Do the intestinal microbiotas differ between paddlefish (Polyodon spathala) and bighead carp (Aristichthys nobilis) reared in the same pond?

Journal of Applied Microbiology

Volumn 117, Issue 5, 2014, Pages 1245-1252

  Li, X M ^a   Zhu, Y J ^a   Yan, Q Y ^b   Ringo E ^c   Yang, D G ^a  

^a SOUTH CHINA SEA FISHERIES RESEARCH INSTITUTE   (China)

^b INSTITUTE OF HYDROBIOLOGY   (China)

^c UNIVERSITY OF TROMSØ   (Norway)

Author keywords

Bighead carp (Aristichthys nobilis); Filter feeding fish; Intestinal microbiota; Paddlefish (Polyodon spathala); Pyrosequencing

Indexed keywords

BACTERIA; BANDPASS FILTERS; FEEDING; LAKES; RNA;

BIGHEAD CARP; BIGHEAD CARP (ARISTICHTHYS NOBILI); FILTER-FEEDING; FILTER-FEEDING FISH; FISH SPECIES; INTESTINAL MICROBIOTA; MICROBIAL COMPOSITION; MICROBIOTAS; PADDLEFISH (POLYODON SPATHALUM); PYROSEQUENCING;

FISH;

RNA 16S;

ACTINOBACTERIA; ARISTICHTHYS NOBILIS; ARTICLE; BACTEROIDETES; CARP; CONTROLLED STUDY; FIRMICUTES; FUSOBACTERIA; INTESTINE FLORA; MICROBIAL COMMUNITY; NONHUMAN; PADDLEFISH; PLANCTOMYCETES; POLYODON SPATHALA; POND; PROTEOBACTERIA; PYROSEQUENCING; VERRUCOMICROBIA; ANIMAL; BACTERIA; CLASSIFICATION; FISH; GENETICS; INTESTINE; ISOLATION AND PURIFICATION; MICROBIOLOGY; MICROFLORA;

HYPOPHTHALMICHTHYS; HYPOPHTHALMICHTHYS NOBILIS; POLYODON; POLYODONTIDAE (FISH);

ANIMALS; BACTERIA; CARPS; FISHES; INTESTINES; MICROBIOTA; PONDS; RNA, RIBOSOMAL, 16S;

EID: 84907966605     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/jam.12626     Document Type: Article

References (41)

1. Austin, B. (2006) The bacterial microflora of fish, revised. ScientificWorldJournal 6, 931-945.
2. Bates, S.T., Berg-Lyons, D., Caporaso, J.G., Walters, W.A., Knight, R. and Fierer, N. (2011) Examining the global distribution of dominant archaeal populations in soil. ISME J 5, 908-917.
3. Caporaso, J.G., Lauber, C.L., Walters, W.A., Berg-Lyons, D., Lozupone, C.A., Turnbaugh, P.J., Fierer, N. and Knight, R. (2011) Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc Natl Acad Sci USA 108, 4516-4522.
4. Chopra, A.K. and Houston, C.W. (1999) Enterotoxins in Aeromonas-associated gastroenteritis. Microbes Infect 1, 1129-1137.
5. Cole, J.R., Chai, B., Marsh, T.L., Farris, R.J., Wang, Q., Kulam, S.A., Chandra, S., McGarrell, D.M. et al. (2003) The ribosomal database project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31, 442-443.
6. Denner, E.B.M., Smith, G.W., Busse, H.-J., Schuman, P., Narzt, T., Polson, S.W., Lubitz, W. and Richardson, L.L. (2003) Aurantimonas coralicida gen. nov., sp. nov., the causative agent of white plague type II on Caribbean scleractinian corals. Int J Syst Evol Microbiol 53, 1115-1122.
7. Gering, J.C. and Crist, T.O. (2002) The alpha-beta-regional relationship: providing new insights into local-regional patterns of species richness and scale dependence of diversity components. Ecol Lett 5, 433-444.
8. Holben, W.E., Williams, P., Saarinen, M., Särkilahti, L.K. and Apajalahti, J.H.A. (2002) Phylogenetic analysis of intestinal microflora indicates a novel mycoplasma phylotype in farmed and wild salmon. Microb Ecol 44, 175-185.
9. Hoxmeier, R.J. and DeVries, D.R. (1997) Habitat use, diet, and population structure of adult and juvenile paddlefish in the lower Alabama River. Trans Am Fish Soc 126, 288-301.
10. Hughes, J.B., Hellmann, J.J., Ricketts, T.H. and Bohannan, B.J.M. (2001) Counting the uncountable: statistical approaches to estimating microbial diversity. Appl Environ Microbiol 67, 4399-4406.
11. van Kessel, M.A.H.J., Dutilh, B.E., Neveling, K., Kwint, M.P., Veltman, J.A., Flik, G., Jetten, M.S.M., Klaren, P.H.M. et al. (2011) Pyrosequencing of 16S rRNA gene amplicons to study the microbiota in the gastrointestinal tract of carp (Cyprinus carpio L.). AMB Express 1, 41.
12. Kozfkay, J.R. and Scarnecchia, D.L. (2002) Year-class strength and feeding ecology of age-0 and age-1 paddlefish (Polyodon spathula) in Fort Peck Lake, Montana, USA. J Appl Ichthyol 18, 601-607.
13. Kuz'mina, V. (2008) Classical and modern concepts in fish digestion. In Feeding and Digestive Functions of Fishes ed. Cyrino, J.E.P., Bureau, D.P. and Kapoor, B.D. pp. 85-154. Enfield: Science Publisher.
14. Ley, R.E., Hamady, M., Lozupone, C., Turnbaugh, P.J., Ramey, R.R., Stephen Bircher, J., Schlegel, M.L., Tucker, T.A. et al. (2008) Evolution of mammals and their gut microbes. Science 320, 1647-1651.
15. Li, X.M., Yu, Y.H., Feng, W.S., Yan, Q.Y. and Gong, Y.C. (2012) Host species as a strong determinant of the intestinal microbiota of fish larvae. J Microbiol 50, 29-37.
16. Li, X.M., Zhu, Y.J., Yang, D.G. and He, Y.F. (2013a) Comparison of food organisms in gastrointestinal tract of paddlefish (Polyodon spathala) and bighead carp (Aristichthys nobilis) from pond. Acta Hydrobiol Sin 37, 1031-1038.
17. Li, X.M., Yan, Q.Y., Xie, S.Q., Hu, W., Yu, Y.H. and Hu, Z.H. (2013b) Gut microbiota contributes to the growth of fast growing transgenic common carp (Cyprinus carpio L.). PLoS ONE 8, e64577.
18. Liu, Z.Z., Lozupone, C., Hamady, M., Bushman, F. and Knight, R. (2007) Short pyrosequencing reads suffice for accurate microbial community analysis. Nucleic Acids Res 35, e120.
19. MacDonald, N.L., Stark, J.R. and Austin, B. (1986) Bacterial microflora in the gastro-intestinal tract of Dover sole (Solea solea L.), with emphasis on the possible role of bacteria in the nutrition of the host. FEMS Microbiol Lett 35, 107-111.
20. van der Meulen, R., Makras, L., Verbrugghe, K., Adriany, T. and De Vuyst, L. (2006) In vitro kinetic analysis of oligofructose consumption by Bacteroides and Bifidobacterium spp. indicates different degradation mechanisms. Appl Environ Microbiol 72, 1006-1012.
21. Michaletz, P.H., Rabeni, C.F., Taylor, W.W. and Russell, T.R. (1982) Feeding ecology and growth of young-of-the-year paddlefish in hatchery ponds. Trans Am Fish Soc 111, 700-709.
22. Navarrete, P., Magne, F., Araneda, C., Fuentes, P., Barros, L., Opazo, R., Espejo, R. and Romero, J. (2012) PCR-TTGE analysis of 16S rRNA from rainbow trout (Oncorhynchus mykiss) gut microbiota reveals host specific communities of active bacteria. PLoS ONE 7, e31335.
23. Nayak, S.K. (2010) Role of gastrointestinal microbiota in fish. Aquac Res 41, 1553-1573.
24. Peter, H., Beier, S., Bertilsson, S., Lindström, E.S., Langenheder, S. and Tranvik, L.J. (2011) Function-specific response to depletion of microbial diversity. ISME J 5, 351-361.
25. Rausch, P., Rehman, A., Künzel, S., Häsler, R., Ott, S.J., Schreiber, S., Rosenstiel, P., Franke, A. et al. (2011) Colonic mucosa-associated microbiota is influenced by an interaction of Crohn disease and FUT2 (Secretor) genotype. Proc Natl Acad Sci USA 108, 19030-19035.
26. Rawls, J.F., Samuel, B.S. and Gordon, J.I. (2004) Gnotobiotic zebrafish reveal evolutionarily conserved responses to the gut microbiota. Proc Natl Acad Sci USA 101, 4509-4601.
27. Ray, A.K., Ghosh, K. and Ringø, E. (2012) Enzyme-producing bacteria isolated from fish gut: a review. Aquac Nutr 18, 465-492.
28. Ringø, E. and Birkbeck, T.H. (1999) Intestinal microflora of fish larvae and fry. Aquac Res 30, 73-93.
29. Ringø, E. and Olsen, R.E. (1999) The effect of diet on aerobic bacterial flora associated with intestine of Arctic charr (Salvelinus alpinus L.). J Appl Microbiol 86, 22-28.
30. Ringø, E., Birkbeck, T.H., Munro, P.D., Vadstein, O. and Hjelmeland, K. (1996) The effect of early exposure to Vibrio pelagius on the aerobic bacterial flora of turbot, Scophthalmus maximus (L.) larvae. J Appl Bacteriol 81, 207-211.
31. Ringø, E., Sperstad, S., Myklebust, R., Mayhew, T.M., Mjelde, A., Melle, W. and AndOlsen, R.E. (2006) The effect of dietary krill supplementation on epithelium- associated bacteria in the hindgut of Atlantic salmon (Salmo salar L.): a microbial and electron microscopical study. Aquac Res 37, 1644-1653.
32. Ringø, E., Olsen, R.E., Gonzales Vecino, J.L., Wadsworth, S. and Song, S.K. (2012a) Use of immunostimulants and nucleotides in aquaculture: a review. J Mar Sci Res Dev 2, 104.
33. Ringø, E., Zhou, Z., Olsen, R.E. and Song, S.K. (2012b) Use of chitin and krill in aquaculture effect on gut microbiota and the immune system: a review. Aquac Nutr 18, 117-131.
34. Ringø, E., Olsen, R.E., Jensen, I., Romero, J. and Lauzon, H.L. (2014) Application of vaccines and dietary supplements in aquaculture: possibilities and challenges. Rev Fish Biol Fish. doi:10.1007/s11160-014-9361-y.
35. Romero, J. and Navarrete, P. (2006) 16S rDNA-based analysis of dominant bacterial populations associated with early life stages of coho salmon (Oncorhynchus kisutch). Microb Ecol 51, 422-430.
36. Sugita, H., Hirose, Y., Matsuo, N. and Deguchi, Y. (1998) Production of the antibacterial substance by Bacillus sp. strain NM 12, an intestinal bacterium of Japanese coastal fish. Aquaculture 165, 269-280.
37. Ueki, A., Akasaka, H., Suzuki, D. and Ueki, K. (2006) Paludibacter propionicigenes gen. nov., sp. nov., a novel strictly anaerobic, Gram-negative, propionate- producing bacterium isolated from plant residue in irrigated rice-field soil in Japan. Int J Syst Evol Microbiol 56, 39-44.
38. Ward, N., Steven, B., Penn, K., Methé, B. and Detrich, W. (2009) Characterization of the intestinal microbiota of two Antarctic notothenioid fish species. Extremophiles 13, 679-685.
39. Weisel, G.F. (1973) Anatomy and histology of the digestive system of the paddlefish (Polyodon spathula). J Morphol 140, 243-255.
40. Wu, Y.B. (1999) Practice and analysis of development of polyodon spathula culture in China. Chin Fish Econ 3, 18-19.
41. Zhang, Y.Z., Tan, Y.J. and O-Yang, H. (1989) Pond Fish Culture in China. pp. 318-353. Beijing: Science Publisher.