• Nod2: A Critical Regulator of Ileal Microbiota and Crohn's Disease.
    Sidiq T, Yoshihama S, Downs I, Kobayashi KS.
    Front Immunol. 2016 Sep 20;7:367. Review.
    Free PMC Article
  • Effects of captivity and artificial breeding on microbiota in feces of the red-crowned crane (Grus japonensis).
    Xie Y, Xia P, Wang H, Yu H, Giesy JP, Zhang Y, Mora MA, Zhang X.
    Sci Rep. 2016 Sep 15;6:33350. doi: 10.1038/srep33350.
    Free PMC Article
  • Interferon Tau Affects Mouse Intestinal Microbiota and Expression of IL-17.
    Ren W, Chen S, Zhang L, Liu G, Hussain T, Hao X, Yin J, Duan J, Tan B, Wu G, Bazer FW, Yin Y.
    Mediators Inflamm. 2016;2016:2839232. doi: 10.1155/2016/2839232. Epub 2016 Aug 17.
    Free PMC Article
  • Comprehensive Molecular Characterization of Bacterial Communities in Feces of Pet Birds Using 16S Marker Sequencing.
    Garcia-Mazcorro JF, Castillo-Carranza SA, Guard B, Gomez-Vazquez JP, Dowd SE, Brightsmith DJ.
    Microb Ecol. 2016 Aug 27. [Epub ahead of print]
  • Characterization of the cutaneous mycobiota in healthy and allergic cats using next generation sequencing. Meason-Smith C, Diesel A, Patterson AP, Older CE, Johnson TJ, Mansell JM, Suchodolski JS, Rodrigues Hoffmann A. Vet Dermatol. 2016 Aug 23. doi: 10.1111/vde.12373. [Epub ahead of print]
  • Bacterial Communities: Interactions to Scale.
    Stubbendieck RM, Vargas-Bautista C, Straight PD. Front Microbiol. 2016 Aug 8;7:1234. doi: 10.3389/fmicb.2016.01234. eCollection 2016. Review. PMID:27551280 Free PMC Article
  • The skin microbiome in allergen-induced canine atopic dermatitis.
    Pierezan F, Olivry T, Paps JS, Lawhon SD, Wu J, Steiner JM, Suchodolski JS, Rodrigues Hoffmann A.
    Vet Dermatol. 2016 Aug 3.
  • The Pathogenesis of Nonalcoholic Fatty Liver Disease: Interplay between Diet, Gut Microbiota, and Genetic Background.
    Yu J, Marsh S, Hu J, Feng W, Wu C.
    Gastroenterol Res Pract. 2016;2016:2862173. Review.
  • Diagnosis and interpretation of intestinal dysbiosis in dogs and cats.
    Suchodolski JS.
    Vet J. 2016 Apr 25. pii: S1090-0233(16)30033-8. Review.
  • The effects of feeding and withholding food on the canine small intestinal microbiota.
    Kasiraj AC, Harmoinen J, Isaiah A, Westermarck E, Steiner JM, Spillmann T, Suchodolski JS.
    FEMS Microbiol Ecol. 2016 Jun;92(6). pii: fiw085.
  • The microbiota-derived metabolite indole decreases mucosal inflammation and injury in a murine model of NSAID enteropathy.
    Whitfield-Cargile CM, Cohen ND, Chapkin RS, Weeks BR, Davidson LA, Goldsby JS, Hunt CL, Steinmeyer SH, Menon R, Suchodolski JS, Jayaraman A, Alaniz RC.
    Gut Microbes. 2016 May 3;7(3):246-61.
  • Influence of whole-wheat consumption on fecal microbial community structure of obese diabetic mice.
    Garcia-Mazcorro JF, Ivanov I, Mills DA, Noratto G.
    PeerJ. 2016 Feb 15;4:e1702..
  • Effect of Quorum Sensing by Staphylococcus epidermidis on the Attraction Response of Female Adult Yellow Fever Mosquitoes, Aedes aegypti aegypti (Linnaeus) (Diptera: Culicidae), to a Blood-Feeding Source.
    Zhang X, Crippen TL, Coates CJ, Wood TK, Tomberlin JK.
    PLoS One. 2015 Dec 16;10(12):e0143950.
  • What is living on your dog's skin? Characterization of the canine cutaneous mycobiota and fungal dysbiosis in canine allergic dermatitis.
    Meason-Smith C, Diesel A, Patterson AP, Older CE, Mansell JM, Suchodolski JS, Rodrigues Hoffmann A. FEMS Microbiol Ecol. 2015 Dec;91(12)
  • Selective Manipulation of the Gut Microbiota Improves Immune Status in Vertebrates.
    Montalban-Arques A, De Schryver P, Bossier P, Gorkiewicz G, Mulero V, Gatlin DM 3rd, Galindo-Villegas J. Front Immunol. 2015 Oct 9;6:512. Review
  • Composition and Diversity of the Fecal Microbiome and Inferred Fecal Metagenome Does Not Predict Subsequent Pneumonia Caused by Rhodococcus equi in Foals.
    Whitfield-Cargile CM, Cohen ND, Suchodolski J, Chaffin MK, McQueen CM, Arnold CE, Dowd SE, Blodgett GP. PLoS One. 2015 Aug 25;10(8):e0136586.
  • Microbial influences on hormesis, oncogenesis, and therapy: A review of the literature
    Clanton R, Saucier D, Ford J, Akabani G.
    Environ Res. 2015 Oct;142:239-56. Review.
  • The Microbiome: The Trillions of Microorganisms That Maintain Health and Cause Disease in Humans and Companion Animals.
    Hoffmann AR, Proctor LM, Surette MG, Suchodolski JS.
    Vet Pathol. 2016 Jan;53(1):10-21. Review. (PDF)
  • Microbiota regulates type 1 diabetes through Toll-like receptors
    Burrows MP, Volchkov P, Kobayashi KS, Chervonsky AV.
    Proc Natl Acad Sci USA. 2015 Aug 11; 112(32):9973-7 (PDF)
  • Fecal microbiota composition of breast-fed infants is correlated with human milk oligosaccharides consumed
    Wang M, Li M, Wu S, Lebrilla CB, Chapkin RS, Ivanov I, Donovan SM.
    J Pediatr Gastroenterol Nutr. 2015 Jun;60(6):825-33. (PDF)
  • Space Environmental Factor Impacts upon Murine Colon Microbiota and Mucosal Homeostasis.
    Ritchie LE, Taddeo SS, Weeks BR, Lima F, Bloomfield SA, Azcarate-Peril MA, Zwart SR, Smith SM, Turner ND.
    PLoS One. 2015 Jun 17;10(6):e0125792. eCollection 2015. (PDF)
  • Microbiota metabolite regulation of host immune homeostasis: a mechanistic missing link.
    Steinmeyer S, Lee K, Jayaraman A, Alaniz RC.
    Curr Allergy Asthma Rep. 2015 May;15(5):24. Review. (PDF)
  • Aryl Hydrocarbon Receptor Activity of Tryptophan Metabolites in Young Adult Mouse Colonocytes.
    Cheng Y, Jin UH, Allred CD, Jayaraman A, Chapkin RS, Safe S.
    Drug Metab Dispos. 2015 Oct;43(10):1536-43. (PDF)
  • Characterization of microbial dysbiosis and metabolomic changes in dogs with acute diarrhea.
    Guard BC, Barr JW, Reddivari L, Klemashevich C, Jayaraman A, Steiner JM, Vanamala J, Suchodolski JS.
    PLoS One. 2015 May 22;10(5):e0127259. (PDF)
  • Polyphenol-rich sorghum brans alter colon microbiota and impact species diversity and species richness after multiple bouts of dextran sodium sulfate-induced colitis.
    Ritchie LE, Sturino JM, Carroll RJ, Rooney LW, Azcarate-Peril MA, Turner ND.
    FEMS Microbiol Ecol. 2015 Mar;91(3). (PDF)
  • Mitigation of colitis with NovaSil clay therapy.
    Zychowski KE, Elmore SE, Rychlik KA, Ly HJ, Pierezan F, Isaiah A, Suchodolski JS, Hoffmann AR, Romoser AA, Phillips TD.
    Dig Dis Sci. 2015 Feb;60(2):382-92. (PDF)
  • A gnotobiotic mouse model demonstrates that dietary fiber protects against colorectal tumorigenesis in a microbiota- and butyrate-dependent manner.
    Donohoe DR, Holley D, Collins LB, Montgomery SA, Whitmore AC, Hillhouse A, Curry KP, Renner SW, Greenwalt A, Ryan EP, Godfrey V, Heise MT, Threadgill DS, Han A, Swenberg JA, Threadgill DW, Bultman SJ. Cancer Discovery. Dec. 4, 2014 (PDF)
  • Noninvasive molecular fingerprinting of host-microbiome interactions in neonates.
    Donovan SM, Wang M, Monaco MH, Martin CR, Davidson LA, Ivanov I, Chapkin RS.
    FEBS Lett. 2014 Nov 17;588(22):4112-9. Review. (PDF)
  • Microbial bile acid metabolic clusters: the bouncers at the bar. Sorg JA.
    Cell Host Microbe. 2014 Nov 12;16(5):551-2. (PDF)
  • Prediction and quantification of bioactive microbiota metabolites in the mouse gut.
    Sridharan GV, Choi K, Klemashevich C, Wu C, Prabakaran D, Pan LB, Steinmeyer S, Mueller C, Yousofshahi M, Alaniz RC, Lee K, Jayaraman A.
    Nat Commun. 2014 Nov 20;5:5492. (PDF)
  • Microbiome-derived tryptophan metabolites and their aryl hydrocarbon receptor-dependent agonist and antagonist activities.
    Jin UH, Lee SO, Sridharan G, Lee K, Davidson LA, Jayaraman A, Chapkin RS, Alaniz R, Safe S.
    Mol Pharmacol. 2014 May;85(5):777-88. (PDF)
  • Rational identification of diet-derived postbiotics for improving intestinal microbiota function
    Klemashevich C, Wu C, Howsmon D, Alaniz RC, Lee K, Jayaraman A.
    Curr Opin Biotechnol. 2014 Apr;26:85-90. Review. (PDF)
  • PGRP-SC2 promotes gut immune homeostasis to limit commensal dysbiosis and extend lifespan.
    Guo L, Karpac J, Tran SL, Jasper H.
    Cell. 2014 Jan 16;156(1-2):109-22. (PDF)
  • The microbiome and colorectal neoplasia: environmental modifiers of dysbiosis.
    Turner ND, Ritchie LE, Bresalier RS, Chapkin RS.
    Curr Gastroenterol Rep. 2013 Sep;15(9):346. Review. (PDF)
  • Regulation of intestinal microbiota by the NLR protein family
    Biswas A, Kobayashi KS.
    Int Immunol. 2013 Apr;25(4):207-14. Review. (PDF)
  • Ancient T-independence of mucosal IgX/A: gut microbiota unaffected by larval thymectomy in Xenopus laevis.
    Mashoof S, Goodroe A, Du CC, Eubanks JO, Jacobs N, Steiner JM, Tizard I, Suchodolski JS, Criscitiello MF.
    Mucosal Immunol. 2013 Mar;6(2):358-68. doi: 10.1038/mi.2012.78. (PDF)
  • Host-microbe interactions in the neonatal intestine: role of human milk oligosaccharides.
    Donovan SM, Wang M, Li M, Friedberg I, Schwartz SL, Chapkin RS.
    Adv Nutr. 2012 May 1;3(3):450S-5S. Review. (PDF)
  • A metagenomic study of diet-dependent interaction between gut microbiota and host in infants reveals differences in immune response.
    Schwartz S, Friedberg I, Ivanov IV, Davidson LA, Goldsby JS, Dahl DB, Herman D, Wang M, Donovan SM, Chapkin RS.
    Genome Biol. 2012 Apr 30;13(4) (PDF)
  • Nod2: a key regulator linking microbiota to intestinal mucosal immunity.
    Biswas A, Petnicki-Ocwieja T, Kobayashi KS.
    J Mol Med (Berl). 2012 Jan;90(1):15-24. Review. (PDF)
  • Recent advances in the field of nutritional immunology.
    Monk JM, Hou TY, Chapkin RS.
    Expert Rev Clin Immunol. 2011 Nov;7(6):747-9. Review. (PDF)
  • The bacterial signal indole increases epithelial-cell tight-junction resistance and attenuates indicators of inflammation.
    Bansal T, Alaniz RC, Wood TK, Jayaraman A.
    Proc Natl Acad Sci U S A. 2010 Jan 5;107(1):228-33. (PDF)
  • Nod2 is required for the regulation of commensal microbiota in the intestine.
    Petnicki-Ocwieja T, Hrncir T, Liu YJ, Biswas A, Hudcovic T, Tlaskalova-Hogenova H, Kobayashi KS.
    Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15813-8. (PDF)
  • Metabolism of bile salts in mice influences spore germination in Clostridium difficile.
    Giel JL, Sorg JA, Sonenshein AL, Zhu J.
    PLoS One. 2010 Jan 15;5(1):e8740. (PDF)
  • The gastrointestinal microbiome: a malleable, third genome of mammals.
    Carroll IM, Threadgill DW, Threadgill DS.
    Mammalian Genome. 2009 Jul:20(7):395-403 (PDF)
  • Quantitative PCR assays for mouse enteric flora reveal strain-dependent differences in composition that are influences by the microenvironment.
    Deloris Alexander A, Orcutt RP, Henry JC, Baker J Jr, Bissahoyo AC, Threadgill DW.
    Mammalian Genome. 2006 Nov; 17(11):1093-104 (PDF)