Loading...

Comparative Analysis of Intestinal Bacterial Communities in Healthy and Diseased Nibea albiflora

DOI: 10.18805/IJAR.B-1393    | Article Id: B-1393 | Page : 476-482
Citation :- Comparative Analysis of Intestinal Bacterial Communities in Healthy and Diseased Nibea albiflora.Indian Journal of Animal Research.2022.(56):476-482
X.P. Zhu, N. Wei, S.S. Zhang, M. Lin, Y. Ma maying@imu.edu.cn
Address : Fisheries College of Jimei University, Xiamen 361021, China.
Submitted Date : 28-05-2021
Accepted Date : 18-09-2021

Abstract

Background: The gut microbiota is an integral part of the host and plays an important role in both growth and development of host. The research on intestinal microbiota of Nibea albiflora and its relationship to fish disease have not been reported before. This study aimed to investigate the composition and differences of gut bacteria between healthy and diseased Nibea albiflora.
Methods: The intestines were collected from forty fish (twenty healthy fish and twenty diseased). Total DNA was extracted and then amplified by nested PCR. The PCR product was subjected to the DGGE test and performed at the IlluminaMiseq sequencing.
Result: The obtained results of both utilized techniques (DGGE and Next generation sequencing) showed that dominant bacteria could be grouped into four populations and the composition of intestinal bacteria differed significantly between healthy (NH) and diseased (ND) Nibea albiflora. NH has higher levels of γ-Proteobacteria and Firmicutes and with 46.91% Photobacterium supplied the dominant genus in NH. Fusobacteria and Bacteroidetes were higher in ND and Cetobacterium occupied 62.31% and was the dominant genus in ND. More probiotics were detected in NH, such as Lactobacillus, Brevibacillus, Enterococcus and Lactococcus (occupying 1.77% -19.76%), while less than 0.2% were detected for both in ND. More genera that belonged to Vibrionaceae, such as Enterovibrio (9.27%) and Vibrio (2.17%), were detected in ND and their abundances in NH were 0.79% and 0.03%, respectively.

Keywords

16S rRNA gene DGGE IlluminaMiseq sequencing Intestinal bacteria Nibea albiflora

References

  1. Armitage, D.W., Gallagher, K.L., Youngblut, N.D., Buckley, D.H. and Zinder, S.H. (2012). Millimeter-scale patterns of phylogenetic and trait diversity in a salt marsh microbial mat. Frontiers in Microbiology. 3: 293.
  2. Austin, B. (2006). The bacterial microflora of fish, revised. The Scientific World Journal. 6: 931-945.
  3. Balcazar, J.L., de Blas, I., Ruiz-Zarzuela, I., Cunningham, D., Vendrell, D. and Muzquiz, J.L. (2006). The role of probiotics in aquaculture. Veterinary Microbiology. 114: 173-186.
  4. Ben Omar, N. and Ampe, F. (2000). Microbial community dynamics during production of the Mexican fermented maize dough pozol. Applied Environmental Microbiology. 66: 3664- 3673.
  5. Boisvert, H.,  Chatelain, R. and Bassot, J.M. (1967). Study on a photobacterium isolated from the light organ of the leiognathidae fish. Annales De Linstitut Pasteur. 112(4): 521.
  6. Desai, A.R., Links, M.G., Collins, S.A., Mansfield, G.S., Drew, M.D., Van Kessel, A.G. and Hill, J.E. (2012). Effects of plant-based diets on the distal gut microbiome of rainbow trout (Oncorhynchus mykiss). Aquaculture. 350: 134-142.
  7. Edgar, R.C., Haas, B.J., Clemente, J.C., Quince, C. and Knight, R. (2011). UCHIME improves sensitivity and speed of chimera detection. Bioinformatics. 27: 2194-2200.
  8. Estrada, U.R., Satoh, S., Haga, Y., Fushimi, H. and Sweetman, J. (2009). Effects of single and combined supplementation of Enterococcus faecalis, mannan oligosaccharide and polyhydroxybutyrate acid on growth performance and immune response of rainbow trout Oncorhynchus mykiss. Aquaculture Science. 57: 609-617.
  9. Ghanbari, M., Kneifel, W. and Domig, K.J. (2015). A new view of the fish gut microbiome: Advances from next-generation sequencing. Aquaculture. 448: 464-475.
  10. Gilbride, K.A., Lee, D.Y. and Beaudette, L.A. (2006). Molecular techniques in wastewater: Understanding microbial communities, detecting pathogens and real-time process control. Journal of Microbiological Methods. 66: 1-20.
  11. Li, S., Sun, L., Wu, H., Hu, Z., Liu, W., Li, Y. and Wen, X. (2012). The intestinal microbial diversity in mud crab (Scylla paramamosain) as determined by PCR-DGGE and clone library analysis. Journal of Applied Microbiology. 113: 1341-1351.
  12. Li, T., Long, M., Gatesoupe, F., Zhang, Q., Li, A. and Gong, X. (2015). Comparative analysis of the intestinal bacterial communities in different species of carp by pyrosequencing. Microbial Ecology. 69: 25-36.
  13. Li, X., Yan, Q., Xie, S., Hu, W., Yu, Y. and Hu, Z. (2013). Gut microbiota contributes to the growth of fast-growing transgenic common carp (Cyprinus carpio L.). PLoS One. 8: e64577.
  14. Lozupone, C., Hamady, M. and Knight, R. (2006). UniFrac - An online tool for comparing microbial community diversity in a phylogenetic context. BMC Bioinformatics. 7: 371.
  15. Miller, C.S., Handley, K.M., Wrighton, K.C., Frischkorn, K.R., Thomas, B.C. and Banfield, J.F. (2013). Short-read assembly of full-length 16S amplicons reveals bacterial diversity in subsurface sediments. PLoS One. 8: e56018.
  16. Muyzer, G., de Waal, E.C. and Uitterlinden, A.G. (1993). Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction- amplified genes coding for 16S rRNA. Applied Environmental Microbiology. 59: 695-700.
  17. Stephens, W., Burns, A., Stagaman, K., Sandi, W., Rawls, J., Guillemin, K. and Bohannan, B. (2016). The composition of the zebrafish intestinal microbial community varies across development. The ISME Journal. 10: 644-654.
  18. Nayak, S.K. (2010). Role of gastrointestinal microbiota in fish. Aquaculture Research. 41: 1553-1573.
  19. Reveco, F.E., Overland, M., Romarheim, O.H. and Mydland, L.T. (2014). Intestinal bacterial community structure differs between healthy and inflamed intestines in Atlantic salmon (Salmo salar L.). Aquaculture. 420: 262-269.
  20. Ringo, E., Jutfelt, F., Kanapathippillai, P., Bakken, Y., Sundell, K., Glette, J., Mayhew, T.M., Myklebust, R. and Olsen, R.E. (2004). Damaging effect of the fish pathogen Aeromonas salmonicida ssp salmonicida on intestinal enterocytes of Atlantic salmon (Salmo salar L.). Cell and Tissue Research. 318: 305-312.
  21. Ringo, E., Sperstad, S., Myklebust, R., Refstie, S. and Krogdahl, A. (2006). Characterisation of the microbiota associated with intestine of Atlantic cod (Gadus morhua L.) - The effect of fish meal, standard soybean meal and a bioprocessed soybean meal. Aquaculture. 261: 829-841.
  22. Roeselers, G., Mittge, E.K., Stephens, W.Z., Parichy, D.M., Cavanaugh, C.M., Guillemin, K. and Rawls, J.F. (2011). Evidence for a core gut microbiota in the zebrafish. The ISME Journal. 5: 1595-1608.
  23. Shen, W., Fu, L., Li, W. and Zhu, Y. (2010). Effect of dietary supplementation with Bacillus subtilis on the growth, performance, immune response and antioxidant activities of the shrimp (Litopenaeus vannamei). Aquaculture Research. 41: 1691-1698.
  24. Sogin, M.L., Morrison, H.G., Huber, J.A., Mark Welch. D., Huse, S.M., Neal, P.R., Arrieta, J.M. and Herndl, G.J. (2006). Microbial diversity in the deep sea and the underexplored “rare biosphere”. Proceedings of National academy of Science of the United States of America. 103: 12115-12120.
  25. Wong, S., Waldrop, T., Summerfelt, S., Davidson, J., Barrows, F., Kenney, P.B., Welch, T., Wiens, G.D., Snekvik, K., Rawls, J.F. and Good, C. (2013). Aquacultured rainbow trout (Oncorhynchus mykiss) possess a large core intestinal microbiota that is resistant to variation in diet and rearing density. Applied Environmental Microbiology. 79: 4974- 4984.
  26. Wu, S., Gao, T., Zheng, Y., Wang, W., Cheng, Y. and Wang, G. (2010). Microbial diversity of intestinal contents and mucus in yellow catfish (Pelteobagrus fulvidraco). Aquaculture. 303: 1-7.
  27. Wu, S., Wang, G., Angert, E.R., Wang, W., Li, W. and Zou, H. (2012). Composition, diversity and origin of the bacterial community in grass carp intestine. PLoS One. 7: e30440.
  28. Xia, J.H., Lin, G., Fu, G.H., Wan, Z.Y., Lee, M., Wang, L., Liu, X.J. and Yue, G.H. (2014). The intestinal microbiome of fish under starvation. BMC Genomics. 15: 266.
  29. Xie, Z., Wang, F., Liu, H., Guo, S., Shi, H., Zhan, W. and Lou, B. (2014). Effect of dietary taurine levels on growth performance and taurine content of Nibea albiflora larvae. Aquaculture International. 22: 1851-1862.
  30. Xiong, J., Wang, K., Wu, J., Qiuqian, L., Yang, K., Qian, Y. and Zhang, D. (2015). Changes in intestinal bacterial communities are closely associated with shrimp disease severity. Applied Microbiology and Biotechnology. 99: 6911-6919.
  31. Xu, D., Lou, B., Shi, H., Geng, Z., Li, S. and Zhang, Y. (2012). Genetic diversity and population structure of Nibea albiflora in the China Sea revealed by mitochondrial COI sequences. Biochemical Systematics and Ecology. 45: 158-165.
  32. Zhong, F., Wu, J., Dai, Y., Yang, L., Zhang, Z., Cheng, S. and Zhang, Q. (2015). Bacterial community analysis by PCR-DGGE and 454-pyrosequencing of horizontal subsurface flow constructed wetlands with front aeration. Applied Microbiology and Biotechnology. 99: 1499-1512.

Global Footprints