Effects of an Enterococcus faecium‐based probiotic on growth performance and health of Pirarucu,Arapaima gigas

Intensive fish farming has resulted in an increased concern for disease outbreaks. Probiotic use is one of the strategies being developed to improve fish health and productivity. Measures of probiotic colonization, growth performance, haematological characteristics and parasite load were used to evaluate the effect of diets supplemented with Enterococcus faecium on growth and health of Arapaima gigas juveniles. A completely randomized design with four treatments (diet with E. faecium at 1 × 10⁶ CFU/g and 1 × 10⁸ CFU/g, control diet and diet with the culture medium MRS) and three replicates was used. Ninety‐six Arapaima juveniles were distributed in 12 cages fed with the specified diet for 68 days. Colonization of the intestinal tract by lactic acid bacteria reduced the total number of heterotrophic bacteria in fish fed with probiotics compared to controls. Fish fed a supplemented diet containing 1 × 10⁸ CFU/g presented higher values of weight gain, survival and fish growth uniformity, and lower values of feed conversion ratio. The prevalence of Trichodina sp. could have affected the survival of fish in the control group. Reduction in parasite load and an increase in haematocrit, the number of erythrocytes, thrombocytes, neutrophils and monocytes were also observed in fish fed the diet containing 1 × 10⁸ CFU/g. Enterococcus faecium presented a probiotic effect in A. gigas juveniles and can be recommended for use at a concentration of 1 × 10⁸ CFU/g to modify the gut microbiota, improve growth performance and haematology and reduce parasitic load.     

Effects of florfenicol feeding on diversity and composition of the intestinal microbiota of channel catfish (Ictalurus punctatus)

Intestinal microbiota contributes health of living organisms. Florfenicol is an approved antimicrobial (AM) prescribed for several bacterial fish diseases. The present study investigated the extent to which florfenicol modulates intestinal microbial populations of channel catfish (Ictalurus punctatus). Florfenicol was administered orally to catfish at a standard therapeutic dose (10–15 mg/kg of body weight for 10 days), and the intestinal contents were collected and the 16S rRNA was subjected to Illumina sequencing. Alpha diversity analysis indicated that florfenicol significantly decreased microbiota richness and diversity. Beta diversity reflected a clear separation had occurred between the florfenicol‐fed and control groups. Results indicated a significant increase in the abundance of phylum Proteobacteria (98.97% vs. 79.35% of the population) and decrease in phyla Firmicutes and Bacteroidetes (0.72% and 0.29% vs. 18.04% and 2.53%, respectively) in the florfenicol‐fed fish in comparison with the control fish. At the genus level, unclassified Enterobacteriaceae and Escherichia populations increased in the florfenicol group. In contrast, Plesiomonas, Aeromonas, Lactococcus, Clostridium sensu stricto, Romboutsia, Klebsiella, Turicibacter and Lactobacillus decreased in florfenicol‐fed fish in comparison with the control fish, indicating that intestinal microbiota of catfish was substantially modulated by florfenicol administration. Knowledge of changes in gut microbiota during medicated feed administration is important to improve fish performance and disease management and could enable the development of alternative therapeutic strategies.     

Effect of the UV-C Radiation on Shelf Life of Vacuum-Packed Refrigerated Pirarucu (Arapaima gigas) Fillets

The effect of Ultraviolet radiation type C (UV-C) radiation (0.100 ± 0.010 J/cm²) on shelf life of Arapaima gigas fillets stored at 4 ± 1°C for 18 days was investigated. The samples were analyzed for total aerobic mesophilic bacteria (TAMB) counts; total aerobic psychrotrophic bacteria (TAPB) counts; Enterobacteriaceae; purge loss; pH; lipid oxidation; total volatile bases (TVB-N); ammonia; biogenic amines (BAs); and L*, a*, and b* values. UV-C radiation increased (P < 0.05) the generation time of all bacterial groups evaluated, increasing the shelf life by 2 days. UV-C-treated fillets showed lower (P < 0.05) L* values, purge loss, pH, TVB-N, ammonia, and BAs levels than their control counterparts throughout the storage period. Moreover, UV-C treatment did not result (P > 0.05) in detrimental effects on lipid oxidation or a* and b* values. UV-C at 0.100 J/cm² demonstrated a good potential for use in A. gigas fillets and, therefore, it could be applied at industrial scale.     

Use of Spray-Dried Blood Meal as an Alternative Protein Source in Pirarucu (Arapaima gigas) Diets

We evaluated the effects of various dietary blood meal levels on the growth performance and body composition of pirarucu (Araipama gigas) juveniles. Fish (8.5 ± 0.4 g) were stocked into 24 tanks and fed for 60 days with eight isoproteic diets, having 0% to 21% incorporation of blood meal. Fish increased weight by six to 15 times from their initial weight. The highest body weights (117–135 g), growth rates (4%–5% BW/day), and protein retentions (19%–20%) were observed in fish fed 0% to 6% blood meal. Feed intake increased from 2.9% to 4.4% BW/day with increasing blood meal level. Feed conversion ratio (FCR: 1.0–1.1) did not vary among groups fed 0% to 6% blood meal (P < 0.001). However, when fish were fed more than 6% blood meal, FCR (1.3–1.7) and protein retention (11.1–13.7) deteriorated sharply. Lipid (7.7–11.7%) and energy (18.7–21.2 kJ/g) content increased with increasing blood meal levels up to 9%.     

Dietary probiotic Pediococcus acidilactici MA18/5M modulates the intestinal microbiota and stimulates intestinal immunity in rainbow trout (Oncorhynchus mykiss)

A study was conducted to evaluate the probiotic effect of Pediococcus acidilactici MA18/5M on rainbow trout, Oncorhynchus mykiss. Fish (310 ± 9 g) were fed a control diet or a P. acidilactici‐supplemented diet (at 2.4 × 10⁶ CFU/g) for 4 weeks. The probiotic was observed to populate the intestine with levels ranging from log 3.7 to 5.4 CFU/g. Furthermore, these populations were able to persist for at least 24 hr after the cessation of probiotic feeding. High‐throughput sequencing analysis of bacterial 16S rRNA libraries demonstrated that P. acidilactici was able to modulate the gut microbiome of rainbow trout and that the probiotic was detected as a common taxon on the mucosa and in the digesta of the probiotic fish (p < .05). Real‐time polymerase chain reaction demonstrated that feeding the probiotic upregulated pro‐inflammatory cytokines, interleukin‐1β, and interleukin‐8 and downregulated anti‐inflammatory interleukin‐10 compared to the control‐fed fish. Furthermore, the mRNA levels for the mucosal antibody immunoglobulin T was also elevated in probiotic‐fed fish. These findings help to explain some of the mechanisms behind the previously reported observed benefits of using this probiotic in the intestinal morphology and immunity of rainbow trout.     

The dynamics of bacterial community in a polyculture aquaculture system of Penaeus chinensis,Rhopilema esculenta and Sinonovacula constricta

Polyculture with Chinese shrimp Penaeus chinensis, jellyfish Rhopilema esculenta and razor clam Sinonovacula constricta (S.J.R) is a common aquaculture system in Dandong, China. Investigation on the composition and function of microbial communities and their relationship with environmental factors in aquaculture systems have crucial implications. Therefore, the sequencing of 16S rRNA gene was applied to profile the bacterial community composition of water and sediment in S.J.R polyculture system in the present study. Proteobacteria was the dominant phylum in S.J.R polyculture ponds following with Actinobacteria and Bacteroidetes in water; in contrast, more diverse phyla were detected in sediments. Water temperature, pH and dissolved oxygen were determined the bacterial community composition in the S.J.R polyculture systems. Specially, Planktomarina, PS1 clade, Candidatus Aquiluna and Fibrobacteres, which can resist the phytoplankton blooms or degrade the cellulose, were more abundant in water at the early stage of cultivation in the S.J.R polyculture system. Moreover, the functions of bacterial communities in water were mainly associated with cell communication mediated, while the functions related to basal metabolism were enriched in sediments. The findings of this study allowed us to better understand the bacterial community in the S.J.R polyculture system and accumulated data for the improvement of cultural management.     

水产生物基因组研究进展与趋势

本文综述了水产生物基因组研究相关技术的发展历程和关键技术的应用。以二代测序技术的出现为分界点,首先回顾了早期水产养殖生物在遗传学和分子生物学方面的研究结果,以及为开展全基因组测序所做的相关基础研究,然后重点介绍了二代测序技术应用于水产生物全基因组测序和经济性状遗传基础解析的研究进展,最后展望了水产生物基因组研究发展趋势。水产生物经济性状遗传机制高度复杂,从全基因组角度阐明其遗传机制仍有很多难题,但基因决定性状是生物学法则之一,探索这一过程的奥秘引人入胜。     

Autochthonous probiotic Lactobacillus sp. in the diet of bullfrog tadpoles Lithobates catesbeianus improves weight gain,feed conversion and gut microbiota

Dietary supplementation with probiotics in animal production is an alternative to antibiotics. In frog culture, studies involving native strains of probiotic bacteria and their effects on the performance and intestinal histology of farmed animals are scarce. Therefore, this study aimed to evaluate a diet supplemented with Lactobacillus sp. in tadpoles of Lithobates catesbeianus. This randomized test was performed with two dietary treatments: non‐supplemented control diet and diet supplemented with Lactobacillus sp., with nine replications. The growth performance of Lactobacillus sp., including its bacterial enzymatic activity and stability in feed, as well as colonization and histology of the intestinal tract, was evaluated after 42 days of experimentation. Animals fed with a supplemented diet showed higher weight gain and concentration of lactic acid bacteria in the gut and lower feed conversion. No significant difference was observed in survival, total heterotrophic bacterial count or histological change in the gut between the two treatments. The Lactobacillus sp. strain was able to colonize the intestinal tract and feed and remain at a high concentration of 10⁷ and 10⁶ CFU g^?1, respectively. It produced several enzymes, which might have contributed to the greater weight gain and lower feed conversion in the supplemented animals, thus demonstrating its probiotic potential for use as a dietary supplement in bullfrog tadpoles.     

Bacterial diversity studied by next‐generation sequencing in a mature phototrophic Navicula sp‐based biofilm promoted into a shrimp culture system

The bacterial diversity of a phototrophic biofilm used as nutrient‐recycler into a shrimp aquaculture system and as direct food‐source for shrimp was studied by next‐generation sequencing, considering the 16S rDNA and metagenomics sequence classification using exact alignments. Biofilm was promoted by the modification of cabon:nitrogen ratio and by the addition of the diatom Navicula sp. as promoter. Results revealed a wide diversity of bacteria thriving into the biofilm; most of the bacteria detected in the biofilm belonged to the Proteobacteria (47%), Chlamydiae/Verrucomicrobia (11%), Bacteriodetes (8%), Planctomycetes (5%) Phylum. Species involved in the decomposition of organic matter, nitrogenous‐ and sulfurous metabolites were detected; moreover, filamentous species known as biomass‐bulking enhancers and producers of adhesin‐like compounds were also detected. Surprising results were also obtained by detecting both, strictly anaerobic and aerobic bacteria involved into the metabolism of nitrogenous compounds. Other species not belonging to the marine environment were also detected, but their role is unclear. Finally, the detection of most of these species may constitute a first case report for a phototrophic biofilm. The results suggest an important role of bacteria in this type of biofilm and a complex microbial‐interaction network.     

饲料中益生菌对凡纳滨对虾生长、肠道菌群及部分免疫指标的影响

以初体质量为(0.11±0.00)g的凡纳滨对虾(Litopenaeus vannamei)为研究对象,在室外水泥池进行10周饲喂实验,研究饲料中添加单一益生菌和复合益生菌对凡纳滨对虾生长、消化酶、肠道和粪便菌群及部分免疫指标的影响.以基础饲料为对照组,在基础饲料中分别添加地衣芽孢杆菌(Bacillus licheniformis)、枯草芽孢杆菌(Bacillus subtilis)、虾乐333(复合益生菌)、地衣芽孢杆菌+枯草芽孢杆菌(1:1)、虾乐333+地衣芽孢杆菌+枯草芽孢杆菌(1:1:1)各1 g/kg,配制5种实验饲料.实验结果显示,复合益生菌饲喂组对虾的特定生长率显著高于对照组(P<0.05),而单一益生菌饲喂组与对照组差异不显著(P<0.05).饲料中添加益生菌能使凡纳滨对虾肠道蛋白酶和淀粉酶活力升高,其中复合益生菌饲喂组淀粉酶活力显著高于对照组(P<0.05).与对照组比,饲料中添加益生菌显著降低了肠道及粪便弧菌数(P<0.05),不同程度提高了凡纳滨对虾血清蛋白浓度、酚氧化酶活力、溶菌酶活力和总抗氧化力,其中添加复合益生菌能使血清蛋白浓度及溶菌酶活力较对照组显著提高(P<0.05).上述结果表明,与饲喂单一益生菌相比,复合益生菌对凡纳滨对虾的生长、免疫力具有更好的促进作用.     

高通量测序分析血根碱对中华鳖肠道菌群结构的影响

为研究血根碱对中华鳖(Trionyx sinensis)肠道菌群多样性及丰度的影响,选取480只初始体重为(31.75±7.20) g的中华鳖,设置添加0的对照组(RS1)和添加50 (RS2)、100 (RS3)和150 mg/kg (RS4)的3个实验组。实验结束后,提取中华鳖中肠组织的总DNA,进行16S rRNA V3-4区基因组测序。结果显示,实验组的总操作分类单元(Operational taxonomic units, OTUs)数量显著高于对照组,肠道菌群复杂度及丰富度较对照组有明显增加。肠道菌群结构组成分析发现,RS1与RS2结构较为接近,而RS1与RS3、RS4较远。在门分类水平上,变形菌门(Proteobacteria)和衣原体门(Chlamydiae)是优势菌群;在属分类水平上,螺杆菌属(Helicobacter)占绝对优势。通过比较发现,实验组中螺杆菌属丰度较对照组显著下降,而不动杆菌属(Acinetobacter)、乳杆菌属(Lactobacillus)和双歧杆菌属(Bifidobacterium)丰度均有明显上升。研究表明,在饲料中添加适量的血根碱(100~150 mg/kg)能有效提高中华鳖肠道菌群多样性及丰富度,并能改善肠道菌群结构。     

Litopenaeus vannamei fed diets with different replacement levels of fish meal by fish silage: A molecular approach on intestinal microbiota

We investigated the intestinal microbiota in shrimp fed diets with five replacement levels (0, 25%, 50%, 75% and 100%) of fish meal by fish silage. An 8‐week feeding trail was conducted in 15 fibreglass tanks (400 L volume, three replications for each diet) with 50 shrimps (initial weight 0.26 ± 0.03 g) per tank. After 8‐week trial, shrimp fed diets with low replacement levels (0% and 25%) of fish meal by fish silage had significantly enhanced growth performance (p < 0.05). Based on the Illumina sequencing of 15 samples, a total of 5,778 OTUs were obtained and the number of OTUs in each sample ranged from 2,346 to 3,491. OTUs were identified into 23 phyla, and Proteobacteria was the most abundant. At family and genus levels, family Vibrionaceae and genus Photobacterium were more abundant in high replacement level groups (50%, 75% and 100%) than those in low replacement level groups (0% and 25%), which may be related to the worse growth performance of high replacement level groups. However, dietary different levels of fish silage did not make significant difference on intestinal bacterial richness, diversity and metabolism functions (p > 0.05), which indicated the limited impact of dietary fish silage on intestinal microbiota.     

Effects of fish meal replaced by fermented soybean meal on growth performance,intestinal histology and microbiota of largemouth bass (Micropterus salmoides)

This study was conducted to investigate the effects of replacing fish meal (FM) with fermented soybean meal (FSM) and soybean meal (SM) on growth performance, intestinal histology and microbiota of largemouth bass (Micropterus salmoides). The basal diet contained 350 g/kg FM (CON), and then, FM was replaced with SM and FSM at the ratios of 30% and 60% (SM‐30, SM‐60, FSM‐30 and FSM‐60), respectively. The largemouth bass (4.43 ± 0.13 g) were fed for 8 weeks. The results showed that weight gain of fish fed with FSM‐60 and SM‐60 diets was significantly lower, and feed conversion ratio of SM‐30, SM‐60 and FSM‐60 groups was significantly higher than the CON group (p < .05). The intestinal villus height of SM‐60 group and the villus width of SM‐60 and FSM‐60 group were significantly lower than the CON group (p < .05). The 30% FM replacement by SM and FSM significantly increased the abundance of Cetobacterium and Mycoplasma, respectively (p < .05). In conclusion, FSM could replace 30% FM in diet without negative impacts on the growth performance of largemouth bass, while the SM should be controlled below 30%.     

玉米蛋白粉对大黄鱼生长、肠道组织结构及肠道菌群的影响

为了探讨玉米蛋白粉替代鱼粉对大黄鱼(Larimichthys crocea)生长、肠道组织结构及肠道微生物菌群的影响,进行了为期8周的生长实验。以初始体重为(10.49±0.03)g的大黄鱼幼鱼为研究对象,用玉米蛋白粉分别替代基础饲料(含40%鱼粉)中0%(FM,对照组)、15%(CGM15)、30%(CGM30)、45%(CGM45)、60%(CGM60)、75%(CGM75)的鱼粉,配制6种等氮(粗蛋白含量45%)等脂(粗脂肪含量10%)的实验饲料。56 d投喂实验结束后,各处理组幼鱼的存活率与特定生长率以及饲料系数等指标均无显差异(P0.05)。从肠道组织学发现,各处理组与对照组(FM)的幼鱼肠道组织结构肠黏膜、皱襞高度、杯状细胞个数均无显著差异性(P0.05),但CGM60组的幼鱼部分肠黏膜上皮细胞被破坏,上皮细胞排列紊乱,纹状缘出现缺刻,肠绒毛部分出现脱落或破损;CGM75组的幼鱼肠道的皱襞高度变短,皱襞密度降低,皱襞个数减少。选取FM、CGM15(生长相对较好)和CGM75(生长相对较差)三组运用Illumina-Mi Seq高通量测序技术分析幼鱼肠道菌群的物种丰富度指数(chao1)、香农指数(Shannon)、辛普森指数(Simpson)和覆盖率(good coverage)均无显著差异(P0.05);基于门水平,FM、CGM15和CGM75组的幼鱼肠道细菌中优势菌群为厚壁菌门(Firmicutes)和变形菌门(Proteobacteria)。而在属水平,类芽孢杆菌属(Paenibacillus)、嗜碱菌属(Alkaliphilus)、芽孢杆菌属(Bacillus)、肠球菌属(Enterococcus)为其优势菌群。分析属水平差异菌属发现,与FM组相比较,CGM15和CGM75组均显著增加了链球菌属(Streptococcus)的物种丰度(P0.05);与FM组相比,CGM15组显著降低了德沃斯氏菌(Devosia)和纤维弧菌属(Cellvibrio)的物种丰度(P0.05);与FM组相比,CGM75组显著增加了葡萄球菌属(Staphylococcus)的物种丰度(P0.05)。综上所述,玉米蛋白粉替代鱼粉达45%时对大黄鱼幼鱼的生长、肠道组织结构及肠道优势菌群均影响不大。     

Use of an acoustic telemetry array for fine scale fish behaviour assessment of captive Paiche,Arapaima gigas,breeders

As Arapaima gigas is one of the most valuable species for the growing production of Amazonian aquaculture, knowledge of its reproductive behaviour and its application to increase reproduction success in captivity is of great importance as no hormonal spawning induction technique exists for this species. An acoustic positioning system (LOTEK Inc.) was used to observe the interactions of adult fish to better understand the formation of mating pairs. Fish were placed in a 4,500 m² aquaculture pond over a 6‐month period in the IIAP field station of Pucallpa, Perú. This paper describes the methodological protocols used to set up and test the hydrophone array and presents the methodology used for the analysis of the huge amount of collected data. This methodology is illustrated by the analysis of a 6‐day period for a mating pair that showed a spawning event. The results indicated that male and female occupied mostly one preferential area in one pond edge where the nesting area is located. Different activity patterns were observed during the spawning event, with male and female being closer during the spawning day. The results also showed that male travelled less distance than female during the studied period. Finally these results demonstrated the suitability of such equipment to monitor fish interactions at fine spatial (sub meter) and temporal (5 s) scales in confined environments like aquaculture ponds.     

A new strain of white spot syndrome virus affecting Litopenaeus vannamei in Indian shrimp farms

White spot syndrome virus (WSSV)‐infected shrimp samples collected from grow‐out ponds located at Nellore, Andhra Pradesh, India, showed WSSV negative and positive by PCR using primer sets specific to ORF119 and VP28 gene of WSSV, respectively. This indicated the deletion of genetic fragments in the genome of WSSV. The WSSV isolate along with lab strain of WSSV was subjected to next‐generation sequencing. The sequence analysis revealed a deletion of 13,170 bp at five positions in the genome of WSSV‐NS (new strain) relative to WSSV‐TH and WSSV‐LS (lab strain). The PCR analysis using the ORF's specific primer sets revealed the complete deletion of 10 ORFs in the genome of WSSV‐NS strain. The primer set was designed based on sequence covering ORF161/162/163 to amplify a product of 2,748 bp for WSSV‐LS and 402 bp for WSSV‐NS. Our surveillance programme carried out since 2002 revealed the replacement of WSSV‐LS by WSSV‐NS in Indian shrimp culture system.     

饲料中添加柠檬黄对鲫肝、肠组织结构、抗氧化指标及肠道菌群的影响

为研究合成食用色素柠檬黄对水生生物的影响,本研究以初始体重为（35.0±1.5）g的鲫为研究对象,探究了不同剂量（0、1.4、5.5和10 mg/kg bwt/day）柠檬黄摄入对鲫肝、肠组织结构,抗氧化性能以及肠道菌群的影响。结果显示 ,与对照组相比,1.4 mg/kg bwt/day柠檬黄的摄入即可导致肠上皮细胞空泡化,肠绒毛变短;5.5 mg/kg bwt/day的摄入量引起肠绒毛断裂,而10 mg/kg bwt/day处理组病理现象更严重;肝脏组织学显示,1.4 mg/kg bwt/day柠檬黄摄入导致肝细胞细胞核萎缩、变形;5.5 mg/kg bwt/day的摄入量引起肝细胞核溶解,细胞空泡化增多;10 mg/kg bwt/day导致细胞界限模糊不清,细胞变形,空泡化加剧,肝血窦不可见,肝小叶结构模糊;1.4 mg/kg bwt/day柠檬黄摄入即可引起血清与肝脏中超氧化物歧化酶（SOD）、过氧化氢酶（CAT）以及谷胱甘肽（GSH-Px）活性下降,丙二醛（MDA）含量升高;肠道内容物测序结果表明,柠檬黄的摄入引起鲫肠道微生物Chao1、Shannon和Simpson等多样性指数变化,一些有益菌（芽孢杆菌和梭状芽胞杆菌）数量明显减少,而一些致病微生物（如蛭弧菌和希瓦氏菌）的数量明显增加。 以上结果表明,柠檬黄的摄入会导致鲫肝、肠组织结构造成损伤,并对其血清抗氧化指标及肠道菌群造成不同程度的影响。本研究结果有助于进一步了解柠檬黄在水生生物体内的毒性机制,为水生态环境污染及水质检测提供科学依据。     

Competition for attachment of aquaculture candidate probiotic and pathogenic bacteria on fish intestinal mucus

Probiotics for aquaculture are generally only selected by their ability to produce antimicrobial metabolites; however, attachment to intestinal mucus is important in order to remain within the gut of its host. Five candidate probiotics (AP1-AP5), isolated from the clownfish, Amphiprion percula (Lacepéde), were examined for their ability to attach to fish intestinal mucus and compete with two pathogens, Aeromonas hydrophila and Vibrio alginolyticus. Two different radioactive isotopes were used to quantify competition between pathogens and probionts. Attachment of the pathogens was enhanced by the presence of the candidate probiotics. However, the addition of the candidate probiotics after the pathogens resulted in reduced pathogen attachment. Only AP5 caused lower attachment success of V. alginolyticus when added before the pathogen. When AP5 was added first, the average attachment change was 41% compared with 72% when added after V. alginolyticus, suggesting that the probiotic is displaced but that enhanced attachment of the pathogen does not occur. Conversely, when V. alginolyticus was added first, followed by AP5, attachment change was 37% while AP5 had 92% attachment change when added second. This implies that the pathogen was displaced by the candidate probiotic and therefore it appeared that, based on the ability of probiont AP5 to attach to mucus, the growth of the pathogen in the digestive tract might be suppressed by the candidate probiont's presence.     

Revealing the compositions of the intestinal microbiota of three Anguillid eel species using 16S rDNA sequencing

Anguilla japonica, A. marmorata and A. bicolor pacifica are important eel species for aquaculture in Taiwan. In the past, seldom studies focused on the intestinal microbiome of them or the probiotics used in their cultivation. Probiotics are microbes that can improve the health of organisms, and the microbes isolated from the intestines of organisms might be the potential probiotics. Therefore, the aim of this study was to collect the intestinal mucus samples of these three eel species for investigating the autochthonous microbiome using 16S rDNA sequencing. The diversity, abundance of the intestinal microbiome and compositions of all the libraries were identified. Moreover, the composition of intestinal microbiome of eel was suggested that it would be affected by the waters and the characteristics of different eel species. Furthermore, most of the identified predominant genera of the intestinal microbiome of these three eel species, such as Cetobacterium, Clostridium, Shewanella, Acinetobacter and Bacteroides, seemed to have great potential as the probiotics. In the future, more studies shall be conducted to promote the practical application of these candidate probiotics for improving the techniques of eel farming.