Table of Contents
ISRN Microbiology
Volume 2012 (2012), Article ID 590385, 10 pages
http://dx.doi.org/10.5402/2012/590385
Research Article

Molecular Characterisation of Bacterial Community Structure along the Intestinal Tract of Zebrafish (Danio rerio): A Pilot Study

1School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
2Labplus, Auckland City Hospital, P.O. Box 110031, Auckland Mail Centre, Auckland 1148, New Zealand

Received 16 October 2011; Accepted 6 November 2011

Academic Editors: L. Brusetti and T. P. West

Copyright © 2012 Chuan-Ching Lan and Donald R. Love. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. E. Ringø, R. E. Olsen, T. M. Mayhew, and R. Myklebust, “Electron microscopy of the intestinal microflora of fish,” Aquaculture, vol. 227, no. 1–4, pp. 395–415, 2003. View at Publisher · View at Google Scholar · View at Scopus
  2. J. M. Bates, E. Mittge, J. Kuhlman, K. N. Baden, S. E. Cheesman, and K. Guillemin, “Distinct signals from the microbiota promote different aspects of zebrafish gut differentiation,” Developmental Biology, vol. 297, no. 2, pp. 374–386, 2006. View at Publisher · View at Google Scholar · View at Scopus
  3. J. Romero and P. Navarrete, “16S rDNA-based analysis of dominant bacterial populations associated with early life stages of coho salmon (Oncorhynchus kisutch),” Microbial Ecology, vol. 51, no. 4, pp. 422–430, 2006. View at Publisher · View at Google Scholar · View at Scopus
  4. P. Navarrete, R. T. Espejo, and J. Romero, “Molecular analysis of microbiota along the digestive tract of juvenile atlantic salmon (Salmo salar L.),” Microbial Ecology, vol. 57, no. 3, pp. 550–561, 2009. View at Publisher · View at Google Scholar · View at Scopus
  5. J. S. Suchodolski, J. Camacho, and J. M. Steiner, “Analysis of bacterial diversity in the canine duodenum, jejunum, ileum, and colon by comparative 16S rRNA gene analysis,” FEMS Microbiology Ecology, vol. 66, no. 3, pp. 567–578, 2008. View at Publisher · View at Google Scholar · View at Scopus
  6. B. Spanggaard, I. Huber, J. Nielsen, T. Nielsen, K. F. Appel, and L. Gram, “The microflora of rainbow trout intestine: a comparison of traditional and molecular identification,” Aquaculture, vol. 182, no. 1-2, pp. 1–15, 2000. View at Publisher · View at Google Scholar · View at Scopus
  7. W. E. Holben, P. Williams, M. Saarinen, L. K. Särkilahti, and J. H. A. Apajalahti, “Phylogenetic analysis of intestinal microflora indicates a novel Mycoplasma phylotype in farmed and wild salmon,” Microbial Ecology, vol. 44, no. 2, pp. 175–185, 2002. View at Publisher · View at Google Scholar · View at Scopus
  8. I. Huber, B. Spanggaard, K. F. Appel, L. Rossen, T. Nielsen, and L. Gram, “Phylogenetic analysis and in situ identification of the intestinal microbial community of rainbow trout (Oncorhynchus mykiss, Walbaum),” Journal of Applied Microbiology, vol. 96, no. 1, pp. 117–132, 2004. View at Publisher · View at Google Scholar · View at Scopus
  9. M. J. Pond, D. M. Stone, and D. J. Alderman, “Comparison of conventional and molecular techniques to investigate the intestinal microflora of rainbow trout (Oncorhynchus mykiss),” Aquaculture, vol. 261, no. 1, pp. 194–203, 2006. View at Publisher · View at Google Scholar · View at Scopus
  10. A. Shiina, S. Itoi, S. Washio, and H. Sugita, “Molecular identification of intestinal microflora in Takifugu niphobles,” Comparative Biochemistry and Physiology Part D, vol. 1, no. 1, pp. 128–132, 2005. View at Publisher · View at Google Scholar · View at Scopus
  11. L. Brunvold, R. A. Sandaa, H. Mikkelsen, E. Welde, H. Bleie, and Ø. Bergh, “Characterisation of bacterial communities associated with early stages of intensively reared cod (Gadus morhua) using Denaturing Gradient Gel Electrophoresis (DGGE),” Aquaculture, vol. 272, no. 1–4, pp. 319–327, 2007. View at Publisher · View at Google Scholar · View at Scopus
  12. A. J. Fjellheim, K. J. Playfoot, J. Skjermo, and O. Vadstein, “Vibrionaceae dominates the microflora antagonistic towards Listonella anguillarum in the intestine of cultured Atlantic cod (Gadus morhua L.) larvae,” Aquaculture, vol. 269, no. 1–4, pp. 98–106, 2007. View at Publisher · View at Google Scholar · View at Scopus
  13. D. H. Kim, J. Brunt, and B. Austin, “Microbial diversity of intestinal contents and mucus in rainbow trout (Oncorhynchus mykiss),” Journal of Applied Microbiology, vol. 102, no. 6, pp. 1654–1664, 2007. View at Publisher · View at Google Scholar · View at Scopus
  14. A. Namba, N. Mano, and H. Hirose, “Phylogenetic analysis of intestinal bacteria and their adhesive capability in relation to the intestinal mucus of carp,” Journal of Applied Microbiology, vol. 102, no. 5, pp. 1307–1317, 2007. View at Publisher · View at Google Scholar · View at Scopus
  15. N. L. Ward, B. Steven, K. Penn, B. A. Methé, and W. H. Detrich III, “Characterization of the intestinal microbiota of two Antarctic notothenioid fish species,” Extremophiles, vol. 13, no. 4, pp. 679–685, 2009. View at Publisher · View at Google Scholar · View at Scopus
  16. P. Navarrete, F. Magne, P. Mardones et al., “Molecular analysis of intestinal microbiota of rainbow trout (Oncorhynchus mykiss),” FEMS Microbiology Ecology, vol. 71, no. 1, pp. 148–156, 2010. View at Publisher · View at Google Scholar · View at Scopus
  17. M. M. Cahill, “Bacterial flora of fishes: a review,” Microbial Ecology, vol. 19, no. 1, pp. 21–41, 1990. View at Publisher · View at Google Scholar · View at Scopus
  18. J. F. Rawls, B. S. Samuel, and J. I. Gordon, “Gnotobiotic zebrafish reveal evolutionarily conserved responses to the gut microbiota,” Proceedings of the National Academy of Sciences of the United States of America, vol. 101, no. 13, pp. 4596–4601, 2004. View at Publisher · View at Google Scholar · View at Scopus
  19. G. Roeselers, E. K. Mittge, W. Z. Stephens et al., “Evidence for a core gut microbiota in the zebrafish,” ISME Journal, vol. 5, no. 10, pp. 1595–1608, 2011. View at Publisher · View at Google Scholar
  20. K. N. Wallace, S. Akhter, E. M. Smith, K. Lorent, and M. Pack, “Intestinal growth and differentiation in zebrafish,” Mechanisms of Development, vol. 122, no. 2, pp. 157–173, 2005. View at Publisher · View at Google Scholar · View at Scopus
  21. D. Lane, “16S/23S rRNA sequencing,” in Nucleic Acid Techniques in Bacterial Systematics, E. Stackebrandt and M. Goodfellow, Eds., pp. 115–175, Wiley, New York, NY, USA, 1991. View at Google Scholar
  22. J. R. Cole, B. Chai, R. J. Farris et al., “The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis,” Nucleic Acids Research, vol. 33, pp. D294–D296, 2005. View at Publisher · View at Google Scholar · View at Scopus
  23. I. Good, “The population frequencies of species and the estimation of population parameters,” Biometrika, vol. 40, pp. 237–264, 1953. View at Google Scholar
  24. A. Chao, “Estimating the population size for capture—recapture data with unequal catchability,” Biometrics, vol. 43, no. 4, pp. 783–791, 1987. View at Google Scholar · View at Scopus
  25. R. Atlas and R. Bartha, Microbial Ecology: Fundamentals and Applications, Addison-Wesley, Reading, Pa, USA, 1998.
  26. S. Hurlbert, “The nonconcept of species diversity: a critique and alternative parameters,” Ecology, vol. 52, pp. 577–586, 1971. View at Google Scholar
  27. J. F. Rawls, M. A. Mahowald, R. E. Ley, and J. I. Gordon, “Reciprocal gut microbiota transplants from zebrafish and mice to germ-free recipients reveal host habitat selection,” Cell, vol. 127, no. 2, pp. 423–433, 2006. View at Publisher · View at Google Scholar · View at Scopus
  28. S. Brugman, K. Y. Liu, D. Lindenbergh-Kortleve et al., “Oxazolone-Induced Enterocolitis in Zebrafish Depends on the Composition of the Intestinal Microbiota,” Gastroenterology, vol. 137, no. 5, pp. 1757–e1, 2009. View at Publisher · View at Google Scholar · View at Scopus
  29. T. D. Leser and L. Mølbak, “Better living through microbial action: the benefits of the mammalian gastrointestinal microbiota on the host,” Environmental Microbiology, vol. 11, no. 9, pp. 2194–2206, 2009. View at Publisher · View at Google Scholar · View at Scopus
  30. P. F. Kemp and J. Y. Aller, “Bacterial diversity in aquatic and other environments: what 16S rDNA libraries can tell us,” FEMS Microbiology Ecology, vol. 47, no. 2, pp. 161–177, 2004. View at Publisher · View at Google Scholar · View at Scopus
  31. K. L. Meiborn, X. B. Li, A. T. Nielsen, C. Y. Wu, S. Roseman, and G. K. Schoolnik, “The Vibrio cholerae chitin utilization program,” Proceedings of the National Academy of Sciences of the United States of America, vol. 101, no. 8, pp. 2524–2529, 2004. View at Publisher · View at Google Scholar · View at Scopus
  32. C. Pruzzo, L. Vezzulli, and R. R. Colwell, “Global impact of Vibrio cholerae interactions with chitin,” Environmental Microbiology, vol. 10, no. 6, pp. 1400–1410, 2008. View at Publisher · View at Google Scholar · View at Scopus
  33. F. Aghakhanian, A. Zarei, H. Lotfollahian, and N. Eila, “Apparent and true amino acid digestibility of artemia meal in broiler chicks,” South African Journal of Animal Sciences, vol. 39, no. 2, pp. 158–162, 2009. View at Google Scholar · View at Scopus
  34. Y. Senderovich, I. Izhaki, and M. Halpern, “Fish as reservoirs and vectors of Vibrio cholerae,” PLoS One, vol. 5, no. 1, Article ID e8607, 2010. View at Publisher · View at Google Scholar · View at Scopus
  35. Z. Wang, J. Du, S. H. Lam, S. Mathavan, P. Matsudaira, and Z. Gong, “Morphological and molecular evidence for functional organization along the rostrocaudal axis of the adult zebrafish intestine,” BMC Genomics, vol. 11, no. 1, article 392, 2010. View at Publisher · View at Google Scholar · View at Scopus