Yangtze River Fisheries Research Institute

This paper reviews five of the eight species of acipenseriforms that occur in China, chiefly those of the Amur and Yangtze rivers. Kaluga Huso dauricus and Amur sturgeon Acipenser schrenckii are endemic to the Amur River. Both species still support fisheries, but stocks are declining due to overfishing. Acipenseriformes of the Yangtze River are primarily threatened by hydroelectric dams that block free passage to spawning and feeding areas. The Chinese paddlefish Psephurus gladius now is rare in the Yangtze River system, and its spawning activities were severely limited by completion of the Gezhouba Dam in 1981. Since 1988, only 3–10 adult paddlefishes per year have been found below the dam. Limited spawning still exists above the dam, but when the new Three Gorges Dam is complete, it will further threaten the paddlefish. Artificial propagation appears to be the only hope for preventing extinction of P. gladius, but it has yet to be successfully bred in captivity. Dabry’s sturgeon A. dabryanusis a small, exclusively freshwater sturgeon found only in the Yangtze River system. It is concentrated today in reaches of the main stream above Gezhouba Dam. The fishery has been closed since 1983, but populations continue to decline. Acipenserdabryanus has been cultured since the 1970s, and holds promise for commercial aquaculture; availability of aquacultural methods offer shope for enhancing natural populations. The Chinese sturgeon A. sinensis occurs in the Yangtze and Pearl rivers and seas of east Asia. There is still disagreement about the taxonomy of the Pearl and Yangtze River populations. The Yangtze River population is anadromous. Adults begin spawning at about age 14 years (males) and 21 years (females), and adults spend over 15 months in the river for reproduction. Spawning sites of A. sinensis were found every year since 1982 below the Gezhouba Dam, but it seems that insufficient suitable ground is available for spawning. Since 1983, commercial fishing has been prohibited but more measures need to be taken such as establishing protected areas and characterizing critical spawning, summering and wintering habitats.

Gut microbiota has shown tight and coordinated connection with various functions of its host such as metabolism, immunity, energy utilization, and health maintenance. To gain insight into whether gut microbes affect the metabolism of fish, we employed fast-growing transgenic common carp (Cyprinus carpio L.) to study the connections between its large body feature and gut microbes. Metagenome-based fingerprinting and high-throughput sequencing on bacterial 16S rRNA genes indicated that fish gut was dominated by Proteobacteria, Fusobacteria, Bacteroidetes and Firmicutes, which displayed significant differences between transgenic fish and wild-type controls. Analyses to study the association of gut microbes with the fish metabolism discovered three major phyla having significant relationships with the host metabolic factors. Biochemical and histological analyses indicated transgenic fish had increased carbohydrate but decreased lipid metabolisms. Additionally, transgenic fish has a significantly lower Bacteroidetes:Firmicutes ratio than that of wild-type controls, which is similar to mammals between obese and lean individuals. These findings suggest that gut microbiotas are associated with the growth of fast growing transgenic fish, and the relative abundance of Firmicutes over Bacteroidetes could be one of the factors contributing to its fast growth. Since the large body size of transgenic fish displays a proportional body growth, which is unlike obesity in human, the results together with the findings from others also suggest that the link between obesity and gut microbiota is likely more complex than a simple Bacteroidetes:Firmicutes ratio change.

This paper presents an update on the global sturgeon and caviar production until 2017, attempting to continue previous efforts on summarizing the global trends in these markets. For the current update, an expanded data base was derived from questionnaires sent to 86 regional contacts in 46 countries, mostly farmers or scientists, and personal interviews. A total of 2,329 commercial sturgeon farms were recorded by 2017 globally, which represented an increase by 7% compared to 2016. Of these farms 54% were located in China, followed by Russia (24%), the Middle East (8%), the Far East (7%) and Europe (6%). Among the rearing technologies flow-through (FT) systems (36%) were most common, followed by recirculation aquaculture systems (RAS) (21%), cages (18%), mix FT/RAS (11%), and ponds (6%). In total the aquaculture sturgeon biomass production peaked at about 129,608 t in the year 2015, with a decline to 119,979 t in 2016, and to 102,327 t in 2017. China contributed about 79,638 t to the overall production in 2017, followed by Russia (6,800 t), Armenia (6,000 t), Iran (2,514 t), and 52 other countries with less than 1,000 t each. This production exceeded the fishery harvest during the 1970–1980s by more than four times. Of the 25 species of Acipenseridae, 13 pure species and four hybrids were farmed for meat with Acipenser baerii dominating production in 2016 with a share of 39.5%, followed by the two hybrids, Huso dauricus × Acipenser schrenckii and A. baerii × A. schrenckii (35.6%), as well as A. schrenckii (10.2%). Global caviar production increased during the last years and the production for the year 2017 amounted to approximately 364 t. China contributed more than 100 t to the overall production in 2017, followed by Russia (49 t), Italy (43 t), France (37 t) and diverse other countries. The species composition in caviar production in 2016 was dominated by A. baerii (31% of the total volume), followed by Acipenser gueldenstaedtii (20%), the hybrid H. dauricus × A. schrenckii (13%), and Acipenser transmontanus (12%), while other species jointly contributed 24% to the overall yield. The trends of sturgeon meat and caviar productions of the last 5 years and the forecasts for the future suggest a short-term scenario in which the demand remains lower than the supply. In order to absorb the growing production, the market will have to be expanded by targeting new market segments.

Abstract Eggs, gills, skin and intestinal tracts of fish harbour bacterial communities that are thought to impact fish health through their interaction with the tissues. In particular, the gastrointestinal ( GI ) tract possesses numerous microbes and is considered an infection route. During the infections caused by pathogenic bacteria, mucosal adhesion is a critical early phase and plays an important role in fish development. This review focused on knowledge regarding the adherence and colonization of microorganisms in fish GI tract mucus, including various methods such as in vivo , in vitro , and ex vivo , host specificity, lactic acid bacteria nonfish origin using the adherence of pathogenic bacteria, gnotobiotic approaches and molecular methods. However, probiotics might not be possible to truly colonize the digestive tract of fish. The term ‘ temporal colonization ’ might be a better phrase to use when discussing probiotic persistence and presence within the mucosal layer. Recent and promising results in this field were presented based on new perspectives and future research directions of the adherence and colonization of microorganisms in fish GI tracts.

Overexploitation, habitat destruction, human-driven climate change and disease spread are resulting in the extinction of innumerable species, with amphibians being hit harder than most other groups [1Wake D.B. Vredenburg V.T. Are we in the midst of the sixth mass extinction? A view from the world of amphibians.Proc. Natl. Acad. Sci. USA. 2008; 105: 11466-11473Crossref PubMed Scopus (1152) Google Scholar]. Few species of amphibians are widespread, and those that are often represent complexes of multiple cryptic species. This is especially true for range-restricted salamanders [2Wu Y.H. Murphy R.W. Concordant species delimitation from multiple independent evidence: A case study with the Pachytriton brevipes complex (Caudata: Salamandridae).Mol. Phylogenet. Evol. 2015; 92: 108-117Crossref PubMed Scopus (10) Google Scholar]. Here, we used the widespread and critically endangered Chinese giant salamander (Andrias davidianus) to show how genetically uninformed management efforts can negatively affect species conservation. We find that this salamander consists of at least five species-level lineages. However, the extensive recent translocation of individuals between farms, where the vast majority of extant salamanders now live, has resulted in genetic homogenization. Mitochondrial DNA (mtDNA) haplotypes from northern China now predominate in farms. Unfortunately, hybrid offspring are being released back into the wild under well-intentioned, but misguided, conservation management. Our findings emphasize the necessity of genetic assessments for seemingly well-known, widespread species in conservation initiatives. Species serve as the primary unit for protection and management in conservation actions [3Mace G.M. The role of taxonomy in species conservation.Philos. Trans. R. Soc. Lond. 2004; 359: 711-719Crossref PubMed Scopus (539) Google Scholar], so determining the taxonomic status of threatened species is a major concern, especially for amphibians. The level of threat to amphibians may be underestimated, and existing conservation strategies may be inadvertently harmful if conducted without genetic assessment.

The anadromous Chinese sturgeon (Acipenser sinensis) is endangered and listed among the first class of protected animals in China. The possible causes for the decline of this species are the effects of synthetic chemicals, and loss of critical habitat. Chinese sturgeon in the Yangtze River have accumulated triphenyltin (TPT) to 31-128 ng/g wet weigh (ww) in liver, which is greater than the concentrations of tributyltin (<1.0 ng/g ww). Maternal transfer of TPT has resulted in concentrations of 25.5 +/- 13.0 ng/g ww in eggs of wild Chinese sturgeon, which poses a significant risk to the larvae naturally fertilized or hatched in the Yangtze River. The incidence of deformities in fry was 7.5%, with 1.2% of individuals exhibiting ocular abnormal development, and 6.3% exhibited skeletal/morphological deformations. The incidences of both ocular and skeletal/morphological deformations were directly proportional to the TPT concentration in the eggs of both the Chinese sturgeon and the Siberian sturgeon (Acipenser baerii) in controlled laboratory studies. The rates of deformities in the controlled studies were consistent with the rates caused at the similar concentrations in eggs collected from the field. Thus, TPT is the causal agent to induce the malformation of larvae of Chinese sturgeon. The incidence of deformed larvae of Chinese sturgeon is an indicator of overall population-level effects of TPT on Chinese sturgeon, because TPT at environmentally relevant concentrations can result in significantly decrease both quality and quantity of eggs and spawning frequency of fish.

N-(1,3-dimethylbutyl)-N'-phenyl-p-phenylenediamine (6PPD) is used as a ubiquitous rubber antioxidant worldwide and has been shown to be potentially toxic to aquatic organisms. In this study, zebrafish embryos were exposed to 6PPD for five days starting at two hours post-fertilization at concentrations of 0, 0.0022, 0.022, and 0.22 mg/L to investigate its effects on embryonic development, the growth hormone/insulin-like growth factor (GH/IGF) axis, and the hypothalamic-pituitary-thyroid (HPT) axis. The results showed that the 96 h LC50 of 6PPD was 2.2 mg/L. 6PPD exposure decreased hatchability, lowered autonomous movement, reduced body length in zebrafish embryos and caused deformities. The hormones levels and the expression of genes related to GH/IGF and HPT axis were altered after exposure to 6PPD in zebrafish larvae. These results indicated that the GH/IGF and HPT axis was disturbed. Moreover, treatment of 6PPD produced oxidative stress in zebrafish embryos. Overall, the present study thus demonstrated that exposure to 0.22 mg/L 6PPD caused developmental toxicity and disrupted the GH/IGF and HPT axis of zebrafish, which could be responsible for developmental impairment and growth inhibition.

Abstract Freshwater capture fisheries are globally essential for food security and aquatic biodiversity conservation. The Yangtze River Basin is the third longest and one of the most human‐influenced drainage basins worldwide. Since the founding of P. R. China in 1949, this large river system has suffered increasing human perturbation and its sustainable development is now severely challenged. Meta‐analysis showed that Yangtze River fisheries have experienced an extraordinary process of utilization–over‐exploitation–protection during the past 70 years, to an extent that other globally important rivers may never have encountered. Its fisheries appear to have collapsed over the past four decades, with yield decreasing to only 25% of an historical peak of 400,000 metric tonnes in the late 1950s. Endemic, migratory and rare fishes have been highly threatened with obvious changes in fish community structure and aquatic biodiversity. Anthropogenic activities, including impoundment of water in dams, discharge of pollutants and riverine modification for vessel navigation, have caused large decreases in fisheries yields. Projections from surplus production modelling showed potential for improvement under fishing ban scenarios, but without any prospect for full recovery to historical stock status. This study revealed that the change in fisheries resources was dominated by the social–ecological watershed system, and an integrated approach to river basin management is warranted. Better management of freshwater ecosystems to integrate food security with biodiversity conservation is urgently needed throughout the world, and the changes evident in the Yangtze River fish populations can serve as an informative global reference.

Cryopreservation causes osmotic changes and oxidative damage that have sublethal and lethal effects on spermatozoa. We examined these osmotic and oxidative effects on common carp spermatozoa motility; membrane integrity; levels of thiobarbituric-acid-reactive substance (TBARS) and carbonyl groups (CP); and the activity of superoxide dismutase (SOD), glutathione reductase, and glutathione peroxidase (GPx). Sperm was diluted in dimethyl sulfoxide (DMSO) and ethylene glycol-based extenders, followed by equilibration, freezing, and thawing. Equilibration in DMSO extender resulted in a significant reduction of spermatozoa motility, but motility was induced in those spermatozoa following dilution with saline buffer, which usually inhibits undiluted spermatozoa motility. Spermatozoa velocity and membrane integrity decreased with both extenders following freezing and thawing. No significant difference in levels of TBARS or CP, or in SOD activity, was seen in samples equilibrated with either extender. The freeze/thaw process induced significantly higher levels of TBARS, CP, and GPx activity, but did not affect the level of SOD. Glutathione reductase activity was inhibited in samples exposed to DMSO extender. Ethylene glycol should be considered a preferred cryoprotective agent for common carp spermatozoa to reduce osmotic and oxidative stress during cryopreservation.

It is critical to investigate the tissue distribution and maternal transfer of poly- and perfluorinated compounds (PFCs) in wild fish for assessing potential effects on ecosystems. Concentrations of 23 PFCs in nine organs and egg were measured in 16 17- to 25-year-old female Chinese sturgeon (Acipenser sinensis, an anadromous fish), that died during propagation. Three polyfluorinated amides were detected in stomach, intestine, and gills and 7:3 FTCA was specifically accumulated in liver. The greatest total concentration of PFCs in egg was 35.1 +/- 10.4 ng/g ww and was predominated by perfluorooctane sulfonate (PFOS) and perfluorotridecanoate acid (PFTriDA). The longer-chain C(11)-C(14) and C(16) perfluorinated carboxylates were more accumulated in Chinese sturgeon than PFOS, partly due to the increasing trends of PFCAs with fish age. Maternal transfer ratios of PFCs expressed as ratios of concentrations in the egg to those in the liver ranged from 0.79 (perfluorooctanoate) to 5.5 (PFTriDA), depending on their carbon chain lengths or protein-water coefficients. The PFOS equivalent of PFC mixtures, calculated by multiplying the relative potency factor of each PFC to PFOS by the corresponding concentration, ranged from 90.6 to 262 ng/g. The hazard quotient was 0.20, implying potential reproductive effects of PFCs on Chinese sturgeon.

BACKGROUND: A large number of single nucleotide polymorphisms (SNPs) have been identified in common carp (Cyprinus carpio) but, as yet, no high-throughput genotyping platform is available for this species. C. carpio is an important aquaculture species that accounts for nearly 14% of freshwater aquaculture production worldwide. We have developed an array for C. carpio with 250,000 SNPs and evaluated its performance using samples from various strains of C. carpio. RESULTS: The SNPs used on the array were selected from two resources: the transcribed sequences from RNA-seq data of four strains of C. carpio, and the genome re-sequencing data of five strains of C. carpio. The 250,000 SNPs on the resulting array are distributed evenly across the reference C.carpio genome with an average spacing of 6.6 kb. To evaluate the SNP array, 1,072 C. carpio samples were collected and tested. Of the 250,000 SNPs on the array, 185,150 (74.06%) were found to be polymorphic sites. Genotyping accuracy was checked using genotyping data from a group of full-siblings and their parents, and over 99.8% of the qualified SNPs were found to be reliable. Analysis of the linkage disequilibrium on all samples and on three domestic C.carpio strains revealed that the latter had the longer haplotype blocks. We also evaluated our SNP array on 80 samples from eight species related to C. carpio, with from 53,526 to 71,984 polymorphic SNPs. An identity by state analysis divided all the samples into three clusters; most of the C. carpio strains formed the largest cluster. CONCLUSIONS: The Carp SNP array described here is the first high-throughput genotyping platform for C. carpio. Our evaluation of this array indicates that it will be valuable for farmed carp and for genetic and population biology studies in C. carpio and related species.

A 9-week feeding experiment was conducted to investigate the effects of dietary bile acids (BAs) on juvenile genetically improved farmed tilapia (GIFT) (Oreochromis niloticus) based on the evaluations of growth performance and parameters relevant to lipid metabolism. Each of five vegetable protein-based diets containing BAs at a level of 0, 0.05, 0.15, 0.45 or 1.35 g/kg diet was fed to three replicates with 40 fish (8.2 g per fish). The results showed that weight gain (WG) increased significantly with the increase in BAs from 0 to 0.15 g/kg diet and then decreased significantly at a higher BA supplementation. Dietary BAs significantly reduced the crude lipid content in the whole body, muscle and liver tissue of GIFT. Fish fed diet with 1.35 g BAs/kg diet developed serious nuclear migration and vacuolization in hepatocytes. Gall bladder appeared to contain white solid and has fragile capsules. Dietary BA supplementation had significant effects on serum biochemical indices and activities of lipid metabolism enzymes in liver and intestine. In conclusion, dietary bile acid supplementation (0.15 g/kg) can facilitate the lipid metabolism and therefore promote the growth of tilapia. However, overdosed dietary BAs induced gallstone development, disrupted lipid metabolism and depressed the growth performances of GIFT.

The authors examined the current status of sturgeon aquaculture in China, including its geographic distribution, an account on farmed species, overall production trends, state of controlled reproduction, seedling output and export. The study is based on a nationwide survey of 125 farms undertaken July and August 2009 together with data from previous studies. The census shows that: (i) the main provinces in increasing order of production are Sichuan (including Chongqing), Beijing, Hubei, Shandong and Hunan, (ii) Acipenser baerii, (and its hybrids) and A. schrenckii are the dominant cultured species, accounting for 95% of the total production, (iii) the production of farmed sturgeon has experienced a steady increase, from 17 424 t in 2006 to 21 000 t in 2009, (iv) the total reserves of captive stocks have continuously increased, reaching at present an estimated 1.22 million individuals, (v) the total supply of fertilized eggs or larvae from farmed broodstocks in China has gone up during the past 3 years, and can now basically meet the domestic demand for farming, while the number of seedlings obtained from the wild and imported from other countries gradually declined, and (vi) since 2006, China has started to export farmed caviar and the exports have been increasing year by year, meanwhile, the number of caviar processing factories has also increased. Moreover, other value-added products derived from farmed sturgeon (e.g. medical and health products, cosmetics, leather etc.) appeared in recent years on China markets. Corresponding to the sturgeon aquaculture development in China, some additional future aquaculture strategies are discussed: (i) make full use of the resources, (ii) strengthen management strategies and upgrade the culture techniques, (iii) develop and implement labeling systems for good quality control, (iv) foster deep-processing (value added products) in sturgeon farming to widen market options, (v) enhance extensive genetic studies and research on gynogenesis and cryopreservation of gametes for better resource management, (vi) improve the knowledge on early sex-differentiation in sturgeon, and (vii) prepare standards for management of sustainable sturgeon aquaculture. Considering the current progress of sturgeon aquaculture, the prospects of future sturgeon farming are assessed: (i) there will be a potential for considerable aquaculture to serve the caviar market, and farmed caviar may replace wild products, (ii) product diversification will increase and target for export markets, (iii) hatchery operations to produce juveniles from controlled reproduction will completely replace supply from wild and imported resources, and (iv) an industry chain will be gradually established to ensure sustainable sturgeon aquaculture production in China.

The authors reviewed the aquacultural history of Acipenseriformes in China, related the legal status and examined the current status of the cultured species or hybrids, origins of seedlings, quantities of production, geographic distribution in farming, and the sustainability for both restocking programmes and human consumption. The census shows that since 2000, the production of cultured sturgeons in China appears to have become the largest in the world. As of 2000, the rapid growth of sturgeon farming in China mainly for commercial purposes has shifted harvests in the Amur River from caviar production to the artificial culture of sturgeon seedlings. This dramatic development has also caused a series of extant and potential problems, including insufficient market availability and the impact of exotic sturgeons on indigenous sturgeon species. Annual preservation of sufficient higher-age sturgeons should be a national priority in order to establish a sustainable sturgeon-culture industry and to preserve a gene pool of critically endangered sturgeon species to prevent their extinction.

AIMS: A study was conducted to compare the intestinal microbial compositions of two fish species with similar feeding strategy; paddlefish (Polyodon spathala) and bighead carp (Aristichthys nobilis) reared in the same pond. METHODS AND RESULTS: Age-0 paddlefish and bighead carp with mean average body lengths of 43·39 ± 2·78 and 19·33 ± 3·68 cm, respectively, were reared with natural prey items in the same pond (20 m(2)). After 30 days of rearing, the intestinal microbiota of the two fish species was assessed by pyrosequencing of 16S rRNA genes. Interestingly, deviations were observed in the microbial communities of the two fish species according to the alpha- and beta-diversity measurements and detrended correspondence analysis (DCA). Shannon diversity (P = 0·015) and Pielou.evenness (P = 0·035) revealed significant lower diversity of the intestinal microbiota of paddlefish. Moreover, different core intestinal microbiota was noticed in the two fish species. Proteobacteria (57·3%), Firmicutes (11·9%), Fusobacteria (8·9%), Planctomycetes (7·3%), Actinobacteria (6·0%) and Verrucomicrobia (3·2%) were detected in bighead carp, while the dominant phyla in paddlefish intestines were Bacteroidetes (37·0%), Fusobacteria (35·1%), Firmicutes (14·8%) and Proteobacteria (12·6%). CONCLUSIONS: Our results revealed that the intestinal microbiota differed between paddlefish and bighead carp reared in the same pond when fed similar nature food. The potential host factors, such as the genetic background, gut histology and physiology are assumed to be involved in the intestinal bacterial compositions. SIGNIFICANCE AND IMPACT OF THE STUDY: Considering the similar feeding strategy of paddlefish and bighead carp, this study presents basic knowledge for evaluation of the importance of host factors (genetic background and gut anatomy) on intestinal microbial composition.

BACKGROUND: The Chinese sturgeon (Acipenser sinensis) is endangered through anthropogenic activities including over-fishing, damming, shipping, and pollution. Controlled reproduction has been adopted and successfully conducted for conservation. However, little information is available on the reproductive regulation of the species. In this study, we conducted de novo transcriptome assembly of the gonad tissue to create a comprehensive dataset for A. sinensis. RESULTS: The Illumina sequencing platform was adopted to obtain 47,333,701 and 47,229,705 high quality reads from testis and ovary cDNA libraries generated from three-year-old A. sinensis. We identified 86,027 unigenes of which 30,268 were annotated in the NCBI non-redundant protein database and 28,281 were annotated in the Swiss-prot database. Among the annotated unigenes, 26,152 and 7,734 unigenes, respectively, were assigned to gene ontology categories and clusters of orthologous groups. In addition, 12,557 unigenes were mapped to 231 pathways in the Kyoto Encyclopedia of Genes and Genomes Pathway database. A total of 1,896 unigenes, potentially differentially expressed between the two gonad types, were found, with 1,894 predicted to be up-regulated in ovary and only two in testis. Fifty-five potential gametogenesis-related genes were screened in the transcriptome and 34 genes with significant matches were found. Besides, more paralogs of 11 genes in three gene families (sox, apolipoprotein and cyclin) were found in A. sinensis compared to their orthologs in the diploid Danio rerio. In addition, 12,151 putative simple sequence repeats (SSRs) were detected. CONCLUSIONS: This study provides the first de novo transcriptome analysis currently available for A. sinensis. The transcriptomic data represents the fundamental resource for future research on the mechanism of early gametogenesis in sturgeons. The SSRs identified in this work will be valuable for assessment of genetic diversity of wild fish and genealogy management of cultured fish.

A novel fish reovirus, Hubei grass carp disease reovirus (HGDRV; formerly grass carp reovirus strain 104, GCRV104), was isolated from diseased grass carp in China in 2009 and the full genome sequence was determined. This reovirus was propagated in a grass carp kidney cell line with a typical cytopathic effect. The total size of the genome was 23 706 bp with a 51 mol% G+C content, and the 11 dsRNA segments encoded 12 proteins (two proteins encoded by segment 11). A nucleotide sequence similarity search using blastn found no significant matches except for segment 2, which partially matched that of the RNA-dependent RNA polymerase (RdRp) from several viruses in the genera Aquareovirus and Orthoreovirus of the family Reoviridae. At the amino acid level, seven segments (Seg-1 to Seg-6, and Seg-8) matched with species in the genera Aquareovirus (15-46 % identities) and Orthoreovirus (12-44 % identities), while for four segments (Seg-7, Seg-9, Seg-10 and Seg-11) no similarities in these genera were found. Conserved terminal sequences, 5'-GAAUU----UCAUC-3', were found in each HGDRV segment at the 5' and 3' ends, and the 5'-terminal nucleotides were different from any known species in the genus Aquareovirus. Phylogenetic analysis based on RdRp amino acid sequences from members of the family Reoviridae showed that HGDRV clustered with aquareoviruses prior to joining a branch common with orthoreoviruses. Based on these observations, we propose that HGDRV is a new species in the genus Aquareovirus that is distantly related to any known species within this genus.

The Yangtze River is the longest river in China and is divided into upstream and mid-downstream regions by the Three Gorges (the natural barriers of the Yangtze River), resulting in a complex distribution of fish. Dramatic changes to habitat environments may ultimately threaten fish survival; thus, it is necessary to evaluate the genetic diversity and propose protective measures. Species identification is the most significant task in many fields of biological research and in conservation efforts. DNA barcoding, which constitutes the analysis of a short fragment of the mitochondrial cytochrome c oxidase subunit I (COI) sequence, has been widely used for species identification. In this study, we collected 561 COI barcode sequences from 35 fish from the midstream of the Yangtze River. The intraspecific distances of all species were below 2% (with the exception of Acheilognathus macropterus and Hemibarbus maculatus). Nevertheless, all species could be unambiguously identified from the trees, barcoding gaps and taxonomic resolution ratio values. Furthermore, the COI barcode diversity was found to be low (≤0.5%), with the exception of H. maculatus (0.87%), A. macropterus (2.02%) and Saurogobio dabryi (0.82%). No or few shared haplotypes were detected between the upstream and downstream populations for ten species with overall nucleotide diversities greater than 0.00%, which indicated the likelihood of significant population genetic structuring. Our analyses indicated that DNA barcoding is an effective tool for the identification of cyprinidae fish in the midstream of the Yangtze River. It is vital that some protective measures be taken immediately because of the low COI barcode diversity.

BACKGROUND: Largemouth bronze gudgeon (Coreius guichenoti) is of economic importance in China, distributed in upstream regions of the Yangtze River in China. But it has recently dramatically declined and is close to elimination. However, there is little knowing about the character of its intestinal microbiota. This study was conducted to elucidate the intestinal microbiota of wild largemouth bronze gudgeon with different body weight and gender. RESULTS: Thirty wild largemouth bronze gudgeon were measured for body length and body weight, and identified for male and female according to gonadal development, and thereafter the intestinal microbiota's were assessed by MiSeq sequencing of 16S rRNA genes. The results revealed that phyla Proteobacteria and Tenericutes were dominant in wild largemouth bronze gudgeon intestine independent of the body weight. Shannon's and Inverse Simpson's diversity indexes were significant (P < 0.05) different between male and female fish. The phylum profile in the intestine of male fish revealed that phylum Proteobacteria was dominant, in contrast to female fish where five phyla Tenericutes, Proteobacteria, Firmicutes, Fusobacteria and Spirochaetes were dominant. The genus profile revealed that genera Shewanella and Unclassified bacteria were dominant in male fish, while genus Mycoplasma was dominant in female fish. CONCLUSIONS: Our results revealed that the intestinal microbial community of wild largemouth bronze gudgeon was dominated by the phyla Proteobacteria and Tenericutes regardless of the different body weight, but the communities are significant different between male and female fish. These results provide a theoretical basis to understand the biological mechanisms relevant to the protection of the endangered fish species.