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Research Article

Inflammatory Bowel Diseases Phenotype, C. difficile and NOD2 Genotype Are Associated with Shifts in Human Ileum Associated Microbial Composition

  • Ellen Li mail,

    ellen.li@stonybrook.edu (EL); Daniel.frank@ucdenver.edu (DNF)

    Affiliations: Department of Medicine, Stony Brook University, Stony Brook, New York, United States of America, Department of Microbiology and Molecular Genetics, Stony Brook University, Stony Brook, New York, United States of America, Department of Medicine, Washington University, St. Louis, Missouri, United States of America

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  • Christina M. Hamm,

    Affiliation: Department of Medicine, Stony Brook University, Stony Brook, New York, United States of America

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  • Ajay S. Gulati,

    Affiliation: Department of Pediatrics, University of North Carolina, Chapel Hill, North Carolina, United States of America

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  • R. Balfour Sartor,

    Affiliation: Departments of Medicine, Microbiology and Immunology, University of North Carolina, Chapel Hill, North Carolina, United States of America

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  • Hongyan Chen,

    Affiliation: Department of Applied Mathematics and Statistics, Stony Brook University, Stony Brook, New York, United States of America

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  • Xiao Wu,

    Affiliation: Department of Applied Mathematics and Statistics, Stony Brook University, Stony Brook, New York, United States of America

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  • Tianyi Zhang,

    Affiliations: Department of Medicine, Stony Brook University, Stony Brook, New York, United States of America, Department of Applied Mathematics and Statistics, Stony Brook University, Stony Brook, New York, United States of America

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  • F. James Rohlf,

    Affiliation: Department of Ecology and Evolution, Stony Brook University, Stony Brook, New York, United States of America

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  • Wei Zhu,

    Affiliation: Department of Applied Mathematics and Statistics, Stony Brook University, Stony Brook, New York, United States of America

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  • Chi Gu,

    Affiliation: Division of Biostatistics, Washington University, St. Louis, Missouri, United States of America

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  • Charles E. Robertson,

    Affiliation: Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado, United States of America

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  • Norman R. Pace,

    Affiliation: Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado, United States of America

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  • Edgar C. Boedeker,

    Affiliation: Department of Medicine, University of New Mexico, Albuquerque, New Mexico, United States of America

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  • Noam Harpaz,

    Affiliation: Department of Pathology, Mount Sinai School of Medicine, New York, New York, United States of America

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  • Jeffrey Yuan,

    Affiliation: Department of Medicine, Washington University, St. Louis, Missouri, United States of America

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  • George M. Weinstock,

    Affiliation: Genome Institute, Washington University, St. Louis, Missouri, United States of America

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  • Erica Sodergren,

    Affiliation: Genome Institute, Washington University, St. Louis, Missouri, United States of America

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  • Daniel N. Frank mail

    ellen.li@stonybrook.edu (EL); Daniel.frank@ucdenver.edu (DNF)

    Affiliation: Department of Medicine, University of Colorado Anschutz Medical Campus, Aurora, Colorado, United States of America

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  • Published: June 13, 2012
  • DOI: 10.1371/journal.pone.0026284
  • Published in PLOS ONE

About the Authors

Ellen Li, Christina M. Hamm, Tianyi Zhang
Department of Medicine, Stony Brook University, Stony Brook, New York, United States of America
Ellen Li
Department of Microbiology and Molecular Genetics, Stony Brook University, Stony Brook, New York, United States of America
Hongyan Chen, Xiao Wu, Tianyi Zhang, Wei Zhu
Department of Applied Mathematics and Statistics, Stony Brook University, Stony Brook, New York, United States of America
F. James Rohlf
Department of Ecology and Evolution, Stony Brook University, Stony Brook, New York, United States of America
Charles E. Robertson, Norman R. Pace
Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado, United States of America
Ajay S. Gulati
Department of Pediatrics, University of North Carolina, Chapel Hill, North Carolina, United States of America
R. Balfour Sartor
Departments of Medicine, Microbiology and Immunology, University of North Carolina, Chapel Hill, North Carolina, United States of America
Edgar C. Boedeker
Department of Medicine, University of New Mexico, Albuquerque, New Mexico, United States of America
Noam Harpaz
Department of Pathology, Mount Sinai School of Medicine, New York, New York, United States of America
Ellen Li, Jeffrey Yuan
Department of Medicine, Washington University, St. Louis, Missouri, United States of America
George M. Weinstock, Erica Sodergren
Genome Institute, Washington University, St. Louis, Missouri, United States of America
Chi Gu
Division of Biostatistics, Washington University, St. Louis, Missouri, United States of America
Daniel N. Frank
Department of Medicine, University of Colorado Anschutz Medical Campus, Aurora, Colorado, United States of America

Corresponding Authors

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: EL RBS ECB NH GW ES DNF. Performed the experiments: EL CMH AG JY ES. Analyzed the data: EL CMH AG HC XW TZ FJR WZ CG CER JY DNF. Contributed reagents/materials/analysis tools: EL CMH HC XW TZ FJR WZ CER DNF. Wrote the paper: EL CMH AG RBS HC XW TZ FJR WZ CG CER NRP ECB NH JY GMW ES DNF.