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Role of gastrointestinal microbiota in fish
Open accessAbstract
The gastrointestinal (GI) tract of an animal consists of a very complex and dynamic microbial ecosystem that is very important from a nutritional, physiological and pathological point of view. A wide range of microbes derived from the surrounding aquatic environment, soil/sediment and feed are found to colonize in the GI tract of fish. Among the microbial groups, bacteria (aerobic, facultative anaerobic and obligate aneraobic forms) are the principal colonizers in the GI tract of fish, and in some fish, yeasts are also reported. The common bacterial colonizers in the GI tract of freshwater and marine fish include Vibrio, Aeromonas, Flavobacterium, Plesiomonas, Pseudomonas, Enterobacteriaceae, Micrococcus, Acinetobacter, Clostridium, Fusarium and Bacteroides, which may vary from species to species as well as environmental conditions. Besides, several unknown bacteria belonging to Mycoplasma, Arthrobacter, Brochothrix, Jeotgailbacillus, Ochrobactrum, Psychrobacter and Sejongia species in the GI tract of different fish species have now been identified successfully using culture-independent techniques. Gnotobiotic and conventional studies indicate the involvement of GI microbiota in fish nutrition, epithelial development, immunity as well as disease outbreak. This review also highlights the need for manipulating the gut microbiota with useful beneficial microbes through probiotic, prebiotic and synbiotic concepts for better fish health management.
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“When a fish consumes algal cells, the microbiome in the intestine digests the algal cell, releasing probiotic materials that inhibit pathogens (Austin, 2006;Ghanbari et al., 2015;Nayak, 2010).”
From Potential of microalgae as a sustainable feed ingredient for aquaculture (2021) · cites this paper as Nayak, 2010
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“Microalgae are known to have probiotic effects on fishes.”
From Potential of microalgae as a sustainable feed ingredient for aquaculture (2021) · cites this paper as Nayak, 2010
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“2004), and it is believed to be the major route for the onset of diseases like vibriosis, furunculosis, enteric septicaemia and aeromoniasis in fish (Nayak 2010).”
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“The gut microbiome is important in fish health (Gómez & Balcázar 2007; Nayak 2010; 37 Merrifield et al. 2010) and it has been suggested that the autochthonous gut microbiota could 38 inhibit colonization of pathogenic bacteria by mechanisms including space occupation, 39 competition of nutrients, blocking receptors on…”
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Palm date meal as a non-traditional ingredient for feeding aquatic animals: A review
Kari, Z. A., Goh, K. W., Edinur, H. A., Mat, K. B., Khalid, H. N. M., Rusli, N. D., Sukri, S. A. M., Harun, H. C., Wei, L. S., Hanafiah, M. H. M. A., et al. (2022) · Aquaculture Reports · doi:10.1016/j.aqrep.2022.101233 · Cited by 32
Pedrotti, F. S., Davies, S. J., Merrifield, D. L., Marques, M. R. F., Fraga, A. P. M., Mouriño, J. L. P., & Fracalossi, D. M. (2013) · Aquaculture Research · doi:10.1111/are.12195 · Cited by 32
Effects of Microorganisms in Fish Aquaculture from a Sustainable Approach: A Review
Amillano-Cisneros, J. M., Fuentes-Valencia, M. A., Leyva-Morales, J. B., Savín-Amador, M., Márquez‐Pacheco, H., Bastidas-Bastidas, P. D. J., Leyva-Camacho, L., la Torre-Espinosa, Z. Y. D., & Badilla-Medina, C. N. (2025) · Microorganisms · doi:10.3390/microorganisms13030485 · Cited by 35
“Microbiota is defined as the collective community of microorganisms (viruses, bacteria, archaea, yeasts, and protozoa) that inhabit a specific ecosystem or environment (e.g., skin, gastrointestinal tract, water, soil) [46,47].”
Restivo, V. E., Kidd, K. A., Surette, M. G., Servos, M. R., & Wilson, J. Y. (2020) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2020.141724 · Cited by 31
El-Bouhy, Z. M., Reda, R. M., Mahboub, H. H. H., & Gomaa, F. N. (2021) · Aquaculture Research · doi:10.1111/are.15227 · Cited by 31
Sun, Y., Meng, X., Hu, X., Liu, R., Zhao, Z., Wang, S., Zhang, R., Guo, K., & Luo, L. (2023) · International Journal of Biological Macromolecules · doi:10.1016/j.ijbiomac.2023.123500 · Cited by 31
Razak, S. A., Griffin, M. J., Mischke, C. C., Bosworth, B. G., Waldbieser, G. C., Wise, D. J., Marsh, T. L., & Scribner, K. T. (2018) · Aquaculture · doi:10.1016/j.aquaculture.2018.08.073 · Cited by 31
Xue, M., Xu, P., Wen, H., Chen, J., Wang, Q., He, J., He, C., Kong, C., Li, X., Li, H., et al. (2024) · Antioxidants · doi:10.3390/antiox13030363 · Cited by 30
“…but also a key part of host defense [1,12] The fish gut is a complex ecosystem in which the gut microbiota is an important component of intestinal environment and plays a crucial role in enhancing host immunity, nutrient metabolism and digestion, as well as healthy growth and reproduction [13–15].”
BackgroundAutochthonous vs allochthonous probiotic strains to Rhamdia quelen
Yamashita, M. M., Ferrarezi, J. V. S., Pereira, G. D. V., Bandeira, G., da Silva, B. C., Pereira, S. A., Martins, M. L., & Mouriño, J. L. P. (2019) · Microbial Pathogenesis · doi:10.1016/j.micpath.2019.103897 · Cited by 30
Lobb, B., Hodgson, R., Lynch, M. D. J., Mansfield, M. J., Cheng, J., Charles, T. C., Neufeld, J. D., Craig, P. M., & Doxey, A. C. (2020) · mSystems · doi:10.1128/msystems.00145-20 · Cited by 30
Panteli, N., Mastoraki, M., Nikouli, E., Lazarina, M., Antonopoulou, E., & Kormas, K. A. (2020) · Comparative Biochemistry and Physiology Part D Genomics and Proteomics · doi:10.1016/j.cbd.2020.100738 · Cited by 30
Peter, M., Lv, H., Jiang, X., Liu, Y., Hur, J. W., Esbon, M., Samwel, C., Superius, E., Khalfan, Z., Gao, Y., et al. (2020) · Aquaculture Reports · doi:10.1016/j.aqrep.2020.100467 · Cited by 30
The role of the gut microbiota in the dietary niche expansion of fishing bats
Aizpurua, O., Nyholm, L., Morris, E., Chaverri, G., M., L. G. H., Flores‐Martínez, J. J., Lin, A., Razgour, O., Gilbert, M. T. P., & Alberdi, A. (2021) · Animal Microbiome · doi:10.1186/s42523-021-00137-w · Cited by 32
Bifidobacterium lactis BL-99 modulates intestinal inflammation and functions in zebrafish models
Chen, M., Liu, C., Dai, M., Wang, Q., Li, C., & Hung, W. (2022) · PLoS ONE · doi:10.1371/journal.pone.0262942 · Cited by 30
Chen, X., Sun, C., Dong, J., Li, W., Tian, Y., Hu, J. H., & Ye, X. (2022) · Frontiers in Genetics · doi:10.3389/fgene.2022.797420 · Cited by 30
“chuatsi Fed on Compound Diets The diversity of fish gut microbiota is associated with the external environment, growth and developmental stages, nutritional status, as well as the complexity of the reproductive and digestive systems (Kim et al., 2007; Nayak, 2010; Stephens et al., 2016).”
BackgroundZhang, W., Tan, B., Deng, J., Yang, Q., Chi, S., Pang, A., Yu, X., Liu, Y., & Zhang, H. (2022) · Animal nutrition · doi:10.1016/j.aninu.2022.08.006 · Cited by 31
“The genus Photobacterium belongs to the Vibrionaceae family and comprises facultative anaerobic bacteria that are widely distributed in seawater and on the body surfaces and in the digestive tracts of some marine fish (Nayak, 2010).”
BackgroundJin, W., Jiang, L., Hu, S., & Zhu, A. (2022) · Comparative Biochemistry and Physiology Part C Toxicology & Pharmacology · doi:10.1016/j.cbpc.2022.109496 · Cited by 30
Fan, K., Liu, H., Pei, Z., Brown, P. B., & Huang, Y. (2022) · Animal Feed Science and Technology · doi:10.1016/j.anifeedsci.2022.115542 · Cited by 30
Sun, H. L. Y. Y. Z. (2011) · Journal of Aquaculture Research & Development · doi:10.4172/2155-9546.s1-001 · Cited by 30
Ring�, E., Zhigang, Z., He, S., & Olsen, R. E. (2014) · African Journal of Microbiology Research · doi:10.5897/ajmr2013.6395 · Cited by 29
Betiku, O. C., Yeoman, C. J., Gaylord, T. G., Americus, B., Olivo, S., Duff, G. C., & Sealey, W. M. (2018) · PLoS ONE · doi:10.1371/journal.pone.0195967 · Cited by 29
Sakalli, S., Giang, P. T., Burkina, V., Zamaratskaia, G., Rasmussen, M. K., Bakal, T., Tilami, S. K., Sampels, S., Kolářová, J., Grabic, R., et al. (2018) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2018.04.188 · Cited by 29
Partial Evaluation of Autochthonous Probiotic Potential of the Gut Microbiota of Seriola lalandi
Ramírez, C., Rojas, R., & Romero, J. (2019) · Probiotics and Antimicrobial Proteins · doi:10.1007/s12602-019-09550-9 · Cited by 27
Riiser, E. S., Haverkamp, T. H. A., Borgan, Ø., Jakobsen, K. S., Jentoft, S., & Star, B. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.01561 · Cited by 29
“This likely involves a complex interaction between exogenous factors (diet, salinity, etc.) and endogenous factors (genotype, trophic level, etc.) (Nayak, 2010; Romero et al., 2014).”
Abdelhamed, H., Ozdemir, O., Waldbieser, G. C., Perkins, A., Lawrence, M. L., & Karsi, A. (2019) · Aquaculture Research · doi:10.1111/are.14325 · Cited by 31
Liao, Y., Cai, C., Yang, C., Zhe, Z., Wang, Q., Du, X., & Deng, Y. (2019) · Aquaculture Reports · doi:10.1016/j.aqrep.2019.100253 · Cited by 29
The microbiome of Chinook salmon (Oncorhynchus tshawytscha) in a recirculation aquaculture system
Steiner, K., Heasman, K. G., Laroche, O., Pochon, X., Preece, M., Bowman, J. P., Walker, S. P., & Symonds, J. E. (2020) · Aquaculture · doi:10.1016/j.aquaculture.2020.736227 · Cited by 29
Jia, J., Gomes-Silva, G., Plath, M. W., Pereira, B. B., Ueira‐Vieira, C., & Wang, Z. (2021) · Ecotoxicology and Environmental Safety · doi:10.1016/j.ecoenv.2021.111955 · Cited by 29
Xun, P., Lin, H., Wang, R., Yu, W., Zhou, C., Tan, X., Huang, Z., Huang, X., Huang, Q., & Yu, W. (2021) · Aquaculture Nutrition · doi:10.1111/anu.13307 · Cited by 29
Khan, M. I. R., Kamilya, D., Choudhury, T. G., & Rathore, G. (2021) · Aquaculture · doi:10.1016/j.aquaculture.2021.737390 · Cited by 29
Cultivable intestinal microbiota of yellowtail juveniles (Seriola lalandi) in an aquaculture system
Aguilera, E., Yany, G., & Romero, J. (2017) · Latin American Journal of Aquatic Research · doi:10.3856/vol41-issue3-fulltext-3 · Cited by 29
“The gastrointestinal (GI) microbiota of fish consists of bacteria residing in the gut that can reach 10(7)-10(11) bacteria g of intestinal content (Nayak, 2010), with the highest values observed in herbivorous tropical fish.”
InfluentialDash, G., Raman, R. P., Prasad, K. P., Makesh, M., Pradeep, M. A., & Sen, S. (2014) · Aquaculture Research · doi:10.1111/are.12539 · Cited by 29
Safari, O., & Paolucci, M. (2017) · Aquaculture Nutrition · doi:10.1111/anu.12553 · Cited by 29
“…an important role in the health status and growth performance (Hoseinifar, Mirvaghefi, Amoozegar, Merrifield, & Ringø, 2015; Llewellyn, Boutin, Hoseinifar, & Derome, 2014; Nayak, 2010; Pérez et al., 2010; Ringø & Gatesoupe, 1998; Safari, Shahsavani, Paolucci, & Atash, 2014a; Vadstein et al., 2013).”
BackgroundThe role of intestinal bacteria in ammonia detoxification ability of teleost fish
Turner, L. A., & Bucking, C. (2019) · Journal of Experimental Biology · doi:10.1242/jeb.209882 · Cited by 29
“Contributions to host digestive processes by the GIT microbiome are well documented, with bacteria supplying a variety of catabolic and anabolic pathways for hosts (Goodrich and Morita, 1977a,b; Lesel et al., 1986; Sugita et al., 1991; Skrodenytė-Arbačiauskiene ̇ et al., 2008; Nayak, 2010; Ringø et al., 2012).”
BackgroundGastrointestinal Pathogenesis in Aquatic Animals
Bøgwald, J., & Dalmo, R. A. (2014) · Aquaculture Nutrition · doi:10.1002/9781118897263.ch3 · Cited by 29
“These bacteria are considered to be part of the environmental and normal bacterial microbiota from apparently healthy fish (Nayak 2010).”
BackgroundImpact of the diet in the gut microbiota after an inter-species microbial transplantation in fish
Ruiz, A., Gisbert, E., & Andree, K. B. (2024) · Scientific Reports · doi:10.1038/s41598-024-54519-6 · Cited by 28
“Both genera from the order Pseudomonadales tend to inhabit the intestinal mucosa of fish 93 and have been reported to possess enzymatic activities that favour a higher nutrient digestion 94 .”
BackgroundGiri, S. S., Jun, J. W., Yun, S., Kim, H. J., Kim, S. G., Kang, J. W., Kim, S. W., Han, S. J., Park, S. C., & Sukumaran, V. (2017) · Probiotics and Antimicrobial Proteins · doi:10.1007/s12602-017-9367-6 · Cited by 29
Metadata
- Authors
- Nayak, S. K.
- Affiliations
- Nihon University (JP)
- Corresponding author
- Nayak, Sukanta K
- ORCID
- Nayak, Sukanta K
- Venue
- Aquaculture Research
- Publisher
- Hindawi Limited
- Published
- 2010-06-16
- Volume
- 41
- Issue
- 11
- Pages
- 1553-1573
- ISSN
- 1355-557X (ISSN-L)
- OpenAlex
- W1912394394
- Cited by
- 1,073
- References
- 240
- Citations by year
- 2026: 74 · 2025: 97 · 2024: 85 · 2023: 104 · 2022: 111 · 2021: 109 · 2020: 94 · 2019: 80 · 2018: 82 · 2017: 58 · 2016: 36 · 2015: 30 · 2014: 40 · 2013: 30 · 2012: 22
- FWCI
- 9.65
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Aquaculture Research (publishedVersion)
- Funders
- Nihon University
- Directorate for Biological Sciences
- Topics
- Life Sciences › Immunology and Microbiology › Immunology › Aquaculture disease management and microbiota
- Life Sciences › Agricultural and Biological Sciences › Aquatic Science › Aquaculture Nutrition and Growth
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Keywords
- gut microbiota, fish gut bacteria, fish nutrition, fish immunity, fish disease, probiotics, prebiotics, synbiotics, gut microbiota modulation, fish health management, culture-independent identification
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