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PloS one2012; 7(7); e41484; doi: 10.1371/journal.pone.0041484

Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3-V5 region of the 16S rRNA gene.

Abstract: The intestinal tract houses one of the richest and most complex microbial populations on the planet, and plays a critical role in health and a wide range of diseases. Limited studies using new sequencing technologies in horses are available. The objective of this study was to characterize the fecal microbiome of healthy horses and to compare the fecal microbiome of healthy horses to that of horses with undifferentiated colitis. A total of 195,748 sequences obtained from 6 healthy horses and 10 horses affected by undifferentiated colitis were analyzed. Firmicutes predominated (68%) among healthy horses followed by Bacteroidetes (14%) and Proteobacteria (10%). In contrast, Bacteroidetes (40%) was the most abundant phylum among horses with colitis, followed by Firmicutes (30%) and Proteobacteria (18%). Healthy horses had a significantly higher relative abundance of Actinobacteria and Spirochaetes while horses with colitis had significantly more Fusobacteria. Members of the Clostridia class were more abundant in healthy horses. Members of the Lachnospiraceae family were the most frequently shared among healthy individuals. The species richness reported here indicates the complexity of the equine intestinal microbiome. The predominance of Clostridia demonstrates the importance of this group of bacteria in healthy horses. The marked differences in the microbiome between healthy horses and horses with colitis indicate that colitis may be a disease of gut dysbiosis, rather than one that occurs simply through overgrowth of an individual pathogen.
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Publication Date: 2012-07-31 PubMed ID: 22859989PubMed Central: PMC3409227DOI: 10.1371/journal.pone.0041484Google Scholar: Lookup
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  • Comparative Study
  • Journal Article
  • Research Support
  • Non-U.S. Gov't

Summary

This research summary has been generated with artificial intelligence and may contain errors and omissions. Refer to the original study to confirm details provided. Submit correction.

The study broadens our understanding about the fecal microbiome of horses: Comparing healthy horses to those with colitis, it unpacks the complexities of such ecosystems, hinting towards gut dysbiosis as a root cause for colitis rather than an individual pathogen overgrowth.

Objective and Methodology

  • The research aimed to study and compare the fecal microbiome of healthy horses and horses with undifferentiated colitis.
  • The authors used high throughput sequencing for the V3-V5 region of the 16S rRNA gene to achieve their objective.
  • A total of 195,748 sequences were analyzed that were obtained from six healthy horses and ten horses affected by undifferentiated colitis.

Results and Observations

  • Among healthy cohort, Firmicutes was found to predominate (68%), followed by Bacteroidetes (14%) and Proteobacteria (10%).
  • Interestingly, horses with colitis presented a vastly different profile, with Bacteroidetes being the most abundant phylum (40%), followed by Firmicutes (30%) and Proteobacteria (18%).
  • The study identified a significantly higher relative abundance of Actinobacteria and Spirochaetes in healthy horses.
  • Conversely, horses suffering from colitis experienced significantly larger quantities of Fusobacteria.
  • Furthermore, Clostridia class was found to be more abundant in healthy horses, indicating a possible role in maintaining their health.
  • The most frequently shared family among healthy horses was found to be Lachnospiraceae.

Conclusion and Implications

  • The research confirms and reports the high species richness and complexity of the equine intestinal microbiome.
  • The major takeaway is the marked differences in the microbiome of healthy horses and those with colitis, suggesting that colitis might result from gut dysbiosis—a microbial imbalance inside the body—rather than being a result of the overgrowth of an individual pathogen.

Cite This Article

APA
Costa MC, Arroyo LG, Allen-Vercoe E, Stämpfli HR, Kim PT, Sturgeon A, Weese JS. (2012). Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3-V5 region of the 16S rRNA gene. PLoS One, 7(7), e41484. https://doi.org/10.1371/journal.pone.0041484

Publication

PloS one
ISSN: 1932-6203
NlmUniqueID: 101285081
Country: United States
Language: English
Volume: 7
Issue: 7
Pages: e41484

Researcher Affiliations

Costa, Marcio C
  • Department of Pathobiology, Ontario Veterinary College, University of Guelph, Guelph, Ontario, Canada. costamc@gmail.com
Arroyo, Luis G
    Allen-Vercoe, Emma
      Stämpfli, Henry R
        Kim, Peter T
          Sturgeon, Amy
            Weese, J Scott

              MeSH Terms

              • Animals
              • Colitis / microbiology
              • Colitis / veterinary
              • Feces / microbiology
              • High-Throughput Nucleotide Sequencing
              • Horse Diseases / microbiology
              • Horses
              • Metagenome
              • Models, Genetic
              • Phylogeny
              • Principal Component Analysis
              • RNA, Bacterial / genetics
              • RNA, Ribosomal, 16S / genetics
              • Sequence Analysis, DNA

              Conflict of Interest Statement

              Competing Interests: The authors have declared that no competing interests exist.

              References

              This article includes 43 references
              1. Suau A, Bonnet R, Sutren M, Godon JJ, Gibson GR. Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. Appl Environ Microbiol 65: 4799–4807.
                pmc: PMC91647pubmed: 10543789
              2. Argenzio RA, Southworth M, Stevens CE. Sites of organic acid production and absorption in the equine gastrointestinal tract. Am J Physiol 226: 1043–1050.
                pubmed: 4824856
              3. Glinsky MJ, Smith RM, Spires HR, Davis CL. Measurement of Volatile Fatty-Acid Production-Rates in Cecum of Pony. Anim Sci 42: 1465–1470.
                pubmed: 931822
              4. Al Jassim RA, Andrews FM. The bacterial community of the horse gastrointestinal tract and its relation to fermentative acidosis, laminitis, colic, and stomach ulcers. Vet Clin North Am Equine Pract 25: 199–215.
                pubmed: 19580934
              5. Chapman AM. Acute diarrhea in hospitalized horses. Vet Clin North Am Equine Pract 25: 363–380.
                pubmed: 19580946
              6. Weese JS, Staempfli HR, Prescott JF. A prospective study of the roles of Clostridium difficile and enterotoxigenic Clostridium perfringens in equine diarrhoea. Equine Vet J 33: 403–409.
                pubmed: 11469775
              7. Daly K, Stewart CS, Flint HJ, Shirazi-Beechey SP. Bacterial diversity within the equine large intestine as revealed by molecular analysis of cloned 16S rRNA genes. FEMS Microbiol. Ecol 38: 141–151.
              8. Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L. Diversity of the human intestinal microbial flora. Science 308: 1635–1638.
                pmc: PMC1395357pubmed: 15831718
              9. Wu GD, Lewis JD, Hoffmann C, Chen YY, Knight R. Sampling and pyrosequencing methods for characterizing bacterial communities in the human gut using 16S sequence tags. BMC Microbiol 10: 206.
                pmc: PMC2921404pubmed: 20673359
              10. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537–7541.
                pmc: PMC2786419pubmed: 19801464
              11. Quince C, Lanzen A, Davenport RJ, Turnbaugh PJ. Removing noise from pyrosequenced amplicons. BMC Bioinformatics 12: 38.
                pmc: PMC3045300pubmed: 21276213
              12. Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27: 2194–2200.
                pmc: PMC3150044pubmed: 21700674
              13. Meyer F, Paarmann D, D'Souza M, Olson R, Glass EM. The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9: 386.
                pmc: PMC2563014pubmed: 18803844
              14. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 215: 403–410.
                pubmed: 2231712
              15. White JR, Nagarajan N, Pop M. Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Comput Biol 5: e1000352.
                pmc: PMC2661018pubmed: 19360128
              16. Shepherd ML, Swecker WS Jr, Jensen RV, Ponder MA. Characterization of the fecal bacteria communities of forage-fed horses by pyrosequencing of 16S rRNA V4 gene amplicons. FEMS Microbiol Lett 326: 62–68.
                pubmed: 22092776
              17. Middelbos IS, Vester Boler BM, Qu A, White BA. Phylogenetic characterization of fecal microbial communities of dogs fed diets with or without supplemental dietary fiber using 454 pyrosequencing. PLoS One 5: e9768.
                pmc: PMC2842427pubmed: 20339542
              18. Willing B, Vörös A, Roos S, Jones C, Jansson A. Changes in faecal bacteria associated with concentrate and forage-only diets fed to horses in training. Equine Vet J 41: 908–914.
                pubmed: 20383990
              19. Packey CD, Sartor RB. Commensal bacteria, traditional and opportunistic pathogens, dysbiosis and bacterial killing in inflammatory bowel diseases. Curr Opin Infect Dis 22: 292–301.
                pmc: PMC2763597pubmed: 19352175
              20. Chang JY, Antonopoulos DA, Kalra A, Tonelli A, Khalife WT. Decreased diversity of the fecal microbiome in recurrent Clostridium difficile-associated diarrhea. J Infect Dis 197: 435–438.
                pubmed: 18199029
              21. Jami E, Itzhak M. Similarity of the ruminal bacteria across individual lactating cows. Anaerobe Apr 21. [Epub ahead of print].
                pubmed: 22546373
              22. Durso LM, Harhay GP, Smith TP, Bono JL, DeSantis TZ. Bacterial community analysis of beef cattle feedlots reveals that pen surface is distinct from feces. Foodborne Pathog Dis 8: 647–649.
                pubmed: 21214381
              23. Frank DN, St. Amand AL, Feldman RA, Boedicker C, Harpaz N. Molecular- phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. P Natl Acad Sci USA 104: 13780–13785.
                pmc: PMC1959459pubmed: 17699621
              24. Khoruts A, Dicksved J, Jansson JK, Sadowsky MJ. Changes in the composition of the human fecal microbiome after bacteriotherapy for recurrent Clostridium difficile-associated diarrhea. J Clin Gastroenterol 44: 354–360.
                pubmed: 20048681
              25. Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A. A core gut microbiome in obese and lean twins. Nature 457: 480–484.
                pmc: PMC2677729pubmed: 19043404
              26. Chaban B, Links MG, Hill JE. A molecular enrichment strategy based on cpn60 for detection of epsilon-proteobacteria in the dog fecal microbiome. Microb Ecol 63: 348–357.
                pubmed: 21881944
              27. Strauss J, Kaplan GG, Beck PL, Rioux K, Panaccione R. Invasive potential of gut mucosa-derived Fusobacterium nucleatum positively correlates with IBD status of the host. Inflamm Bowel Dis 17: 1971–1978.
                pubmed: 21830275
              28. Castellarin M, Warren RL, Freeman JD, Dreolini L, Krzywinski M. Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma. Genome Res 22: 299–306.
                pmc: PMC3266037pubmed: 22009989
              29. Kostic AD, Gevers D, Pedamallu CS, Michaud M, Duke F. Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. Genome Res 22: 292–298.
                pmc: PMC3266036pubmed: 22009990
              30. Swidsinski A, Dörffel Y, Loening-Baucke V, Theissig F, Rückert JC. Acute appendicitis is characterized by local invasion with Fusobacterium nucleatum/necrophorum. Gut 60: 34–40.
                pubmed: 19926616
              31. Ohkusa T, Okayasu I, Ogihara T, Morita K, Ogawa M. Induction of experimental ulcerative colitis by Fusobacterium varium isolated from colonic mucosa of patients with ulcerative colitis. Gut 52: 79–83.
                pmc: PMC1773498pubmed: 12477765
              32. Giguère S. Bacterial pneumonia and pleuropneumonia in adult horses. In: Smith BP, editor. Large Animal Internal Medicine 4th Edition. Mosby. Pp. 500–510.
              33. Frederick J, Giguère S, Sanchez LC. Infectious agents detected in the feces of diarrheic foals: a retrospective study of 233 cases (2003–2008). J Vet Intern Med 23: 1254–1260.
                pmc: PMC7166729pubmed: 19747192
              34. Donaldson MT, Palmer JE. Prevalence of Clostridium perfringens enterotoxin and Clostridium difficile toxin A in feces of horses with diarrhea and colic. J Am Vet Med Assoc 215: 358–361.
                pubmed: 10434974
              35. Medina-Torres CE, Weese JS, Staempfli HR. Prevalence of Clostridium difficile in horses. Vet Microbiol 152: 212–215.
                pubmed: 21570780
              36. Guarino A, Lo Vecchio A, Canani RB. Probiotics as prevention and treatment for diarrhea. Curr Opin Gastroenterol 25: 18–23.
                pubmed: 19114770
              37. Desrochers AM, Dolente BA, Roy MF, Boston R, Carlisle S. Efficacy of Saccharomyces boulardii for treatment of horses with acute enterocolitis. J Am Vet Med Assoc 227: 954–959.
                pubmed: 16190596
              38. Parraga ME, Spier SJ, Thurmond M, Hirsh D. A clinical trial of probiotic administration for prevention of Salmonella shedding in the postoperative period in horses with colic. J Vet Intern Med 11: 36–41.
                pubmed: 9132482
              39. Weese JS, Rousseau J. Evaluation of Lactobacillus pentosus WE7 for prevention of diarrhea in neonatal foals. J Am Vet Med Assoc 226: 2031–2034.
                pubmed: 15989186
              40. Rea MC, O'Sullivan O, Shanahan F, O'Toole PW, Stanton C. Clostridium difficile carriage in elderly subjects and associated changes in the intestinal microbiota. J Clin Microbiol 50: 867–875.
                pmc: PMC3295116pubmed: 22162545
              41. Borody TJ, Khoruts A. Fecal microbiota transplantation and emerging applications. Nat Rev Gastroenterol Hepatol 9: 88–96.
                pubmed: 22183182
              42. Kassam Z, Hundal R, Marshall JK, Lee CH. Fecal Transplant via Retention Enema for Refractory or Recurrent Clostridium difficile Infection. Arch Intern Med 172: 191–193.
                pubmed: 22271132
              43. Hill JE, Fernando WM, Zello GA, Tyler RT, Dahl WJ. Improvement of the representation of bifidobacteria in fecal microbiota metagenomic libraries by application of the cpn60 universal primer cocktail. Appl Environ Microbiol 76: 4550–4552.
                pmc: PMC2897446pubmed: 20435766

              Citations

              This article has been cited 210 times.
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