Encyclopedia of Metagenomics

Living Edition
| Editors: Karen E. Nelson

Early Gut Microbiome and Polymicrobial Infection

Living reference work entry
DOI: https://doi.org/10.1007/978-1-4614-6418-1_798-1

Synonyms

Definition

Microbiome: vast numbers of microorganisms in a given environment; in this entry, the gut of neonates.

Polymicrobial disease: several microorganisms implicated in the pathogenesis of disease.

Introduction

The recent rise of “omic” technologies has led to an expansive lexicon of terms, suffixed by -ome. One such term, which is receiving more attention than most, is “microbiome.” The microbiome refers to the ecological community of commensal, symbiotic, and pathogenic microorganisms colonizing the human body. Although some controversy surrounds the original appearance of the term, Joshua Lederberg is generally accredited with the initial coinage (Lederberg and McCray 2001). This entry will focus on the importance of the microbiome in health and disease, specifically related to the temporal development of the bacterial community in the gut following birth.

Methods to Elucidate the Gut...

Keywords

Polysaccharide Microbe Lactobacillus Oligosaccharide Triad 
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References

  1. Adlerberth I, Wold AE. Establishment of the gut microbiota in Western infants. Acta Paediatr. 2009;98(2):229–38.PubMedCrossRefGoogle Scholar
  2. Berrington J, Stewart C, Embleton N, Cummings S. Gut microbiota in preterm infants: assessment and relevance to health and disease. Arch Dis Child Fetal Neonatal Ed. 2013;98(4):F286–90.PubMedCrossRefGoogle Scholar
  3. Chakravorty S, Helb D, Burday M, Connell N, Alland D. A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria. J Microbiol Methods. 2007;69(2):330–9.PubMedCentralPubMedCrossRefGoogle Scholar
  4. Dethlefsen L, Relman D. Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation. Proc Natl Acad Sci U S A. 2011;108(1):4554–61.PubMedCentralPubMedCrossRefGoogle Scholar
  5. Dominguez-Bello MG, Costello EK, Contreras M, et al. Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns. Proc Natl Acad Sci USA. 2010;107(26):11971–5.PubMedCentralPubMedCrossRefGoogle Scholar
  6. Eckburg PB, Bik EM, Bernstein CN, et al. Diversity of the human intestinal microbial flora. Science. 2005;308(5728):1635–8.PubMedCentralPubMedCrossRefGoogle Scholar
  7. Favier CF, Vaughan EE, De Vos WM, Akkermans AD. Molecular monitoring of succession of bacterial communities in human neonates. Appl Environ Microbiol. 2002;68(1):219–26.PubMedCentralPubMedCrossRefGoogle Scholar
  8. Lederberg JD, McCray AT. ‘Ome sweet’ omics – a genealogical treasury of words. Scientist. 2001;15(7):8.Google Scholar
  9. Madan JC, Salari RC, Saxena D, et al. Gut microbial colonisation in premature neonates predicts neonatal sepsis. Arch Dis Child Fetal Neonatal Ed. 2012;97(6):F456–62.PubMedCentralPubMedGoogle Scholar
  10. Nelson A, De Soyza A, Perry JD, et al. Polymicrobial challenges to Koch’s postulates: ecological lessons from the bacterial vaginosis and cystic fibrosis microbiomes. Innate Immun. 2012;18(5):774–83.PubMedCrossRefGoogle Scholar
  11. Penders J, Thijs C, Vink C, et al. Factors influencing the composition of the intestinal microbiota in early infancy. Pediatrics. 2006;118(2):511–21.PubMedCrossRefGoogle Scholar
  12. Petrosino JF, Highlander S, Luna RA, Gibbs RA, Versalovic J. Metagenomic pyrosequencing and microbial identification. Clin Chem. 2009;55(5):856–66.PubMedCentralPubMedCrossRefGoogle Scholar
  13. Savino F, Roana J, Mandras N, et al. Faecal microbiota in breast-fed infants after antibiotic therapy. Acta Paediatr. 2011;100(1):75–8.PubMedCrossRefGoogle Scholar
  14. Schloss PD. A high-throughput DNA sequence aligner for microbial ecology studies. PLoS One. 2009;4(12):e8230.PubMedCentralPubMedCrossRefGoogle Scholar
  15. Sekirov I, Russell SL, Antunes LC, Finlay BB. Gut microbiota in health and disease. Physiol Rev. 2010;90(3):859–904.PubMedCrossRefGoogle Scholar
  16. Stewart CJ, Marrs EC, Magorrian S, et al. The preterm gut microbiota: changes associated with necrotizing enterocolitis and infection. Acta Paediatr. 2012;101(11):1121–7.PubMedCrossRefGoogle Scholar
  17. Stewart CJ, Nelson A, Scribbins D, et al. Bacterial and fungal viability in the preterm gut: NEC and sepsis. Arch Dis Child Fetal Neonatal Ed. 2013;98(4):F298–303.PubMedCrossRefGoogle Scholar
  18. Thompson-Chagoyán OC, Maldonado J, Gil A. Colonization and impact of disease and other factors on intestinal microbiota. Dig Dis Sci. 2007;52(9):2069–77.PubMedCrossRefGoogle Scholar
  19. Trosvik P, Stenseth NC, Rudi K. Convergent temporal dynamics of the human infant gut microbiota. ISME J. 2010;4(2):151–8.PubMedCrossRefGoogle Scholar
  20. Vael C, Vanheirstraeten L, Desager KN, Goossens H. Denaturing gradient gel electrophoresis of neonatal intestinal microbiota in relation to the development of asthma. BMC Microbiol. 2011;11:68.PubMedCentralPubMedCrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media New York 2013

Authors and Affiliations

  1. 1.University of NorthumbriaNewcastle upon TyneUK