Perciform Fish Research Articles

Characterization of four novel actinospore types of fish parasitic myxozoans and the occurrence of Branchiodrilus hortensis and Ophidonais serpentina from fish farms of Hungary

Six distinct actinospore types were identified in the intestinal epithelium of oligochaetes collected from the Szigetbecse and Makád fish farms of Ráckeve Danube Arm Fishing Association, in Hungary. Four new types: triactinomyxon type, raabeia type, aurantiactinomyxon type 1, and aurantiactinomyxon type 2, were described morphologically and molecularly from three invertebrate host species: Limnodrilus hoffmeisteri, Ophidonais serpentina, and Tubifex tubifex. The 18S ribosomal DNA (rDNA) analysis revealed that these new types of actinospores did not match any myxospore sequences available in GenBank. Phylogenetic analysis placed the triactinomyxon type within the Myxobolus clade that parasitizes cyprinid fish, while the raabeia type and aurantiactinomyxon type 2 were both placed within the Myxobolus clade associated with Perciformes fish. Aurantiactinomyxon type 1 was clustered in a clade containing gill-infecting Henneguya spp. from Esociformes fish. However, no myxospores have been found yet to link to the newly sequenced actinospores reported in this survey. This study also reports the first occurrence of two oligochaetes species, Branchiodrilus hortensis and Ophidonais serpentina in Hungary, specifically in fish farms of Ráckeve Danube Arm Fishing Association. Moreover, this is the first report on the involvement of Ophidonais serpentina in the life cycle of myxozoans.

Turbidity effects on prey consumption and survival of larval European smelt (Osmerus eperlanus)

The anadromous European smelt (Osmerus eperlanus) plays a key role in food webs of many riverine ecosystems in Europe. However, population sizes in several German rivers (e.g. Elbe or Weser rivers) have diminished drastically over the past decade. Turbidity has been considered one of the stressors affecting the successful recruitment of European smelt, as their early life stages may be particularly sensitive to changes in the abiotic environment. In this study, we investigated whether prey consumption and survival of European smelt larvae would be negatively affected by an acute exposure to elevated turbidity. We reared the larvae in the laboratory and exposed them in four separate trials (18 to 26 days post hatch, 9.5 ± 0.8 mm standard length, mean ± SD) to six turbidity levels (0–500 NTU, nephelometric turbidity units). We found that prey uptake increased at low turbidity levels and decreased at high turbidity levels, with an optimum between 100 and 200 NTU. Survival started to decrease at turbidity levels above 300 NTU. In addition, we conducted a systematic literature analysis in which we found that prey consumption of larval and juvenile fishes had been tested across a wide range of turbidity levels, mostly using pelagic (e.g. planktonic) prey items, with more studies focusing on perciform fishes and juvenile rather than larval life stages. Our empirical findings contribute to establishing thresholds for optimal larval European smelt performance under increased turbidity and provide valuable information for developing mechanistic models that assess potential consequences for European smelt recruitment dynamics.

The Expansion of Sirtuin Gene Family in Gilthead Sea Bream (Sparus aurata)-Phylogenetic, Syntenic, and Functional Insights across the Vertebrate/Fish Lineage.

The Sirtuin (SIRT1-7) family comprises seven evolutionary-conserved enzymes that couple cellular NAD availability with health, nutrition and welfare status in vertebrates. This study re-annotated the sirt3/5 branch in the gilthead sea bream, revealing three paralogues of sirt3 (sirt3.1a/sirt3.1b/sirt3.2) and two of sirt5 (sirt5a/sirt5b) in this Perciform fish. The phylogeny and synteny analyses unveiled that the Sirt3.1/Sirt3.2 dichotomy was retained in teleosts and aquatic-living Sarcopterygian after early vertebrate 2R whole genome duplication (WGD). Additionally, only certain percomorphaceae and gilthead sea bream showed a conserved tandem-duplicated synteny block involving the mammalian-clustered sirt3.1 gene (psmd13-sirt3.1a/b-drd4-cdhr5-ctsd). Conversely, the expansion of the Sirt5 branch was shaped by the teleost-specific 3R WGD. As extensively reviewed in the literature, human-orthologues (sirt3.1/sirt5a) showed a high, conserved expression in skeletal muscle that increased as development advanced. However, recent sirt3.2 and sirt5b suffered an overall muscle transcriptional silencing across life, as well as an enhanced expression on immune-relevant tissues and gills. These findings fill gaps in the ontogeny and differentiation of Sirt genes in the environmentally adaptable gilthead sea bream, becoming a good starting point to advance towards a full understanding of its neo-functionalization. The mechanisms originating from these new paralogs also open new perspectives in the study of cellular energy sensing processes in vertebrates.

Comparative Mitogenome Characterization of Cryptic Asian Seabass (Lates calcarifer) in Captivity within Peninsular Malaysia

Lates calcarifer is one of the most commercial species in the world. Yet, phylogenetic relationships among this cryptic species remain unclear despite its significance in the fishery sector. The first report on bifurcation of captive Lates calcarifer in Peninsular Malaysia (PM) inferred from complete mitochondrial genome was discussed in the present study. Two mitochondrial genomes (mitogenomes) of Lates species were sequenced and assembled. The mitogenome length was 16,627 bp and 16,515 bp for K4 and S15, respectively. The majority of PCGs in both species exhibited the common initiation marker ATG codon and ended with termination marker TAA codon. Also, the incomplete termination codon T/TA was found in both species. Most AT-skew and GC-skew values observed in the protein-coding genes (PCGs) across the two samples were negative. The phylogenetic analysis based on 13 protein-coding genes by Maximum-Likelihood tree displayed two lineages from different regions which were from Myanmar/Indian waters (K4) and Southeast Asia/ Australian waters (S15). The striking genetic distance values between both specimens indicated 13 PCGs were suffering purifying selection. This study offers significant information for future analyses of evolutionary relationships among the numerous and taxonomically puzzling perciform fishes.

Transcription of NOD1 and NOD2 and their interaction with CARD9 and RIPK2 in IFN signaling in a perciform fish, the Chinese perch, Siniperca chuatsi.

NOD1 and NOD2 as two representative members of nucleotide-binding oligomerization domain (NOD)-like receptor (NLR) family play important roles in antimicrobial immunity. However, transcription mechanism of nod1 and nod2 and their signal circle are less understood in teleost fish. In this study, with the cloning of card9 and ripk2 in Chinese perch, the interaction between NOD1, NOD2, and CARD9 and RIPK2 were revealed through coimmunoprecipitation and immunofluorescence assays. The overexpression of NOD1, NOD2, RIPK2 and CARD9 induced significantly the promoter activity of NF-κB, IFNh and IFNc. Furthermore, it was found that nod1 and nod2 were induced by poly(I:C), type I IFNs, RLR and even NOD1/NOD2 themselves through the ISRE site of their proximal promoters. It is thus indicated that nod1 and nod2 can be classified also as ISGs due to the presence of ISRE in their proximal promoter, and their expression can be mechanistically controlled through PRR pathway as well as through IFN signaling in antiviral immune response.

Genome Characteristics of Two Ranavirus Isolates from Mandarin Fish and Largemouth Bass.

Ranaviruses are promiscuous pathogens that threaten lower vertebrates globally. In the present study, two ranaviruses (SCRaV and MSRaV) were isolated from two fishes of the order Perciformes: mandarin fish (Siniperca chuatsi) and largemouth bass (Micropterus salmoides). The two ranaviruses both induced cytopathic effects in cultured cells from fish and amphibians and have the typical morphologic characteristics of ranaviruses. Complete genomes of the two ranaviruses were then sequenced and analyzed. Genomes of SCRaV and MSRaV have a length of 99, 405, and 99, 171 bp, respectively, and both contain 105 predicted open reading frames (ORFs). Eleven of the predicted proteins have differences between SCRaV and MSRaV, in which only one (79L) possessed a relatively large difference. A comparison of the sequenced six ranaviruses from the two fish species worldwide revealed that sequence identities of the six proteins (11R, 19R, 34L, 68L, 77L, and 103R) were related to the place where the virus was isolated. However, there were obvious differences in protein sequence identities between the two viruses and iridoviruses from other hosts, with more than half lower than 55%. Especially, 12 proteins of the two isolates had no homologs in viruses from other hosts. Phylogenetic analysis revealed that ranaviruses from the two fishes clustered in one clade. Further genome alignment showed five groups of genome arrangements of ranaviruses based on the locally collinear blocks, in which the ranaviruses, including SCRaV and MSRaV, constitute the fifth group. These results provide new information on the ranaviruses infecting fishes of Perciformes and also are useful for further research of functional genomics of the type of ranaviruses.

Molecular Characterization and Expression Analysis of Four Janus Kinases (JAK1, JAK2a, JAK3 and TYK2) from Golden Pompano (Trachinotus ovatus)

Golden pompano, Trachinotus ovatus, is a perciform fish with great economic value and is widely cultured in the coastal areas of China. The wide occurrence of bacterial, parasitic and viral diseases has seriously threatened the sustainable development of the golden pompano culture industry. Janus kinases (JAKs) play important roles in most cytokine-mediated inflammatory responses, antiviral immune responses, autoimmune responses and disease pathologies. The present study aimed to obtain the full-length cDNA sequences of JAKs (JAK1, JAK2a, JAK3 and TYK2) from golden pompano and investigate their roles following stimulation with lipopolysaccharide (LPS), polyriboinosinic-polyribocytidylic acid (poly I:C) and Vibrio alginolyticus using RT-PCR, RACE-PCR and real-time qPCR methods. All four JAK proteins of golden pompano shared similar conserved domains, had high identities and clustered well with their teleost counterparts in phylogenetic analysis. Furthermore, these four genes were expressed in all examined tissues from healthy fish and induced in head kidney (HK), spleen, liver and gill post LPS, poly I:C and V. alginolyticus stimulation. Knowledge of the roles of JAKs in the immune response to different microbial pathogens provides a basis for further understanding of these functions.

Comparison of Biochemical Composition and Non-Volatile Taste Active Compounds of Back and Abdominal Muscles in Three Marine Perciform Fishes, Chromileptes altivelis, Epinephelus akaara and Acanthopagrus schlegelii.

Humpback grouper Chromileptes altivelis (HG), red-spotted grouper Epinephelus akaara (RG) and black seabream Acanthopagrus schlegelii (BS) are three popular perciform fishes with an increasingly important farming industry. The prices of BS are much lower than other grouper species; however, the differences in the nutritive values of these three perciform fishes with commercial specifications have not been reported. In this study, the biochemical composition and non-volatile taste active compounds of adult HG, RG and BS were investigated. Moisture contents in BS were significantly higher than in HG and RG (p < 0.05), and relatively lower crude protein contents in BS were observed. Lipid contents of back muscle were lower than that of abdomen muscle in the three fish species. C22:6n-3 (DHA) was the major poly-unsaturated fatty acid (PUFA) in HG and BS, while the main PUFA in RG was C18:2n-6. The total healthy omega-3 fatty acid (Σn-3) profiles in HG were the highest (24.08–24.59%), followed by RG (18.24–19.06%) and BS (13.63–15.91%) (p < 0.05). Glycine was the most abundant free amino acid (FAA) in HG and RG, while lysine was the major FAA in BS. Equivalent umami concentration (EUC) values in BS were the highest, followed by HG and RG (p < 0.05). Lactic acid and PO43− were the major organic acids and inorganic ions, respectively. In conclusion, HG and RG provided more protein and healthy omega-3 fatty acids than BS, while BS had a stronger umami taste according to the EUC values.

Extensive involvement of CD40 and CD154 costimulators in multiple T cell-mediated responses in a perciform fish Larimichthys crocea

CD40 and CD154 are well-characterized costimulatory molecules involved in adaptive humoral immunity in humans and other mammals. These two costimulatory molecules were found to be originated from teleost fish during vertebrate evolution. However, the functionality of fish CD40 and CD154 remains to be explored. In this study, we identified the CD40 and CD154 homologs (LcCD40 and LcCD154) from large yellow croaker (Larimichthys crocea), a marine species of the perciform fish family. The LcCD40 and LcCD154 share conserved structural features to their mammalian counterparts, and are widely expressed in immune-relevant tissues and leukocytes at different transcriptional levels. Immunofluorescence staining and FCM analysis showed that LcCD40 and LcCD154 proteins are distributed on MHC-II+ APCs and CD4-2+ T cells, and are significantly upregulated in response to antigen stimulation. Co-IP assay exhibited strong association between LcCD40 and LcCD154 proteins. Blockade of LcCD154 with anti-LcCD154 antibody (Ab) or recombinant soluble LcCD40-Ig fusion protein remarkably decreased the MHC-II+ APC-initiated CD4+ T cell response upon Aeromonas hydrophila stimulation, and alloreactive T cell activation as examined by mixed lymphocyte reaction (MLR). These findings highlight the costimulatory role of LcCD40 and LcCD154 in T cell activities in Larimichthys crocea. Thus, the CD40 and CD154 costimulators may extensively participate in the regulation of multiple T cell-mediated immune responses in teleost fish. It is anticipated that this study would provide a cross-species understanding of the evolutionary history of CD40 and CD154 costimulatory signals from fish to mammals.

First record of the barnacle Conchoderma virgatum on an ephippid fish

AbstractThe goose barnacle Conchoderma virgatum is a highly opportunistic epibiont, with observations of attachment to a wide range of marine organisms. Attachment to perciform fishes, however, is rarely observed. Observations of Conchoderma-osteichthyan associations in general are also rare in the southern hemisphere, especially in Australian waters. We present the first record of C. virgatum as an epibiont on an ephippid fish (Platax teira). This is also only the second known record of C. virgatum attached to a perciform fish in the Tasman Sea. We also summarize all previous known observations of C. virgatum in association with perciform fishes.

Budidaya Ikan Gurami Osphronemus gourami: Teknis Pembenihan dan Analisa Kelayakan Usaha

Giant gouramies Oshpronemus gouramy is a fishery commodity and a group of freshwater perciform fishes. This culture technical study was carried out at Freshwater Aquaculture Departement Sendangsari, Yogyakarta which aims to increase knowledge and skills in the cultivation of freshwater pomfret directly, in terms of both hatchery and growth up. Hatchery activities in Freshwater Aquaculture Departement Sendangsari using the ratio of male and female spawning 1:3 naturally. Hatchery activities produce fecundity rate (FR) 81.08%, hatching rate (HR) 90.02%, survival rate (SR) of larvae 71.74%, and SR of seeds 82%. Gouramy seeds was sold to farmers size 4 until 6 cm/individual in Sendangsari, Yogyakarta

†Dicentrarchus oligocenicus, sp. nov. (Perciformes, Moronidae): the first record of an Oligocene Sea Bass skeleton from Romania, with a revision of †Morone major (Agassiz) from Piatra-Neamţ (Eastern Carpathians)

ABSTRACT The Oligocene fish fauna of the Romanian Eastern Carpathians is of great interest for the study of the extinct European perciform fish assemblages because their diversity and fine preservation. Amongst these deposits, some exceptional fossil localities such as the recently discovered outcrop from the Coza Valley and the well-known historical locations (sites) from Piatra-Neamț and Suslănești, often offer new insights about the Paratethys fish faunas. Herein, we report for the first time the discovery of a fish skeleton originating from the Bituminous Marls Formation exposed in the Coza Valley (Vrancea Half-Window, Marginal Folds Nappe) that we refer to †Dicentrarchus oligocenicus, sp. nov.. Also, we review an existing specimen previously misidentified as †Morone major (Agassiz) found in the Lower Dysodilic Shales Formation of Piatra-Neamț (Bistrița-Râșca Half-Window, Marginal Folds Nappe) that will be referred henceforth to the Percoidei incertae sedis. While the new species described herein has been classified as belonging to the family Moronidae because of obvious meristic, morphometric and osteological features, the other species has been removed from this family due to the lack of diagnostic characters. Remarks on how †Dicentrarchus oligocenicus, sp. nov. differs from all extant and extinct representatives of moronid fishes are given.

Aspectos socioeconômicos e perfil da pesca segundo pescadores de peixes comestíveis no município de Barcelos, médio rio Negro, Amazonas, Brasil

Fishing plays a prominent role in the socioeconomic scope of the Negro River basin and is considered one of the main extractive activities in the region. The objective of this study was to describe the socioeconomic aspects of commercial fishers of edible fish who work in the municipality of Barcelos, in the middle Negro River region, as well as to highlight the scenario of the fishing activity from the point of view of the fishers. The information was collected between January and December 2016 in the municipality of Barcelos, state of Amazonas, via semi-structured questionnaires. Most interviewees were male (71.14%), aged between 18 and 82 years and a mean age of 48 years. With a low level of education, 45.0% had only incomplete elementary education and 15% were illiterate. The fishing tackle most used by fishermen was the gillnet, especially by urban fishermen (70%). Among the fishing sites, the main one was the Demeni River (50%). Commercial fishing for edible fish in Barcelos focused on Characiformes, Perciformes and Siluriformes fish. The main difficulties faced by the activity are related to the seasonality of the level of rivers and local tributaries, as well as the lack of buyers and low selling price of fish, in addition to conflicts over the use of fishing resources. Commercial fishing for edible fish is an activity of great socioeconomic importance for riverside families in the Middle River Negro basin, which needs greater attention from the public authorities. Therefore, it is expected that the information contained in this study can help in the decision-making process for the management of local fisheries resources and contribute to the resumption of growth and sustainability of commercial edible fish fisheries.

Molecular phylogeny of Cosmetocleithrum Kritsky, Thatcher & Boeger, 1986 (Monogenoidea: Dactylogyridae), gill parasites of Neotropical catfishes (Siluriformes).

Cosmetocleithrum Kritsky, Thatcher & Boeger, 1986 (Dactylogyridae) represents one of the most species-rich groups (22 species currently recognized as valid) of all dactylogyrid parasites infecting Neotropical catfishes. Species of Cosmetocleithrum exhibit a remarkable affinity towards catfishes of the Doradidae and the Auchenipteridae. However, phylogenetic relationships between members of this genus have not been yet analysed. This study analysed newly obtained partial sequences of the 28S ribosomal RNA gene of seven species of Cosmetocleithrum, including its type species C. gussevi Kritsky, Thatcher & Boeger, 1986, along with several other dactylogyrids infecting siluriform, gymnotiform, perciform and characiform fishes. Cosmetocleithrum appeared as an evolutionary recent group, composed of two well-defined lineages: lineage 1 includes parasites of doradids - namely, C. bulbocirrus, C. confusum, C. parvum and C. bifurcum - whereas lineage 2 is composed of species from doradids - that is, C. rarum, C. gussevi, C. gigas, C. trachydorasi and C. falsunilatum - together with parasites of auchenipterids - namely, C. laciniatum and C. baculum. The search for synapomorphies to characterize taxonomic groups within Cosmetocleithrum appears challenging, since the morphology of their haptoral elements is quite conservative, and that of the copulatory complex is highly variable between species. The results of the present study support the recent synonymization of Paracosmetocleithrum Acosta, Scholz, Blasco-Costa, Alves & Silva, 2018 with Cosmetocleithrum. Whereas the 28S ribosomal DNA data resolved Cosmetocleithrum as monophyletic, the statistical support for the lineage was low, rendering its phylogenetic position between other Neotropical dactylogyrids yet undefined.

Regulatory role of BTLA and HVEM checkpoint inhibitors in T cell activation in a perciform fish Larimichthys crocea

The BTLA and HVEM are two well-characterized immune checkpoint inhibitors in humans and other mammalian species. However, the occurrence and functionality of these two molecules in non-mammalian species remain poorly understood. In the present study, we identified the BTLA and HVEM homologs from large yellow croaker (Larimichthys crocea), an economically important marine species of the perciform fish family. The Larimichthys crocea BTLA and HVEM (LcBTLA and LcHVEM) share conserved structural features to their mammalian counterparts, and they were expressed in various tissues and cells examined at different transcriptional levels, with particular abundance in immune-relevant tissues and splenic leukocytes. Immunofluorescence staining and flow cytometry analysis showed that LcHVEM and LcBTLA proteins were distributed on MHC-II+ APCs and CD4-2+ T cells, and a strong interaction between LcBTLA and LcHVEM was detected in splenic leukocytes in the mixed lymphocyte reaction (MLR). By blockade assays using anti-LcBTLA and anti-LcHVEM Abs as well as recombinant soluble LcBTLA and LcHVEM proteins in different combinations, it was found that LcBTLA-LcHVEM interactions play an important inhibitory role in the activation of alloreactive T cells using MLR as a model, and APC-initiated antigen-specific CD4-2+ T cells in response to A. hydrophila (A. h) stimulation. These observations highlight the extensive functional roles of LcBTLA and LcHVEM immune-checkpoint inhibitors in allogeneic T cell reactions, and CD4-2+ T cell-mediated adaptive immune responses in Larimichthys crocea. Thus, the BTLA-HVEM checkpoint may represent an ancient coinhibitory pathway, which was originated in fish and was conserved from fish to mammals throughout the vertebrate evolution.

The developmental variations of the sagitta otolith in the young and mature male of a hermaphrodite polynemidae fish, Eleutheronema tetradactylum (Shaw, 1804)

The Eleutheronema tetradactylum is a protandrous, hermaphrodite, marine perciformes fish. The body length of this fish acts as an important diagnostic marker for male and female discrimination. The present study describes for the first time the ultrastructural characteristics on the medial surface of the sagitta otolith in different body size groups of males of E. tetradactylum (Polynemidae: Perciformes) using scanning electron microscopy. The sagitta is a spindle-shaped structure that includes a well-developed rostrum and a poorly developed antirostrum. The sulcus is ostio-pseudocaudal type, almost straight and devoid of the collum. The ostium is a well-developed, vase-shaped structure. The cauda includes the colliculum and a well-developed caudal bulb with several distinct growth stripes. The length of the caudal bulb is significantly correlated to the growth of the body size of the fish. The excisura major is indistinct and the excisura minor is absent. The cristae are distinct on both sides of the sulcus. The one-way ANOVA test revealed that the development of several sagitta features shows significant differences in various body size groups of E. tetradactylum. The growth of the sagitta length is more closely related to the fork length than the sagitta width. Therefore, the sagitta length and the caudal bulb length can be used as important predictors to evaluate the fish size. The cauda region of the sagitta in E. tetradactylum is unique as well as more decorative than those of another Polynemidae fish and other hermaphrodite, marine perciformes fishes. The sagitta characteristics of E. tetradactylum might be advantageous in the identification of the sex and the taxonomy of the hermaphrodite fish species.

Interaction between dietary and habitat niche breadth influences cetacean vulnerability to environmental disturbance

AbstractEcosystems are experiencing elevated levels of disturbance, and species with narrower niches are often more vulnerable to disturbances. Niche breadth is often measured in terms of either diet or habitat use but diet and spatial use are infrequently considered in tandem. These different aspects of niche breadth potentially expose species to different types of disturbances; species with narrow dietary niches may be more affected by disturbances that alter trophic relationships, while species with narrow habitat niches may be more vulnerable to habitat loss and point‐source pollutants. We examined dietary and habitat niche breadth of common bottlenose dolphins, Tursiops truncatus truncatus, from three different nearshore sites in the Gulf of Mexico (GoM). Using stable isotopes, we determined proportional contributions of different prey groups to dolphin diets at each site and through time at one site. We used satellite‐linked telemetry at two sites to determine habitat use and site fidelity. Additionally, we examined the literature on cetacean diet, habitat use, movement, and IUCN status to determine relationships between niche breadth and population status for different species. Dolphin diets varied among sites as available prey varied, but Perciformes fish were the most frequently consumed prey. At the site for which we had temporal data, dolphins consumed more cephalopods in 2015 and 2018 but otherwise consumed primarily Perciformes fish. Dolphins had small utilization distributions and exhibited high site fidelity. Data from 31 cetacean species revealed that most species with vulnerable, threatened, or endangered IUCN statuses not only have specialized diets but also exhibit high site fidelity. Dolphins had diet characteristic of flexible generalists but were habitat specialists with high site fidelity. Dolphin populations in the GoM may have altered their diets in response to environmental changes that have altered community composition and trophic dynamics. On the other hand, their high site fidelity has exposed them to point‐source pollutants, such as oil spills, persistent organic pollutants, and freshwater. Our broader analysis of cetaceans confirmed that species with specialized diets and high site fidelity were the most vulnerable to disturbances, providing a framework to predict which nearshore dolphin populations, and cetaceans in general, are most vulnerable to environmental changes.

Stock Assessment of 19 Perciformes in the Beibu Gulf, China, Using a Length-Based Bayesian Biomass Method

The Beibu Gulf in China is rich in fish resources. However, only a small number of commercially developed fish stocks have been specifically assessed owing to limited data and expertise. In this study, 19 perciform fish populations in the Beibu Gulf were assessed using a length-based Bayesian biomass (LBB) estimator method, which is a new approach to evaluate a fishery’s status using length frequency (LF) data. The results showed that only 21% of the evaluated stocks were healthy and 79% were overfished. In particular, 26 and 21% of the assessed species had collapsed and were grossly overfished, respectively. Only 11 and 21% of the assessed species were slightly overfished and overfished, respectively. The ratios between the mean and optimum length (Lmean/Lopt) and between the mean length at first capture and the mean length, which maximizes catch and biomass (Lc/Lc_opt), were below one in 14 out of the 19 stocks, suggesting a truncated length structure and fishing of undersized individuals. The ratio of the 95th percentile length to asymptotic length L95th/Linf was close to one (&amp;gt;0.9) in 10 of 19 stocks, suggesting that at least some large fish were still present. Our research confirmed that the fishery resources in the Beibu Gulf were seriously overfished and provided evidence that LBB was an efficient method to evaluate the fishery resources. Fishery managers need to take specific measures to restore fishery resources.

Presence of two RIG-I-like receptors, MDA5 and LGP2, and their dsRNA binding capacity in a perciform fish, the snakehead Channa argus

Fish retinoic acid-inducible gene I (RIG-I)-like receptors (RLRs) are critical RNA sensors in cytoplasm and are involved in antiviral innate immunity. However, some species of fish lack RIG-I gene, and the function of RLR members in RIG-I-absent fish is poorly understood. In the present study, MDA5, LGP2 and MAVS genes were identified in commercially important snakehead Channa argus. But, RIG-I gene was not found in this fish, and a systematic analysis of RLRs in available genome database of fish indicated the absence of RIG-I in the Acanthomorphata, Clupeiformes and Polypteriformes, suggesting that loss events of RIG-I gene may have occurred independently three times in the evolutionary history of fish. The MDA5, LGP2 and MAVS in snakehead have conserved protein domains and genomic location based on sequence, phylogenetic and syntenic analyses. These genes are constitutively expressed in healthy fish and can be induced by polyinosinic and polycytidylic acid (poly(I:C)) stimulation in vitro. It is further revealed that the snakehead MDA5 and LGP2 have binding capacity with dsRNA, such as poly(I:C), and MDA5 can interact with MAVS, implying the antiviral function of MDA5 in the RIG-I-absent fish.

Identification of type I and type II IFNs in a perciform fish, the snakehead Channa argus

Fish type I IFNs are classified into seven subgroups, including IFNe, IFNa, IFNd, IFNh, IFNb, IFNc and IFNf, which belong to three groups (I-III), while type II IFNs have only two members, IFN-γ and IFN-γrel. In the present study, four type I IFN (named as IFNc, IFNd1, IFNd2 and IFNh) and two type II IFN (IFN-γ and IFN-γrel) genes were identified in a perciform fish, the snakehead Channa argus, an aquaculturally important fish in some Asian countries, including China. The ORF of IFNc, IFNd1, IFNd2, IFNh, IFNG and IFNGrel genes consists of 549, 555, 591, 570, 606 and 564 nucleotides (nt), predicted to encode 182, 184, 196, 189, 201 and 187 amino acids (aa), respectively. The type I and type II IFNs share 58.2–73.5 % and 54.8–56.1 % amino acid sequence identities with those respectively in a perciform fish, mandarin fish (Siniperca chuatsi). It was found that the type I and II IFN genes are located at conserved loci when comparing to other fish. These snakehead IFNs are expressed constitutively in examined organs/tissues and are induced by polyI:C. In addition, four potential backbone groups (Group IIV) of type I IFNs, respectively represented by IFNe, IFNc, IFNf and IFNb in ancient teleost fish, were discussed in this study based on the known evidence, thus it provides a new hypothesis to understand the evolution of type I IFN in teleost fish.