Skip to main content

Animal Diseases, Applications of Metagenomics

  • Living reference work entry
  • First Online:
Encyclopedia of Metagenomics
  • 239 Accesses

Synonyms

Infectious diseases in animals; Livestock; Mice and dogs

Definition

This entry describes current knowledge about the microbiome of the gastrointestinal tract of animals and its relationship to infectious diseases. It also describes how the microbiome changes during infections.

Introduction

Rene Dubos’ pioneering work on microbial ecology led to the hypothesis that the microbes of mammals living in intimate contact with each other coevolved with animals (Dubos et al. 1965; Yolton and Savage 1976). Dubos stated, “It is to be expected, therefore, that anatomical structures and physiological needs have been determined in part by the microbiota (microbiome) which prevailed during evolutionary development, and that many manifestations of the body at any given time are influenced by the microbiota now present.” Thus, during the coevolution of the microflora and the host, a set of mutualistic or even symbiotic relationships developed between the host and microbes. This hypothesis is...

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Institutional subscriptions

References

  • Berg RD. The indigenous gastrointestinal microflora. Trends Microbiol. 1996;4(11):430–5.

    Article  CAS  PubMed  Google Scholar 

  • Collier CT, Smiricky-Tjardes MR, et al. Molecular ecological analysis of porcine ileal microbiota responses to antimicrobial growth promoters. J Anim Sci. 2003;81(12):3035–45.

    CAS  PubMed  Google Scholar 

  • Dubos R, Schaedler RW, et al. Indigenous, normal, and autochthonous flora of the gastrointestinal tract. J Exp Med. 1965;122:67–76.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Isaacson R, Borewicz K, Kim HB, Vannucci F, Gebhart C, Singer R, Sreevatsan S, Johnson T. Lawsonia interacellularis increases Salmonella enterica levels in the intestines of pigs. Conference of Research Workers in Animal Diseases, 2011:103.

    Google Scholar 

  • Leser TD, Lindecrona RH, et al. Changes in bacterial community structure in the colon of pigs fed different experimental diets and after infection with Brachyspira hyodysenteriae. Appl Environ Microbiol. 2000;66(8):3290–6.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Leslie M. Immunology. Gut microbes keep rare immune cells in line. Science. 2012;335(6075):1428.

    Article  CAS  PubMed  Google Scholar 

  • Looft T, Johnson TA, et al. In-feed antibiotic effects on the swine intestinal microbiome. Proc Natl Acad Sci. 2012;109:1691–6.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Mazmanian SK, Liu CH, et al. An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system. Cell. 2005;122(1):107–18.

    Article  CAS  PubMed  Google Scholar 

  • Peterson J, Garges S, et al. The NIH human microbiome project. Genome Res. 2009;19(12):2317–23.

    Article  PubMed Central  PubMed  Google Scholar 

  • Rakoff-Nahoum S, Paglino J, et al. Recognition of commensal microflora by toll-like receptors is required for intestinal homeostasis. Cell. 2004;118(2):229–41.

    Article  CAS  PubMed  Google Scholar 

  • Ramotar K, Conly JM, et al. Production of menaquinones by intestinal anaerobes. J Infect Dis. 1984;150(2):213–8.

    Article  CAS  PubMed  Google Scholar 

  • Reeves AE, Theriot CM, et al. The interplay between microbiome dynamics and pathogen dynamics in a murine model of Clostridium difficile Infection. Gut Microbes. 2011;2(3):145–58.

    Article  PubMed Central  PubMed  Google Scholar 

  • Rettedal E, Vilain S, et al. Alteration of the ileal microbiota of weanling piglets by the growth-promoting antibiotic chlortetracycline. Appl Environ Microbiol. 2009;75(17):5489–95.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Savage DC. Microbial ecology of the gastrointestinal tract. Ann Rev Microbiol. 1977;31:107–33.

    Article  CAS  Google Scholar 

  • Schmitz JM, Durham CG, et al. Helicobacter felis – associated gastric disease in microbiota-restricted mice. J Histochem Cytochem. 2011;59(9):826–41.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Shan T, Li L, et al. The fecal virome of pigs on a high-density farm. J Virol. 2011;85(22):11697–708.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Shimada K, Bricknell KS, et al. Deconjugation of bile acids by intestinal bacteria: review of literature and additional studies. J Infect Dis. 1969;119(3):273–81.

    Article  CAS  PubMed  Google Scholar 

  • Suchodolski JS. Companion animals symposium: microbes and gastrointestinal health of dogs and cats. J Anim Sci. 2011;89(5):1520–30.

    Article  CAS  PubMed  Google Scholar 

  • Suchodolski JS, Xenoulis PG, et al. Molecular analysis of the bacterial microbiota in duodenal biopsies from dogs with idiopathic inflammatory bowel disease. Vet Microbiol. 2010;142(3–4):394–400.

    Article  CAS  PubMed  Google Scholar 

  • Turnbaugh P, Ley R, et al. An obesity-associated gut microbiome with increased capacity for energy harvest. Nature. 2006;444:1027–31.

    Article  PubMed  Google Scholar 

  • Yolton D, Savage DC. Influence of certain indigenous gastrointestinal microorganisms on duodenal alkaline phosphatase of mice. Appl Environ Microbiol. 1976;31(6):880–8.

    CAS  PubMed Central  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Richard Isaacson .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2013 Springer Science+Business Media New York

About this entry

Cite this entry

Isaacson, R. (2013). Animal Diseases, Applications of Metagenomics. In: Nelson, K. (eds) Encyclopedia of Metagenomics. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-6418-1_18-6

Download citation

  • DOI: https://doi.org/10.1007/978-1-4614-6418-1_18-6

  • Received:

  • Accepted:

  • Published:

  • Publisher Name: Springer, New York, NY

  • Online ISBN: 978-1-4614-6418-1

  • eBook Packages: Springer Reference Biomedicine and Life SciencesReference Module Biomedical and Life Sciences

Publish with us

Policies and ethics