title: Intestinal microbial communities associated with acute enteric infections and disease recovery.
abstract: BACKGROUND
  The intestinal microbiome represents a complex network of microbes that are important for human health and preventing pathogen invasion. Studies that examine differences in intestinal microbial communities across individuals with and without enteric infections are useful for identifying microbes that support or impede intestinal health.
  
  
  RESULTS
  16S rRNA gene sequencing was conducted on stool DNA from patients with enteric infections (n = 200) and 75 healthy family members to identify differences in intestinal community composition. Stools from 13 patients were also examined post-infection to better understand how intestinal communities recover. Patient communities had lower species richness, evenness, and diversity versus uninfected communities, while principle coordinate analysis demonstrated close clustering of uninfected communities, but not the patient communities, irrespective of age, gender, and race. Differences in community composition between patients and family members were mostly due to variation in the abundance of phyla Proteobacteria, Bacteroidetes, and Firmicutes. Patient communities had significantly more Proteobacteria representing genus Escherichia relative to uninfected communities, which were dominated by Bacteroides. Intestinal communities from patients with bloody diarrhea clustered together in the neighbor-joining phylogeny, while communities from 13 patients' post-infection had a significant increase in Bacteroidetes and Firmicutes and clustered together with uninfected communities.
  
  
  CONCLUSIONS
  These data demonstrate that the intestinal communities in patients with enteric bacterial infections get altered in similar ways. Furthermore, preventing an increase in Escherichia abundance may be an important consideration for future prevention strategies.
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. pallavis@msu.edu.
authors.forename: Pallavi
authors.initials: P
authors.lastname: Singh
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. tkteal@msu.edu.
authors.forename: Tracy K
authors.initials: TK
authors.lastname: Teal
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. marsht@msu.edu.
authors.forename: Terence L
authors.initials: TL
authors.lastname: Marsh
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. tiedjej@msu.edu.
authors.forename: James M
authors.initials: JM
authors.lastname: Tiedje
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. sloupreb@msu.edu.
authors.forename: Rebekah
authors.initials: R
authors.lastname: Mosci
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. nummy@msu.edu.
authors.forename: Katherine
authors.initials: K
authors.lastname: Jernigan
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. zell@msu.edu.
authors.forename: Angela
authors.initials: A
authors.lastname: Zell
authors.affiliation: University of Michigan, Ann Arbor, MI, 48109, USA. dnewton@med.umich.edu.
authors.forename: Duane W
authors.initials: DW
authors.lastname: Newton
authors.affiliation: Wayne State University, Detroit, MI, 48202, USA. HSalimni@dmc.org.
authors.forename: Hossein
authors.initials: H
authors.lastname: Salimnia
authors.affiliation: Wayne State University, Detroit, MI, 48202, USA. PLephart@dmc.org.
authors.forename: Paul
authors.initials: P
authors.lastname: Lephart
authors.affiliation: Spectrum Health, Grand Rapids, MI, 49503, USA. daniel.sundin@spectrum-health.org.
authors.forename: Daniel
authors.initials: D
authors.lastname: Sundin
authors.affiliation: Sparrow Hospital, Lansing, MI, 48912, USA. khalifew@msu.edu.
authors.forename: Walid
authors.initials: W
authors.lastname: Khalife
authors.affiliation: Department of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, TX, 77030, USA. Robert.Britton@bcm.edu.
authors.forename: Robert A
authors.initials: RA
authors.lastname: Britton
authors.affiliation: Michigan Department of Health and Human Services, Bureau of Laboratories, Lansing, MI, 48913, USA. RudrikJ@michigan.gov.
authors.forename: James T
authors.initials: JT
authors.lastname: Rudrik
authors.affiliation: Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, 48824, USA. mannin71@msu.edu.
authors.forename: Shannon D
authors.initials: SD
authors.lastname: Manning
mesh_terms: D000293:Adolescent; D000328:Adult; D000368:Aged; D001419:Bacteria / Q000145:classification / Q000235:genetics; D044822:Biodiversity; D016022:Case-Control Studies; D002648:Child; D002675:Child, Preschool; D016000:Cluster Analysis; D004751:Enteritis / Q000453:epidemiology / Q000382:microbiology* / Q000534:rehabilitation*; D005260:Female; D000069196:Gastrointestinal Microbiome; D006801:Humans; D007223:Infant; D007231:Infant, Newborn; D008297:Male; D054892:Metagenome; D008824:Michigan / Q000453:epidemiology; D008875:Middle Aged; D062486:Public Health Surveillance; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D013997:Time Factors; D055815:Young Adult
chemical_list: D012336:RNA, Ribosomal, 16S