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Current Microbiology

, Volume 76, Issue 2, pp 173–177 | Cite as

Community-Level Physiological Profiling for Microbial Community Function in Broiler Ceca

  • Hung-Yueh YehEmail author
  • John E. Line
  • Arthur HintonJr.
Article
  • 70 Downloads

Abstract

Poultry production is a major agricultural output worldwide. It is known that the gut health of broilers is essential for their growth and for providing wholesome products for human consumption. Previously, the microbial diversity of broiler ceca was studied at the genetic level. However, the functional diversity and metabolic activity of broiler cecal bacterial communities are not fully investigated. Recently, the EcoPlates™ from Biolog, Inc. have been used for characterizing bacterial communities from various environments. In this study, we applied these plates to physiologically profile cecal bacterial communities in broilers. The ceca were aseptically excised from 6-week-old broilers, and their contents were suspended in phosphate buffered saline. The cultures in the EcoPlates™ were incubated at 42 °C for 5 days in an OmniLog® system. Responses of the bacterial communities to the various chemicals as carbon sources were measured on formazan production. The results show sigmoidal growth curves with three phases in all 12 cecal samples. Cecal bacterial communities could not use 11 carbon substrates for carbon sources; instead, they used pyruvic acid methyl ester, glycogen, glucose-1-phosphate and N-acetyl-d-glucosamine most frequently. Each bacterial community metabolized various numbers of the substrates at different rates among broilers. In the future, modification of the culture conditions to mimic the gut environment is needed. More investigations on the effects of nutrients, Salmonella or Campylobacter on physiological functions of cecal bacterial communities will provide insights into the improvement of animal well-being, saving production expenditures for producers and providing safer poultry products for human consumption.

Notes

Acknowledgements

We thank Susan Q. Brooks and Manju Amin of Poultry Microbiological Safety and Processing Research Unit, Agricultural Research Service, U.S. Department of Agriculture, Athens, GA for the technical support. Also, we are grateful to Dr. Justin Vaughn of Genomics and Bioinformatics Research Unit, Agricultural Research Service, U.S. Department of Agriculture, Athens, GA for statistical analysis. This study was supported by the USDA Agricultural Research Service CRIS Project No. 6040-32000-071-00D and the U.S. Poultry & Egg Association Project No. BRF002. Mention of trade names or commercial products in this paper is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the U.S. Department of Agriculture, which is an equal opportunity provider and employer. The parts of the data were presented as a poster in the FoodMicro 2018 Conference (26th International ICFMH Conference) in Berlin, Germany from September 3–6, 2018.

Supplementary material

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Supplementary material 1 (TIF 246 KB)
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Supplementary material 2 (TIF 245 KB)
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Supplementary material 3 (PDF 367 KB)
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Supplementary material 4 (DOCX 17 KB)
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Supplementary material 5 (XLSX 11 KB)

References

  1. 1.
    Awad WA, Hess C, Hess M (2018) Re-thinking the chicken-Campylobacter jejuni interaction: a review. Avian Pathol 47:352–363.  https://doi.org/10.1080/03079457.2018.1475724 CrossRefGoogle Scholar
  2. 2.
    Azcarate-Peril MA, Butz N, Cadenas MB, Koci M, Ballou A, Mendoza M, Ali R, Hassan H (2018) An attenuated Salmonella enterica serovar Typhimurium strain and galacto-oligosaccharides accelerate clearance of Salmonella infections in poultry through modifications to the gut microbiome. Appl Environ Microbiol 84:e02526-17.  https://doi.org/10.1128/AEM.02526-17 CrossRefGoogle Scholar
  3. 3.
    Button M, Weber K, Nivala J, Aubron T, Müller RA (2016) Community-level physiological profiling of microbial communities in constructed wetlands: effects of sample preparation. Appl Biochem Biotechnol 178:960–973.  https://doi.org/10.1007/s12010-015-1921-7 CrossRefGoogle Scholar
  4. 4.
    Clavijo V, Flórez MJV (2018) The gastrointestinal microbiome and its association with the control of pathogens in broiler chicken production: a review. Poult Sci 97:1006–1021.  https://doi.org/10.3382/ps/pex359 CrossRefGoogle Scholar
  5. 5.
    Connerton PL, Richards PJ, Lafontaine GM, O’Kane PM, Ghaffar N, Cummings NJ, Smith DL, Fish NM, Connerton IF (2018) The effect of the timing of exposure to Campylobacter jejuni on the gut microbiome and inflammatory responses of broiler chickens. Microbiome 6:88.  https://doi.org/10.1186/s40168-018-0477-5 CrossRefGoogle Scholar
  6. 6.
    Flynn TM, Koval JC, Greenwald SM, Owens SM, Kemner KM, Antonopoulos DA (2017) Parallelized, aerobic, single carbon-source enrichments from different natural environments contain divergent microbial communities. Front Microbiol 8:2321.  https://doi.org/10.3389/fmicb.2017.02321 CrossRefGoogle Scholar
  7. 7.
    Garland JL (1997) Analysis and interpretation of community-level physiological profiles in microbial ecology. FEMS Microbiol Ecol 24:289–300CrossRefGoogle Scholar
  8. 8.
    Hammer Ø, Harper DAT, Ryan PD (2001) PAST: paleontological statistics software package for education and data analysis. Palaeontol Elrctron 4:9Google Scholar
  9. 9.
    Harris VC, Haak BW, Handley SA, Jiang B, Velasquez DE, Hykes BL Jr, Droit L, Berbers GAM, Kemper EM, van Leeuwen EMM, Boele van Hensbroek M, Wiersinga WJ (2018) Effect of antibiotic-mediated microbiome modulation on rotavirus vaccine immunogenicity: a human, randomized-control proof-of-concept trial. Cell Host Microbe 24:197–207.  https://doi.org/10.1016/j.chom.2018.07.005 CrossRefGoogle Scholar
  10. 10.
    Hegde NV, Kariyawasam S, DebRoy C (2016) Comparison of antimicrobial resistant genes in chicken gut microbiome grown on organic and conventional diet. Vet Anim Sci 1:9–14.  https://doi.org/10.1016/j.vas.2016.07.001 CrossRefGoogle Scholar
  11. 11.
    Kurten GL, Barkoh A (2016) Evaluation of community-level physiological profiling for monitoring microbial community function in aquaculture ponds. N Am J Aquac 78:34–44.  https://doi.org/10.1080/15222055.2015.1079580 CrossRefGoogle Scholar
  12. 12.
    Núñez-Díaz JA, Balebona MC, Alcaide EM, Zorrilla I, Moriñigo M (2017) Insights into the fecal microbiota of captive Iberian lynx (Lynx pardinus). Int Microbiol 20:31–41.  https://doi.org/10.2436/20.1501.01.283 Google Scholar
  13. 13.
    Oakley BB, Kogut MH (2016) Spatial and temporal changes in the broiler chicken cecal and fecal microbiomes and correlations of bacterial taxa with cytokine gene expression. Front Vet Sci 3:11.  https://doi.org/10.3389/fvets.2016.00011 CrossRefGoogle Scholar
  14. 14.
    Oakley BB, Buhr RJ, Ritz CW, Kiepper BH, Berrang ME, Seal BS, Cox NA (2014) Successional changes in the chicken cecal microbiome during 42 days of growth are independent of organic acid feed additives. BMC Vet Res 10:282.  https://doi.org/10.1186/s12917-014-0282-8 CrossRefGoogle Scholar
  15. 15.
    Oakley BB, Lillehoj HS, Kogut MH, Kim WK, Maurer JJ, Pedroso A, Lee MD, Collett SR, Johnson TJ, Cox NA (2014) The chicken gastrointestinal microbiome. FEMS Microbiol Lett 360:100–112.  https://doi.org/10.1111/1574-6968.12608 CrossRefGoogle Scholar
  16. 16.
    Pierce ML, Ward JE, Dobbs FC (2014) False positives in Biolog EcoPlates™ and MT2 MicroPlates™ caused by calcium. J Microbiol Methods 97:20–24.  https://doi.org/10.1016/j.mimet.2013.12.002 CrossRefGoogle Scholar
  17. 17.
    Preston-Mafham J, Boddy L, Randerson PF (2002) Analysis of microbial community functional diversity using sole-carbon-source utilization profiles—a critique. FEMS Microbiol Ecol 42:1–14Google Scholar
  18. 18.
    Pan D, Yu Z (2014) Intestinal microbiome of poultry and its interaction with host and diet. Gut Microbes 5:108–119.  https://doi.org/10.4161/gmic.26945 CrossRefGoogle Scholar
  19. 19.
    Pauwels J, Taminiau B, Janssens GP, De Beenhouwer M, Delhalle L, Daube G, Coopman F (2015) Cecal drop reflects the chickens’ cecal microbiome, fecal drop does not. J Microbiol Methods 117:164–170.  https://doi.org/10.1016/j.mimet.2015.08.006 CrossRefGoogle Scholar
  20. 20.
    Salomo S, Münch C, Röske I (2009) Evaluation of the metabolic diversity of microbial communities in four different filter layers of a constructed wetland with vertical flow by Biolog™ analysis. Water Res 43:4569–4578.  https://doi.org/10.1016/j.watres.2009.08.009 CrossRefGoogle Scholar
  21. 21.
    Sergeant MJ, Constantinidou C, Cogan TA, Bedford MR, Penn CW, Pallen MJ (2014) Extensive microbial and functional diversity within the chicken cecal microbiome. PLoS ONE 9:e91941.  https://doi.org/10.1371/journal.pone.0091941 CrossRefGoogle Scholar
  22. 22.
    Sprouffske K, Wagner A (2016) Growthcurver: an R package for obtaining interpretable metrics from microbial growth curves. BMC Bioinform 17:172.  https://doi.org/10.1186/s12859-016-1016-7 CrossRefGoogle Scholar
  23. 23.
    Thibodeau A, Fravalo P, Yergeau É, Arsenault J, Lahaye L, Letellier A (2015) Chicken caecal microbiome modifications induced by Campylobacter jejuni colonization and by a non-antibiotic feed additive. PLoS ONE 10:e0131978.  https://doi.org/10.1371/journal.pone.0131978 CrossRefGoogle Scholar
  24. 24.
    Turnbaugh PJ, Ley RE, Hamady M, Fraser-Liggett CM, Knight R, Gordon JI (2007) The human microbiome project. Nature 449:804–810CrossRefGoogle Scholar
  25. 25.
    Weber KP, Legge RL (2010) Community-level physiological profiling. Methods Mol Biol 599:263–281.  https://doi.org/10.1007/978-1-60761-439-5_16 CrossRefGoogle Scholar
  26. 26.
    Weber KP, Gehder M, Legge RL (2008) Assessment of changes in the microbial community of construct wetland mesocosms in response to acid mine drainage exposure. Water Res 42:180–188.  https://doi.org/10.1016/watres.2007.06.055 CrossRefGoogle Scholar
  27. 27.
    Wei S, Morrison M, Yu Z (2013) Bacterial census of poultry intestinal microbiome. Poult Sci 92:671–683.  https://doi.org/10.3382/ps.2012-02822 CrossRefGoogle Scholar
  28. 28.
    Yeoman CJ, Chia N, Jeraldo P, Sipos M, Goldenfeld ND, White BA (2012) The microbiome of the chicken gastrointestinal tract. Anim Health Res Rev 13:89–99.  https://doi.org/10.1017/S1466252312000138 CrossRefGoogle Scholar
  29. 29.
    Zhang Y, Brady A, Jones C, Song Y, Darton TC, Jones C, Blohmke CJ, Pollard AJ, Magder LS, Fasano A, Sztein MB, Fraser CM (2018) Compositional and functional differences in the human gut microbiome correlate with clinical outcome following infection with wild-type Salmonella enterica serovar Typhi. mBio 9:e00686–18.  https://doi.org/10.1128/mBio.00686-18 CrossRefGoogle Scholar
  30. 30.
    Zhu XY, Zhong T, Pandya Y, Joerger RD (2002) 16S rRNA-based analysis of microbiota from the cecum of broiler chickens. Appl Environ Microbiol 68:124–137CrossRefGoogle Scholar

Copyright information

© This is a U.S. Government work and not under copyright protection in the US; foreign copyright protection may apply  2018

Authors and Affiliations

  1. 1.Poultry Microbiological Safety and Processing Research Unit, U.S. National Poultry Research Center, Agricultural Research ServiceU.S. Department of AgricultureAthensUSA

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