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Items: 33

1.

Mice Deficient in Epithelial or Myeloid Cell Iκκβ Have Distinct Colonic Microbiomes and Increased Resistance to Citrobacter rodentium Infection.

Mackos AR, Allen JM, Kim E, Ladaika CA, Gharaibeh RZ, Moore C, Parry NMA, Boyaka PN, Bailey MT.

Front Immunol. 2019 Sep 10;10:2062. doi: 10.3389/fimmu.2019.02062. eCollection 2019.

2.

Seaweed natural products modify the host inflammatory response via Nrf2 signaling and alter colon microbiota composition and gene expression.

Bousquet MS, Ratnayake R, Pope JL, Chen QY, Zhu F, Chen S, Carney TJ, Gharaibeh RZ, Jobin C, Paul VJ, Luesch H.

Free Radic Biol Med. 2019 Sep 16. pii: S0891-5849(19)30996-7. doi: 10.1016/j.freeradbiomed.2019.09.013. [Epub ahead of print]

PMID:
31536771
3.

Yersiniabactin producing AIEC promote inflammation-associated fibrosis in gnotobiotic Il10-/- mice.

Ellermann M, Gharaibeh RZ, Fulbright L, Dogan B, Moore LN, Broberg CA, Lopez LR, Rothemich AM, Herzog JW, Rogala A, Gordon IO, Rieder F, Brouwer CR, Simpson KW, Jobin C, Sartor RB, Arthur JC.

Infect Immun. 2019 Sep 3. pii: IAI.00587-19. doi: 10.1128/IAI.00587-19. [Epub ahead of print]

4.

Mouse Gut Microbiome-Encoded β-Glucuronidases Identified Using Metagenome Analysis Guided by Protein Structure.

Creekmore BC, Gray JH, Walton WG, Biernat KA, Little MS, Xu Y, Liu J, Gharaibeh RZ, Redinbo MR.

mSystems. 2019 Aug 27;4(4). pii: e00452-19. doi: 10.1128/mSystems.00452-19.

5.

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]

PMID:
31179826
6.

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.

7.

microRNA-146a-5p association with the cardiometabolic disease risk factor TMAO.

Coffey AR, Kanke M, Smallwood TL, Albright J, Pitman W, Gharaibeh RZ, Hua K, Gertz E, Biddinger SB, Temel RE, Pomp D, Sethupathy P, Bennett BJ.

Physiol Genomics. 2019 Feb 1;51(2):59-71. doi: 10.1152/physiolgenomics.00079.2018. Epub 2019 Jan 11.

PMID:
30633643
8.

Social Stress Affects Colonic Inflammation, the Gut Microbiome, and Short-chain Fatty Acid Levels and Receptors.

Maltz RM, Keirsey J, Kim SC, Mackos AR, Gharaibeh RZ, Moore CC, Xu J, Somogyi A, Bailey MT.

J Pediatr Gastroenterol Nutr. 2019 Apr;68(4):533-540. doi: 10.1097/MPG.0000000000002226.

PMID:
30540706
9.

Microbiota and cancer immunotherapy: in search of microbial signals.

Gharaibeh RZ, Jobin C.

Gut. 2018 Dec 8. pii: gutjnl-2018-317220. doi: 10.1136/gutjnl-2018-317220. [Epub ahead of print] No abstract available.

10.

Campylobacter jejuni promotes colorectal tumorigenesis through the action of cytolethal distending toxin.

He Z, Gharaibeh RZ, Newsome RC, Pope JL, Dougherty MW, Tomkovich S, Pons B, Mirey G, Vignard J, Hendrixson DR, Jobin C.

Gut. 2019 Feb;68(2):289-300. doi: 10.1136/gutjnl-2018-317200. Epub 2018 Oct 30.

11.

Impact of vitamin D depletion during development on mouse sperm DNA methylation.

Xue J, Gharaibeh RZ, Pietryk EW, Brouwer C, Tarantino LM, Valdar W, Ideraabdullah FY.

Epigenetics. 2018;13(9):959-974. doi: 10.1080/15592294.2018.1526027. Epub 2018 Oct 21.

PMID:
30239288
12.

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 May 28. doi: 10.1093/carcin/bgy073. [Epub ahead of print]

13.

Prolonged restraint stressor exposure in outbred CD-1 mice impacts microbiota, colonic inflammation, and short chain fatty acids.

Maltz RM, Keirsey J, Kim SC, Mackos AR, Gharaibeh RZ, Moore CC, Xu J, Bakthavatchalu V, Somogyi A, Bailey MT.

PLoS One. 2018 May 9;13(5):e0196961. doi: 10.1371/journal.pone.0196961. eCollection 2018.

14.

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.

PMID:
29533327
15.

Microbiota-Derived Metabolic Factors Reduce Campylobacteriosis in Mice.

Sun X, Winglee K, Gharaibeh RZ, Gauthier J, He Z, Tripathi P, Avram D, Bruner S, Fodor A, Jobin C.

Gastroenterology. 2018 May;154(6):1751-1763.e2. doi: 10.1053/j.gastro.2018.01.042. Epub 2018 Feb 1.

16.

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.

17.

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.

18.

An Atlas of β-Glucuronidases in the Human Intestinal Microbiome.

Pollet RM, D'Agostino EH, Walton WG, Xu Y, Little MS, Biernat KA, Pellock SJ, Patterson LM, Creekmore BC, Isenberg HN, Bahethi RR, Bhatt AP, Liu J, Gharaibeh RZ, Redinbo MR.

Structure. 2017 Jul 5;25(7):967-977.e5. doi: 10.1016/j.str.2017.05.003. Epub 2017 Jun 1.

19.

Gut Microbial Dysbiosis Due to Helicobacter Drives an Increase in Marginal Zone B Cells in the Absence of IL-10 Signaling in Macrophages.

Ray A, Basu S, Gharaibeh RZ, Cook LC, Kumar R, Lefkowitz EJ, Walker CR, Morrow CD, Franklin CL, Geiger TL, Salzman NH, Fodor A, Dittel BN.

J Immunol. 2015 Oct 1;195(7):3071-85. doi: 10.4049/jimmunol.1500153. Epub 2015 Aug 31.

20.

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.

21.

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.

22.

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.

PMID:
24952411
23.

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.

PMID:
24363257
24.

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.

25.

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.

26.

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.

27.

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.

28.

Rapid emergence of a ceftazidime-resistant Burkholderia multivorans strain in a cystic fibrosis patient.

Stokell JR, Gharaibeh RZ, Steck TR.

J Cyst Fibros. 2013 Dec;12(6):812-6. doi: 10.1016/j.jcf.2013.01.009. Epub 2013 Mar 9.

29.

The illusion of specific capture: surface and solution studies of suboptimal oligonucleotide hybridization.

Garhyan J, Gharaibeh RZ, McGee S, Gibas CJ.

BMC Res Notes. 2013 Feb 27;6:72. doi: 10.1186/1756-0500-6-72.

30.

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.

31.

Application of equilibrium models of solution hybridization to microarray design and analysis.

Gharaibeh RZ, Newton JM, Weller JW, Gibas CJ.

PLoS One. 2010 Jun 10;5(6):e11048. doi: 10.1371/journal.pone.0011048.

32.

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.

33.

Software note: using probe secondary structure information to enhance Affymetrix GeneChip background estimates.

Gharaibeh RZ, Fodor AA, Gibas CJ.

Comput Biol Chem. 2007 Apr;31(2):92-8. Epub 2007 Feb 20.

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