlay BB, Turvey SE.

Allergy. 2019 Apr 9. doi: 10.1111/all.13812. [Epub ahead of print] Review.


Association between the intestinal microbiota and allergic sensitization, eczema, and asthma: A systematic review.

Zimmermann P, Messina N, Mohn WW, Finlay BB, Curtis N.

J Allergy Clin Immunol. 2019 Feb;143(2):467-485. doi: 10.1016/j.jaci.2018.09.025. Epub 2018 Dec 29.


Characterization of the Citrobacter rodentium Cpx regulon and its role in host infection.

Vogt SL, Scholz R, Peng Y, Guest RL, Scott NE, Woodward SE, Foster LJ, Raivio TL, Finlay BB.

Mol Microbiol. 2019 Mar;111(3):700-716. doi: 10.1111/mmi.14182. Epub 2019 Feb 11.


The Human Microbiome and Child Growth - First 1000 Days and Beyond.

Robertson RC, Manges AR, Finlay BB, Prendergast AJ.

Trends Microbiol. 2019 Feb;27(2):131-147. doi: 10.1016/j.tim.2018.09.008. Epub 2018 Oct 24. Review.


Global Profiling of Proteolysis from the Mitochondrial Amino Terminome during Early Intrinsic Apoptosis Prior to Caspase-3 Activation.

Marshall NC, Klein T, Thejoe M, von Krosigk N, Kizhakkedathu J, Finlay BB, Overall CM.

J Proteome Res. 2018 Dec 7;17(12):4279-4296. doi: 10.1021/acs.jproteome.8b00675. Epub 2018 Oct 29.


Farewell Stan Stanley Falkow: 1934-2018.

Cabello FC, Cohen SN, Curtiss R 3rd, Dougan G, van Embden J, Finlay BB, Heffron F, Helinski D, Hull R, Hull S, Isberg R, Kopecko DJ, Levy S, Mekalanos J, Ortiz JM, Rappuoli R, Roberts MC, So M, Timmis KN.

Environ Microbiol. 2018 Jul;20(7):2322-2333. doi: 10.1111/1462-2920.14308. Epub 2018 Aug 26. No abstract available.


Stunted childhood growth is associated with decompartmentalization of the gastrointestinal tract and overgrowth of oropharyngeal taxa.

Vonaesch P, Morien E, Andrianonimiadana L, Sanke H, Mbecko JR, Huus KE, Naharimanananirina T, Gondje BP, Nigatoloum SN, Vondo SS, Kaleb Kandou JE, Randremanana R, Rakotondrainipiana M, Mazel F, Djorie SG, Gody JC, Finlay BB, Rubbo PA, Wegener Parfrey L, Collard JM, Sansonetti PJ; Afribiota Investigators.

Proc Natl Acad Sci U S A. 2018 Sep 4;115(36):E8489-E8498. doi: 10.1073/pnas.1806573115. Epub 2018 Aug 20.


Characterization of the two conformations adopted by the T3SS inner-membrane protein PrgK.

Bergeron JRC, Brockerman JA, Vuckovic M, Deng W, Okon M, Finlay BB, McIntosh LP, Strynadka NCJ.

Protein Sci. 2018 Sep;27(9):1680-1691. doi: 10.1002/pro.3447. Epub 2018 Aug 10.


The Third Transmembrane Domain of EscR Is Critical for Function of the Enteropathogenic Escherichia coli Type III Secretion System.

Tseytin I, Madar A, Mitrovic B, Deng W, Finlay BB, Sal-Man N.

mSphere. 2018 Jul 25;3(4). pii: e00162-18. doi: 10.1128/mSphere.00162-18.


Identifying the etiology and pathophysiology underlying stunting and environmental enteropathy: study protocol of the AFRIBIOTA project.

Vonaesch P, Randremanana R, Gody JC, Collard JM, Giles-Vernick T, Doria M, Vigan-Womas I, Rubbo PA, Etienne A, Andriatahirintsoa EJ, Kapel N, Brown E, Huus KE, Duffy D, Finlay BB, Hasan M, Hunald FA, Robinson A, Manirakiza A, Wegener-Parfrey L, Vray M, Sansonetti PJ; AFRIBIOTA Investigators.

BMC Pediatr. 2018 Jul 19;18(1):236. doi: 10.1186/s12887-018-1189-5.


Asymptomatic Intestinal Colonization with Protist Blastocystis Is Strongly Associated with Distinct Microbiome Ecological Patterns.

Nieves-Ramírez ME, Partida-Rodríguez O, Laforest-Lapointe I, Reynolds LA, Brown EM, Valdez-Salazar A, Morán-Silva P, Rojas-Velázquez L, Morien E, Parfrey LW, Jin M, Walter J, Torres J, Arrieta MC, Ximénez-García C, Finlay BB.

mSystems. 2018 Jun 26;3(3). pii: e00007-18. doi: 10.1128/mSystems.00007-18. eCollection 2018 May-Jun.


A Nonpyroptotic IFN-γ-Triggered Cell Death Mechanism in Nonphagocytic Cells Promotes Salmonella Clearance In Vivo.

Ingram JP, Tursi S, Zhang T, Guo W, Yin C, A Wynosky-Dolfi M, van der Heijden J, Cai KQ, Yamamoto M, Finlay BB, Brodsky IE, Grivennikov SI, Tükel Ç, Balachandran S.

J Immunol. 2018 May 15;200(10):3626-3634. doi: 10.4049/jimmunol.1701386. Epub 2018 Apr 13.


Good Bug, Bad Bug: Breaking through Microbial Stereotypes.

Cirstea M, Radisavljevic N, Finlay BB.

Cell Host Microbe. 2018 Jan 10;23(1):10-13. doi: 10.1016/j.chom.2017.12.008.


Human Intestinal Microbiota: Interaction Between Parasites and the Host Immune Response.

Partida-Rodríguez O, Serrano-Vázquez A, Nieves-Ramírez ME, Moran P, Rojas L, Portillo T, González E, Hernández E, Finlay BB, Ximenez C.

Arch Med Res. 2017 Nov;48(8):690-700. doi: 10.1016/j.arcmed.2017.11.015. Epub 2017 Dec 28. Review.


Microbial Insights into Asthmatic Immunopathology. A Forward-Looking Synthesis and Commentary.

Boutin RCT, Petersen C, Finlay BB.

Ann Am Thorac Soc. 2017 Nov;14(Supplement_5):S316-S325. doi: 10.1513/AnnalsATS.201707-534AW. Review.


Microbiome-driven allergic lung inflammation is ameliorated by short-chain fatty acids.

Cait A, Hughes MR, Antignano F, Cait J, Dimitriu PA, Maas KR, Reynolds LA, Hacker L, Mohr J, Finlay BB, Zaph C, McNagny KM, Mohn WW.

Mucosal Immunol. 2018 May;11(3):785-795. doi: 10.1038/mi.2017.75. Epub 2017 Oct 25.


Towards standards for human fecal sample processing in metagenomic studies.

Costea PI, Zeller G, Sunagawa S, Pelletier E, Alberti A, Levenez F, Tramontano M, Driessen M, Hercog R, Jung FE, Kultima JR, Hayward MR, Coelho LP, Allen-Vercoe E, Bertrand L, Blaut M, Brown JRM, Carton T, Cools-Portier S, Daigneault M, Derrien M, Druesne A, de Vos WM, Finlay BB, Flint HJ, Guarner F, Hattori M, Heilig H, Luna RA, van Hylckama Vlieg J, Junick J, Klymiuk I, Langella P, Le Chatelier E, Mai V, Manichanh C, Martin JC, Mery C, Morita H, O'Toole PW, Orvain C, Patil KR, Penders J, Persson S, Pons N, Popova M, Salonen A, Saulnier D, Scott KP, Singh B, Slezak K, Veiga P, Versalovic J, Zhao L, Zoetendal EG, Ehrlich SD, Dore J, Bork P.

Nat Biotechnol. 2017 Nov;35(11):1069-1076. doi: 10.1038/nbt.3960. Epub 2017 Oct 2.


Infections: Feeding the microbial multitudes: co-infection in a malnourished host.

Huus KE, Finlay BB.

Nat Rev Gastroenterol Hepatol. 2017 Dec;14(12):695-696. doi: 10.1038/nrgastro.2017.133. Epub 2017 Sep 27. No abstract available.


What the SIF Is Happening-The Role of Intracellular Salmonella-Induced Filaments.

Knuff K, Finlay BB.

Front Cell Infect Microbiol. 2017 Jul 25;7:335. doi: 10.3389/fcimb.2017.00335. eCollection 2017. Review.


Repression of Salmonella Host Cell Invasion by Aromatic Small Molecules from the Human Fecal Metabolome.

Peixoto RJM, Alves ES, Wang M, Ferreira RBR, Granato A, Han J, Gill H, Jacobson K, Lobo LA, Domingues RMCP, Borchers CH, Davies JE, Finlay BB, Antunes LCM.

Appl Environ Microbiol. 2017 Sep 15;83(19). pii: e01148-17. doi: 10.1128/AEM.01148-17. Print 2017 Oct 1.


Initial Gut Microbial Composition as a Key Factor Driving Host Response to Antibiotic Treatment, as Exemplified by the Presence or Absence of Commensal Escherichia coli.

Ju T, Shoblak Y, Gao Y, Yang K, Fouhse J, Finlay BB, So YW, Stothard P, Willing BP.

Appl Environ Microbiol. 2017 Aug 17;83(17). pii: e01107-17. doi: 10.1128/AEM.01107-17. Print 2017 Sep 1.


Gut microbiota-mediated protection against diarrheal infections.

Vogt SL, Finlay BB.

J Travel Med. 2017 Apr 1;24(suppl_1):S39-S43. doi: 10.1093/jtm/taw086. Review.


Early life factors that affect allergy development.

Reynolds LA, Finlay BB.

Nat Rev Immunol. 2017 Aug;17(8):518-528. doi: 10.1038/nri.2017.39. Epub 2017 May 15. Review.


Corrigendum: Assembly, structure, function and regulation of type III secretion systems.

Deng W, Marshall NC, Rowland JL, McCoy JM, Worrall LJ, Santos AS, Strynadka NCJ, Finlay BB.

Nat Rev Microbiol. 2017 May 12;15(6):379. doi: 10.1038/nrmicro.2017.54. No abstract available.


Assembly, structure, function and regulation of type III secretion systems.

Deng W, Marshall NC, Rowland JL, McCoy JM, Worrall LJ, Santos AS, Strynadka NCJ, Finlay BB.

Nat Rev Microbiol. 2017 Jun;15(6):323-337. doi: 10.1038/nrmicro.2017.20. Epub 2017 Apr 10. Review. Erratum in: Nat Rev Microbiol. 2017 May 12;15(6):379.


Enteric Helminths Promote Salmonella Coinfection by Altering the Intestinal Metabolome.

Reynolds LA, Redpath SA, Yurist-Doutsch S, Gill N, Brown EM, van der Heijden J, Brosschot TP, Han J, Marshall NC, Woodward SE, Valdez Y, Borchers CH, Perona-Wright G, Finlay BB.

J Infect Dis. 2017 Apr 15;215(8):1245-1254. doi: 10.1093/infdis/jix141.


From bugs to brains: The microbiome in neurological health.

McKay KA, Kowalec K, Brinkman F, Finlay BB, Horwitz M, Manges AR, Osborne L, Tremlett H.

Mult Scler Relat Disord. 2017 Feb;12:1-3. doi: 10.1016/j.msard.2016.12.007. Epub 2016 Dec 18.


The gut microbiome in human neurological disease: A review.

Tremlett H, Bauer KC, Appel-Cresswell S, Finlay BB, Waubant E.

Ann Neurol. 2017 Mar;81(3):369-382. doi: 10.1002/ana.24901. Epub 2017 Mar 20. Review.


Sharpening Host Defenses during Infection: Proteases Cut to the Chase.

Marshall NC, Finlay BB, Overall CM.

Mol Cell Proteomics. 2017 Apr;16(4 suppl 1):S161-S171. doi: 10.1074/mcp.O116.066456. Epub 2017 Feb 8. Review.


Near-atomic-resolution cryo-EM analysis of the Salmonella T3S injectisome basal body.

Worrall LJ, Hong C, Vuckovic M, Deng W, Bergeron JRC, Majewski DD, Huang RK, Spreter T, Finlay BB, Yu Z, Strynadka NCJ.

Nature. 2016 Dec 22;540(7634):597-601. doi: 10.1038/nature20576. Epub 2016 Dec 14.


Shifts in Lachnospira and Clostridium sp. in the 3-month stool microbiome are associated with preschool age asthma.

Stiemsma LT, Arrieta MC, Dimitriu PA, Cheng J, Thorson L, Lefebvre DL, Azad MB, Subbarao P, Mandhane P, Becker A, Sears MR, Kollmann TR; Canadian Healthy Infant Longitudinal Development (CHILD) Study Investigators, Mohn WW, Finlay BB, Turvey SE.

Clin Sci (Lond). 2016 Dec 1;130(23):2199-2207. Epub 2016 Sep 15.


Immunosuppressive Treatment Alters Secretion of Ileal Antimicrobial Peptides and Gut Microbiota, and Favors Subsequent Colonization by Uropathogenic Escherichia coli.

Tourret J, Willing BP, Dion S, MacPherson J, Denamur E, Finlay BB.

Transplantation. 2017 Jan;101(1):74-82. doi: 10.1097/TP.0000000000001492.


Further investigation of inhibitors of MRSA pyruvate kinase: Towards the conception of novel antimicrobial agents.

Labrière C, Gong H, Finlay BB, Reiner NE, Young RN.

Eur J Med Chem. 2017 Jan 5;125:1-13. doi: 10.1016/j.ejmech.2016.09.018. Epub 2016 Sep 9.


Salmonella Rapidly Regulates Membrane Permeability To Survive Oxidative Stress.

van der Heijden J, Reynolds LA, Deng W, Mills A, Scholz R, Imami K, Foster LJ, Duong F, Finlay BB.

MBio. 2016 Aug 9;7(4). pii: e01238-16. doi: 10.1128/mBio.01238-16.


Nutrient Deprivation Affects Salmonella Invasion and Its Interaction with the Gastrointestinal Microbiota.

Yurist-Doutsch S, Arrieta MC, Tupin A, Valdez Y, Antunes LC, Yen R, Finlay BB.

PLoS One. 2016 Jul 20;11(7):e0159676. doi: 10.1371/journal.pone.0159676. eCollection 2016.


Human Microbiota-Associated Mice: A Model with Challenges.

Arrieta MC, Walter J, Finlay BB.

Cell Host Microbe. 2016 May 11;19(5):575-8. doi: 10.1016/j.chom.2016.04.014.


A humanized microbiota mouse model of ovalbumin-induced lung inflammation.

Arrieta MC, Sadarangani M, Brown EM, Russell SL, Nimmo M, Dean J, Turvey SE, Chan ES, Finlay BB.

Gut Microbes. 2016 Jul 3;7(4):342-352. Epub 2016 Apr 26.


Small Intestine Early Innate Immunity Response during Intestinal Colonization by Escherichia coli Depends on Its Extra-Intestinal Virulence Status.

Tourret J, Willing BP, Croxen MA, Dufour N, Dion S, Wachtel S, Denamur E, Finlay BB.

PLoS One. 2016 Apr 20;11(4):e0153034. doi: 10.1371/journal.pone.0153034. eCollection 2016.


Analysis of bacterial survival after exposure to reactive oxygen species or antibiotics.

van der Heijden J, Vogt SL, Reynolds LA, Peña-Díaz J, Tupin A, Aussel L, Finlay BB.

Data Brief. 2016 Mar 22;7:894-9. doi: 10.1016/j.dib.2016.03.060. eCollection 2016 Jun.


Quantitative Mass Spectrometry Identifies Novel Host Binding Partners for Pathogenic Escherichia coli Type III Secretion System Effectors.

Law RJ, Law HT, Scurll JM, Scholz R, Santos AS, Shames SR, Deng W, Croxen MA, Li Y, de Hoog CL, van der Heijden J, Foster LJ, Guttman JA, Finlay BB.

J Proteome Res. 2016 May 6;15(5):1613-22. doi: 10.1021/acs.jproteome.6b00074. Epub 2016 Mar 28.


A novel approach for emerging and antibiotic resistant infections: Innate defense regulators as an agnostic therapy.

North JR, Takenaka S, Rozek A, Kielczewska A, Opal S, Morici LA, Finlay BB, Schaber CJ, Straube R, Donini O.

J Biotechnol. 2016 May 20;226:24-34. doi: 10.1016/j.jbiotec.2016.03.032. Epub 2016 Mar 23.


Microbes and the mind: emerging hallmarks of the gut microbiota-brain axis.

Bauer KC, Huus KE, Finlay BB.

Cell Microbiol. 2016 May;18(5):632-44. doi: 10.1111/cmi.12585. Epub 2016 Mar 31. Review.


Exploring the redox balance inside gram-negative bacteria with redox-sensitive GFP.

van der Heijden J, Vogt SL, Reynolds LA, Peña-Díaz J, Tupin A, Aussel L, Finlay BB.

Free Radic Biol Med. 2016 Feb;91:34-44. doi: 10.1016/j.freeradbiomed.2015.11.029. Epub 2015 Dec 2.


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