Mixed Diets Reduce the Oxidative Stress of Common Carp (Cyprinus carpio): Based on MicroRNA Sequencing

The rice-fish mode, a mode of ecological aquaculture, has become a popular research topic in recent years. The antioxidant capacity of fish can be affected by the type of diet. Three groups of adult common carp (initial weight 517.8 ± 50 g) were fed earthworm (group A), earthworm + duckweed (group M), and duckweed (group P). The antioxidant capacity of common carp (Cyprinus carpio) was evaluated by histopathological sectioning, antioxidant enzyme activity, and the miRNA transcriptome profile. The pathological changes in group M were lighter than those in groups C and A. The activities of superoxide dismutase (SOD) and glutathione peroxidase (GSH-PX) significantly increased in group M, and the malondialdehyde content (MDA) significantly decreased (p < 0.05). Additionally, nine differentially expressed miRNAs (DEMs) were found between groups A and M, and eight DEMs found between groups P and M were identified in the liver of common carp. Five miRNAs were reported to be related to oxidative stress, including miR-137-3p, miR-143-3p, miR-146a-5p, miR-21-5p, and miR-125b-5p. Compared with group M, all five detected miRNAs were upregulated in group A, and four of the detected miRNAs were upregulated in group P. The targets of the five miRNAs were further predicted via functional analysis. Our study confirmed that omnivorous common carp exhibits stronger antioxidant capacity when feeding on both an animal diet and a plant diet

The Asian Arowana (Scleropages formosus) Genome Provides New Insights into the Evolution of an Early Lineage of Teleosts

The Asian arowana (Scleropages formosus), one of the world’s most expensive cultivated ornamental fishes, is an endangered species. It represents an ancient lineage of teleosts: the Osteoglossomorpha. Here, we provide a high-quality chromosome-level reference genome of a female golden-variety arowana using a combination of deep shotgun sequencing and high-resolution linkage mapping. In addition, we have also generated two draft genome assemblies for the red and green varieties. Phylogenomic analysis supports a sister group relationship between Osteoglossomorpha (bonytongues) and Elopomorpha (eels and relatives), with the two clades together forming a sister group of Clupeocephala which includes all the remaining teleosts. The arowana genome retains the full complement of eight Hox clusters unlike the African butterfly fish (Pantodon buchholzi), another bonytongue fish, which possess only five Hox clusters. Differential gene expression among three varieties provides insights into the genetic basis of colour variation. A potential heterogametic sex chromosome is identified in the female arowana karyotype, suggesting that the sex is determined by a ZW/ZZ sex chromosomal system. The high-quality reference genome of the golden arowana and the draft assemblies of the red and green varieties are valuable resources for understanding the biology, adaptation and behaviour of Asian arowanas

The Asian arowana (<i>Scleropages formosus</i>) genome provides new insights into the evolution of an early lineage of teleosts

The Asian arowana (Scleropages formosus), one of the world’s most expensive cultivated ornamental fishes, is an endangered species. It represents an ancient lineage of teleosts: the Osteoglossomorpha. Here, we provide a high-quality chromosome-level reference genome of a female golden-variety arowana using a combination of deep shotgun sequencing and high-resolution linkage mapping. In addition, we have also generated two draft genome assemblies for the red and green varieties. Phylogenomic analysis supports a sister group relationship between Osteoglossomorpha (bonytongues) and Elopomorpha (eels and relatives), with the two clades together forming a sister group of Clupeocephala which includes all the remaining teleosts. The arowana genome retains the full complement of eight Hox clusters unlike the African butterfly fish (Pantodon buchholzi), another bonytongue fish, which possess only five Hox clusters. Differential gene expression among three varieties provides insights into the genetic basis of colour variation. A potential heterogametic sex chromosome is identified in the female arowana karyotype, suggesting that the sex is determined by a ZW/ZZ sex chromosomal system. The high-quality reference genome of the golden arowana and the draft assemblies of the red and green varieties are valuable resources for understanding the biology, adaptation and behaviour of Asian arowanas

Effect of addition of salt on oxidant activity and apoptosis of Coilia nasus juveniles under air exposure stress

Air exposure, as a stressor, can cause death of most fish species in aquaculture. However, little has been known about the responses to the stress caused by air exposure. In the present study, the influence of addition of salt on mitigating the stress caused by air exposure was investigated in Coilia nasus juveniles for the first time. Five experimental groups (control (C), air exposure group without addition of salt (FAF), addition of salt after air exposure (FAS), addition of salt before air exposure (SAF), and addition of salt both before and after air exposure (SAS)) were analyzed in an acute air exposure stress model. The results showed that air exposure triggered high mortality; antioxidase activities and total antioxidant capacity were decreased; malondialdehyde (MDA) and lipid peroxide (LPO) were increased; and Caspase 3 expression was activated. The expression of genes associated with mitochondrial apoptosis (Caspase 9, Apaf1, Bax, Bcl-2), endoplasmic reticulum apoptosis (CHOP, PERK, ATF4), and death receptor apoptosis (CFLAR, TRADD) was activated after air exposure. Compared to FAF, mortality was decreased by 5-fold in the SAS group. Additionally, antioxidant activities were increased, and MDA and LPO levels were decreased. SAS could also inhibit expressions of the genes related to apoptosis. These results indicated that high mortality, oxidant stress, and apoptosis were caused by air exposure, but the addition of salt both before and after air exposure could significantly reduce mortality, inhibit oxidant stress and apoptosis. Our data demonstrated that the addition of salt both before and after air exposure would be an effective method to mitigate air exposure stress in C. nasus juveniles

Genome-wide identification of the NHE gene family in Coilia nasus and its response to salinity challenge and ammonia stress

Abstract Background In aquatic environments, pH, salinity, and ammonia concentration are extremely important for aquatic animals. NHE is a two-way ion exchange carrier protein, which can transport Na+ into cells and exchange out H+, and also plays key roles in regulating intracellular pH, osmotic pressure, and ammonia concentration. Results In the present study, ten NHEs, the entire NHE gene family, were identified from Coilia nasus genome and systemically analyzed via phylogenetic, structural, and synteny analysis. Different expression patterns of C. nasus NHEs in multiple tissues indicated that expression profiles of NHE genes displayed tissue-specific. Expression patterns of C. nasus NHEs were related to ammonia excretion during multiple embryonic development stages. To explore the potential functions on salinity challenge and ammonia stress, expression levels of ten NHEs were detected in C. nasus gills under hypotonic stress, hypertonic stress, and ammonia stress. Expression levels of all NHEs were upregulated during hypotonic stress, while they were downregulated during hypertonic stress. NHE2 and NHE3 displayed higher expression levels in C. nasus larvae and juvenile gills under ammonia stress. Conclusions Our study revealed that NHE genes played distinct roles in embryonic development, salinity stress, and ammonia exposure. Syntenic analysis showed significant difference between stenohaline fish and euryhaline fishes. Our findings will provide insight into effects of C. nasus NHE gene family on ion transport and ammonia tolerance and be beneficial for healthy aquaculture of C. nasus

Histidine Deficiency Inhibits Intestinal Antioxidant Capacity and Induces Intestinal Endoplasmic-Reticulum Stress, Inflammatory Response, Apoptosis, and Necroptosis in Largemouth Bass (<i>Micropterus salmoides</i>)

This 56-day study aimed to evaluate the effects of histidine levels on intestinal antioxidant capacity and endoplasmic-reticulum stress (ERS) in largemouth bass (Micropterus salmoides). The initial weights of the largemouth bass were (12.33 ± 0.01) g. They were fed six graded levels of histidine: 0.71% (deficient group), 0.89%, 1.08%, 1.26%, 1.48%, and 1.67%. The results showed that histidine deficiency significantly suppressed the intestinal antioxidant enzyme activities, including SOD, CAT, GPx, and intestinal level of GSH, which was supported by significantly higher levels of intestinal MDA. Moreover, histidine deficiency significantly lowered the mRNA level of nrf2 and upregulated the mRNA level of keap1, which further lowered the mRNA levels of the downstream genes sod, cat, and gpx. Additionally, histidine-deficiency-induced intestinal ERS, which was characterized by activating the PEPK-signalling pathway and IRE1-signalling pathway, including increased core gene expression of pepk, grp78, eif2α, atf4, chopα, ire1, xbp1, traf2, ask1, and jnk1. Dietary histidine deficiency also induced apoptosis and necroptosis in the intestine by upregulating the expressions of proapoptotic genes, including caspase 3, caspase 8, caspase 9, and bax, and necroptosis-related genes, including mlkl and ripk3, while also lowering the mRNA level of the antiapoptotic gene bcl-2. Furthermore, histidine deficiency activated the NF-κB-signalling pathway to induce an inflammatory response, improving the mRNA levels of the proinflammatory factors tnf-α, hepcidin 1, cox2, cd80, and cd83 and lowering the mRNA levels of the anti-inflammatory factors tgf-β1 and ikbα. Similarly, dietary histidine deficiency significantly lowered the intestinal levels of the anti-inflammatory factors TGF-β and IL-10 and upregulated the intestinal levels of the proinflammatory factor TNF-α, showing a trend similar to the gene expression of inflammatory factors. However, dietary histidine deficiency inhibited only the level of C3, and no significant effects were observed for IgM, IgG, HSP70, or IFN-γ. Based on the MDA and T-SOD results, the appropriate dietary histidine requirements of juvenile largemouth bass were 1.32% of the diet (2.81% dietary protein) and 1.47% of the diet (3.13% dietary protein), respectively, as determined by quadratic regression analysis

Effects of Enzymatic Cottonseed Protein Concentrate as a Feed Protein Source on the Growth, Plasma Parameters, Liver Antioxidant Capacity and Immune Status of Largemouth Bass (<i>Micropterus salmoides</i>)

This study appraised the impact of enzymatic cottonseed protein concentrate (ECP) as a fish meal (FM) substitute on the growth and health of largemouth bass (Micropterus salmoides) (initial weight 14.99 ± 0.03 g). Five diets with equal nitrogen, fat, and energy were designed to replace 0%, 7.78%, 15.56%, 23.33%, and 31.11% FM by adding 0%, 3.6%, 7.2%, 10.8%, and 14.4% ECP, named ECP0, ECP3.6, ECP7.2, ECP10.8, and ECP14.4, respectively. We fed 300 fish with five experimental diets for 60 days. The results revealed that weight gain rate (WGR) and specific growth rate (SGR) did not notably reduce until the addition of ECP exceeded 7.2%. The proximate composition of fish was not affected by the amount of ECP added in diets. Plasma total protein (TP), albumin (ALB), and high-density lipoprotein (HDL) concentrations increased with the increase of ECP dosage, while the triglyceride (TG) and low-density lipoprotein (LDL) concentrations and alkaline phosphatase (ALP) activity showed an opposite trend. For hepatic antioxidant capacity, the hepatic total superoxide dismutase (T-SOD) and catalase (CAT) activities, glutathione (GSH) content, and the expression of nuclear factor erythroid 2-related factor 2 (Nrf2), superoxide dismutase (SOD), and CAT were increased by ECP, while the hepatic malondialdehyde (MDA) content and the expression of kelch-like-ECH-associated protein 1 (Keap1) were decreased. With regard to inflammation, the expression of nuclear factor-kappa B (NF-κB), interleukin-8 (IL-8), and tumor necrosis factor-α (TNF-α) were inhibited by ECP. In summary, the amount of ECP added to diet can reach 7.2% to replace 15.56% FM without hampering the growth of largemouth bass, and ECP can improve the antioxidant and immune capacity

Impact of Effective Microorganisms and <i>Chlorella vulgaris</i> on <i>Eriocheir sinensis</i> and Water Microbiota in Ponds Experiencing Cyanobacterial Blooms

Cyanobacterial blooms threaten the quality and safety of the Chinese mitten crab Eriocheir sinensis. A combination of microalgae and probiotics seems a promising way to prevent and control cyanobacterial blooms in aquaculture ponds. In E. sinensis cultivation, however, a related strategy is still lacking. To assess the potential combined effects of effective microorganisms (EM) and Chlorella vulgaris on regulating cyanobacterial blooms, in this study, we detected the alterations in the physiology of E. sinensis, as well as water quality and microbial compositions of E. sinensis culture ponds with cyanobacterial blooms. As a result, supplementary EM and C. vulgaris had no adverse effects on the growth or digestive or antioxidant ability of E. sinensis but improved the water quality of the pond by reducing total ammonia nitrogen and total nitrogen levels. We found an increase in bacterial diversity and evenness, while a decrease in the diversity of fungal and phytoplankton communities was related to supplementary EM and C. vulgaris. Interestingly, EM coupling C. vulgaris promoted the restoration of the bacterial and fungal community composition in cyanobacterial blooms ponds, particularly the increase of Mychonastes abundance and the decrease of Cyclotella. This study laid the foundation for the prevention and control of potential risks in aquaculture

Effects of Submerged Macrophytes on the Growth, Morphology, Nutritional Value, and Flavor of Cultured Largemouth Bass (<i>Micropterus salmoides</i>)

Aquaculture environment plays important roles in regulating the growth, morphology, nutrition, and flavor of aquatic products. The present study investigated growth, morphology, nutrition, and flavor formation in largemouth bass (Micropterus salmoides) cultured in the ponds with (EM group) and without (M group) the submerged macrophytes (Elodea nuttallii). Fish in the EM group showed a significantly greater body length, higher growth rate, and lower hepatosomatic index than those in the M group (p 0.05). Moreover, compared with fish in the M group, those in the EM group showed improved muscle quality with significantly elevated levels of crude protein, total free and hydrolysable amino acids, and polyunsaturated fatty acids (p 0.05). Specifically, certain amino acids related to flavor (Glu, Asp, Ala, and Arg) and valuable fatty acids (C18:2, C18:3n3, C20:3n3, and C22:6) were more abundant in the EM group (p 0.05). In addition, the levels of 19 volatile (p E. nuttallii significantly improved growth, morphological traits, nutritional components, and characteristic flavor in largemouth bass, indicating the superior nutritional value and palatability of fish cultured with submerged macrophytes