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Correction: The Gut-Brain Axis in Healthy Females: Lack of Significant Association between Microbial Composition and Diversity with Psychiatric Measures.

Kleiman SC, Bulik-Sullivan EC, Glenny EM, Zerwas SC, Huh EY, Tsilimigras MCB, Fodor AA, Bulik CM, Carroll IM.

PLoS One. 2019 Aug 22;14(8):e0221724. doi: 10.1371/journal.pone.0221724. eCollection 2019.


Dietary iron variably modulates assembly of the intestinal microbiota in colitis-resistant and colitis-susceptible mice.

Ellermann M, Gharaibeh RZ, Maharshak N, Peréz-Chanona E, Jobin C, Carroll IM, Arthur JC, Plevy SE, Fodor AA, Brouwer CR, Sartor RB.

Gut Microbes. 2019 Jun 10:1-19. doi: 10.1080/19490976.2019.1599794. [Epub ahead of print]


Gut Microbiota Composition and Blood Pressure.

Sun S, Lulla A, Sioda M, Winglee K, Wu MC, Jacobs DR Jr, Shikany JM, Lloyd-Jones DM, Launer LJ, Fodor AA, Meyer KA.

Hypertension. 2019 May;73(5):998-1006. doi: 10.1161/HYPERTENSIONAHA.118.12109.


Human colon mucosal biofilms from healthy or colon cancer hosts are carcinogenic.

Tomkovich S, Dejea CM, Winglee K, Drewes JL, Chung L, Housseau F, Pope JL, Gauthier J, Sun X, Mühlbauer M, Liu X, Fathi P, Anders RA, Besharati S, Perez-Chanona E, Yang Y, Ding H, Wu X, Wu S, White JR, Gharaibeh RZ, Fodor AA, Wang H, Pardoll DM, Jobin C, Sears CL.

J Clin Invest. 2019 Mar 11;130:1699-1712. doi: 10.1172/JCI124196. eCollection 2019 Mar 11.


The Role of the Gut Microbiota in Sustained Weight Loss Following Roux-en-Y Gastric Bypass Surgery.

Fouladi F, Brooks AE, Fodor AA, Carroll IM, Bulik-Sullivan EC, Tsilimigras MCB, Sioda M, Steffen KJ.

Obes Surg. 2019 Apr;29(4):1259-1267. doi: 10.1007/s11695-018-03653-y.


Whole Genome Sequencing detects Inter-Facility Transmission of Carbapenem-resistant Klebsiella pneumoniae.

Spencer MD, Winglee K, Passaretti C, Earl AM, Manson AL, Mulder HP, Sautter RL, Fodor AA.

J Infect. 2019 Mar;78(3):187-199. doi: 10.1016/j.jinf.2018.11.003. Epub 2018 Nov 29.


Initial microbial community of the neonatal stomach immediately after birth.

Bajorek S, Parker L, Li N, Winglee K, Weaver M, Johnson J, Sioda M, Gauthier J, Lemas DJ, Jobin C, Lorca G, Neu J, Fodor AA.

Gut Microbes. 2019;10(3):289-297. doi: 10.1080/19490976.2018.1520578. Epub 2018 Nov 7.


Environmental Factors Modify the Severity of Acute DSS Colitis in Caspase-11-Deficient Mice.

Fan TJ, Tchaptchet SY, Arsene D, Mishima Y, Liu B, Sartor RB, Carroll IM, Miao EA, Fodor AA, Hansen JJ.

Inflamm Bowel Dis. 2018 Oct 12;24(11):2394-2403. doi: 10.1093/ibd/izy244.


Greater Microbial Translocation and Vulnerability to Metabolic Disease in Healthy Aged Female Monkeys.

Wilson QN, Wells M, Davis AT, Sherrill C, Tsilimigras MCB, Jones RB, Fodor AA, Kavanagh K.

Sci Rep. 2018 Jul 27;8(1):11373. doi: 10.1038/s41598-018-29473-9.


Intestinal microbiota enhances pancreatic carcinogenesis in preclinical models.

Thomas RM, Gharaibeh RZ, Gauthier J, Beveridge M, Pope JL, Guijarro MV, Yu Q, He Z, Ohland C, Newsome R, Trevino J, Hughes SJ, Reinhard M, Winglee K, Fodor AA, Zajac-Kaye M, Jobin C.

Carcinogenesis. 2018 Jul 30;39(8):1068-1078. doi: 10.1093/carcin/bgy073.


Rifaximin is associated with modest, transient decreases in multiple taxa in the gut microbiota of patients with diarrhoea-predominant irritable bowel syndrome.

Fodor AA, Pimentel M, Chey WD, Lembo A, Golden PL, Israel RJ, Carroll IM.

Gut Microbes. 2019;10(1):22-33. doi: 10.1080/19490976.2018.1460013. Epub 2018 Jul 18.


An Aberrant Microbiota is not Strongly Associated with Incidental Colonic Diverticulosis.

Jones RB, Fodor AA, Peery AF, Tsilimigras MCB, Winglee K, McCoy A, Sioda M, Sandler RS, Keku TO.

Sci Rep. 2018 Mar 21;8(1):4951. doi: 10.1038/s41598-018-23023-z.


Interactions Between Stress and Sex in Microbial Responses Within the Microbiota-Gut-Brain Axis in a Mouse Model.

Tsilimigras MCB, Gharaibeh RZ, Sioda M, Gray L, Fodor AA, Lyte M.

Psychosom Med. 2018 May;80(4):361-369. doi: 10.1097/PSY.0000000000000572.


Inter-niche and inter-individual variation in gut microbial community assessment using stool, rectal swab, and mucosal samples.

Jones RB, Zhu X, Moan E, Murff HJ, Ness RM, Seidner DL, Sun S, Yu C, Dai Q, Fodor AA, Azcarate-Peril MA, Shrubsole MJ.

Sci Rep. 2018 Mar 7;8(1):4139. doi: 10.1038/s41598-018-22408-4.


Environmental factors regulate Paneth cell phenotype and host susceptibility to intestinal inflammation in Irgm1-deficient mice.

Rogala AR, Schoenborn AA, Fee BE, Cantillana VA, Joyce MJ, Gharaibeh RZ, Roy S, Fodor AA, Sartor RB, Taylor GA, Gulati AS.

Dis Model Mech. 2018 Feb 7;11(2). pii: dmm031070. doi: 10.1242/dmm.031070.


Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium.

Sinha R, Abu-Ali G, Vogtmann E, Fodor AA, Ren B, Amir A, Schwager E, Crabtree J, Ma S; Microbiome Quality Control Project Consortium, Abnet CC, Knight R, White O, Huttenhower C.

Nat Biotechnol. 2017 Nov;35(11):1077-1086. doi: 10.1038/nbt.3981. Epub 2017 Oct 2.


Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes.

Winglee K, Howard AG, Sha W, Gharaibeh RZ, Liu J, Jin D, Fodor AA, Gordon-Larsen P.

Microbiome. 2017 Sep 15;5(1):121. doi: 10.1186/s40168-017-0338-7.


Daily Changes in Composition and Diversity of the Intestinal Microbiota in Patients with Anorexia Nervosa: A Series of Three Cases.

Kleiman SC, Glenny EM, Bulik-Sullivan EC, Huh EY, Tsilimigras MCB, Fodor AA, Bulik CM, Carroll IM.

Eur Eat Disord Rev. 2017 Sep;25(5):423-427. doi: 10.1002/erv.2524. Epub 2017 Jun 6.


Locoregional Effects of Microbiota in a Preclinical Model of Colon Carcinogenesis.

Tomkovich S, Yang Y, Winglee K, Gauthier J, Mühlbauer M, Sun X, Mohamadzadeh M, Liu X, Martin P, Wang GP, Oswald E, Fodor AA, Jobin C.

Cancer Res. 2017 May 15;77(10):2620-2632. doi: 10.1158/0008-5472.CAN-16-3472. Epub 2017 Apr 17.


Reduced Intestinal Motility, Mucosal Barrier Function, and Inflammation in Aged Monkeys.

Mitchell EL, Davis AT, Brass K, Dendinger M, Barner R, Gharaibeh R, Fodor AA, Kavanagh K.

J Nutr Health Aging. 2017;21(4):354-361. doi: 10.1007/s12603-016-0725-y.


The Gut-Brain Axis in Healthy Females: Lack of Significant Association between Microbial Composition and Diversity with Psychiatric Measures.

Kleiman SC, Bulik-Sullivan EC, Glenny EM, Zerwas SC, Huh EY, Tsilimigras MC, Fodor AA, Bulik CM, Carroll IM.

PLoS One. 2017 Jan 19;12(1):e0170208. doi: 10.1371/journal.pone.0170208. eCollection 2017. Erratum in: PLoS One. 2019 Aug 22;14(8):e0221724.


Early-Life Sugar Consumption Affects the Rat Microbiome Independently of Obesity.

Noble EE, Hsu TM, Jones RB, Fodor AA, Goran MI, Kanoski SE.

J Nutr. 2017 Jan;147(1):20-28. doi: 10.3945/jn.116.238816. Epub 2016 Nov 30.


Compositional data analysis of the microbiome: fundamentals, tools, and challenges.

Tsilimigras MC, Fodor AA.

Ann Epidemiol. 2016 May;26(5):330-5. doi: 10.1016/j.annepidem.2016.03.002. Epub 2016 Mar 31. Review.


Gut Microbiota and a Selectively Bred Taste Phenotype: A Novel Model of Microbiome-Behavior Relationships.

Lyte M, Fodor AA, Chapman CD, Martin GG, Perez-Chanona E, Jobin C, Dess NK.

Psychosom Med. 2016 Jun;78(5):610-9. doi: 10.1097/PSY.0000000000000318.


Intrinsic association between diet and the gut microbiome: current evidence.

Winglee K, Fodor AA.

Nutr Diet Suppl. 2015;7:69-76. doi: 10.2147/NDS.S62362. Epub 2015 Oct 7.


Analysis of changes in diversity and abundance of the microbial community in a cystic fibrosis patient over a multiyear period.

Stokell JR, Gharaibeh RZ, Hamp TJ, Zapata MJ, Fodor AA, Steck TR.

J Clin Microbiol. 2015 Jan;53(1):237-47. doi: 10.1128/JCM.02555-14. Epub 2014 Nov 12.


Microbial genomic analysis reveals the essential role of inflammation in bacteria-induced colorectal cancer.

Arthur JC, Gharaibeh RZ, Mühlbauer M, Perez-Chanona E, Uronis JM, McCafferty J, Fodor AA, Jobin C.

Nat Commun. 2014 Sep 3;5:4724. doi: 10.1038/ncomms5724.


Comparison of culture and molecular techniques for microbial community characterization in infected necrotizing pancreatitis.

Hanna EM, Hamp TJ, McKillop IH, Bahrani-Mougeot F, Martinie JB, Horton JM, Sindram D, Gharaibeh RZ, Fodor AA, Iannitti DA.

J Surg Res. 2014 Oct;191(2):362-9. doi: 10.1016/j.jss.2014.05.003. Epub 2014 May 9.


Reply to KN Litwak and S Levin.

Kavanagh K, Wylie AT, Tucker KL, Hamp TJ, Gharaibeh RZ, Fodor AA, Cullen JM.

Am J Clin Nutr. 2014 Jan;99(1):210. doi: 10.3945/ajcn.113.074633. No abstract available.


Reply to JS White.

Kavanagh K, Wylie AT, Tucker KL, Hamp TJ, Gharaibeh RZ, Fodor AA, Cullen JM.

Am J Clin Nutr. 2013 Nov;98(5):1370. doi: 10.3945/ajcn.113.072264. No abstract available.


VSL#3 probiotic modifies mucosal microbial composition but does not reduce colitis-associated colorectal cancer.

Arthur JC, Gharaibeh RZ, Uronis JM, Perez-Chanona E, Sha W, Tomkovich S, Mühlbauer M, Fodor AA, Jobin C.

Sci Rep. 2013 Oct 8;3:2868. doi: 10.1038/srep02868.


Stochastic changes over time and not founder effects drive cage effects in microbial community assembly in a mouse model.

McCafferty J, Mühlbauer M, Gharaibeh RZ, Arthur JC, Perez-Chanona E, Sha W, Jobin C, Fodor AA.

ISME J. 2013 Nov;7(11):2116-25. doi: 10.1038/ismej.2013.106. Epub 2013 Jul 4.


Dietary fructose induces endotoxemia and hepatic injury in calorically controlled primates.

Kavanagh K, Wylie AT, Tucker KL, Hamp TJ, Gharaibeh RZ, Fodor AA, Cullen JM.

Am J Clin Nutr. 2013 Aug;98(2):349-57. doi: 10.3945/ajcn.112.057331.


Mouse Paneth cell antimicrobial function is independent of Nod2.

Shanahan MT, Carroll IM, Grossniklaus E, White A, von Furstenberg RJ, Barner R, Fodor AA, Henning SJ, Sartor RB, Gulati AS.

Gut. 2014 Jun;63(6):903-10. doi: 10.1136/gutjnl-2012-304190. Epub 2013 Mar 19.


The adult cystic fibrosis airway microbiota is stable over time and infection type, and highly resilient to antibiotic treatment of exacerbations.

Fodor AA, Klem ER, Gilpin DF, Elborn JS, Boucher RC, Tunney MM, Wolfgang MC.

PLoS One. 2012;7(9):e45001. doi: 10.1371/journal.pone.0045001. Epub 2012 Sep 26.


Intestinal inflammation targets cancer-inducing activity of the microbiota.

Arthur JC, Perez-Chanona E, Mühlbauer M, Tomkovich S, Uronis JM, Fan TJ, Campbell BJ, Abujamel T, Dogan B, Rogers AB, Rhodes JM, Stintzi A, Simpson KW, Hansen JJ, Keku TO, Fodor AA, Jobin C.

Science. 2012 Oct 5;338(6103):120-3. doi: 10.1126/science.1224820. Epub 2012 Aug 16.


The "most wanted" taxa from the human microbiome for whole genome sequencing.

Fodor AA, DeSantis TZ, Wylie KM, Badger JH, Ye Y, Hepburn T, Hu P, Sodergren E, Liolios K, Huot-Creasy H, Birren BW, Earl AM.

PLoS One. 2012;7(7):e41294. doi: 10.1371/journal.pone.0041294. Epub 2012 Jul 26.


A core human microbiome as viewed through 16S rRNA sequence clusters.

Huse SM, Ye Y, Zhou Y, Fodor AA.

PLoS One. 2012;7(6):e34242. doi: 10.1371/journal.pone.0034242. Epub 2012 Jun 13.


Increased rectal microbial richness is associated with the presence of colorectal adenomas in humans.

Sanapareddy N, Legge RM, Jovov B, McCoy A, Burcal L, Araujo-Perez F, Randall TA, Galanko J, Benson A, Sandler RS, Rawls JF, Abdo Z, Fodor AA, Keku TO.

ISME J. 2012 Oct;6(10):1858-68. doi: 10.1038/ismej.2012.43. Epub 2012 May 24.


A critical evaluation of correlated mutation algorithms and coevolution within allosteric mechanisms.

Livesay DR, Kreth KE, Fodor AA.

Methods Mol Biol. 2012;796:385-98. doi: 10.1007/978-1-61779-334-9_21.


Bugs, stool, and the irritable bowel syndrome: too much is as bad as too little?

Talley NJ, Fodor AA.

Gastroenterology. 2011 Nov;141(5):1555-9. doi: 10.1053/j.gastro.2011.09.019. Epub 2011 Sep 22. No abstract available.


Use of culture and molecular analysis to determine the effect of antibiotic treatment on microbial community diversity and abundance during exacerbation in patients with cystic fibrosis.

Tunney MM, Klem ER, Fodor AA, Gilpin DF, Moriarty TF, McGrath SJ, Muhlebach MS, Boucher RC, Cardwell C, Doering G, Elborn JS, Wolfgang MC.

Thorax. 2011 Jul;66(7):579-84. doi: 10.1136/thx.2010.137281. Epub 2011 Jan 26.


Accurate estimates of microarray target concentration from a simple sequence-independent Langmuir model.

Gharaibeh RZ, Fodor AA, Gibas CJ.

PLoS One. 2010 Dec 30;5(12):e14464. doi: 10.1371/journal.pone.0014464.


Association between composition of the human gastrointestinal microbiome and development of fatty liver with choline deficiency.

Spencer MD, Hamp TJ, Reid RW, Fischer LM, Zeisel SH, Fodor AA.

Gastroenterology. 2011 Mar;140(3):976-86. doi: 10.1053/j.gastro.2010.11.049. Epub 2010 Dec 1.


Strain screen and haplotype association mapping of wheel running in inbred mouse strains.

Lightfoot JT, Leamy L, Pomp D, Turner MJ, Fodor AA, Knab A, Bowen RS, Ferguson D, Moore-Harrison T, Hamilton A.

J Appl Physiol (1985). 2010 Sep;109(3):623-34. doi: 10.1152/japplphysiol.00525.2010. Epub 2010 Jun 10.


Effects of experimental choices and analysis noise on surveys of the "rare biosphere".

Hamp TJ, Jones WJ, Fodor AA.

Appl Environ Microbiol. 2009 May;75(10):3263-70. doi: 10.1128/AEM.01931-08. Epub 2009 Mar 6.


Molecular diversity of a North Carolina wastewater treatment plant as revealed by pyrosequencing.

Sanapareddy N, Hamp TJ, Gonzalez LC, Hilger HA, Fodor AA, Clinton SM.

Appl Environ Microbiol. 2009 Mar;75(6):1688-96. doi: 10.1128/AEM.01210-08. Epub 2008 Dec 29.


Determining gene expression on a single pair of microarrays.

Reid RW, Fodor AA.

BMC Bioinformatics. 2008 Nov 21;9:489. doi: 10.1186/1471-2105-9-489.


Background correction using dinucleotide affinities improves the performance of GCRMA.

Gharaibeh RZ, Fodor AA, Gibas CJ.

BMC Bioinformatics. 2008 Oct 23;9:452. doi: 10.1186/1471-2105-9-452.


Convergent evolution of alternative splices at domain boundaries of the BK channel.

Fodor AA, Aldrich RW.

Annu Rev Physiol. 2009;71:19-36. doi: 10.1146/annurev.physiol.010908.163124. Review.


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