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Milián-Sorribes MC, Martínez-Llorens S, Peñaranda DS, Jauralde I, Jover-Cerdá M, Tomás-Vidal A. Growth, Survival, and Intestinal Health Alterations in Mediterranean Yellowtail ( Seriola dumerili) Due to Alternatives to Fishmeal and Fish Oil. Curr Issues Mol Biol 2024; 46:753-772. [PMID: 38248351 PMCID: PMC10814527 DOI: 10.3390/cimb46010049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2023] [Revised: 01/12/2024] [Accepted: 01/14/2024] [Indexed: 01/23/2024] Open
Abstract
Fishmeal and fish oil substitution in aquafeeds might have adverse effects on fish growth and health, mainly in carnivorous species, such as Mediterranean yellowtail (Seriola dumerili). Mediterranean yellowtail shows great potential as an alternative aquaculture species due to its fast growth and high price on the market, but the need for high-quality protein and fatty acid content in its diets is limiting its production. In order to improve the sustainability of its production, this study was conducted with 360 fish of 35 g to evaluate the effects on fish growth and health. Six diets were used: one control diet without replacement, three with FM replacement (FM66, FM33, and FM0) (33%, 66%, and 100% FM replacement), and two with FO replacement (FO50 and FO0) (50% and 100% FO replacement). The substitution of FM was with vegetable (VM) (corn gluten) and animal (AM) (krill and meat meal) meals. The reductions in FM and FO of up to 33 and 0%, respectively, did not affect the growth and survival of S. dumerili at the intestinal morphology level, except for the anterior intestine regarding the lower villi length and width and the posterior intestine regarding the lower width of the lamina propria. On the other hand, the substitution of fish ingredients in the diet affects liver morphology, indicating alterations in the major diameter of hepatocytes or their nuclei. Finally, diet did not affect the gut microbiota with respect to the control, but significant differences were found in alpha and beta diversity when FO and FM microbiota were compared. A 66% FM replacement and total FO replacement would be possible without causing major alterations in the fish.
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Affiliation(s)
| | - Silvia Martínez-Llorens
- Aquaculture and Biodiversity Group, Institute of Animal Science and Technology, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia, Spain; (M.C.M.-S.); (D.S.P.); (I.J.); (M.J.-C.); (A.T.-V.)
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He Y, Dong X, Yang Q, Liu H, Zhang S, Chi S, Tan B. Glutamine improves growth and intestinal health in juvenile hybrid groupers fed high-dose glycinin. FISH & SHELLFISH IMMUNOLOGY 2023; 141:109003. [PMID: 37604266 DOI: 10.1016/j.fsi.2023.109003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 06/19/2023] [Accepted: 08/09/2023] [Indexed: 08/23/2023]
Abstract
Glutamine addition can improve immunity and intestinal development in fish. This study examined the protective roles of glutamine on growth suppression and enteritis induced by glycinin in juvenile hybrid groupers (female Epinephelus fuscoguttatus × male Epinephelus lanceolatus). The experiment set four isonitrogenous and isolipidic trial diets: a diet containing 10% glycinin (11S), 10% of 11S diet supplemented with 1% or 2% alanine-glutamine (1% or 2% Ala-Gln), and a diet containing neither 11S nor Ala-Gln (FM). A feeding trial was conducted in hybrid grouper for 8 weeks. Weight gain and specific growth rates in Groups 1% and 2% Ala-Gln were significantly higher than those of the 11S group but were similar to those of the FM group. The intestinal muscular layer thickness, plica height and width of the 2% Ala-Gln group were significantly higher than those of Group 11S. The enterocyte proliferation efficiency of the 11S group was significantly lower compared to other groups. Compared with the 11S group, Groups 1% and 2% Ala-Gln fish had increased intestinal lysozyme activities, complement 3 and immunoglobulin M as well as cathelicidin contents. The mRNA levels of tnf-α, il-1β, ifn-α, and hsp70 genes were more downregulated in Groups 1% and 2% Ala-Gln than in Group 11S. Compared with FM group, fish from the 11S group had significantly lower mRNA levels of myd88, ikkβ, and nf-κb p65 genes. These three values in the 2% Ala-Gln group were significantly lower than those in Group 11S but not significantly different from those of Group FM. The relative abundance of Vibrio in Group 11S was higher than that in Groups FM and 2% Ala-Gln. Intestinal glutamine, glutaminase, glutamic acid, α-ketoglutarate, malate dehydrogenase and ATP contents were higher in Groups 1% and 2% Ala-Gln than in Group 11S. These results suggest that glutamine is a useful feed additive to enhance growth and intestinal immunity, alleviate inflammation, and modulate gut microbiota in hybrid grouper fed high-dose glycinin.
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Affiliation(s)
- Yuanfa He
- Integrative Science Center of Germplasm Creation in Western China (Chongqing) Science City, Key Laboratory of Freshwater Fish Reproduction and Development, Ministry of Education, College of Fisheries, Southwest University, Chongqing, 400715, China; Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China.
| | - Xiaohui Dong
- Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China; Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture and Rural Affair, Zhanjiang, 524088, China
| | - Qihui Yang
- Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China; Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture and Rural Affair, Zhanjiang, 524088, China
| | - Hongyu Liu
- Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China; Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture and Rural Affair, Zhanjiang, 524088, China
| | - Shuang Zhang
- Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China; Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture and Rural Affair, Zhanjiang, 524088, China
| | - Shuyan Chi
- Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China; Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture and Rural Affair, Zhanjiang, 524088, China.
| | - Beiping Tan
- Laboratory of Aquatic Animal Nutrition and Feed, College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088, China; Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture and Rural Affair, Zhanjiang, 524088, China.
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Reinoso S, Gutiérrez MS, Reyes-Jara A, Toro M, García K, Reyes G, Argüello-Guevara W, Bohórquez-Cruz M, Sonnenholzner S, Navarrete P. Feed Regime Slightly Modifies the Bacterial but Not the Fungal Communities in the Intestinal Mucosal Microbiota of Cobia Fish ( Rachycentron canadum). Microorganisms 2023; 11:2315. [PMID: 37764158 PMCID: PMC10535204 DOI: 10.3390/microorganisms11092315] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2023] [Revised: 08/22/2023] [Accepted: 08/28/2023] [Indexed: 09/29/2023] Open
Abstract
The bacterial community of the intestinal microbiota influences many host functions, and similar effects have been recently reported for the fungal community (mycobiota). Cobia is a tropical fish that has been studied for its potential in marine aquaculture. However, the study of its bacterial community has been underreported and the mycobiota has not been investigated. We analyzed the gut bacterial and fungal profile present in the intestinal mucosa of reared adult cobias fed two diets (frozen fish pieces (FFPs) and formulated feed (FF)) for 4 months by sequencing the 16S rRNA (V3-V4) and internal transcribed spacer-2 (ITS2) regions using Illumina NovaSeq 6000. No significant differences in the alpha diversity of the bacterial community were observed, which was dominated by the phyla Proteobacteria (~96%) and Firmicutes (~1%). Cobia fed FF showed higher abundance of 10 genera, mainly UCG-002 (Family Oscillospiraceae) and Faecalibacterium, compared to cobia fed FFPs, which showed higher abundance of 7 genera, mainly Methylobacterium-Methylorubrum and Cutibacterium. The inferred bacterial functions were related to metabolism, environmental information processing and cellular processes; and no differences were found between diets. In mycobiota, no differences were observed in the diversity and composition of cobia fed the two diets. The mycobiota was dominated by the phyla Ascomycota (~88%) and Basidiomycota (~11%). This is the first study to describe the gut bacterial and fungal communities in cobia reared under captive conditions and fed on different diets and to identify the genus Ascobulus as a new member of the core fish mycobiota.
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Affiliation(s)
- Samira Reinoso
- Microbiology and Probiotics Laboratory, Institute of Nutrition and Food Technology (INTA), University of Chile, Avenida El Libano 5524, Macul, Santiago 7830490, Chile; (M.S.G.); (A.R.-J.); (M.T.)
- Centro Nacional de Acuicultura e Investigaciones Marinas, CENAIM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador; (G.R.); (W.A.-G.); (M.B.-C.); (S.S.)
| | - María Soledad Gutiérrez
- Microbiology and Probiotics Laboratory, Institute of Nutrition and Food Technology (INTA), University of Chile, Avenida El Libano 5524, Macul, Santiago 7830490, Chile; (M.S.G.); (A.R.-J.); (M.T.)
| | - Angélica Reyes-Jara
- Microbiology and Probiotics Laboratory, Institute of Nutrition and Food Technology (INTA), University of Chile, Avenida El Libano 5524, Macul, Santiago 7830490, Chile; (M.S.G.); (A.R.-J.); (M.T.)
- Millenium Institute Center for Genome Regulation (CRG), Santiago 8331150, Chile
| | - Magaly Toro
- Microbiology and Probiotics Laboratory, Institute of Nutrition and Food Technology (INTA), University of Chile, Avenida El Libano 5524, Macul, Santiago 7830490, Chile; (M.S.G.); (A.R.-J.); (M.T.)
- Joint Institute for Food Safety and Applied Nutrition (JIFSAN), University of Maryland, College Park, MD 20910, USA
| | - Katherine García
- Instituto de Ciencias Biomédicas, Facultad de Ciencias de la Salud, Universidad Autónoma de Chile, Santiago 8900000, Chile;
| | - Guillermo Reyes
- Centro Nacional de Acuicultura e Investigaciones Marinas, CENAIM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador; (G.R.); (W.A.-G.); (M.B.-C.); (S.S.)
| | - Wilfrido Argüello-Guevara
- Centro Nacional de Acuicultura e Investigaciones Marinas, CENAIM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador; (G.R.); (W.A.-G.); (M.B.-C.); (S.S.)
- Facultad de Ingeniería Marítima y Ciencias del Mar, FIMCM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador
| | - Milton Bohórquez-Cruz
- Centro Nacional de Acuicultura e Investigaciones Marinas, CENAIM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador; (G.R.); (W.A.-G.); (M.B.-C.); (S.S.)
| | - Stanislaus Sonnenholzner
- Centro Nacional de Acuicultura e Investigaciones Marinas, CENAIM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador; (G.R.); (W.A.-G.); (M.B.-C.); (S.S.)
- Facultad de Ingeniería Marítima y Ciencias del Mar, FIMCM, Escuela Superior Politécnica del Litoral, ESPOL Polytechnic University, Guayaquil 090211, Ecuador
| | - Paola Navarrete
- Microbiology and Probiotics Laboratory, Institute of Nutrition and Food Technology (INTA), University of Chile, Avenida El Libano 5524, Macul, Santiago 7830490, Chile; (M.S.G.); (A.R.-J.); (M.T.)
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Kormas K, Nikouli E, Kousteni V, Damalas D. Midgut Bacterial Microbiota of 12 Fish Species from a Marine Protected Area in the Aegean Sea (Greece). MICROBIAL ECOLOGY 2022:10.1007/s00248-022-02154-x. [PMID: 36529834 DOI: 10.1007/s00248-022-02154-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Accepted: 11/30/2022] [Indexed: 06/17/2023]
Abstract
Fish microbiome science is progressing fast, but it is biased toward farmed or laboratory fish species against natural fish populations, which remain considerably underinvestigated. We analyzed the midgut bacterial microbiota of 45 specimens of 12 fish species collected from the Gyaros Island marine protected area (Aegean Sea, Greece). The species belong to seven taxonomic families and are either herbivores or omnivores. Mucosa midgut bacterial diversity was assessed by amplicon metabarcoding of the 16S rRNA V3-V4 gene region. A total of 854 operational taxonomic units (OTUs) were identified. In each fish species, between 2 and 18 OTUs dominated with cumulative relative abundance ≥ 70%. Most of the dominating bacterial taxa have been reported to occur both in wild and farmed fish populations. The midgut bacterial communities were different among the 12 fish species, except for Pagrus pagrus and Pagellus erythrinus, which belong to the Sparidae family. No differentiation of the midgut bacterial microbiota was found based on feeding habits, i.e., omnivorous vs. carnivorous. Comparing wild and farmed P. pagrus midgut bacterial microbiota revealed considerable variation between them. Our results expand the gut microbiota of wild fish and support the host species effect as the more likely factor shaping intestinal bacterial microbiota.
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Affiliation(s)
- Konstantinos Kormas
- Department of Ichthyology and Aquatic Environment, University of Thessaly, 384 46, Volos, Greece.
| | - Eleni Nikouli
- Department of Ichthyology and Aquatic Environment, University of Thessaly, 384 46, Volos, Greece
| | - Vasiliki Kousteni
- Institute of Marine Biological Resources and Inland Waters, Hellenic Centre for Marine Research, 710 03, Heraklion, Greece
- Fisheries Research Institute, Hellenic Agricultural Organization - Demeter, 640 07, Nea Peramos, Greece
| | - Dimitrios Damalas
- Institute of Marine Biological Resources and Inland Waters, Hellenic Centre for Marine Research, 710 03, Heraklion, Greece
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Puvanasundram P, Chong CM, Sabri S, Yusoff MSM, Lim KC, Karim M. Efficacy of Single and Multi-Strain Probiotics on In Vitro Strain Compatibility, Pathogen Inhibition, Biofilm Formation Capability, and Stress Tolerance. BIOLOGY 2022; 11:biology11111644. [PMID: 36358345 PMCID: PMC9687211 DOI: 10.3390/biology11111644] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 10/19/2022] [Accepted: 11/05/2022] [Indexed: 11/12/2022]
Abstract
Compatibility of each strain in a multi-strain probiotic (MSP), along with its properties, becomes a strong base for its formulation. In this study, single-strain probiotics (SSPs) and multi-strain probiotics (MSPs) were evaluated in vitro for strain compatibility, microbial antagonism, biofilm formation capacity, and stress tolerance. Bacillus amyloliquefaciens L11, Enterococcus hirae LAB3, and Lysinibacillus fusiformis SPS11 were chosen as MSP1 candidates because they showed much stronger antagonism to Aeromonas hydrophila and Streptococcus agalactiae than a single probiotic. MSP 2 candidates were Lysinibacillus fusiformis strains SPS11, A1, and Lysinibacillus sphaericus strain NAS32 because the inhibition zone produced by MSP 2 against Vibrio harveyi and Vibrio parahaemolyticus was much higher than that produced by its constituent SSPs. MSP1 in the co-culture assay reduced (p < 0.05) A. hydrophila count from 9.89 ± 0.1 CFU mL−1 to 2.14 ± 0.2 CFU mL−1. The biofilm formation of both MSPs were significantly higher (p < 0.05) than its constituent SSPs and the pathogens. The SSPs in both MSPs generally showed resistance to high temperatures (80, 90, and 100 °C) and a wide range of pH (2 to 9). This in vitro assessment study demonstrates that MSP1 and 2 have the potential to be further explored as multi-strain probiotics on selected aquatic species.
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Affiliation(s)
- Puvaneswari Puvanasundram
- Laboratory of Aquatic Animal Health and Therapeutics, Institute of Biosciences, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
- Department of Aquaculture, Faculty of Agriculture, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Chou Min Chong
- Laboratory of Aquatic Animal Health and Therapeutics, Institute of Biosciences, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
- Department of Aquaculture, Faculty of Agriculture, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Suriana Sabri
- Enzyme and Technology Research Center, Faculty of Biotechnology and Biomolecular Sciences, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Md Sabri Mohd Yusoff
- Department of Veterinary Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Keng Chin Lim
- Department of Aquaculture, Faculty of Agriculture, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Murni Karim
- Department of Aquaculture, Faculty of Agriculture, University Putra Malaysia, Serdang 43400, Selangor, Malaysia
- Laboratory of Sustainable Aquaculture, International Institute of Aquaculture and Aquatic Sciences, University Putra Malaysia, Port Dickson 71050, Negeri Sembilan, Malaysia
- Correspondence:
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Ringø E, Harikrishnan R, Soltani M, Ghosh K. The Effect of Gut Microbiota and Probiotics on Metabolism in Fish and Shrimp. Animals (Basel) 2022; 12:3016. [PMID: 36359140 PMCID: PMC9655696 DOI: 10.3390/ani12213016] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2022] [Revised: 09/01/2022] [Accepted: 11/02/2022] [Indexed: 07/30/2023] Open
Abstract
The present paper presents an overview of the effects of gut microbiota and probiotics on lipid-, carbohydrate-, protein- and amino acid metabolism in fish and shrimp. In probiotic fish studies, the zebrafish (Danio rerio) model is the most frequently used, and probiotic administration reveals the effect on glucose homeostasis, anti-lipidemic effects and increasing short-chain fatty acids, and increased expressions of genes related to carbohydrate metabolism and innate immunity, along with down-regulation of oxidative stress-related genes. Further, improved length of the intestinal villi and expression of nutrient transporters in fish owing to probiotics exposure have been documented. The present review will present an appraisal of the effect of intestinal microbiota and probiotic administration on the metabolism of nutrients and metabolites related to stress and immunity in diverse fish- and shrimp species. Furthermore, to give the reader satisfactory information on the topics discussed, some information from endothermic animals is also presented.
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Affiliation(s)
- Einar Ringø
- Norwegian College of Fishery Science, Faculty of Bioscience, Fisheries and Economics, UiT The Arctic University of Norway, 9019 Tromsø, Norway
| | - Ramasamy Harikrishnan
- Department of Zoology, Pachaiyappa’s College for Men, University of Madras, Kanchipuram 631 501, Tamil Nadu, India
| | - Mehdi Soltani
- Department of Aquatic Animal Health, Faculty of Veterinary Medicine, University of Tehran, Tehran 1419963111, Iran
- Centre for Sustainable Aquatic Ecosystems, Harry Butler Institute, Murdoch University, Murdoch, WA 6150, Australia
| | - Koushik Ghosh
- Aquaculture Laboratory, Department of Zoology, The University of Burdwan, Burdwan 713 104, West Bengal, India
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Dietary carbohydrate-to-protein ratio influences growth performance, hepatic health and dynamic of gut microbiota in atlantic salmon (Salmo salar). ANIMAL NUTRITION 2022; 10:261-279. [PMID: 35785253 PMCID: PMC9234083 DOI: 10.1016/j.aninu.2022.04.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Revised: 01/11/2022] [Accepted: 04/10/2022] [Indexed: 11/24/2022]
Abstract
Atlantic salmon (Salmo salar) fed a carbohydrate-rich diet exhibit suboptimal growth performance, along with other metabolic disturbances. It is well known that gut microbes play a pivotal role in influencing metabolism of the host, and these microbes can be modified by the diet. The main goal of the present study was to determine the effect of feeding graded levels of digestible carbohydrates to Atlantic salmon on the distal intestine digesta microbiota at 3 sampling times (i.e., weeks 4, 8 and 12), during a 12-week trial. A low carbohydrate-to-high protein diet (LC/HP, 0% wheat starch), a medium carbohydrate-to-medium protein diet (MC/MP, 15% wheat starch) or a high carbohydrate-to-low protein diet (HC/LP, 30% wheat starch) was fed to triplicate fish tanks (27 to 28 fish per tank). We performed an in-depth characterization of the distal intestine digesta microbiota. Further, growth parameters, liver histology and the expression of genes involved in hepatic neolipogenesis in fish were measured. Fish fed a HC/LP diet showed greater hepatosomatic and viscerosomatic indexes (P = 0.026 and P = 0.018, respectively), lower final weight (P = 0.005), weight gain (P = 0.003), feed efficiency (P = 0.033) and growth rate (P = 0.003) compared with fish fed the LC/HP diet. Further, feeding salmon a high digestible carbohydrate diet caused greater lipid vacuolization, steatosis index (P = 0.007) and expression of fatty acid synthase (fas) and delta-6 fatty acyl desaturase (d6fad) (P = 0.001 and P = 0.001, respectively) in the liver compared with fish fed the LC/HP diet. Although, the major impact of feeding a carbohydrate-rich diet to Atlantic salmon in beta diversity of distal intestine digesta microbiota was observed at week 4 (HC/LP vs MC/MP and HC/LP vs LC/HP; P = 0.007 and P = 0.008, respectively) and week 8 (HC/LP vs MC/MP; P = 0.04), no differences between experimental groups were detected after 12 weeks of feeding. Finally, at the end of the trial, there was a negative correlation between lactic acid bacteria (LAB) members, including Leuconostoc and Lactobacillus, with hepatic steatosis level, the hepatosomatic and viscerosomatic indexes as well as the expression of fas and d6fad. Weissella showed negative correlation with hepatic steatosis level and the hepatosomatic index. Finally, further research to explore the potential use of LAB as probiotics to improve liver health in carnivorous fish fed fatty liver-induced diet is warranted.
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Potential Role of Gastrointestinal Microbiota in Growth Regulation of Yellowtail Kingfish Seriola lalandi in Different Stocking Densities. FISHES 2022. [DOI: 10.3390/fishes7040154] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
A 90-day study was performed under three different stocking densities, including high density (10,000 fishes/cage), medium density (8000 fishes/cage), and low density (6000 fishes/cage), in a deep-sea net cage for yellowtail kingfish (Seriola lalandi). The physiological characteristics and growth performance were tested, and structural characteristics of the gastrointestinal microbiota were systematically analyzed. The results show that fishes with high density had a lower weight gain rate and a specific growth rate, as well as higher serum cortisol content. The diversity, types and numbers of dominant microbiota with significant differences, and the numbers of shared genera among the different groups all changed. Core genera in the gastrointestinal tract were obtained according to the principles of dominance, commonality, and difference. The changes in the relative abundance of the core genera might be related to the growth and physiological characteristics of the host. The ratio of Firmicutes to Bacteroidetes in the stomach and pyloric caecum, which favors the accumulation of energy by the host from the diet, was higher in the medium-density group than in the other groups. This indicates that the higher density could cause physiological stress and affect growth performance. In order to reduce the resulting growth differences, gastrointestinal microbiota might assist the host in accumulating energy, participating in the energy distribution by adjusting its structure. Based on the growth, physiology, and production practices, the medium density was the appropriate density in this study. This study provides a reference for the improvement of deep-sea culture technology and the promotion of healthy growth through the gastrointestinal microecological regulation of yellowtail kingfish.
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He Y, Liang J, Dong X, Liu H, Yang Q, Zhang S, Chi S, Tan B. Soybean β-conglycinin and glycinin reduced growth performance and the intestinal immune defense and altered microbiome in juvenile pearl gentian groupers Epinephelus fuscoguttatus♀ × Epinephelus lanceolatus♂. ANIMAL NUTRITION (ZHONGGUO XU MU SHOU YI XUE HUI) 2022; 9:193-203. [PMID: 35600546 PMCID: PMC9092876 DOI: 10.1016/j.aninu.2021.11.001] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/24/2021] [Revised: 11/04/2021] [Accepted: 11/23/2021] [Indexed: 11/19/2022]
Abstract
The utilization efficiency of soy protein is affected by its 2 anti-nutritional substances-the antigens β-conglycinin and glycinin. This study investigated their effects on the growth performance, intestinal immune defense, and microbiome in juvenile pearl gentian groupers (Epinephelus fuscoguttatus♀ × Epinephelus lanceolatus♂). Three isonitrogenous and isolipidic diets were formulated containing fishmeal supplemented with 70 g/kg β-conglycinin or 100 g/kg glycinin, or no supplementation (control). Each experimental diet was fed to quadruplicate groups with 30 fish in each tank for 8 weeks. Dietary inclusion of either β-conglycinin or glycinin significantly reduced weight gain and specific growth rates, and cell proliferation of the distal intestine. Histological evaluation of the intestine tract revealed the inflammation signs, characterized by reducing of plica height and width as well as the number of the goblet cells, and widening of the lamina propria. The group fed the β-conglycinin diet had reduced lysozyme activity, contents of immunoglobulin M and complements 3 and 4. Increased activities of caspase-3 and -9 were observed in the group fed the β-conglycinin diet compared to the other 2 groups. In the intestinal microbiota, the relative abundances of the potentially pathogenic genera Photobacterium and Vibrio were significantly higher in the glycinin group than those in others. Therefore, the existence of soybean antigens (β-conglycinin or glycinin) could damage the structural integrity of the intestine, reduce immune defense, reshape the intestinal microbiome and, ultimately, impair growth in fish.
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Affiliation(s)
- Yuanfa He
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
| | - Jinfang Liang
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
| | - Xiaohui Dong
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
| | - Hongyu Liu
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
| | - Qihui Yang
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
| | - Shuang Zhang
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
| | - Shuyan Chi
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
- Corresponding authors.
| | - Beiping Tan
- Laboratory of Aquatic Animal Nutrition and Feed, Fisheries College, Guangdong Ocean University, Zhanjiang 524088, China
- Aquatic Animals Precision Nutrition and High-Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang 524088, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang 524088, China
- Corresponding authors.
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10
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Barros F, Silva L, Dias J, Abe H, Paixão P, Sousa N, Cordeiro C, Fujimoto R. In vitro selection of autochthonous bacterium with probiotic potential for the neotropical fish piauçu Megaleporinus microcephalus. ARQ BRAS MED VET ZOO 2022. [DOI: 10.1590/1678-4162-12404] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
ABSTRACT The study aimed to isolate, identify, and apply in vitro tests on bacteria with autochthonous probiotic potential isolated from fifteen healthy specimens of Megaleporinus macrocephalus. The strains were selected from the intestinal tract of fish and inoculated in the Petri plate containing Sharp Man Rogosa Agar (MRS) for (48 hours at 35ºC). They were isolated based on a test of catalase, Gram stain, tolerance to different gradients NaCl (1, 2 and 3%), pH (4, 5, 6, 8 and 9) values and bile salts (2.5 and 5%), in addition to the inhibition zone against pathogens. Of the 42 strains isolated, ST1 and ST9 had higher values (p<0.05) for total viable cells (31.80±0.07 and 32.51±0.05 CFU/mL × 108) respectively. In the resistance tests, strains ST1 and ST9 presented the best results, with emphasis on ST9 in the gradients of pH, high values of bile salts and larger inhibition zones against Aeromonas hydrophila and Aeromonas jandaei. The strains with the best results in the tests, ST1 and ST9, were identified by the MALDI-TOF-MS method as Enterococcus faecium. Thus, the isolated E. faecium bacteria, may be recommended as for probiotic use in farming the M. macrocephalus.
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Affiliation(s)
| | | | | | - H.A. Abe
- Universidade Federal do Pará, Brazil
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11
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Thépot V, Slinger J, Rimmer MA, Paul NA, Campbell AH. Is the Intestinal Bacterial Community in the Australian Rabbitfish Siganus fuscescens Influenced by Seaweed Supplementation or Geography? Microorganisms 2022; 10:microorganisms10030497. [PMID: 35336073 PMCID: PMC8954549 DOI: 10.3390/microorganisms10030497] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2022] [Revised: 02/12/2022] [Accepted: 02/17/2022] [Indexed: 02/04/2023] Open
Abstract
We recently demonstrated that dietary supplementation with seaweed leads to dramatic improvements in immune responses in S. fuscescens, a candidate species for aquaculture development in Asia. Here, to assess whether the immunostimulatory effect was facilitated by changes to the gut microbiome, we investigated the effects of those same seaweed species and four commercial feed supplements currently used in aquaculture on the bacterial communities in the hindgut of the fish. Since we found no correlations between the relative abundance of any particular taxa and the fish enhanced innate immune responses, we hypothesised that S. fuscescens might have a core microbiome that is robust to dietary manipulation. Two recently published studies describing the bacteria within the hindgut of S. fuscescens provided an opportunity to test this hypothesis and to compare our samples to those from geographically distinct populations. We found that, although hindgut bacterial communities were clearly and significantly distinguishable between studies and populations, a substantial proportion (55 of 174 taxa) were consistently detected across all populations. Our data suggest that the importance of gut microbiota to animal health and the extent to which they can be influenced by dietary manipulations might be species-specific or related to an animals’ trophic level.
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Affiliation(s)
- Valentin Thépot
- School of Science, Technology and Engineering, University of the Sunshine Coast, Maroochydore DC, QLD 4558, Australia; (M.A.R.); (N.A.P.)
- Correspondence:
| | - Joel Slinger
- CSIRO Agriculture and Food, Bribie Island Research Centre, Woorim, QLD 4507, Australia;
- Institute of Marine and Antarctic Studies, University of Tasmania, Launceston, TAS 7250, Australia
| | - Michael A. Rimmer
- School of Science, Technology and Engineering, University of the Sunshine Coast, Maroochydore DC, QLD 4558, Australia; (M.A.R.); (N.A.P.)
| | - Nicholas A. Paul
- School of Science, Technology and Engineering, University of the Sunshine Coast, Maroochydore DC, QLD 4558, Australia; (M.A.R.); (N.A.P.)
| | - Alexandra H. Campbell
- School of Health and Behavioural Sciences, University of the Sunshine Coast, Maroochydore DC, QLD 4558, Australia;
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12
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Zhu J, Li H, Jing ZZ, Zheng W, Luo YR, Chen SX, Guo F. Robust host source tracking building on the divergent and non-stochastic assembly of gut microbiomes in wild and farmed large yellow croaker. MICROBIOME 2022; 10:18. [PMID: 35081990 PMCID: PMC8790850 DOI: 10.1186/s40168-021-01214-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Accepted: 12/12/2021] [Indexed: 05/08/2023]
Abstract
BACKGROUND Given the lack of genetic background, the source tracking unknown individuals of fish species with both farmed and wild populations often cannot be robustly achieved. The gut microbiome, which is shaped by both deterministic and stochastic processes, can serve as a molecular marker of fish host source tracking, particularly as an alternative to the yet-to-be-established host genetic marker. A candidate for testing the feasibility is the large yellow croaker, Larimichthys crocea, which is carnivorous and ranks the top mariculture fish in China. Wild resource of this fish was depleted decades ago and might have potential problematic estimation because of escaping of farmed individuals. RESULTS The rectums of wild (n = 212) and farmed (n = 79) croakers from multiple batches were collected for the profiling of their gut bacterial communities. The farmed individuals had a higher alpha diversity and lower bacterial load than the wild individuals. The gut microbiota of the two sources exhibited divergence and high inter-batch variation, as featured by the dominance of Psychrobacter spp. in the wild group. Predicted functional capacity of the gut microbiome and representative isolates showed differences in terms of host source. This difference can be linked to the potential diet divergence between farmed and wild fishes. The non-stochastic distribution pattern of the core gut microbiota of the wild and farmed individuals supports the feasibility of microbiota-based host source tracking via the machine learning algorithm. A random forest classifier based on the divergence and non-stochastic assembly of the gut microbiome was robust in terms of host source tracking the individuals from all batches of croaker, including a newly introduced batch. CONCLUSIONS Our study revealed the divergence of gut microbiota and related functional profiles between wild and farmed croakers. For the first time, with representative datasets and non-stochastic patterns, we have verified that gut microbiota can be robustly applied to the tracking of host source even in carnivorous fish. Video abstract.
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Affiliation(s)
- Jun Zhu
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, China
| | - Hao Li
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, China
| | - Ze Zhou Jing
- State-Province Joint Engineering Laboratory of Marine Bioproducts and Technology, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Wei Zheng
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, China
| | - Yuan Rong Luo
- Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, Xiamen University, Xiamen, China
| | - Shi Xi Chen
- State-Province Joint Engineering Laboratory of Marine Bioproducts and Technology, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China.
| | - Feng Guo
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, China.
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, China.
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13
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Romero J, Díaz O, Miranda CD, Rojas R. Red Cusk-Eel ( Genypterus chilensis) Gut Microbiota Description of Wild and Aquaculture Specimens. Microorganisms 2022; 10:microorganisms10010105. [PMID: 35056554 PMCID: PMC8779451 DOI: 10.3390/microorganisms10010105] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 12/10/2021] [Accepted: 12/20/2021] [Indexed: 11/16/2022] Open
Abstract
Chile has promoted the diversification of aquaculture and red cusk-eel (Genypterus chilensis) is one of the prioritized species. However, many aspects of the biology of the species are unknown or have little information available. These include intestinal microbiota, an element that may play an important role in the nutrition and defense of cultured animals for meat production. This study compares the microbiota composition of the intestinal contents of wild and aquaculture fish to explore the microbial communities present and their potential contribution to the host. DNA was extracted from the intestinal content samples and the V4 region of the 16S rRNA gene was amplified and sequenced using the Ion Torrent platform. After the examination of the sequences, strong differences were found in the composition at the level of phylum, being Firmicutes and Tenericutes the most abundant in aquaculture and wild condition, respectively. At the genus level, the Vagococcus (54%) and Mycoplasma (97%) were the most prevalent in the microbial community of aquaculture and wild condition, respectively. The evaluation of predicted metabolic pathways in these metagenomes showed that in wild condition there is an important presence of lipid metabolism belonging to the unsaturated fatty acid synthesis. In the aquaculture condition, the metabolism of terpenoids and polyketides were relevant. To our knowledge, this is the first study to characterize and compare the intestinal microbiota of red cusk-eel (Genypterus chilensis) of wild and aquaculture origin using high-throughput sequencing.
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Affiliation(s)
- Jaime Romero
- Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, El Líbano 5524, Macul, Santiago 783090, Chile;
- Correspondence: ; Tel.: +56-2-29781524
| | - Osmán Díaz
- Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, El Líbano 5524, Macul, Santiago 783090, Chile;
| | - Claudio D. Miranda
- Laboratorio de Patobiología Acuática, Departamento de Acuicultura, Universidad Católica del Norte, Larrondo 1281, Coquimbo 1780000, Chile; (C.D.M.); (R.R.)
| | - Rodrigo Rojas
- Laboratorio de Patobiología Acuática, Departamento de Acuicultura, Universidad Católica del Norte, Larrondo 1281, Coquimbo 1780000, Chile; (C.D.M.); (R.R.)
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14
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Murphy TR, Xiao R, Brooks ML, Rader BA, Hamilton-Brehm SD. Aquaculture production of hatchling Hawaiian Bobtail Squid (Euprymna scolopes) is negatively impacted by decreasing environmental microbiome diversity. J Appl Microbiol 2021; 132:1724-1737. [PMID: 34724303 PMCID: PMC9299211 DOI: 10.1111/jam.15350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2021] [Revised: 09/16/2021] [Accepted: 10/11/2021] [Indexed: 11/30/2022]
Abstract
Aims The Hawaiian Bobtail Squid (Euprymna scolopes) is a model organism for investigating host–symbiont relationships. The current scientific focus is on the microbiome within E. scolopes, while very little is known about the microbiome of the tanks housing E. scolopes. We examined the hypothesis that bacterial communities and geochemistry within the squid tank environment correlate with the production of viable paralarval squid. Methods and Results Total DNA was extracted from sediment and filtered water samples from ‘productive’ squid cohorts with high embryonic survival and paralarval hatching, ‘unproductive’ cohorts with low embryonic survival and paralarval hatching. As a control total DNA was extracted from environmental marine locations where E. scolopes is indigenous. Comparative analysis of the bacterial communities by the 16S rRNA gene was performed using next generation sequencing. Thirty‐eight differentially abundant genera were identified in the adult tank waters. The majority of the sequences represented unclassified, candidate or novel genera. The characterized genera included Aquicella, Woeseia and Ferruginibacter, with Hyphomicrobium and Rhizohapis were found to be more abundant in productive adult tank water. In addition, nitrate and pH covaried with productive cohorts, explaining 67% of the bacterial populations. The lower abundance of nitrate‐reducing bacteria in unproductive adult tank water could explain detected elevated nitrate levels. Conclusions We conclude that microbiome composition and water geochemistry can negatively affect E. scolopes reproductive physiology in closed tank systems, ultimately impacting host‐microbe research using these animals. Significance and Impact of study These results identify the tight relationship between the microbiome and geochemistry to E. scolopes. From this study, it may be possible to design probiotic counter‐measures to improve aquaculture conditions for E. scolopes.
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Affiliation(s)
- Trevor R Murphy
- School of Biological Sciences, Southern Illinois University Carbondale, Carbondale, Illinois, USA
| | - Rui Xiao
- Institute of Bioinformatics, University of Georgia, Athens, Georgia, USA
| | - Marjorie L Brooks
- School of Biological Sciences, Southern Illinois University Carbondale, Carbondale, Illinois, USA
| | - Bethany A Rader
- School of Biological Sciences, Southern Illinois University Carbondale, Carbondale, Illinois, USA
| | - Scott D Hamilton-Brehm
- School of Biological Sciences, Southern Illinois University Carbondale, Carbondale, Illinois, USA
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15
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Ou W, Yu G, Zhang Y, Mai K. Recent progress in the understanding of the gut microbiota of marine fishes. MARINE LIFE SCIENCE & TECHNOLOGY 2021; 3:434-448. [PMID: 37073265 PMCID: PMC10077274 DOI: 10.1007/s42995-021-00094-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2020] [Accepted: 01/12/2021] [Indexed: 05/03/2023]
Abstract
As the significance of the gut microbiota has become increasingly realized, a large number of related studies have emerged. With respect to the gut microbial composition of fish, the predominant gut microbes and core gut microbiota have been reported by many researchers. Our understanding of fish gut microbiota, especially its functional roles, has fallen far behind that of terrestrial vertebrates, although previous studies using gnotobiotic zebrafish models have revealed that the gut microbiota performs a significant role in gut development, nutrient metabolism and immune responses. Given that environmental factors of marine habitats are very different from those of freshwater habitats, a distinct difference may exist in the gut microbiota between freshwater and marine fish. Therefore, this review aims to address the advances in marine fish gut microbiota in terms of methodologies, the gut microbial composition, and gnotobiotic models of marine fish, the important factors (host genotype and three environmental factors: temperature, salinity and diet) that drive marine fish gut microbiota, and significant roles of the gut microbiota in marine fish.
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Affiliation(s)
- Weihao Ou
- The Key Laboratory of Aquaculture Nutrition and Feed (Ministry of Agriculture) and the Key Laboratory of Mariculture (Ministry of Education), Ocean University of China, Qingdao, 266003 China
| | - Guijuan Yu
- The Key Laboratory of Aquaculture Nutrition and Feed (Ministry of Agriculture) and the Key Laboratory of Mariculture (Ministry of Education), Ocean University of China, Qingdao, 266003 China
| | - Yanjiao Zhang
- The Key Laboratory of Aquaculture Nutrition and Feed (Ministry of Agriculture) and the Key Laboratory of Mariculture (Ministry of Education), Ocean University of China, Qingdao, 266003 China
- Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237 China
| | - Kangsen Mai
- The Key Laboratory of Aquaculture Nutrition and Feed (Ministry of Agriculture) and the Key Laboratory of Mariculture (Ministry of Education), Ocean University of China, Qingdao, 266003 China
- Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237 China
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16
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El-Saadony MT, Alagawany M, Patra AK, Kar I, Tiwari R, Dawood MAO, Dhama K, Abdel-Latif HMR. The functionality of probiotics in aquaculture: An overview. FISH & SHELLFISH IMMUNOLOGY 2021; 117:36-52. [PMID: 34274422 DOI: 10.1016/j.fsi.2021.07.007] [Citation(s) in RCA: 131] [Impact Index Per Article: 43.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2021] [Revised: 06/10/2021] [Accepted: 07/14/2021] [Indexed: 05/20/2023]
Abstract
Probiotics are live beneficial bacteria introduced into the gastrointestinal tract through food or water, promoting good health by enhancing the internal microbial balance. Probiotic microbes produce bacteriocins, siderophores, lysozymes, proteases, and hydrogen peroxides, inhibiting the growth of harmful pathogens. Such beneficial bacteria also produce many enzymes such as amylase enzyme by Aeromonas spp., Bacillus subtilis, Bacteridaceae, Clostridium spp., Lactobacillus plantarum, and Staphylococcus sp., and protease and cellulase enzymes by B. subtilis, L. plantarum, and Staphylococcus sp. In aquaculture, probiotics confer several benefits and play important roles in improving growth performances, disease resistance, immunity, health status, intestinal epithelial barrier integrity, gut microbiome, and water quality. In addition, the practical application of probiotics in aquaculture diets could minimize antibiotic side effects. Promoting these feed additives for fish would help to improve their productive performance and feed utilization and, therefore, boost fish production and safeguard human health. This review provides updated information regarding definitions, sources of bacterial probiotics, probiotic use in fish diets against pathogenic bacteria, mechanisms of action, beneficial aspects, and potential applications of probiotics in fish. It is anticipated that these will be of significant value for nutritionists, agricultural engineers, researchers, pharmacists, scientists, pharmaceutical industries, and veterinarians.
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Affiliation(s)
- Mohamed T El-Saadony
- Department of Agricultural Microbiology, Faculty of Agriculture, Zagazig University, Zagazig, 44511, Egypt
| | - Mahmoud Alagawany
- Poultry Department, Faculty of Agriculture, Zagazig University, Zagazig, 44511, Egypt.
| | - Amlan K Patra
- Department of Animal Nutrition, West Bengal University of Animal and Fishery Sciences, Kolkata, 700037, West Bengal, India
| | - Indrajit Kar
- Department of Avian Sciences, West Bengal University of Animal and Fishery Sciences, Kolkata, 700037, West Bengal, India
| | - Ruchi Tiwari
- Department of Veterinary Microbiology and Immunology, College of Veterinary Sciences, Deen Dayal Upadhayay Pashu Chikitsa Vigyan Vishwavidyalay Evum Go-Anusandhan Sansthan (DUVASU), Mathura, 281001, India
| | - Mahmoud A O Dawood
- Department of Animal Production, Faculty of Agriculture, Kafrelsheikh University, 33516, Kafrelsheikh, Egypt
| | - Kuldeep Dhama
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, 243 122, Uttar Pradesh, India
| | - Hany M R Abdel-Latif
- Department of Poultry and Fish Diseases, Faculty of Veterinary Medicine, Alexandria University, Alexandria, 22758, Egypt
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17
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Patil PK, Vinay TN, Ghate SD, Baskaran V, Avunje S. 16 S rRNA gene diversity and gut microbial composition of the Indian white shrimp (Penaeus indicus). Antonie van Leeuwenhoek 2021; 114:2019-2031. [PMID: 34536184 DOI: 10.1007/s10482-021-01658-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2021] [Accepted: 09/09/2021] [Indexed: 01/15/2023]
Abstract
The endemic Indian white shrimp (Penaeus indicus) is an economically important crustacean species, distributed in the Indo-West Pacific region. Knowledge of its gut microbial composition helps in dietary interventions to ensure improved health and production. Here we analyzed V3-V4 hypervariable regions of the 16 S rRNA gene to examine intestinal microbiota in wild and domesticated farmed P. indicus. The study revealed that Proteobacteria, Fusobacteria, Tenericutes, and Bacteroidetes, were the dominant phyla in both the groups although there were differences in relative abundance. The dominant genera in case of the wild group were Photobacterium (29.5 %) followed by Propionigenium (13.9 %), Hypnocyclicus (13.7 %) and Vibrio (11.1 %); while Vibrio (46.5 %), Catenococcus (14 %), Propionigenium (10.3 %) and Photobacterium (8.7 %) were dominant in the farmed group. The results of the study suggest the role of environment on the relative abundance of gut bacteria. This is the first report characterizing gut microbial diversity in P. indicus, which can be used to understand the role of gut microbiota in health, nutrition, reproduction, and growth.
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Affiliation(s)
- Prasanna Kumar Patil
- ICAR-Central Institute of Brackishwater Aquaculture, 75, Santhome High Road, MRC Nagar, Chennai, 600028, India
| | | | - Sudeep Darbhe Ghate
- Nitte University Centre for Science Education and Research (NUCSER), NITTE (Deemed to be University), Mangalore, India
| | - Viswanathan Baskaran
- ICAR-Central Institute of Brackishwater Aquaculture, 75, Santhome High Road, MRC Nagar, Chennai, 600028, India
| | - Satheesha Avunje
- ICAR-Central Institute of Brackishwater Aquaculture, 75, Santhome High Road, MRC Nagar, Chennai, 600028, India
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18
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Wang Q, Cheng C, Agathokleous E, Liu Y, Li X, Sheng X. Enhanced diversity and rock-weathering potential of bacterial communities inhabiting potash trachyte surface beneath mosses and lichens - A case study in Nanjing, China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 785:147357. [PMID: 33957590 DOI: 10.1016/j.scitotenv.2021.147357] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Revised: 04/20/2021] [Accepted: 04/22/2021] [Indexed: 06/12/2023]
Abstract
Mosses and lichens have been shown to play an important role in enhancing global chemical weathering of the surface rock. However, there are no studies concerning the effects of mosses and lichens on the microbial communities inhabiting rock surfaces. In this study, culture-dependent and culture-independent analyses were employed to compare the diversity, composition, and rock-weathering activity of bacterial communities inhabiting potash trachyte surfaces covered by mosses (MR) and lichens (LR) with those inhabiting surrounding bare rock surfaces (BR). Analyses of 16S rRNA gene Miseq sequencing revealed that the order of alpha (α) diversity indices, in terms of the number of unique operational taxonomic units (OTUs) and Faith's index of phylogenetic diversity, was MR > LR > BR. Moreover, α-diveristy indices were positively correlated with the content of available phosphorus (AP) in rock samples (r = 0.87-0.92), and this explained 70% of the variation in bacterial community structure. The culture-dependent analyses revealed that 100% of the culturable bacterial strains could enhance potash trachyte weathering, and the order of rock-weathering acitivity of bacterial strains was MR > LR > BR. Acidolysis was found to be the major mechanism involved in the bacteria-mediated weathering of potash trachyte. Moreover, bacterial strians related to the genera Dyella and Ralstonia showed the highest rock-weatheirng activity, and both Dyella and Ralstonia were enriched in MR. The results of this study enhance our understanding of the roles of bacteria facilitated by mosses and lichens in rock weathering, element cycling, and soil formation, and provide new insights into the interaction between non-vascular plants and the bacteria on rock surfaces.
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Affiliation(s)
- Qi Wang
- Key Laboratory of Agrometeorology of Jiangsu Province, Department of Ecology, School of Applied Meteorology, Nanjing University of Information Science & Technology, Nanjing 210044, PR China.
| | - Cheng Cheng
- Key Laboratory of Agrometeorology of Jiangsu Province, Department of Ecology, School of Applied Meteorology, Nanjing University of Information Science & Technology, Nanjing 210044, PR China
| | - Evgenios Agathokleous
- Key Laboratory of Agrometeorology of Jiangsu Province, Department of Ecology, School of Applied Meteorology, Nanjing University of Information Science & Technology, Nanjing 210044, PR China
| | - Yuanyuan Liu
- Key Laboratory of Agrometeorology of Jiangsu Province, Department of Ecology, School of Applied Meteorology, Nanjing University of Information Science & Technology, Nanjing 210044, PR China
| | - Xuewei Li
- Key Laboratory of Agrometeorology of Jiangsu Province, Department of Ecology, School of Applied Meteorology, Nanjing University of Information Science & Technology, Nanjing 210044, PR China
| | - Xiafang Sheng
- Key Laboratory of Agricultural and Environmental Microbiology, Ministry of Agriculture, College of Life Science, Nanjing Agricultural University, Nanjing 210095, PR China
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19
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Minich JJ, Nowak B, Elizur A, Knight R, Fielder S, Allen EE. Impacts of the Marine Hatchery Built Environment, Water and Feed on Mucosal Microbiome Colonization Across Ontogeny in Yellowtail Kingfish, Seriola lalandi. FRONTIERS IN MARINE SCIENCE 2021; 8:676731. [PMID: 36248701 PMCID: PMC9563383 DOI: 10.3389/fmars.2021.676731] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
The fish gut microbiome is impacted by a number of biological and environmental factors including fish feed formulations. Unlike mammals, vertical microbiome transmission is largely absent in fish and thus little is known about how the gut microbiome is initially colonized during hatchery rearing nor the stability throughout growout stages. Here we investigate how various microbial-rich surfaces from the built environment "BE" and feed influence the development of the mucosal microbiome (gill, skin, and digesta) of an economically important marine fish, yellowtail kingfish, Seriola lalandi, over time. For the first experiment, we sampled gill and skin microbiomes from 36 fish reared in three tank conditions, and demonstrate that the gill is more influenced by the surrounding environment than the skin. In a second experiment, fish mucous (gill, skin, and digesta), the BE (tank side, water, inlet pipe, airstones, and air diffusers) and feed were sampled from indoor reared fish at three ages (43, 137, and 430 dph; n = 12 per age). At 430 dph, 20 additional fish were sampled from an outdoor ocean net pen. A total of 304 samples were processed for 16S rRNA gene sequencing. Gill and skin alpha diversity increased while gut diversity decreased with age. Diversity was much lower in fish from the ocean net pen compared to indoor fish. The gill and skin are most influenced by the BE early in development, with aeration equipment having more impact in later ages, while the gut "allochthonous" microbiome becomes increasingly differentiated from the environment over time. Feed had a relatively low impact on driving microbial communities. Our findings suggest that S. lalandi mucosal microbiomes are differentially influenced by the BE with a high turnover and rapid succession occurring in the gill and skin while the gut microbiome is more stable. We demonstrate how individual components of a hatchery system, especially aeration equipment, may contribute directly to microbiome development in a marine fish. In addition, results demonstrate how early life (larval) exposure to biofouling in the rearing environment may influence fish microbiome development which is important for animal health and aquaculture production.
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Affiliation(s)
- Jeremiah J. Minich
- Marine Biology Research Division, Scripps Institution of Oceanography, University of California, San Diego, La Jolla, CA, United States
| | - Barbara Nowak
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, TAS, Australia
| | - Abigail Elizur
- Genecology Research Centre, School of Science and Engineering, University of the Sunshine Coast, Sippy Downs, QLD, Australia
| | - Rob Knight
- Department of Pediatrics, School of Medicine, University of California, San Diego, La Jolla, CA, United States
- Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA, United States
- Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States
- Center for Microbiome Innovation, University of California, San Diego, La Jolla, CA, United States
| | - Stewart Fielder
- New South Wales Department of Primary Industries, Port Stephens Fisheries Institute, Nelson Bay, NSW, Australia
| | - Eric E. Allen
- Marine Biology Research Division, Scripps Institution of Oceanography, University of California, San Diego, La Jolla, CA, United States
- Center for Microbiome Innovation, University of California, San Diego, La Jolla, CA, United States
- Division of Biological Sciences, University of California, San Diego, La Jolla, CA, United States
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20
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Sulewski P. Recognizing distributions using method of potential functions. COMMUN STAT-SIMUL C 2021. [DOI: 10.1080/03610918.2021.1908561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Piotr Sulewski
- Department of Informatics, Institute of Exact and Technical Sciences, The Pomeranian University, Słupsk, Poland
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21
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Tarnecki AM, Levi NJ, Resley M, Main K. Effect of copper sulfate on the external microbiota of adult common snook (Centropomus undecimalis). Anim Microbiome 2021; 3:21. [PMID: 33653402 PMCID: PMC7923503 DOI: 10.1186/s42523-021-00085-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2020] [Accepted: 02/18/2021] [Indexed: 02/01/2023] Open
Abstract
BACKGROUND The environment exerts a strong influence on the fish external microbiota, with lower diversity and increased abundances of opportunistic bacterial groups characterizing cultured fish compared to their wild counterparts. Deviation from a healthy external microbiota structure has been associated with increased susceptibility to bacterial pathogens. Treatment of wild-caught broodstock with copper sulfate for the removal of external parasites is a common aquaculture practice. Despite the microbiota's importance to fish health, the effects of copper sulfate on mucosal bacterial communities and their ability to recover following this chemical treatment have not been examined. The skin microbiota of adult common snook was characterized from wild individuals (Wild), and wild-caught fish maintained in recirculating aquaculture systems (RAS) immediately following a month-long copper sulfate treatment (Captive-1), and then two-weeks (Captive-2) and 2 years (Captive-3) after cessation of copper treatment. RESULTS The skin microbiota of wild fish were characterized by high diversity and taxa including Synechocococcus, SAR11, and a member of the Roseobacter clade. Bacterial diversity decreased in Captive individuals during the 2-year sampling period. Captive fish harbored greater abundances of Firmicutes, which may reflect glycan differences between aquaculture and natural feeds. Bacterial taxa with copper resistance mechanisms and indicative of metal contamination were enriched in Captive-1 and Captive-2 fish. Vibrionaceae were dominant in Captive fish, particularly immediately and 2 weeks following copper treatment. Based on our observations and previous literature, our results suggest putatively beneficial taxa amass over time in captivity. Within 2 years, Captive individuals harbored Bacillus which contains numerous probiotic candidates and the complex carbon degraders of the family Saprospiraceae. Predicted butanoate metabolism exceeded that of Wild fish, and its reported roles in immunity and energy provision suggest a prebiotic effect for fishes. CONCLUSIONS The mucosal microbiota contains bacterial taxa that may act as bioindicators of environmental pollution. Increases in mutualistic groups indicate a return to a beneficial skin microbiota following copper sulfate treatment. Our data also suggests that vastly different taxa, influenced by environmental conditions, can be associated with adult fish without noticeable health impairment, perhaps due to establishment of various mutualists to maintain fish mucosal health.
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Affiliation(s)
- Andrea M Tarnecki
- Marine Immunology Program, Mote Marine Laboratory, 1600 Ken Thompson Parkway, Sarasota, FL, 34236, USA.
| | - Noah J Levi
- Biology Department, Wabash College, 301 West Wabash Avenue, Crawfordsville, IN, 47933, USA.,Current affiliation: Medical Scientist Training Program, University of Miami Miller School of Medicine, 1600 NW 10th Avenue, Miami, FL, 33101, USA
| | - Matthew Resley
- Directorate of Fisheries and Aquaculture, Mote Aquaculture Research Park, 874 WR Mote Way, Sarasota, FL, 34240, USA
| | - Kevan Main
- Directorate of Fisheries and Aquaculture, Mote Aquaculture Research Park, 874 WR Mote Way, Sarasota, FL, 34240, USA
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22
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Fernández-Montero Á, Torrecillas S, Montero D, Acosta F, Prieto-Álamo MJ, Abril N, Jurado J. Proteomic profile and protease activity in the skin mucus of greater amberjack (Seriola dumerili) infected with the ectoparasite Neobenedenia girellae - An immunological approach. FISH & SHELLFISH IMMUNOLOGY 2021; 110:100-115. [PMID: 33444738 DOI: 10.1016/j.fsi.2021.01.001] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Revised: 12/05/2020] [Accepted: 01/04/2021] [Indexed: 06/12/2023]
Abstract
Skin mucus is considered the first barrier against diseases in fish. The skin mucus protein profile of the greater amberjack (Seriola dumerili) and its changes due to experimental infection with Neobenedenia girellae were studied by combining 2-DE-MS/MS and gel-free LC-MS/MS proteomic approaches. The 2-DE results led to the identification of 69 and 55 proteins in noninfected and infected fish, respectively, and revealed that keratins were specifically cleaved in parasitized fish. Therefore, the skin mucus of the infected fish showed a higher protease activity due to, at least in part, an increase of metal-dependent protease and serine-type protease activities. Additionally, through a gel-free LC-MS/MS analysis, 1377 and 1251 different proteins were identified in the skin mucus of healthy and parasitized fish, respectively. The functional analysis of these proteins demonstrated a statistical overrepresentation of ribosomal proteins (a well-known source of antimicrobial peptides) in N. girellae-infected fish. In contrast, the components of membranes and protein transport GO categories were underrepresented after infection. Immune system process-related proteins constituted 2.5% of the total skin mucosal proteins. Among these skin mucosal proteins, 14 and 15 proteins exclusive to non-parasitized and parasitized fish were found, respectively, including specific serine-type proteases and metalloproteases in the parasitized fish. Moreover, the finding of tryptic peptides exclusive to some bacterial genera, obtained by gel-free LC-MS/MS, allowed us to construct a preliminary map of the microbiota living in the mucus of S. dumerili, with Pseudomonas and Paracoccus the most represented genera in both noninfected and infected fish.
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Affiliation(s)
- Álvaro Fernández-Montero
- Grupo de Investigación en Acuicultura (GIA), Instituto Universitario Ecoaqua, Universidad de Las Palmas de Gran Canaria, Crta. Taliarte S/n, 35214, Telde, Las Palmas, Islas Canarias, Spain
| | - Silvia Torrecillas
- Grupo de Investigación en Acuicultura (GIA), Instituto Universitario Ecoaqua, Universidad de Las Palmas de Gran Canaria, Crta. Taliarte S/n, 35214, Telde, Las Palmas, Islas Canarias, Spain
| | - Daniel Montero
- Grupo de Investigación en Acuicultura (GIA), Instituto Universitario Ecoaqua, Universidad de Las Palmas de Gran Canaria, Crta. Taliarte S/n, 35214, Telde, Las Palmas, Islas Canarias, Spain
| | - Felix Acosta
- Grupo de Investigación en Acuicultura (GIA), Instituto Universitario Ecoaqua, Universidad de Las Palmas de Gran Canaria, Crta. Taliarte S/n, 35214, Telde, Las Palmas, Islas Canarias, Spain
| | - María-José Prieto-Álamo
- Departamento de Bioquímica y Biología Molecular, Campus de Excelencia Internacional Agroalimentario CeiA3, Universidad de Córdoba, Campus de Rabanales, Edificio Severo Ochoa, E-14071, Córdoba, Spain
| | - Nieves Abril
- Departamento de Bioquímica y Biología Molecular, Campus de Excelencia Internacional Agroalimentario CeiA3, Universidad de Córdoba, Campus de Rabanales, Edificio Severo Ochoa, E-14071, Córdoba, Spain
| | - Juan Jurado
- Departamento de Bioquímica y Biología Molecular, Campus de Excelencia Internacional Agroalimentario CeiA3, Universidad de Córdoba, Campus de Rabanales, Edificio Severo Ochoa, E-14071, Córdoba, Spain.
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23
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Wei Y, Bu J, Long H, Zhang X, Cai X, Huang A, Ren W, Xie Z. Community Structure of Protease-Producing Bacteria Cultivated From Aquaculture Systems: Potential Impact of a Tropical Environment. Front Microbiol 2021; 12:638129. [PMID: 33613508 PMCID: PMC7889957 DOI: 10.3389/fmicb.2021.638129] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Accepted: 01/05/2021] [Indexed: 12/11/2022] Open
Abstract
Protease-producing bacteria play vital roles in degrading organic matter of aquaculture system, while the knowledge of diversity and bacterial community structure of protease-producing bacteria is limited in this system, especially in the tropical region. Herein, 1,179 cultivable protease-producing bacterial strains that belonged to Actinobacteria, Firmicutes, and Proteobacteria were isolated from tropical aquaculture systems, of which the most abundant genus was Bacillus, followed by Vibrio. The diversity and relative abundance of protease-producing bacteria in sediment were generally higher than those in water. Twenty-one genera from sediment and 16 genera from water were identified, of which Bacillus dominated by Bacillus hwajinpoensis in both and Vibrio dominated by Vibrio owensii in water were the dominant genera. The unique genera in sediment or water accounted for tiny percentage may play important roles in the stability of community structure. Eighty V. owensii isolates were clustered into four clusters (ET-1-ET-4) at 58% of similarity by ERIC-PCR (enterobacterial repetitive intergenic consensus-polymerase chain reaction), which was identified as a novel branch of V. owensii. Additionally, V. owensii strains belonged to ET-3 and ET-4 were detected in most aquaculture ponds without outbreak of epidemics, indicating that these protease-producing bacteria may be used as potential beneficial bacteria for wastewater purification. Environmental variables played important roles in shaping protease-producing bacterial diversity and community structure in aquaculture systems. In sediment, dissolved oxygen (DO), chemical oxygen demand (COD), and salinity as the main factors positively affected the distributions of dominant genus (Vibrio) and unique genera (Planococcus and Psychrobacter), whereas temperature negatively affected that of Bacillus (except B. hwajinpoensis). In water, Alteromonas as unique genus and Photobacterium were negatively affected by NO3 --N and NO2 --N, respectively, whereas pH as the main factor positively affected the distribution of Photobacterium. These findings will lay a foundation for the development of protease-producing bacterial agents for wastewater purification and the construction of an environment-friendly tropical aquaculture model.
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Affiliation(s)
- Yali Wei
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Jun Bu
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
| | - Hao Long
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
| | - Xiang Zhang
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
| | - Xiaoni Cai
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
| | - Aiyou Huang
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
| | - Wei Ren
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
| | - Zhenyu Xie
- State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.,Hainan Provincial Key Laboratory for Tropical Hydrobiology and Biotechnology, Hainan University, Haikou, China.,College of Marine Sciences, Hainan University, Haikou, China
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24
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Brown BRP, Nunez JCB, Rand DM. Characterizing the cirri and gut microbiomes of the intertidal barnacle Semibalanus balanoides. Anim Microbiome 2020; 2:41. [PMID: 33499976 PMCID: PMC7807441 DOI: 10.1186/s42523-020-00058-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Accepted: 10/16/2020] [Indexed: 01/03/2023] Open
Abstract
BACKGROUND Natural populations inhabiting the rocky intertidal experience multiple ecological stressors and provide an opportunity to investigate how environmental differences influence microbiomes over small geographical scales. However, very few microbiome studies focus on animals that inhabit the intertidal. In this study, we investigate the microbiome of the intertidal barnacle Semibalanus balanoides. We first describe the microbiome of two body tissues: the feeding appendages, or cirri, and the gut. Next, we examine whether there are differences between the microbiome of each body tissue of barnacles collected from the thermally extreme microhabitats of the rocky shores' upper and lower tidal zones. RESULTS Overall, the microbiome of S. balanoides consisted of 18 phyla from 408 genera. Our results showed that although cirri and gut microbiomes shared a portion of their amplicon sequence variants (ASVs), the microbiome of each body tissue was distinct. Over 80% of the ASVs found in the cirri were also found in the gut, and 44% of the ASVs found in the gut were also found in the cirri. Notably, the gut microbiome was not a subset of the cirri microbiome. Additionally, we identified that the cirri microbiome was responsive to microhabitat differences. CONCLUSION Results from this study indicate that S. balanoides maintains distinct microbiomes in its cirri and gut tissues, and that the gut microbiome is more stable than the cirri microbiome between the extremes of the intertidal.
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Affiliation(s)
- Bianca R P Brown
- Department of Ecology and Evolutionary Biology, Brown University, 80 Waterman St., Providence, RI, 02912, USA.
- Institute at Brown for Environment and Society, Brown University, 85 Waterman St., Providence, RI, 02912, USA.
| | - Joaquin C B Nunez
- Department of Ecology and Evolutionary Biology, Brown University, 80 Waterman St., Providence, RI, 02912, USA
- Department of Biology, University of Virginia, 485 McCormick Road, Charlottesville, VA, 22904, USA
| | - David M Rand
- Department of Ecology and Evolutionary Biology, Brown University, 80 Waterman St., Providence, RI, 02912, USA.
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25
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Structure and predictive metabolic contribution of intestinal microbiota of Longfin yellowtail (Seriola rivoliana) juveniles in aquaculture systems. Mol Biol Rep 2020; 47:9627-9636. [PMID: 33159677 DOI: 10.1007/s11033-020-05970-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2020] [Accepted: 11/02/2020] [Indexed: 12/11/2022]
Abstract
Seriola rivoliana intestinal microbiota (IM) was characterised under aquaculture conditions through 16S rRNA amplicon sequencing. Specimens of 30 days after hatching (DAH) were maintained in three tanks and fed under the same environmental conditions for characterisation 15 days prior to sampling. Three fish were randomly taken from each tank; total DNA extraction of the gut microbiota was performed to characterise microbial composition and its metabolic prediction. The V3 hypervariable region of the 16S rRNA was amplified and sequenced with Illumina pair-end technology. The prokaryotic components in the S. rivoliana intestine were dominated mainly by the phyla Proteobacteria, Firmicutes, Bacteroidetes, Cyanobacteria and Actinobacteria. No significant differences in beta diversity were detected in the three samples (tanks). However in alpha diversity, they were detected in juveniles of the same cohort within the same group, as exemplified by enrichment of certain bacterial groups, mainly of the Clostridia class, which were specific in each fish within the same tank. The metabolic prediction analyses suggested that S. rivoliana IM contribute to the metabolism of amino acids, carbohydrates, lipids, and immune system. This study provides the first IM characterisation under rearing conditions of S. rivoliana-a species with broad economic potential-and contributes to novel information for potential use of probiotics in future trials.
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26
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Fong JJ, Sung YH, Ding L. Comparative Analysis of the Fecal Microbiota of Wild and Captive Beal's Eyed Turtle ( Sacalia bealei) by 16S rRNA Gene Sequencing. Front Microbiol 2020; 11:570890. [PMID: 33240228 PMCID: PMC7677423 DOI: 10.3389/fmicb.2020.570890] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Accepted: 10/09/2020] [Indexed: 11/13/2022] Open
Abstract
The Beal’s eyed turtle (Sacalia bealei) is threatened with extinction due to hunting for large-scale trade. In Hong Kong, there are some of the world’s remaining wild populations of S. bealei, as well as a breeding colony. This breeding colony is at the core of conservation efforts (captive breeding, reintroduction programs). Therefore, we would like to know how captivity, in particular diet, affects the gut microbiota. Using high-throughput 16S rRNA gene sequencing, we comparatively analyzed the fecal microbiota of wild and captive S. bealei. We found that wild S. bealei have higher alpha diversity than captive S. bealei, but the difference was not significant. Significant differences were found in β-diversity; at the phylum level, wild S. bealei have higher relative abundances of Proteobacteria and captive S. bealei have higher relative abundances of Firmicutes. At the genus level, Cetobacterium and Citrobacter are more abundant in wild S. bealei, while Clostridium spp. are significantly more abundant in captive S. bealei. These results suggest conditions in captivity, with diet being a major factor, influence the gut microbiota of S. bealei. The connection between diet and health has always been considered for captive animals, and in this study we use the gut microbiota as an another tool to assess health.
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Affiliation(s)
| | - Yik-Hei Sung
- Science Unit, Lingnan University, Hong Kong, China
| | - Li Ding
- Ministry of Education Key Laboratory for Ecology of Tropical Islands, College of Life Sciences, Hainan Normal University, Haikou, China
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27
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Levican A, Fisher JC, McLellan SL, Avendaño-Herrera R. Microbial Communities Associated with Farmed Genypterus chilensis: Detection in Water Prior to Bacterial Outbreaks Using Culturing and High-Throughput Sequencing. Animals (Basel) 2020; 10:ani10061055. [PMID: 32570967 PMCID: PMC7341507 DOI: 10.3390/ani10061055] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Revised: 06/15/2020] [Accepted: 06/15/2020] [Indexed: 12/19/2022] Open
Abstract
The red conger eel (Genypterus chilensis, Guichenot) is a native species included in the Chilean Aquaculture Diversification Program due to high commercial demand. In the context of intensified farming, prior reports link two disease outbreaks with emerging pathogens in the Vibrio and Tenacibaculum genera. However, the roles remain unclear for the bacterial community and each specific bacterium is associated with the rearing environment for healthy specimens. The success of red conger eel farming therefore warrants research into the bacterial composition of aquaculture conditions and the antimicrobial susceptibilities thereof. This study used culturing methods and high-throughput sequencing to describe the bacterial community associated with water in which G. chilensis was farmed. With culturing methods, the predominant genera were Vibrio (21.6%), Pseudolteromonas (15.7%), Aliivibrio (13.7%), and Shewanella (7.8%). Only a few bacterial isolates showed amylase, gelatinase, or lipase activity, and almost all showed inhibition zones to commonly-used antibiotics in aquaculture. By contrast, high-throughput sequencing established Paraperlucidibaca, Colwellia, Polaribacter, Saprospiraceae, and Tenacibaculum as the predominant genera, with Vibrio ranking twenty-seventh in abundance. High-throughput sequencing also established a link between previous outbreaks with increased relative abundances of Vibrio and Tenacibaculum. Therefore, monitoring the presence and abundance of these potential pathogens could be useful in providing prophylactic measures to prevent future outbreaks.
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Affiliation(s)
- Arturo Levican
- Tecnología Médica, Facultad de Ciencias, Pontificia Universidad Católica de Valparaíso, Avenida Universidad 330, Valparaíso 2373223, Chile
- Correspondence: or (A.L.); or (R.A.-H.)
| | - Jenny C. Fisher
- Biology Department, Indiana University Northwest, Gary, IN 46408, USA;
| | - Sandra L. McLellan
- School of Freshwater Sciences, University of Wisconsin-Milwaukee, Milwaukee, WI 53204, USA;
| | - Ruben Avendaño-Herrera
- Laboratorio de Patología de Organismos Acuáticos y Biotecnología Acuícola, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Viña del Mar 2571015, Chile
- Interdisciplinary Center for Aquaculture Research (INCAR), Concepción 4030000, Chile
- Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Casablanca 2480000, Chile
- Correspondence: or (A.L.); or (R.A.-H.)
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28
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Ringø E, Van Doan H, Lee SH, Soltani M, Hoseinifar SH, Harikrishnan R, Song SK. Probiotics, lactic acid bacteria and bacilli: interesting supplementation for aquaculture. J Appl Microbiol 2020; 129:116-136. [PMID: 32141152 DOI: 10.1111/jam.14628] [Citation(s) in RCA: 76] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Revised: 02/23/2020] [Accepted: 02/26/2020] [Indexed: 12/12/2022]
Abstract
Probiotics administration in aquafeed is known to increase feed consumption and absorption due to their capacity to release a wide range of digestive enzymes and nutrients which can participate in digestion process and feed utilization, along with the absorption of diet components led to an increase in host's health and well-being. Furthermore, probiotics improve gut maturation, prevention of intestinal disorders, predigestion of antinutrient factors found in the feed ingredients, gut microbiota, disease resistance against pathogens and metabolism. The beneficial immune effects of probiotics are well established in finfish. However, in comparison, similar studies are less abundant in the shellfish. In this review, the discussions will mainly focus on studies reported the last 2 years. In recent studies, native probiotic bacteria were isolated and fed back to their hosts. Although beneficial effects were demonstrated, some studies showed adverse effects when treated with a high concentration. This adverse effect may be due to the imbalance of the gut microbiota caused by the replenished commensal probiotics. Probiotics revealed greatest effect on the shrimp digestive system particularly in the larval and early post-larval stages, and stimulate the production of endogenous enzymes in shrimp and contribute with improved the enzyme activities in the gut, as well as disease resistance.
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Affiliation(s)
- E Ringø
- Norwegian College of Fishery Science, Faculty of Bioscience, Fisheries and Economics, UiT The Arctic University of Norway, Tromsø, Norway
| | - H Van Doan
- Department of Animal and Aquatic Sciences, Faculty of Agriculture, Chiang Mai University, Chiang Mai, Thailand
| | - S H Lee
- School of Life Science, Handong University, Pohang, Republic of Korea
| | - M Soltani
- Centre for Sustainable Aquatic Ecosystems, Harry Butler Institute, Murdoch University, Perth, WA, Australia.,Department of Aquatic Animal Health, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - S H Hoseinifar
- Department of Fisheries, Gorgan University of Agricultural Sciences and Natural Resources, Gorgan, Iran
| | - R Harikrishnan
- Department of Zoology, Pachaiyappa's College for Men, Tamil Nadu, Kanchipuram, India
| | - S K Song
- School of Life Science, Handong University, Pohang, Republic of Korea
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29
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Améndola-Pimenta M, Cerqueda-García D, Zamora-Briseño JA, Couoh-Puga D, Montero-Muñoz J, Árcega-Cabrera F, Ceja-Moreno V, Pérez-Vega JA, García-Maldonado JQ, Del Río-García M, Zapata-Pérez O, Rodríguez-Canul R. Toxicity evaluation and microbiota response of the lined sole Achirus lineatus (Chordata: Achiridae) exposed to the light petroleum water-accommodated fraction (WAF). JOURNAL OF TOXICOLOGY AND ENVIRONMENTAL HEALTH. PART A 2020; 83:313-329. [PMID: 32378477 DOI: 10.1080/15287394.2020.1758861] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/08/2019] [Revised: 04/17/2020] [Accepted: 04/17/2020] [Indexed: 06/11/2023]
Abstract
Exposure to contaminants might directly affect organisms and alter their associated microbiota. The objective of the present study was to determine the impact of the petroleum-water-accommodated fraction (WAF) from a light crude oil (API gravity 35) on a benthic fish species native from the Gulf of Mexico (GoM). Ten adults of Achirus lineatus (Linnaeus, 1758) were exposed to a sublethal WAF/water solution of 50% v/v for 48 hr. Multiple endpoints were measured including tissue damage, presence of polycyclic aromatic hydrocarbons (PAHs) metabolites in bile and gut microbiota analyses. Atrophy and fatty degeneration were observed in livers. Nodules and inflammation were detected in spleen, and structural disintegration and atrophy in the kidney. In gills hyperplasia, aneurysm, and gills lamellar fusion were observed. PAHs metabolites concentrations in bile were significantly higher in exposed organisms. Gut microbiome taxonomic analysis showed significant shifts in bacterial structure and composition following WAF exposure. Data indicate that exposure to WAF produced toxic effects in adults of A. lineatus, as evidenced by histological alterations and dysbiosis, which might represent an impairment to long-term subsistence of exposed aquatic organisms.
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Affiliation(s)
- Mónica Améndola-Pimenta
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Daniel Cerqueda-García
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Jesús A Zamora-Briseño
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Danilú Couoh-Puga
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Jorge Montero-Muñoz
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Flor Árcega-Cabrera
- Unidad de Química Sisal, Facultad de Química, Universidad Nacional Autónoma de México , Sisal Yucatán, México
| | - Víctor Ceja-Moreno
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Juan A Pérez-Vega
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - José Q García-Maldonado
- CONACYT - Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Unidad Mérida , Mérida, México
| | - Marcela Del Río-García
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Omar Zapata-Pérez
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
| | - Rossanna Rodríguez-Canul
- Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV-IPN), Unidad Mérida , Yucatán, México
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Horlick J, Booth MA, Tetu SG. Alternative dietary protein and water temperature influence the skin and gut microbial communities of yellowtail kingfish ( Seriola lalandi). PeerJ 2020; 8:e8705. [PMID: 32219022 PMCID: PMC7085898 DOI: 10.7717/peerj.8705] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2019] [Accepted: 02/06/2020] [Indexed: 01/21/2023] Open
Abstract
Fish skin and gut microbiomes contribute to host health and growth and are often significantly different in aquaculture-reared fish compared to wild fish. Determining how factors associated with aquaculture, including altered diet and abiotic conditions, affect the microbiome will assist with optimizing farming practices and non-invasively assessing fish health. Here, juvenile yellowtail kingfish (Seriola lalandi) housed at optimal (22 °C) and non-optimal (26 °C) water temperature were fed a fishmeal control diet or the same diet substituted with 30% soy-protein concentrate (SPC) in order to investigate impacts on host health and the microbial community composition of the skin mucosa, gut mucosa and digesta. Each of these sites was observed to have a distinct microbiome composition. The combination of SPC and housing at 26 °C significantly reduced weight gain in yellowtail kingfish and affected immune parameters. The overall microbial composition and relative abundance of specific operational taxonomic units (OTUs) was also significantly altered by inclusion of SPC at 26 °C, with a notable increase in an OTU identified as Photobacterium in the skin mucosa and digesta. Increased relative abundance of Photobacterium sp. was significantly correlated with reduced levels of digesta myeloperoxidase in yellowtail kingfish; a recognized innate immunity defense mechanism. The changes in the microbial communities of yellowtail kingfish fed a diet containing 30% SPC at 26 °C highlights the importance of considering the interactive effects of diet and environmental factors on microbiome health in farmed yellowtail kingfish.
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Affiliation(s)
- Jack Horlick
- Department of Molecular Science, Faculty of Science and Engineering, Macquarie University, Sydney, NSW, Australia
| | - Mark A Booth
- NSW Department of Primary Industries, Port Stephens Fisheries Institute, Nelson Bay, NSW, Australia
| | - Sasha G Tetu
- Department of Molecular Science, Faculty of Science and Engineering, Macquarie University, Sydney, NSW, Australia
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Klemetsen T, Willassen NP, Karlsen CR. Full-length 16S rRNA gene classification of Atlantic salmon bacteria and effects of using different 16S variable regions on community structure analysis. Microbiologyopen 2019; 8:e898. [PMID: 31271529 PMCID: PMC6813439 DOI: 10.1002/mbo3.898] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2019] [Revised: 06/07/2019] [Accepted: 06/10/2019] [Indexed: 12/12/2022] Open
Abstract
Understanding fish-microbial relationships may be of great value for fish producers as fish growth, development and welfare are influenced by the microbial community associated with the rearing systems and fish surfaces. Accurate methods to generate and analyze these microbial communities would be an important tool to help improve understanding of microbial effects in the industry. In this study, we performed taxonomic classification and determination of operational taxonomic units on Atlantic salmon microbiota by taking advantage of full-length 16S rRNA gene sequences. Skin mucus was dominated by the genera Flavobacterium and Psychrobacter. Intestinal samples were dominated by the genera Carnobacterium, Aeromonas, Mycoplasma and by sequences assigned to the order Clostridiales. Applying Sanger sequencing on the full-length bacterial 16S rRNA gene from the pool of 46 isolates obtained in this study showed a clear assignment of the PacBio full-length bacterial 16S rRNA gene sequences down to the genus level. One of the bottlenecks in comparing microbial profiles is that different studies use different 16S rRNA gene regions. Comparisons of sequence assignments between full-length and in silico derived variable 16S rRNA gene regions showed different microbial profiles with variable effects between phylogenetic groups and taxonomic ranks.
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Affiliation(s)
- Terje Klemetsen
- Department of Chemistry, Center for Bioinformatics, UiT The Arctic University of Norway, Tromsø, Norway
| | - Nils Peder Willassen
- Department of Chemistry, Center for Bioinformatics, UiT The Arctic University of Norway, Tromsø, Norway
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Villasante A, Ramírez C, Rodríguez H, Catalán N, Díaz O, Rojas R, Opazo R, Romero J. In-depth analysis of swim bladder-associated microbiota in rainbow trout (Oncorhynchus mykiss). Sci Rep 2019; 9:8974. [PMID: 31221992 PMCID: PMC6586864 DOI: 10.1038/s41598-019-45451-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2018] [Accepted: 05/23/2019] [Indexed: 12/22/2022] Open
Abstract
Our knowledge regarding microbiota associated with the swim bladder of physostomous, fish with the swim bladder connected to the esophagus via the pneumatic duct, remains largely unknown. The goal of this study was to conduct the first in-depth characterization of the swim bladder-associated microbiota using high-throughput sequencing of the V4 region of the 16 S rRNA gene in rainbow trout (Oncorhynchus mykiss). We observed major differences in bacterial communities composition between swim bladder-associated microbiota and distal intestine digesta microbiota in fish. Whilst bacteria genera, such as Cohnella, Lactococcus and Mycoplasma were more abundant in swim bladder-associated microbiota, Citrobacter, Rhodobacter and Clavibacter were more abundant in distal intestine digesta microbiota. The presumptive metabolic function analysis (PICRUSt) revealed several metabolic pathways to be more abundant in the swim bladder-associated microbiota, including metabolism of carbohydrates, nucleotides and lipoic acid as well as oxidative phosphorylation, cell growth, translation, replication and repair. Distal intestine digesta microbiota showed greater abundance of nitrogen metabolism, amino acid metabolism, biosynthesis of unsaturated fatty acids and bacterial secretion system. We demonstrated swim bladder harbors a unique microbiota, which composition and metabolic function differ from microbiota associated with the gut in fish.
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Affiliation(s)
- Alejandro Villasante
- Laboratorio de Biotecnología de Alimentos, Unidad de Alimentos, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, Chile
| | - Carolina Ramírez
- Laboratorio de Biotecnología de Alimentos, Unidad de Alimentos, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, Chile
| | - Héctor Rodríguez
- Facultad de Medicina, Universidad de Chile, Programa de Anatomía y Biología del Desarrollo, Santiago, Chile
| | - Natalia Catalán
- Laboratorio de Biotecnología de Alimentos, Unidad de Alimentos, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, Chile
| | - Osmán Díaz
- Laboratorio de Biotecnología de Alimentos, Unidad de Alimentos, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, Chile
| | - Rodrigo Rojas
- Laboratorio de Patobiología Acuática, Departamento de Acuicultura, Facultad de Ciencias del Mar, Universidad Católica del Norte, Coquimbo, Chile
| | - Rafael Opazo
- Laboratorio de Biotecnología de Alimentos, Unidad de Alimentos, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, Chile
| | - Jaime Romero
- Laboratorio de Biotecnología de Alimentos, Unidad de Alimentos, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, Chile.
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Effect of Dietary Carbohydrate-to-Protein Ratio on Gut Microbiota in Atlantic Salmon ( Salmo salar). Animals (Basel) 2019; 9:ani9030089. [PMID: 30862122 PMCID: PMC6466077 DOI: 10.3390/ani9030089] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Revised: 03/04/2019] [Accepted: 03/06/2019] [Indexed: 12/12/2022] Open
Abstract
Simple Summary Carbohydrates, in the form of energy reserve polysaccharides, are major food components that supply low-cost energy in farm animal feed formulation. Most of these compounds are obtained from plant ingredients (i.e., cereal grains). As the aquaculture industry moves towards formulating marine-derived ingredients free diets, the inclusion of plant ingredients is expected to continuously increase, and thus the amount of carbohydrates in aquafeed formulation will increase as well. Carnivorous fish, including salmonids, show a slow blood glucose clearance rate and suboptimal growth performance when fed rich carbohydrate meals. The role of gut microbial communities on carbohydrate utilization has been poorly explored in salmonids. Hence, we conducted an experiment to evaluate the effect of feeding a high carbohydrate diet to Atlantic salmon (Salmo salar) on gut microbiota composition. Our results suggest increasing the level of digestible carbohydrate mostly affects low-abundance bacteria in favor of those capable of using carbohydrates as a major energy-yielding substrate. Further study for a better understanding of the role of gut microbiota in carbohydrate utilization in carnivorous fish is required. Abstract Atlantic salmon (Salmo salar) is a carnivorous fish species whose productive performance tends to be suboptimal when fed low-cost carbohydrate rich meals. It is of interest to study the dynamics of gut microbiota communities in salmonids fed high carbohydrate diets since gut microbes are referred to as key players that influence the metabolism and physiology of the host. A study was conducted to determine the effect of feeding a high carbohydrate diet to Atlantic salmon in gut microbiota communities. A medium carbohydrate (15% wheat starch)/medium protein (MC/MP) diet or a high carbohydrate (30% wheat starch)/low protein (HC/LP) diet was fed to triplicate tanks (28 fish each) during four weeks. We conducted an in-depth characterization of the distal intestine digesta microbiota using high-throughput sequencing of the V4 region of the 16S rRNA gene. Firmicutes, Actinobacteria and Proteobacteria were the major phyla determined in either experimental group. Phylum Planctomycetes, class Planctomycetia, order Planctomycetales and genus Lactococcus were significantly more abundant in fish fed the HC/LP diet compared with fish fed the MC/MP diet. Our study suggests feeding a carbohydrate rich meal to salmon exerts a low impact on the structure of gut microbial communities, affecting mostly low-abundance bacteria capable of metabolizing anaerobically carbohydrates as a major energy-yielding substrate.
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Wilkes Walburn J, Wemheuer B, Thomas T, Copeland E, O'Connor W, Booth M, Fielder S, Egan S. Diet and diet-associated bacteria shape early microbiome development in Yellowtail Kingfish (Seriola lalandi). Microb Biotechnol 2018; 12:275-288. [PMID: 30506824 PMCID: PMC6389859 DOI: 10.1111/1751-7915.13323] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2018] [Revised: 09/07/2018] [Accepted: 09/12/2018] [Indexed: 11/29/2022] Open
Abstract
The supply of quality juveniles via land-based larviculture represents a major bottleneck to the growing finfish aquaculture industry. As the microbiome plays a key role in animal health, this study aimed to assess the microbial community associated with early larval development of commercially raised Yellowtail Kingfish (Seriola lalandi). We used qPCR and 16S rRNA gene amplicon sequencing to monitor changes in the microbiome associated with the development of S. lalandi from larvae to juveniles. We observed an increase in the bacterial load during larval development, which consisted of a small but abundant core microbiota including taxa belonging to the families Rhodobacteraceae, Lactobacillaceae and Vibrionaceae. The greatest change in the microbiome occurred as larvae moved from a diet of live feeds to formulated pellets, characterized by a transition from Proteobacteria to Firmicutes as the dominant phylum. A prediction of bacterial gene functions found lipid metabolism and secondary metabolite production were abundant in the early larval stages, with carbohydrate and thiamine metabolism functions increasing in abundance as the larvae age and are fed formulated diets. Together, these results suggest that diet is a major contributor to the early microbiome development of commercially raised S. lalandi.
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Affiliation(s)
- Jackson Wilkes Walburn
- Centre for Marine Bio-Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Bernd Wemheuer
- Centre for Marine Bio-Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Torsten Thomas
- Centre for Marine Bio-Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Elizabeth Copeland
- Centre for Marine Bio-Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Wayne O'Connor
- NSW Department of Primary Industries, Port Stephens Fisheries Institute (PSFI), Taylors Beach, NSW, Australia
| | - Mark Booth
- NSW Department of Primary Industries, Port Stephens Fisheries Institute (PSFI), Taylors Beach, NSW, Australia
| | - Stewart Fielder
- NSW Department of Primary Industries, Port Stephens Fisheries Institute (PSFI), Taylors Beach, NSW, Australia
| | - Suhelen Egan
- Centre for Marine Bio-Innovation, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
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Legrand TPRA, Catalano SR, Wos-Oxley ML, Stephens F, Landos M, Bansemer MS, Stone DAJ, Qin JG, Oxley APA. The Inner Workings of the Outer Surface: Skin and Gill Microbiota as Indicators of Changing Gut Health in Yellowtail Kingfish. Front Microbiol 2018; 8:2664. [PMID: 29379473 PMCID: PMC5775239 DOI: 10.3389/fmicb.2017.02664] [Citation(s) in RCA: 75] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Accepted: 12/21/2017] [Indexed: 11/13/2022] Open
Abstract
The mucosal surfaces and associated microbiota of fish are an important primary barrier and provide the first line of defense against potential pathogens. An understanding of the skin and gill microbial assemblages and the factors which drive their composition may provide useful insights into the broad dynamics of fish host–microbial relationships, and may reveal underlying changes in health status. This is particularly pertinent to cultivated systems whereby various stressors may led to conditions (like enteritis) which impinge on productivity. As an economically important species, we assessed whether the outer-surface bacterial communities reflect a change in gut health status of cultivated Yellowtail Kingfish (Seriola lalandi). Active bacterial assemblages were surveyed from RNA extracts from swabs of the skin and gills by constructing Illumina 16S rRNA gene amplicon libraries. Proteobacteria and Bacteroidetes were predominant in both the skin and gills, with enrichment of key β-proteobacteria in the gills (Nitrosomonadales and Ferrovales). Fish exhibiting early stage chronic lymphocytic enteritis comprised markedly different global bacterial assemblages compared to those deemed healthy and exhibiting late stages of the disease. This corresponded to an overall loss of diversity and enrichment of Proteobacteria and Actinobacteria, particularly in the gills. In contrast, bacterial assemblages of fish with late stage enteritis were generally similar to those of healthy individuals, though with some distinct taxa. In conclusion, gut health status is an important factor which defines the skin and gill bacterial assemblages of fish and likely reflects changes in immune states and barrier systems during the early onset of conditions like enteritis. This study represents the first to investigate the microbiota of the outer mucosal surfaces of fish in response to underlying chronic gut enteritis, revealing potential biomarkers for assessing fish health in commercial aquaculture systems.
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Affiliation(s)
- Thibault P R A Legrand
- Aquatic Sciences Centre, South Australian Research and Development Institute, West Beach, SA, Australia.,School of Biological Sciences, Flinders University, Adelaide, SA, Australia
| | - Sarah R Catalano
- Aquatic Sciences Centre, South Australian Research and Development Institute, West Beach, SA, Australia
| | - Melissa L Wos-Oxley
- Research Group Microbial Interactions and Processes, Helmholtz Centre for Infection Research, Braunschweig, Germany.,South Australian Museum, Adelaide, SA, Australia
| | | | - Matt Landos
- Future Fisheries Veterinary Service Pty Ltd., East Ballina, NSW, Australia
| | - Matthew S Bansemer
- Aquatic Sciences Centre, South Australian Research and Development Institute, West Beach, SA, Australia
| | - David A J Stone
- Aquatic Sciences Centre, South Australian Research and Development Institute, West Beach, SA, Australia.,School of Biological Sciences, Flinders University, Adelaide, SA, Australia
| | - Jian G Qin
- School of Biological Sciences, Flinders University, Adelaide, SA, Australia
| | - Andrew P A Oxley
- Aquatic Sciences Centre, South Australian Research and Development Institute, West Beach, SA, Australia
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