The chicken gastrointestinal microbiome

Brian B. Oakley, Hyun S. Lillehoj, Michael H. Kogut, Woo K. Kim, John J. Maurer, Adriana Pedroso, Margie D. Lee, Stephen R. Collett, Tim Johnson, Nelson A. Cox

Research output: Contribution to journalArticle

130 Citations (Scopus)

Abstract

The domestic chicken is a common model organism for human biological research and of course also forms the basis of a global protein industry. Recent methodological advances have spurred the recognition of microbiomes as complex communities with important influences on the health and disease status of the host. In this minireview, we provide an overview of the current state of knowledge of the chicken gastrointestinal microbiome focusing on spatial and temporal variability, the presence and importance of human pathogens, the influence of the microbiota on the immune system, and the importance of the microbiome for poultry nutrition. Review and meta-analysis of public data showed cecal communities dominated by Firmicutes and Bacteroides at the phylum level, while at finer levels of taxonomic resolution, a phylogenetically diverse assemblage of microorganisms appears to have similar metabolic functions that provide important benefits to the host as inferred from metagenomic data. This observation of functional redundancy may have important implications for management of the microbiome. We foresee advances in strategies to improve gut health in commercial operations through management of the intestinal microbiota as an alternative to in-feed subtherapeutic antibiotics, improvements in pre- and probiotics, improved management of polymicrobial poultry diseases, and better control of human pathogens via colonization reduction or competitive exclusion strategies. In this mini-review, we provide an overview of the current state of knowledge of the chicken gastrointestinal microbiome focusing on spatial and temporal variability, the presence and importance of human pathogens, the influence of the microbiota on the immune system, and the importance of the microbiome for poultry nutrition.

Original languageEnglish (US)
Pages (from-to)100-112
Number of pages13
JournalFEMS Microbiology Letters
Volume360
Issue number2
DOIs
StatePublished - Jan 1 2014

Fingerprint

Microbiota
Chickens
Poultry
Immune System
Poultry Diseases
Metagenomics
Prebiotics
Bacteroides
Probiotics
Health Status
Meta-Analysis
Gastrointestinal Microbiome
Industry
Anti-Bacterial Agents
Health
Research
Proteins

Keywords

  • 16S rRNA
  • Food safety
  • Metagenomics
  • Microbiome
  • Poultry

Cite this

Oakley, B. B., Lillehoj, H. S., Kogut, M. H., Kim, W. K., Maurer, J. J., Pedroso, A., ... Cox, N. A. (2014). The chicken gastrointestinal microbiome. FEMS Microbiology Letters, 360(2), 100-112. https://doi.org/10.1111/1574-6968.12608

The chicken gastrointestinal microbiome. / Oakley, Brian B.; Lillehoj, Hyun S.; Kogut, Michael H.; Kim, Woo K.; Maurer, John J.; Pedroso, Adriana; Lee, Margie D.; Collett, Stephen R.; Johnson, Tim; Cox, Nelson A.

In: FEMS Microbiology Letters, Vol. 360, No. 2, 01.01.2014, p. 100-112.

Research output: Contribution to journalArticle

Oakley, BB, Lillehoj, HS, Kogut, MH, Kim, WK, Maurer, JJ, Pedroso, A, Lee, MD, Collett, SR, Johnson, T & Cox, NA 2014, 'The chicken gastrointestinal microbiome', FEMS Microbiology Letters, vol. 360, no. 2, pp. 100-112. https://doi.org/10.1111/1574-6968.12608
Oakley BB, Lillehoj HS, Kogut MH, Kim WK, Maurer JJ, Pedroso A et al. The chicken gastrointestinal microbiome. FEMS Microbiology Letters. 2014 Jan 1;360(2):100-112. https://doi.org/10.1111/1574-6968.12608
Oakley, Brian B. ; Lillehoj, Hyun S. ; Kogut, Michael H. ; Kim, Woo K. ; Maurer, John J. ; Pedroso, Adriana ; Lee, Margie D. ; Collett, Stephen R. ; Johnson, Tim ; Cox, Nelson A. / The chicken gastrointestinal microbiome. In: FEMS Microbiology Letters. 2014 ; Vol. 360, No. 2. pp. 100-112.
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