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Differences in the digestive enzyme activity, intestinal mucosa and microbial community in loach cultivated in two separate environments

BMC Microbiology volume 18, Article number: 113 (2018) Cite this article

Abstract

Background

Fish culture in rice paddies can contribute to increasing yields of rice and surplus fish products. Environmental impacts and food-safety issues have become important topics in aquaculture, and organic foods currently were paid attention by researchers and industry practitioners. But the mechanism of differences in quality of Loach (Paramisgurnus dabryanus) reared in rice fields and ponds remains largely uncharacterized. In this study,digestive enzyme activity, intestinal mucosa cells and the gut microbial community of loach were determined under the two separate cultivation modes.

Results

The levels of intestinal digestive enzyme activity of fish reared in the paddy-cultivated mode (PACM) were higher (P < 0.05) than those in the pond-cultivated mode (POCM). It was extremely significant (P < 0.01) for the activity of lipase in the liver, foregut and midgut, and for the activities of amylase and trypsin in the hindgut. Acid mucous cells in the loach foregut in PACM were fewer than in POCM (P < 0.01). In summer, the abundance of the Firmicutes, Lactobacillus spp., Aeromonas hydrophila, Enterobacteriaceae and Streptococcus spp. in loach intestinal mucosa in PACM was higher than in POCM. In fall, the abundance of total bacteria, the Bacteroidetes, Bifidobacterium and Enterobacteriaceae in the intestinal mucosa in PACM was likewise higher than in POCM. These differences were significant (P < 0.05 or P < 0.01) between loach in the two separate culture modes for all microorganisms except for A. hydrophila and Streptococcus spp. In addition, quantitative PCR assays showed that some microorganisms presented consistently similar abundances in the gut as in the culture water.

Conclusions

These results showed some enzymatic activities involved in digestion in liver and intestine of loach in PACM were higher than those in POCM, as using digestive enzyme analysis and histological observation of intestinal sections. These findings suggest most of the microorganisms examined in the gut mucosa of loach in the two culture modes significantly differed in abundance between summer and fall. However, some pathogenic bacteria in the gut, particularly A. hydrophila, presented lower abundance in PACM in fall, yet did not differ in abundance between loach in the two cultivation modes.

Background

The intestinal tract of vertebrates plays a critical role in absorbing nutrients and protecting the host from pathogens [1, 2]. It is well recognized that the bacterial flora in the fish gut has beneficial effects for the host [3]. The intestinal microbiota form a symbiotic relationship with the host and are crucial for the host in many ways, including balancing the immune response, promoting digestion and mediating host physiology [4]. But the stability of the relationship, particularly in the intestine where some microorganisms help to protect against pathogens, was easily affected by numerous factors, such as water temperature, pH, and the diet and species of the fish [5]. Numerous comparative studies of the microbiota have examined fish from various geographical areas [6], and the composition of the gut microbiota has been examined in wild and reared salmonids, croaker and yellowtail [7]. The absorptive cells and goblet cells are primary types of mucosal epithelial cells [8]. Goblet cells in the gastrointestinal tract can secrete neutral and acid mucopolysaccharides (the former stain red, and the latter stain blue), and thus these cells display various colors ranging between blue and purple-red. For example, the purple-blue cells contain mixed polysaccharides, but the content of acid mucopolysaccharides present more. Goblet cells secrete mucus that provides a mechanical and chemical barrier with an immune function in the intestinal wall [9,10,11]. Together, these contribute to the host’s absorption of nutrients and protect it against pathogens. Thus, increasing evidences indicate that the normal structure and function of the intestinal tract can strengthen intestinal digestion and absorption process [12], and also can enhance the immune system to protect the host from invasion via the external environment.

Fish are a global significant commodity based on their potential to improve food security and human nutrition [13]. The role of aquaculture is not only to ensure supplies of protein but also to provide healthy food sources. Environmental impacts and food-safety issues have become important topics in aquaculture, with organic sources of food receiving attention from both researchers and industry worldwide [14]. However, rapid expansion of intensive aquaculture systems frequently has negative consequences, such as outbreaks of disease among the cultured organisms, the misapplication of drug treatments, and adverse impacts on the environment [15]. Integrated agri-aquaculture systems are using ecological approaches for the production of various crops and animal species [16]. To improve the quality of production while protecting the environment, microecology technology may be used in these aquaculture systems. This mainly involves the use of probiotics in fish feeds or changes of the culture environment to improve the health and gut microbiota of the fish. Fish culture in paddy fields represents a classic integrated aquaculture system, with major and minor components – namely, rice planting combined with fish breeding in the system [17]. Historical practice has proven that culturing fish in paddy fields has many advantages, such as a lower level of investment and increased yields of the rice and aquatic animal product [18].

The objectives of the present study were to: 1) analyze the digestive enzyme activity of lipase, amylase and trypsin in the liver, foregut, midgut and hindgut of loach in the two culture modes, namely paddy-cultivated mode (PACM) and pond-cultivated mode (POCM); 2) observe the histological structure and distribution of intestinal mucous cells (based on Alcian blue– periodic acid-Schiff staining) in loach under the two culture modes; and 3) compare the abundance and dynamic state of certain intestinal microorganisms (that may have a good or bad effect on the host) in loach during different seasons and under the two cultivation modes, using quantitative PCR (Q-PCR) assays. Thus, we designed an experiment to reveal the structure of the intestinal microbiota in loach reared in the two separate environments, and to assess whether rearing loach in paddy fields better than in ponds.

Methods

Fish and sampling

The loach, Paramisgurnus dabryanus, were collected randomly from three paddy fields (N: 29°22′59″, E: 105°11′11″, Longchang County, Neijiang City, Sichuang Province, China) and three ponds (N: 29°22′15″, E: 105°11′2″, Longchang County, Neijiang City, Sichuang Province, China). In this study, the fish were firstly cultivated in two different rearing environments (paddy field and pond modes). They were fed with the same diets from May 5 to November 5 (2015) in three paddy fields and three ponds. The sizes of paddies and ponds were almost 666 m2. They were bred at different stocking densities (a hundred thousand for pond and ten thousand for paddy) and same management. The fish were fed three times per day with same commercial feed at feed rate of 3~ 5% body weight day− 1. The fish were firstly sampled in the summer (August 2015, water temperature 21 °C, fish fries had been farmed for three months) and were secondly sampled in the fall (November 2015, water temperature 20 °C, the weight of loach from paddy fields and the ponds be 46.03 ± 5.08 g and 48.69 ± 5.32 g, respectively). There was only 1 °C of difference in the water temperature between summer and fall, it owing to the water flows in the mountain stream and the specific heat capacity of water is larger. Fish samples were collected for analysis in the August (summer season) and November (fall season) during the feeding trial. The samples, only used for intestinal microbiota analysis were sampled in summer and fall, while the fish were sampled in fall, used for the enzyme activities and morphology. Ten healthy individuals were randomly sampled from each farming pond and each time.

In the study, for the digestive enzymatic activities and intestinal mucous cells analysis experiments, the fish were carried to the laboratory in oxygen filling bags within 3 h. Besides the samples were directly collected in fish farm for gut microbial analysis, and then the samples were also carried to the laboratory in ice within 3 h. The fish were euthanized by overdose of MS-222 (Sigma, Germany) before dissection [19]. The surface of the fish was rinsed with sterile distilled water and 70% ethanol to reduce contamination, before dissection with flamed sterile scissors. The intestine tracts were divided into the foregut, midgut and hindgut. In these studies, foregut was defined as the first section of intestine from esophagus to the distal end of the swelling of the intestine. The narrow middle section was defined as the midgut, and the larger-diameter section following this to just prior to the anus was defined as hindgut. Then they were frozen at − 80 °C for analysis of the digestive enzymatic activities analysis. Segments of 0.5 cm of the foregut, midgut and hindgut were collected from fish and fixed in fresh bouin’s solution at room temperature for intestinal mucous cells analysis by light microscopy (LM). And the intestine tracts were removed aseptically from their abdominal cavity and the content of intestine was squeezed out and separately stored. Thereafter, the mucosa in the epithelial intestinal of the loach was collected by blades, respectively. About 0.3 g samples of content and mucosa were used for bacterial extraction. Meanwhile, the water was also sampled at an approximate depth of 35 cm from five sites in the each paddy or pond, pooled it together and 300 ml water was stored for centrifuging. The pellet was collected after centrifuged at 13000×g for 20 min at 4 °C. All of the mucosa, content and water samples were collected under sterile conditions and stored at − 80 °C for microbiota analysis by Q-PCR.

Intestinal digestive enzymatic activities

Ten healthy individuals were randomly sampled from paddy fields and ponds, respectively. The number of individuals is 20 in this experiment. Intestine samples were washed with cold deionized water to remove most of the mucus, and the intestine was ground to pulp with cold sodium phosphate buffer (0.1 M, pH 7.0, 4 °C) by ratio of 1:9 (m/v). Then, the homogenate was centrifuged (3-18 K, Sigma®, Germany) at 4 °C at 3000×g for 10 min. The supernatant containing enzymes was stored at − 80 °C prior to the analysis. The lipase, amylase, trypsin and total protein were detected using assay Kits (Lipase assay kit, Amylase assay kit, Trypsin assay kit and Total protein quantitative assay kit) purchased from Nanjing Jiancheng, Bioengineering Institute, China. The specific procedures were reference kit’s instructions, and the protein concentration was used to normalize the enzymatic activity.

Intestinal histological observation

Ten healthy individuals were randomly sampled from paddy fields and ponds, respectively. The total number of individuals is 20 in this experiment. Fixed samples were wrapped in gauze and rinsed in running water for 12 h, dehydrated in graded ethanol solution and embedded. Sections were cut at 6 μm serially using a rotary microtome. The sections were stained with alcian blue and periodic acid schiff (AB-PAS) and photo-documented using a low power light invert microscope (Nikon, Japan), measured with Photoshop CS4. In different histological sections, the numbers of mucous cells in multiple micrographs from each intestinal region of ten fish in each group were measured, and twelve micrographs from the foregut, midgut and hindgut of intestinal samples were chosen.

Q-PCR quantification of microbiota

Ten healthy individuals were randomly sampled from two seasons and two modes (summer and fall; paddy fields and ponds), respectively. The total number of individuals is 40 in this experiment. Firstly, the total bacterial DNA of the samples was extracted using TIANamp Bacteria DNA Kit (TIANGEN, China). Then, in order to estimate the abundance of beneficial bacteria and harmful bacterica in loach gut, a gold method and citation was referenced [21]. Basing on the method discribed by Sun H. (2016), some instructive detection method and guidances were used to check the biomass, such as Q-PCR. The part primers for Q-PCR of microbiota were also listed in Table 1, including references. The reaction system components and reaction procedures are summarized in Table 2.

Table 1 Primer information and standard curves of microflora for Q-PCR
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Table 2 The reaction system components and procedures of Q-PCR
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The triplicate tenfold serial dilutions of the plasmid DNA were used to built the standard curves. Based on the standard curves, copy numbers of the target bacterial phylum or genus in samples were calculated. The method described by Sun H. et al. (2016) [21] was performed to built the standard curves of quantification of microbial by quantitative PCR. The limit of detection of Q-PCR was 5 × 101.

Statistical analysis

The raw data were firstly imputed into Excel to setup database because the two data types could transform between Excel and SPSS software. Statistical analysis was performed using a one-way ANOVA in SPSS 19.0 software (SPSS Inc., Chicago, Illinois, USA). Data were presented as mean ± SD (standard deviation). The difference was evaluated by one-way ANOVA and at level of P < 0.05 or P < 0.01 for significance.

Results

Digestive enzyme activities

Enzymatic activity in the loach intestine in autumn is summarized in Table 3. The levels of digestive enzyme activity were significantly higher (P < 0.01) in the liver and foregut than in the midgut and hindgut for fish in both culture modes. In PACM, the activities of lipase and amylase were highest in foregut and lowest in hindgut; the activity of trypsin was highest in liver and lowest in hindgut. In POCM, the activities of lipase, amylase and trypsin presented a similar trend in the different tissues, with the activities of these three digestive enzymes always highest in liver and foregut and lowest in the hindgut. The activity of lipase in liver, foregut and midgut was significantly higher in PACM than in POCM (P < 0.01); in contrast, the activities of amylase and trypsin were lower in just the liver and foregut but higher in the hindgut in PACM as compared with POCM (P < 0.01).

Table 3 The digestive enzyme activities of loach in different culture modes
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Intestinal mucous cells

A summary of the light-microscope observations of the intestinal-tissue structures are presented in Table 4. In general, the numbers of mucous cells gradually decreased from the foregut to hindgut in the intestine of loach not only in PACM but also in POCM (P < 0.01). In PACM, the numbers of acid mucous cells in the foregut, midgut and hindgut were significantly higher than the numbers of purple-blue cells (P < 0.01). The numbers of acid mucous cells showed a similar increasing trend from foregut to hindgut in POCM (P < 0.01). The numbers of mucous cells mostly presented significant differences (P < 0.01) among same the intestinal segments of loach in PACM as compared with in POCM, including the acid mucus cells and purple-blue cells. However, the difference was not significant between the two cultivation modes in spite of higher numbers of acid mucous cells in the hindgut in PACM. In addition, the size of the mucous cells tended to be bigger in the midgut than in the foregut (Fig. 1).

Table 4 The number of the mucous cells in different culture modes
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Fig. 1
figure 1

AB-PAS staining inverted microscopy micrographs (different parts of intestinal samples arbitrarily chosen as examples, 1-6: 100×; 7-12: 400×). 1, 2, 3, 7, 8 and 9 is the samples from paddy fields, and 4, 5, 6, 10, 11 and 12 is the samples from ponds. 1, 4, 7, 10: foregut; 2, 5, 8, 11: midgut; 3, 6, 9, 12: hindgut. L represent the acid mucous cells, M represent the partial acid mucous cells

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Q-PCR evaluations of the microbiota

In PACM, the loach displayed a greater abundance of total bacteria, the Firmicutes, Bacteroidetes, Bifidobacterium, Enterococcus spp., Lactobacillus spp., Streptococcus spp., Enterobacteriaceae and Aeromonas hydrophila in the intestinal contents and mucosa than found in the rearing water in the summer samples as compared with the autumn samples, except the difference was not significant for Lactobacillus spp. (Table 5). Considerable variation in the fish mucosa was detected in different seasons, including different abundances of total bacteria, the Bacteroidetes and Bifidobacterium. In summer, the abundances of total bacteria, the Firmicutes, the Bacteroidetes, Bifidobacterium, and some pathogenic bacteria (A. hydrophila) were remarkably higher in the mucosa than in the water, and the difference was significant (P < 0.01) for the Firmicutes, Enterococcus spp., A. hydrophila and Streptococcus spp. Moreover, substantial amplification difference was observed in the summer contents, such as the abundance of total bacteria, the Bacteroidetes, Enterococcus spp., Lactobacillus spp. and Enterobacteriaceae. The abundance of Enterococcus spp. also differed remarkably between seasons (P < 0.05). In contrast, the abundances of most bacteria presented a reverse trend in the fall, becoming greater in the culture water than in the intestinal contents and mucosa (P < 0.05 or P < 0.01). Interestingly, the abundances of all the bacterial groups, except for Bifidobacterium and Lactobacillus spp., were significantly higher in the culture water than in the fish gut (P < 0.01) (Fig. 2).

Table 5 Log10 DNA gene copies of bacteria in different tissues (PACM)
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Fig. 2
figure 2

Effects of different seasons on functional bacteria (paddy cultivation modes). Note: a–i represent Log10 DNA gene copies of total bacteria, Firmicutes, Bacteroidetes, Bifidobacterium, Enterococcus spp., Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp. in the mucosa, content and water, respectively. Log10 DNA gene copies quantification data were normalized to the standard curve lines and presented with the means ± standard deviation (n = 20). * indicate P < 0.05, ** indicate P < 0.01

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In POCM, the abundances of the Firmicutes in the intestinal contents and mucosa, and Streptococcus spp. in the intestinal contents, were lower than found in the water in both summer and fall, while the other bacterial groups presented a higher abundance in summer. Lactobacillus spp. in the mucosa, and A. hydrophila in the intestinal contents and mucosa, maintained higher abundances than found in the water in the autumn samples, and other bacterial groups maintained lower abundances in the loach microflora than found in the water (Table 6). Considerable amounts of bacteria were detected in the loach mucosa in both seasons, and only the abundance of Lactobacillus spp. increased gradually from summer to fall. With dropping water temperatures, the abundance of total bacteria decreased in the intestinal contents and mucosa, and also in the water (P < 0.05); similar trends were observed for the abundances of the Bacteroidetes, Bifidobacterium, Enterococcus spp., Lactobacillus spp. and Streptococcus spp. between summer and fall (P < 0.01). Moreover, some of the dominant bacteria still maintained high abundance in the intestinal contents or mucosa than in the water in the fall, specifically A. hydrophila and Enterobacteriaceae (P < 0.01) (Table 6). Notably, the abundances of all bacterial groups in the fall were significantly higher in the culture water than in the fish microflora (P < 0.01) (Fig. 3).

Table 6 Log10 DNA gene copies of bacteria in different tissues (POCM)
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Fig. 3
figure 3

Effects of different seasons on functional bacteria (pond cultivation modes). Note: a–i Log10 represent DNA gene copies of total bacteria, Firmicutes, Bacteroidetes, Bifidobacterium, Enterococcus spp., Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp. in the mucosa, content and water, respectively. Log10 DNA gene copies quantification data were normalized to the standard curve lines and presented with the means ± standard deviation (n = 20). * indicate P < 0.05, ** indicate P < 0.01

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In summer, the abundance of the Firmicutes, Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp. in the loach mucosa was higher in PACM than in POCM, and the difference was significant (P < 0.05 or P < 0.01) except for A. hydrophila and Enterobacteriaceae. Moreover, the abundance of Enterococcus spp., Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp. was higher in the culture water in PACM than in POCM; this difference was significant (P < 0.05 or P < 0.01) for all microbiota except for A. hydrophila and Enterobacteriaceae. In the fall, the abundances of total bacteria, the Bacteroidetes, Bifidobacterium and Enterobacteriaceae in the mucosa were higher in PACM than in POCM, reaching significantly different levels (P < 0.05 or P < 0.01) except for A. hydrophila and Streptococcus spp. Furthermore, the abundances of the Bacteroidetes, Enterococcus spp., A. hydrophila and Streptococcus spp. in the culture water in PACM were higher than those in POCM, and these differences were significant (P < 0.05 or P < 0.01) except for the total bacteria and A. hydrophila (Fig. 4).

Fig. 4
figure 4

Effects of different cultivations modes on functional bacteria. Note: a–i Log10 represent DNA gene copies of total bacteria, Firmicutes, Bacteroidetes, Bifidobacterium, Enterococcus spp., Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp. in the mucosa and water, respectively. Log10 DNA gene copies quantification data were normalized to the standard curve lines and presented with the means ± standard deviation (n = 40). Summer/t and Summer/c represent the paddy and pond samples in summer, respectively; Autumn/t and Autumn/c represent the paddy and pond samples in autumn, respectively. In the summer samples, * indicate P < 0.05, ** indicate P < 0.01; in the autumn samples, # indicate P < 0.05, ## indicate P < 0.01

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Discussion

Loaches are stomachless fish, and the anterior intestinal swelling (foregut) serves as an ichthyic stomach. The histological analysis showed that the intestinal tract of loach could be generally divided into mucosa, submucosa, and muscular coats and serosa from the interior to exterior [25]. In this study, a high content of digestive enzyme activity occurred in the liver and foregut (Table 3). Thus, the liver and foregut are assumed to play an important role in digestion and nutrient absorption in this species, which was confirmed by the large numbers of the different types of mucous cells (Table 4) and observations of the mucous-cell morphology in the foregut (Fig. 1). Previous studies focused on the digestive enzymes in young fish or comparisons of different developmental stages of fish. Moyano [26] studied the activities of digestive enzymes during larval development in gilthead seabream; the results revealed that enzymatic activities increased in relation to fish development, and exogenous food had more of a qualitative than quantitative role in the secretion of digestive enzymes. Kuz’mina [27] studied the influence of fish age on the activities of digestive enzymes in several freshwater teleosts and found that total enzymatic activity in particular cases increased with age. In this study, the levels of digestive enzyme activity significantly differed between loach in the two cultivation modes. Loach reared in paddy fields may be more dependent on the environment; while they can prey on some live, foods they might also unavoidably suffer from starvation due to the environment. Kolkovski [28] discovered that live food organisms could promote enzymatic activity in larval and juvenile fish by ‘donating’ their digestive enzymes; not all the loaches cultivated in ponds depended on the commercial feed offered. Previous research revealed that the activities of digestive enzymes were directly affected by the food [29] and also changed in the fish intestine with different feeding habits [30, 31]. Liu [32] reported decreased enzyme activity in wild freshwater fishes as compared with farmed fish, as an influence of their trophic level. Our findings are consistent with previous observations; for example, lower amylase and trypsin in activity in the liver was detected in PACM. Interestingly, the activities of digestive enzymes in the midgut and hindgut were higher in PACM than in POCM; this might imply a stronger digestive ability in PACM. In this study, consistency was observed in the distribution of intestinal mucous cells and the activities of digestive enzymes in the different intestine sections, with gradual decreases from foregut to hindgut, although microorganisms will also affect enzymatic activity [33, 34].

The intestinal tract is a complex system that plays a key role not only in digestion, nutrient absorption and osmoregulation, but also in immune homeostasis [2, 35]. The surface area is constantly bombarded by antigens from the diet and the gut microorganisms; while the intestinal tract is one line of defense against pathogens, it is also regarded as a primary portal for pathogenic invasion in fish [36]. The integrity and stability of the function and structure of the intestinal tract are critical for digestion and nutrient absorption. Moreover, the beneficial effects on host health from the commensal microbiota and their fermentation products are well evidenced [37,38,39]. Wu [40] attributed efficient digestion, especially of cellulose, and the absorption of nutrients in yellow catfish to the intestinal microbiota. In this study, we investigated the abundance of total bacteria, the Firmicutes, the Bacteroidetes, Bifidobacterium, Enterococcus spp., Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp. in loach in two cultivation modes and during two seasons. The intestinal microbiota always changed with the host fish and ambient environment, and even with the development phase of the loach. In our study, among loach in PACM, several of the bacteria groups presented higher concentrations in summer, such as the Firmicutes, Lactobacillus spp., A. hydrophila, Enterobacteriaceae and Streptococcus spp., whereas the concentrations of the Bacteroidetes, Bifidobacterium and Enterobacteriaceae were higher in the fall. However, the abundances of the pathogenic bacteria Enterococcus spp., A. hydrophila and Streptococcus spp. significantly decreased among loach in PACM in the fall. In general, the intestine of loach does not much develop as the fish grows, and it usually contains fewer microbiota in the early life phase. With the development of the digestive organ, the species composition and quantities of the microflora are gradually enriched, and their population structures progressively stabilize in the fish intestine. Ringø [41] exposed turbot larvae to Vibrio pelagius and observed the changes in the intestinal microbiota: the microbiota first increased but then eventually stabilized. In contrast to the observations of Ringø [41], we detected a decline in the abundance of pathogenic gut bacteria among the loach in PACM in the fall; this finding suggests that paddy fields may be the better environment for the growth and health of juvenile loach. However, the data also showed no significant differences in the growth parameters of loach cultured in ponds or in paddy fields [42]. Further study is needed for a more detailed evaluation of differences between the two culture modes. The Firmicutes are a dominant phylum [43] that includes multiple cellulolytic bacteria, which are closely associated with the bioconversion of feeds in the body [44]. The Bacteroidetes are a dominant phylum present in fish [43, 45] and are known to accelerate the catabolism of plant cell walls [46], although the most comprehensive classification studies of these bacteria have been done on land animals.

Because the loach is an omnivorous species, its diet includes algae, grasses, and other plant debris and organic matter found in the sediment [47]. Due to the relationship between the loach’s feeding habits and its microbiota, we can surmise that Bacteroidetes bacteria are a significant presence in the fish’s intestine. Moreover, an increased abundance of the Bacteroidetes might improve the barrier function of the intestinal mucosa, enhancing the host’s immunity [48]. Some Lactobacillus and Bifidobacterium are recognized as beneficial for intestinal health in fish, and they may be added to the diet as probiotics that improve fish growth and development. Previous studies, especially of Bifidobacterium, have focused mainly on land animals and less on aquatic animals. It has also been reported that some lactic-acid bacteria isolated from the gastrointestinal tract of fish can act as probiotics [49, 50]. In addition, Lactobacillus can inhibit the growth of Enterobacteriaceae [51] and Streptococcus spp. [52]. Bifidobacterium is often detected in water as well as in the digestive tracts of fish [53]. Itami [54] found that peptidoglycan derived from Bifidobacterium thermophilum enhanced disease resistance in kuruma shrimp. Bifidobacterium also can inhibit the growth of Enterococcus spp. [55]. Hence, we conclude that it is likely that the pathogenic bacteria might be controlled or even reduced in the presence of probiotics.

Aeromonas hydrophila is one of the most common bacteria in freshwater habitats, and it is a frequent cause of disease among cultured and wild fishes worldwide [56]. It is an opportunistic pathogen in both fish and terrestrial animals, including mammals. Consequently, it is important to maintain excellent water parameters for loach in either PACM or POCM. In this study, higher abundances of A. hydrophila were observed in the intestinal contents and mucosa, for both culture modes, but especially in summer. Fortunately, high abundances in PACM were not maintained during the fall.

Rearing loach in PACM represents a good rice–fish co-culture system [57]. Our observations indicate that particular attention should to be paid to the loach culture management strategy for the summer season. Enhancement of fish immunity is possibly the most promising method for preventing fish diseases; even so, the health condition of freshwater fish is also strongly affected by their trophic level [32]. Therefore, improvements to the feeding strategy for fishes reared in paddy fields needs more attention. The large area of rice in a paddy field might present an obstacle for loach as they swim to feed.

Conclusions

This study evaluated differences in the digestive enzyme activities of the intestine, the distribution of intestinal mucous cells, and the quantities of some taxa of intestinal microbiota in loach cultured in paddy fields and ponds. The abundance of most bacterial groups in the loach gut presented significant differences between the two cultivation modes, in both summer and fall. However, in both cultivation modes, the pathogenic bacterium A. hydrophila maintained a relatively high abundance in the intestinal contents and mucosa, including during summer, although its abundance decreased during the fall. This finding indicates that particular attention should to be paid to the loach culture management strategy for the summer season.

Abbreviations

AB-PAS:

Alcian blue and periodic acid schiff

LM:

Light microscopy

one-way ANOVA:

One-way analysis of variance

PACM:

Paddy-cultivated mode

PCR:

The polymerase chain reaction

POCM:

Pond-cultivated mode

Q-PCR:

Quantitative PCR

SD:

Standard deviation

References

  1. Jutfelt F, Olsen RE, Björnsson BT, Sundell K. Parr–smolt transformation and dietary vegetable lipids affect intestinal nutrient uptake, barrier function and plasma cortisol levels in Atlantic salmon. Aquaculture. 2007;273(2-3):298–311.

    Article  CAS  Google Scholar 

  2. Peterson LW, Artis D. Intestinal epithelial cells: regulators of barrier function and immune homeostasis. Nat Rev Immunol. 2014;14(3):141–53.

    Article  PubMed  CAS  Google Scholar 

  3. Pierre MK, Jules-Bocamdé T, François NZ, Gloria DR, Carmen W, María de Lourdes P. Quantitative analyses of the bacterial microbiota of rearing environment, tilapia and common carp cultured in earthen ponds and inhibitory activity of its lactic acid bacteria on fish spoilage and pathogenic bacteria. World J Microbiol Biotechnol. 2017;33(2):32.

    Article  Google Scholar 

  4. Merrifield DL, Dimitroglou A, Foey A, Dacies SJ, Baker RTM, Bøgwald J, Castex M, Ringø E. The current status and future focus of probiotic and prebiotic applications for salmonids. Aquaculture. 2010;302:1): 1–18.

    Article  Google Scholar 

  5. Uddin N, Al-Harbi AH. Bacterial flora of polycultured common carp (Cyprinus carpio) and African catfish (Clarias gariepinus). Int Aquat Res. 2012;4(1):1–9.

    Article  Google Scholar 

  6. Al-Harbi AH, Uddin N. Quantitative and qualitative studies on bacterial flora of hybrid tilapia (Oreochromis niloticus × O. aureus) cultured in earthen ponds in Saudi Arabia. Aquac Res. 2003;34(1):43–8.

    Article  Google Scholar 

  7. Raggi P, Lopez P, Diaz A, Carrasco D, Silva A, Velez A, Opazo R, Magne F, Navarrete PA. Debaryomyces hansenii and Rhodotorula mucilaginosa comprised the yeast core gut microbiota of wild and reared carnivorous salmonids, croaker and yellowtail. Environ Microbiol. 2014;6(9):2791–803.

    Article  CAS  Google Scholar 

  8. Venkatesh P, Jeyapriya SP, Suresh N, Vivekananthan T. Light microscopic studies on the gut of freshwater fish Channa punctatus (Bloch). Int J Recent Sci Res. 2014;4(2):468–71.

    Google Scholar 

  9. Grootjans J, Hundscheid IH, Lenaerts K, Boonen B, Renes IB, Verheyen FK, Deiong CH, Meyenfeldt MF, Beets GL, Buurman WA. Ischaemia-induced mucus barrier loss and bacterial penetration are rapidly counteracted by increased goblet cell secretory activity in human and rat colon. Gut. 2013;62(2):250–8.

    Article  PubMed  Google Scholar 

  10. Pelster B, Wood CM, Speers-Roesch B, Driedzic WR, Almeida-Val V, Val A. Gut transport characteristics in herbivorous and carnivorous serrasalmid fish from ion-poor Rio Negro water. J Comp Physiol B. 2015;185(2):225–41.

    Article  PubMed  CAS  Google Scholar 

  11. Soleimani N, Hoseinifar SH, Merrifield DL, Barati M, Abadi ZH. Dietary supplementation of fructooligosaccharide (FOS) improves the innate immune response, stress resistance, digestive enzyme activities and growth performance of Caspian roach (Rutilus rutilus) fry. Fish Shellfish Immunol. 2012;32(2):316–21.

    Article  PubMed  CAS  Google Scholar 

  12. Cerezuela R, Fumanal M, Tapia-Paniagua ST, Meseguer J, Moriñigo MÁ, Esteban MÁ. Histological alterations and microbial ecology of the intestine in gilthead seabream (Sparus aurata L.) fed dietary probiotics and microalgae. Cell Tissue Res. 2012;350(3):477–89.

    Article  PubMed  Google Scholar 

  13. Allison EH. Aquaculture, fisheries, poverty and food security, Working paper. Penang: World Fish Center; 2011. p. 1–62.

    Google Scholar 

  14. Xie B, Qin J, Yang H, Wang X, Wang YH, Li TY. Organic aquaculture in China: a review from a global perspective. Aquaculture. 2013;414(11):243–53.

    Article  Google Scholar 

  15. Troell M, Rönnbäck P, Halling C, Kautsky N, Buschmann A. Ecological engineering in aquaculture: use of seaweeds for removing nutrients from intensive mariculture. J Appl Phycol. 1999;137(1):603–11.

    Google Scholar 

  16. Costa-Pierce BA. Farming systems research and extension methods for the development of sustainable aquaculture ecosystems. Ecological aquaculture: the evolution of the blue revolution. 2002:103–24. https://doi.org/10.1002/9780470995051.ch5.

  17. Frei M, Becker K. Integrated rice-fish culture: coupled production saves resources. Nat Res Forum. 2005;29:135–43.

    Article  Google Scholar 

  18. Lu J, Li X. Review of rice–fish-farming systems in China – one of the globally important ingenious agricultural heritage systems (GIAHS). Aquaculture. 2006;260(1-4):106–13.

    Article  Google Scholar 

  19. Wu SG, Wang GT, Angert ER, Wang WW, Li WX, Zou H. Composition, diversity, and origin of the bacterial community in grass carp intestine. PLoS One. 2012;7(2):1–11.

    Google Scholar 

  20. Guo X, Xia X, Tang R, Zhou J, Zhao H, Wang K. Development of a real-time PCR method for Firmicutes and Bacteroidetes in faeces and its application to quantify intestinal population of obese and lean pigs. Lett Appl Microbiol. 2008;47(5):367–73.

    Article  PubMed  CAS  Google Scholar 

  21. Hao S, Xueqin N, Xu S, Bin W, Yi Z, Fuqin Z, Mingyue Y, Zhirong P, Hui Z, Yan Z, Hesong W, Xiangchao F, Yunduo S, Zhongqiong Y, Kangcheng P, Bo J, Dong Z, Ping W. Fermented Yupingfeng polysaccharides enhance immunity by improving the foregut microflora and intestinal barrier in weaning rex rabbits. Appl Microbiol Biotechnol. 2016;100(18):8105–20.

    Article  CAS  Google Scholar 

  22. Walter J, Hertel C, Tannock GW, Lis CM, Munro K, Hammes WP. Detection of Lactobacillus, Pediococcus, Leuconostoc, and Weissella species in human feces by using group-specific PCR primers and denaturing gradient gel electrophoresis. Appl Environ Microbiol. 2001;67(6):2578–85.

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  23. Bartosch S, Fite A, Macfarlane GT. Characterization of bacterial communities in feces from healthy elderly volunteers and hospitalized elderly patients by using real-time PCR and effects of antibiotic treatment on the fecal microbiota. Appl Environ Microbiol. 2004;70(6):3575–81.

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  24. Franks AH, Harmsen HJ, Raangs GC, Jansen GJ, Schut F, Welling GW. Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16s rRNA-targeted oligonucleotide probes. Appl Environ Microbiol. 1998;64(9):3336–45.

    PubMed  PubMed Central  CAS  Google Scholar 

  25. Pessoa EKR, da Silva NB, Chellappa NT, de Souza AA, Chellappa S. Anatomy and histology of the digestive tract and feeding habits of the neotropical fish Hypostomuspusarum (starks, 1913) (Osteichthyes: Loricariidae). Animal Biol J. 2013;4(1):39–49.

    Google Scholar 

  26. Moyano FJ, Diaz M, Alarcon FJ, Sarasquete MC. Characterization of digestive enzyme activity during larval development of gilthead seabream (Sparus aurata). Fish Physiol Biochem. 1996;15(2):121–30.

    Article  PubMed  CAS  Google Scholar 

  27. Kuz'mina VV. Influence of age on digestive enzyme activity in some freshwater teleosts. Aquaculture. 1996;148(1):25–37.

    Article  CAS  Google Scholar 

  28. Kolkovski S. Digestive enzymes in fish larvae and juveniles: implications and applications to formulated diets. Aquaculture. 2001;200(1):181–201.

    Article  CAS  Google Scholar 

  29. Das P, Mandal S, Khan A, Manna SK, Ghosh K. Distribution of extracellular enzyme-producing bacteria in the digestive tracts of 4 brackish-water fish species. Turkish J Zool. 2014;38(1):79–88.

    Article  Google Scholar 

  30. Hidalgo MC, Urea E, Sanz A. Comparative study of digestive enzymes in fish with different nutritional habits: proteolytic and amylase activities. Aquaculture. 1999;170(3):267–83.

    Article  CAS  Google Scholar 

  31. Furne M, Hidalgo MC, Lopez A, Garcia-Gallego M, Morales AE, Domezain A, Domezaine J, Sanz A. Digestive enzyme activities in Adriatic sturgeon Acipenser naccarii and rainbow trout Oncorhynchus mykiss. A comparative study. Aquaculture. 2005;250(1):391–8.

    Article  CAS  Google Scholar 

  32. Liu H, Guo XW, Gooneratne R, Lai RF, Zeng C, Zhan FB, Wang WM. The gut microbiome and degradation enzyme activity of wild freshwater fishes influenced by their trophic levels. Sci Rep. 2016;6:1–12.

    Article  CAS  Google Scholar 

  33. Wang YB. Effect of probiotics on growth performance and digestive enzyme activity of the shrimp Penaeus vannamei. Aquaculture. 2007;269(1):259–64.

    Article  CAS  Google Scholar 

  34. Bairagi A, Ghosh KS, Sen SK, Ray AK. Enzyme-producing bacterial flora isolated from fish digestive tracts. Aquac Int. 2002;10(2):109–21.

    Article  CAS  Google Scholar 

  35. Ivanov II, Dan RL. Modulation of immune homeostasis by commensal bacteria. Curr Opin Microbiol. 2011;14(1):106–14.

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  36. Ringø E, Myklebust R, Mayhew TM, Olsen RE. Bacterial translocation and pathogenesis in the digestive tract of larvae and fry. Aquaculture. 2007;268(1-4):251–64.

    Article  Google Scholar 

  37. Dutta D, Ghosh K. Screening of extracellular enzyme-producing and pathogen inhibitory gut bacteria as putative probiotics in mrigal, Cirrhinus mrigala (Hamilton, 1822). Int J Fisheries Aquat Stud. 2015;2:310–8.

    Google Scholar 

  38. Mitra A, Mukhopadhyay PK, Homechaudhuri S. Understanding probiotic potentials of bacillus bacterial population isolated from Chitala chitala (Osteoglossiformes; Notopteridae) by comparing the enzyme activity in vitro. International journal of pure and applied. Zoology. 2014;2:120–7.

    Google Scholar 

  39. Dupont HL. Review article: the antimicrobial effects of rifaximin on the gut microbiota. Aliment Pharmacol Ther. 2016;43(supp 1):3–10.

    Article  PubMed  CAS  Google Scholar 

  40. Wu Z, Yu Y, Chen X, Liu H, Yuan J, Shi Y, Chen X. Effect of prebiotic konjac mannanoligosaccharide on growth performances, intestinal microflora, and digestive enzyme activities in yellow catfish, Pelteobagrus fulvidraco. Fish Physiol Biochem. 2014;40(3):763–71.

    Article  PubMed  CAS  Google Scholar 

  41. Ringø E, Birkbeck TH, Munro PO, Vadstein O, Hjelmeland K. The effect of early exposure to Vibrio pelagius on the aerobic bacterial flora of turbot, Scophthalmus maximus (L.) larvae. J Appl Bacteriol. 1996;81(2):207–11.

    Article  Google Scholar 

  42. Yang S, Duan Y, Zhang J, Zhou J, Liu Y, Du J, Zhao L, Du Z, Hai S. Observational comparisons of intestinal microbiota characterizations, immune enzyme activities, and muscle amino acid compositions of loach in paddy fields and ponds in Sichuan Province. Appl Microbiol Biotechnol. 2017;101(11):4775–89.

    Article  PubMed  CAS  Google Scholar 

  43. Xia JH, Lin G, Fu GH, Wan ZY, Lee M, Wang L, Liu XJ, Yue GH. The intestinal microbiome of fish under starvation. BMC Genomics. 2014;15(1):266.

    Article  PubMed  PubMed Central  Google Scholar 

  44. Evans NJ, Brown JM, Murray RD, Getty B, Birtles RJ, Hart CA, Carter ST. Characterization of novel bovine gastrointestinal tract treponema isolates and comparison with bovine digital dermatitis treponemes. Appl Environ. 2011;77(1):138–47.

    Article  CAS  Google Scholar 

  45. Ye L, Amberg J, Chapman D, Gaikowski M, Liu WT. Fish gut microbiota analysis differentiates physiology and behavior of invasive Asian carp and indigenous American fish. ISME J. 2014;8:541–51.

    Article  PubMed  CAS  Google Scholar 

  46. Cheryl S, Greg WW, Jeffrey SC. Characterization of the primary starch utilization operon in the obligate anaerobe Bacteroides fragilis: regulation by carbon source and oxygen. J Bacteriol. 2006;188:4663–72.

    Article  CAS  Google Scholar 

  47. Wang YJ, Li DX. Research on biological characters and exploitations of Paramisgurnus dabryanus Sauvage. Spec Wild Eco Anim Plant Res. 2005;1:17.

    Google Scholar 

  48. Sonnenburg JL, Jian X, Leip DD, Chen CH, Westover BP, Weatherford J, Gordon JI. Glycan foraging in vivo by an intestine-adapted bacterial symbiont. Science. 2005;307:1955–9.

    Article  PubMed  CAS  Google Scholar 

  49. Aly SM, Ahmed YAG, Ghareeb AAA, Mohamed MF. Studies on Bacillus subtilis and Lactobacillus acidophilus, as potential probiotics, on the immune response and resistance of Nile tilapia (Oreochromis niloticus) to challenge infections. Fish Shellfish Immunol. 2008;25(1):128–36.

    Article  PubMed  CAS  Google Scholar 

  50. Giri SS, Sukumaran V, Oviya M. Potential probiotic Lactobacillus plantarum VSG3 improves the growth, immunity, and disease resistance of tropical freshwater fish, Labeo rohita. Fish Shellfish Immunol. 2013;34(2):660–6.

    Article  PubMed  CAS  Google Scholar 

  51. Ghosh S, Ringo E, Selvam ADG, Rahiman KMM, Sathyan N, John N, Hatha AAM. Gut associated lactic acid bacteria isolated from the estuarine fish Mugil cephalus: molecular diversity and antibacterial activities against pathogens. Int J Aquac. 2014;1(4):1–11.

    CAS  Google Scholar 

  52. Pirarat N, Pinpimai K, Rodkhum C, Chansue N, Ooi EL, Katagiri T, Maita M. Viability and morphological evaluation of alginate-encapsulated Lactobacillus rhamnosus GG under simulated tilapia gastrointestinal conditions and its effect on growth performance, intestinal morphology and protection against Streptococcus agalactiae. Anim Feed Sci Technol. 2015;207:93–103.

    Article  CAS  Google Scholar 

  53. Zhou J, Wu Z, Zeng L, Wang S, Bi P, Chen X. Microflora in digestive tract of yellow catfish (Pseudobagrus fulvidraco) and in the water. J Huazhong Agri Univ. 2010;29(5):613–7.

    Google Scholar 

  54. Itami T, Asano M, Tokushige K, Kubono K, Nakagawa A, Takeno N, Nishimura H, Maeda M, Kondo M, Takahashi Y. Enhancement of disease resistance of kuruma shrimp, Penaeus japonicus, after oral administration of peptidoglycan derived from Bifidobacterium thermophilum. Aquaculture. 1998;164(1):277–88.

    Article  CAS  Google Scholar 

  55. Itami T, Kondo M, Uozu M, Suganuma A, Abe T, Nakagawa A, Suzuki N, Takahashi Y. Enhancement of resistance against Enterococcus serioloicida infection in yellowtail, Seriola quinqueradiata (Temminck & Schlegel), by oral administration of peptidoglycan derived from Bifidobacterium thermophilum. J Fish Dis. 1996;19(2):185–7.

    Article  CAS  Google Scholar 

  56. Zhang XJ, Yang WM, Wu H, Gong XN, Li AH. Multilocus sequence typing revealed a clonal lineage of Aeromonas hydrophila caused motile Aeromonas septicemia outbreaks in pond-cultured cyprinid fish in an epidemic area in Central China. Aquaculture. 2014;432(2):1–6.

    Article  Google Scholar 

  57. Xie J, Hu LL, Tang JJ, Wu X, Li NN, Yuan YG, Yang HS, Zhang JE, Luo SM, Chen X. Ecological mechanisms underlying the sustainability of the agricultural heritage rice–fish co-culture system. PNAS. 2011;108(50):1381–7.

    Article  Google Scholar 

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Acknowledgments

We thank S.S. Han, J. Zhang and Y.N. Long (SICAU) for sampling and staining the tissues analyzed. Thanks also to H. Sun (SICAU) for helping with the experimental design and manuscript revisions. We are grateful to Christopher Ryan Suchocki (School of Freshwater Sciences, University of Wisconsin, Milwaukee, USA) for assistance with revising the manuscript. We also thank the farmer for giving the permission to conduct the experiment.

Funding

This project was supported by funding from the Key Laboratory of Fishery Drug Development, Ministry of Agriculture, P. R. China, and the Key Laboratory of Aquatic Animal Immune Technology, Guangdong Province, P. R. China (No. 201409). The funding suppotted the cost for loach samples. The work was also supported by a grant from the Special Fund for Agro-scientific Research in the Public Interest (201203081) and the ‘Double Support Project’ fund of Sichuan Agricultural University (SICAU; No. 03572417; No. 03571778), the two latters mainly supported the funding for detection Kits and data analysis.

Availability of data and materials

All data generated and analyzed during this study are included in this published article.The raw data are available from corresponding author under on reasonable request.

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Authors and Affiliations

  1. College of Animal Science and Technology, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, Sichuan, China

    Song Yang, Jie Du, Yuan-liang Duan, Qing Xiao, Liu-lan Zhao & Zong-jun Du

  2. Key Laboratory of Fishery Drug Development, Ministry of Agriculture and Rural Affairs, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, 510380, China

    Ning-qiu Li & Qiang Lin

  3. Fisheries Institute of Sichuan, Academy of Agricultural Science, Chengdu, 611731, Sichuan, China

    Jian Zhou & Jun Du

Authors
  1. Song Yang
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Contributions

LLZ managed the grants, supervised the laboratory work, and led the design and coordination of this study. NQL designed the research, performed data analysis and revised manuscript. SY performed and led the study, also drafted the manuscript. JD1 and YLD participated in the design, supervision and coordination of the study, and contributed to revising the manuscript, especial JD1 taking the intestinal histological study. JZ, JD2 and ZJD sampled the tissues. QX performed the Q-PCR analysis. And QL gave helpful guidance to the statistical analysis. All authors read and approved the final manuscript.

Corresponding authors

Correspondence to Ning-qiu Li or Liu-lan Zhao.

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This study was approved by the Institutional Animal Care and Use Committee of the Sichuan Agricultural University.

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The authors declare that they have no competing interests.

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Yang, S., Du, J., Duan, Yl. et al. Differences in the digestive enzyme activity, intestinal mucosa and microbial community in loach cultivated in two separate environments. BMC Microbiol 18, 113 (2018). https://doi.org/10.1186/s12866-018-1237-1

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Keywords

  • Enzymatic activity
  • Intestinal microbiota
  • Loach
  • Paddy fields
  • Quantitative PCR

BMC Microbiology

ISSN: 1471-2180

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