Rainbow Trout Samples Research Articles

Development of polymorphic simple sequences repeats markers from whole gene resequencing data comparison of 68 Oncorhynchus mykiss

Rainbow trout (Oncorhynchus mykiss) is a significant cold-water fish farmed in China. Currently, most molecular marker-assisted breeding applications in rainbow trout rely on SSR markers. Although many rainbow trout SSR markers have been developed, methods for mining many polymorphic SSR markers from the genome and identifying them efficiently and rapidly are still lacking. For this reason, this study used in silico simulation method to rapidly develop a large number of polymorphic SSR markers quickly. A total of 354,613 SSR loci with two to six nucleotide repeat motifs were mined from 32 chromosomes of the rainbow trout reference genome using GMATA. The chromosome sequences of the reference genome were then aligned to the whole genome sequencing data (10×) of 68 rainbow trout samples. In silico genotyping was performed using the HipSTR programme to compare and count the variation in the number of repeats of the motifs of the SSR loci in the samples. The loci with high deletion rates and monomorphism were discarded, while those with more than one non-reference allele were kept. The final set of polymorphic SSR loci screened was 78,828. Finally, 4,821 SSR loci were selected with more than 3 alleles and no deletion in all rainbow trout samples and were physically mapped. The average polymorphic information content of these loci was 0.692, indicating high levels of polymorphism. These SSRs were utilized to analyse the genetic diversity and population structure of the 68 rainbow trout samples. The results showed that these 68 samples were divided into two groups. These newly discovered polymorphic SSR markers will provide valuable information for evaluating the construction of rainbow trout family lines for genetic diversity and improvement.

At-sea application of the comet assay to a deep-sea fish

Given the go ahead, deep-sea mining operations are likely to continue for decades on a substantial spatial scale and the resulting sediment plumes combined, are likely to extend beyond the licenced mining areas, and could lead to the chronic exposure of deep-sea organisms to a mixture of metals, even mobile species, such as fish, that could conceivably display avoidance behaviour. The metal concentrations, often substantially below lethal doses, mean that individual mortality is too blunt a measure to allow assessment of “serious harm”. Commonly used cellular biomarkers of exposure in ecotoxicology include DNA damage using the Comet assay. True deep-sea ecotoxicological studies with fish are rare and to our knowledge, there are no published data or method optimizations for deep-sea fish. Coryphaenoides ssp. were collected during SMARTEX expedition 1 (Feb/Mar, 2023) to the Clarion Clipperton Zone (CCZ) in the Eastern Pacific Ocean using a baited trap deployed between 4580–4,732m depth for 24–48 h. Blood and gill tissue were removed and processed for the Comet assay. In order to reduce artefactual DNA damage from cryopreservation observed previously, two sets of samples were prepared: a cryopreservative (10% DMSO) was added to one set of samples and stored at −80 °C; the second set was used to perform a Comet assay within hours of collection. A custom-built gimble table enabled horizontal electrophoresis at sea after which Comet assay slides were dried and stored at room temperature until further analysis. The Comet assay was also assessed in freshly sampled and frozen rainbow trout cells as a proxy control in order to evaluate potential artefacts from the collection and sampling procedure of the deep-sea fish. The blood samples processed at sea had a significantly reduced level of DNA damage compared to the frozen samples. There was no significant difference between the fresh deep-sea and rainbow trout samples. However, the freshly prepared gill samples in Coryphaenoides ssp. showed substantial artefacts, possibly as a consequence of barotrauma. These results represent the first effort at establishing baseline DNA damage data for deep-sea fish, an essential component in understating and quantifying the impact of deep-sea mining.

Probiotic Bacillus amyloliquefaciens B-1895 Improved Growth of Juvenile Trout.

The aim of this study was to evaluate a new Bacillus amyloliquefaciens B-1895 probiotic as a feed additive for farmed trout. Final weight, absolute and average daily gain of fish, and average daily growth rate were higher in the group that received the probiotic than in the control group (p<0.05). Moreover, the probiotic-fed trout had more intense growth rates than the control group (higher by 15.7%; p<0.05). A decrease in feed ratio was also observed in the group that received probiotic (25% decrease; p<0.05), indicating more efficient digestion and assimilation of feed. In general, the introduction of probiotic in the feed did not adversely affect the functional status of the fish. In young trout of the control group, when assessing the general chemical composition of the organism in the muscle tissue revealed significantly (p≤0.001) higher level of moisture content by 5.1% and lower by 11.0% dry matter content. In muscle, the protein content was higher by 1.33% (p≤0.001) and fat content by 2.1% (p≤0.001) in experimental fish. Generally, Lactobacilli, Enterococcus, Vibrio, Bacillus, and coliform bacteria were found in the intestinal samples of rainbow trout. Significant reliable difference (p≤0.05) between the samples of experimental and control groups was noted in the content of Bacillus bacteria. In the control group, 5.0±0.4×103 CFU/g was detected, while in the experimental group 8.4±0.8×104 CFU/g. Overall, the data indicate that probiotic bacteria B. amyloliquefaciens B-1895 has no adverse effect on selected microorganisms in the study fish.

The Effect of Fruit and Berry Pomaces on the Growth Dynamics of Microorganisms and Sensory Properties of Marinated Rainbow Trout.

Plant pomaces in suitable forms (powders, extracts) can be used in foods of animal origin to increase the nutritional value and safety of these foods. In the present study, water extracts of apple, black currant, rhubarb and tomato pomaces were used in fish marinade solutions to evaluate their effect on the growth dynamics of microorganisms and the growth potential of Listeria monocytogenes by challenge testing. The results showed that mesophilic aerobic microorganisms, Pseudomonas spp., yeasts and moulds remained at acceptable levels throughout the predetermined storage period. The challenge test results showed that the overall growth potential of L. monocytogenes in all marinated rainbow trout samples remained at ≤0.5 log10 cfu/g during the study period, and none of the marinated fish samples supported the growth of L. monocytogenes. In addition, the effect of fruit and berry pomaces on the sensory properties of marinated rainbow trout samples was evaluated. The results revealed that it is possible to effectively use fruit and berry pomaces in marinated fish products, ensuring food safety, high microbiological quality, acceptable sensory characteristics and a sufficiently long shelf life of the products.

Host associated genotypes in the family Branchiomonaceae with proposal of Ca. Branchiomonas mykissicola n. sp. from rainbow trout (Oncorhynchus mykiss)

Candidatus Branchiomonas cysticola is the primary etiological agent of epitheliocystis and the most prevalent bacterium associated with gill disease (GD) in farmed Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss) in Norway. Partial sequencing of seven of the bacterium's partial housekeeping (HK) genes (aceE, dnaK, lepA, gltA, rplB, rpoC, and typA) revealed few genetic differences, irrespective of geographic origin, reservoirs, and fish populations. Candidatus Branchiomonas cysticola sequenced from gill samples of wild and farmed salmon in Norway and United Kingdom likely represents a single clonal complex (CC). Highly divergent genotypes were, however, identified from gill samples of rainbow trout. Real-time reverse transcriptase PCR (real-time RT-PCR) and fluorescence in-situ hybridization (FISH) showed putative host-specific properties of the bacterial genotypes isolated from salmon and rainbow trout. Sequencing of the 16S and 23S rRNA ribosomal subunits from gills of these two hosts and from other fish species testing positive for Ca. B. cysticola revealed single nucleotide polymorphisms (SNPs). These results support the existence of host-associated bacteria and suggest a strong selection towards host-specific variants of Branchiomonas. A novel host-specific bacterial species from gill samples of rainbow trout, named Candidatus Branchiomonas mykissicola, has therefore been proposed.

Tracking Microbial Diversity and Hygienic-Sanitary Status during Processing of Farmed Rainbow Trout (Oncorhynchus mykiss).

Aquaculture is becoming a strategic sector for many national economies to supply the increasing demand for fish from consumers. Fish culture conditions and processing operations can lead to an increase in microbial contamination of farmed fish that may shorten the shelf-life of fish products and byproducts, and ready-to-eat fishery products. The objective of this study was to evaluate the hygienic-sanitary status of water, environment, and processing of fresh-farmed rainbow trout (Oncorhynchus mykiss) fillets produced in a local fish farm in Andalusia, Spain. To achieve this, a longitudinal study was carried out by collecting environmental (air and food-contact surfaces), water from fish ponds, and rainbow trout samples. Thereby, seven sampling visits were performed between February 2021 and July 2022, where foodborne pathogens and spoilage microorganisms, together with physicochemical parameters, were analysed in the collected samples. Further, microbial identification of microbiota was achieved through a culture-dependent technique using blast analysis of 16S RNA gene sequencing. The results showed that Listeria monocytogenes and Salmonella were not detected in the analysed samples. Regarding the hygienic-sanitary status of the fish farm, the slaughtering bath, the eviscerating machine and the outlet water from fish ponds presented the highest counts of coliforms, Enterobacteriaceae, and Aerobic Mesophilic Bacteria. Staphylococcus aureus and sulphite-reducing Clostridium were identified in the conveyor belts, fish flesh, and viscera. The 16S RNA identification confirmed the presence of viable spoilage bacteria such as Citrobacter gillenii, Macrococcus caseolyticus, Hafnia paralvei, Lactococcus lactis, Lactococcus cremoris, Klebsiella, Escherichia coli, Morganella morganii, and Shewanella. Three of these genera (Citrobacter, Hafnia, and Pseudomonas) were present in all types of samples analysed. The results evidenced potential transmission of microbial contamination from contaminated packaging belts and boxes, evisceration and filleting machines to flesh and viscera samples, thus the establishment of control measures should be implemented in fish farm facilities to extend the shelf-life of farmed fishery products.

Quality of Rainbow Trout (Oncorhynchus mykiss) Reared in Recirculating Aquaculture System and during Depuration Based on Chemical and Sensory Analysis

In recirculating aquaculture systems (RAS), off-flavors can accumulate in fish muscle tissue. They are problematic for consumer acceptance and the reputation of farmed fish products. Although off-flavors are not toxic at low concentrations, they often give fish muscle earthy, muddy, or other unwanted flavors. Traditionally, the study of off-flavors in fish focused on muddy and earthy off-flavors caused by geosmin (GSM) and 2-methylisoborneol (MIB), but other unwanted flavors and compounds have also been identified. In this study, the selected off-flavors were chemically quantified in fish from a RAS-rearing rainbow trout (Oncorhynchus mykiss) and in different stages of depuration. A group of trained panelists with experience in sensory evaluation was specifically trained in analyzing rainbow trout samples. The panelists evaluated the fish with a sensory profile of 29 sensory attributes (12 odor, 5 taste, and 12 flavor properties). Overall, the concentrations of all the studied off-flavor compounds decreased, some to below the limit of detection and others (e.g., octanal, octanoic acid, phenylacetaldehyde, and acetoin) to a certain low level. Moldy, earthy, and musty odors and flavors especially decreased during depuration compared to fish in RAS. This study shows the consistency of the chemical analysis and sensory profiling. It also provides important information about the effects of the depuration period in RAS and on the chemical and sensorial quality of rainbow trout.

High Pressure Processing Has Variable Effects on Protein-Related and Sensory Properties of Cold and Hot Smoked Rainbow Trout

High pressure processing (HPP) is a state-of-the-art food preservation method that can be applied to many types of food items, including fish products. HPP has been found to affect fish protein conformation, with potentially positive effects on protein digestibility, but detrimental effects on sensory quality. In this study, cold and hot smoked rainbow trout samples (CSRT and HSRT, respectively) were treated with 200, 400, and 600 MPa at 4 °C for 3 min and tested for solubility of proteins (SP) and water holding capacity (WHC). Level of proteolysis (LP) was tested in an in vitro digestion model. A consumer panel evaluated sensory properties with the Rate-All-That-Apply method. Treatment at 200 MPa positively affected LP in HSRT, while SP and WHC were reduced in CSRT with increasing pressure. HPP also significantly affected texture, appearance, and appeal, especially of CSRT samples. Reduction in SP and WHC contributed to colour changes in CSRT treated with 600 MPa. It was concluded that HPP had more pronounced effects on physicochemical and sensory properties of CSRT than HSRT. The results highlight the importance of optimising the HPP parameters for each product type, in order to minimise the potentially negative effects on protein-related properties and sensory quality.

Particle size influences decay rates of environmental DNA in aquatic systems.

Environmental DNA (eDNA) analysis is a powerful tool for remote detection of target organisms. However, obtaining quantitative and longitudinal information from eDNA data is challenging, requiring a deep understanding of eDNA ecology. Notably, if the various size components of eDNA decay at different rates, and we can separate them within a sample, their changing proportions could be used to obtain longitudinal dynamics information on targets. To test this possibility, we conducted an aquatic mesocosm experiment in which we separated fish-derived eDNA components using sequential filtration to evaluate the decay rate and changing proportion of various eDNA particle sizes over time. We then fit four alternative mathematical decay models to the data, building towards a predictive framework to interpret eDNA data from various particle sizes. We found that medium-sized particles (1-10μm) decayed more slowly than other size classes (i.e., <1 and > 10μm), and thus made up an increasing proportion of eDNA particles over time. We also observed distinct eDNA particle size distribution (PSD) between our Common carp and Rainbow trout samples, suggesting that target-specific assays are required to determine starting eDNA PSDs. Additionally, we found evidence that different sizes of eDNA particles do not decay independently, with particle size conversion replenishing smaller particles over time. Nonetheless, a parsimonious mathematical model where particle sizes decay independently best explained the data. Given these results, we suggest a framework to discern target distance and abundance with eDNA data by applying sequential filtration, which theoretically has both metabarcoding and single-target applications.

Veterinary and sanitary examination of rainbow trout samples (&lt;I&gt;Onchorinchus mykiss&lt;/I&gt;) with the application of the drug "SMARTBIOTIC

Veterinary and sanitary examination is an extensive set of measures aimed at assessing the quality and safety of raw materials of various origins. As you know, fish is a perishable product, so it is also subject to a thorough veterinary and sanitary examination. To improve the quality and safety of raw materials, currently, biologically active substances are used in almost all branches of agriculture. Some feed additives, in turn, have a beneficial effect on the immune system. When using the drug "SmartBiotic" in concentrations of 0.15% and 0.25%, the organoleptic parameters were within normal limits, there were no traces of muscle tissue decay, samples for hydrogen sulfide and ammonia were negative. It is shown that the drug "SmartBiotic", developed on the basis of humic acids, has a beneficial effect on the quality and safety of products and can be recommended for use in fish farming.

Genomic insight into Chryseobacterium turcicum sp. nov. and Chryseobacterium muglaense sp. nov. isolated from farmed rainbow trout in Turkey

Four strains, designated as C-2, C-17T, C-39T and Ch-15, were isolated from farmed rainbow trout samples showing clinical signs during an investigation for a fish-health screening study. The pairwise 16S rRNA gene sequence analysis showed that strain C-17T shared the highest identity level of 98.1 % with the type strain of Chryseobacterium piscium LMG 23089T while strains C-2, C-39T and Ch-15 were closely related to Chryseobacterium balustinum DSM 16775T with an identity level of 99.3 %. A polyphasic approach involving phenotypic, chemotaxonomic and genome-based analyses was employed to determine the taxonomic provenance of the strains. The overall genome relatedness indices including dDDH and ANI analyses confirmed that strains C-2, C-17T, C-39T and Ch-15 formed two novel species within the genus Chryseobacterium. Chemotaxonomic analyses showed that strains C-17T and C-39T have typical characteristics of the genus Chryseobacterium by having phosphatidylethanolamine in their polar lipid profile, MK-6 as only isoprenoid quinone and the presence of iso-C15:0 as major fatty acid. The genome size and G + C content of the strains ranged between 4.4 and 5.0 Mb and 33.5 – 33.6 %, respectively. Comprehensive genome analyses revealed that the strains have antimicrobial resistance genes, prophages and horizontally acquired genes in addition to secondary metabolite-coding gene clusters. In conclusion, based on the polyphasic analyses conducted on the present study, strains C-17T and C-39T are representatives of two novel species within the genus Chryseobacterium, for which the names Chryseobacterium turcicum sp. nov. and Chryseobacterium muglaense sp. nov. with the type strains C-17T (=JCM 34190T = KCTC 82250T) and C-39T (=JCM 34191T = KCTC 822251T), respectively, are proposed.

Effects of heavy pollution in different water bodies on male rainbow trout (Oncorhynchus mykiss) reproductive health.

This research aimed to investigate the influence of heavy metals on the reproductive health of rainbow trout (Oncorhynchus mykiss) captured from two locations, Verinag (S1) and Panzath (S2). Sixty (n. 60) mature rainbow trout samples (30 from each site) with body weights ranging from 400 to 650g were collected from Verinag hatchery, which was less polluted (S1), and Panzath hatchery, which was more polluted (S2). The findings revealed significant differences between the two sites, S1 (less polluted) and S2 (more polluted), as well as significant variations within the tissues. Iron (Fe) and Zinc (Zn) were found to be highest in sampling water as well as in fish tissues sampled from S2 sites. Similarly, concerning S1 captured fishes, histopathological examination of testes from S2 captured fish was found. Testicular abnormalities that included disorganization of the seminiferous tubules, reduction in the number of germ cells (sperm cells, spermatozoa), vacuolization, and large empty areas in the seminiferous epithelium were found. In testicular cells, the frequency of apoptotic cells collected from S2 water increased significantly (P < 0.05). SOD, catalase, and glutathione peroxidase activity increased in S1 captured fishes but decreased in S2 captured fishes. MDA levels gradually increased in S2 captured fish, and the degree of heavy metal stress was positively correlated (P < 0.05). In male rainbow trout, testosterone and 11-ketotestosterone levels increased substantially in S1 captured fishes. While the fatty acids of testes in S2 fishes decreased with respect to S1 fishes. In conclusion, S2 captured fish suffered more damage due to heavy metals including cellular damage, apoptosis, oxidative damage, and altered steroid hormones when compared to fish from S1 waters.

Determination of hydrogen sulfide in samples of rainbow trout (&lt;i&gt;Oncorynchys mykiss&lt;/i&gt;) using "SmartBiotic"

By now biological additives are used in almost all branches of agriculture to improve the quality and safety of food products.Fish is a perishable product due to its biochemical composition. One of the indicators of fish spoilage is the detection of hydrogen sulfide in samples. The purpose of our study was to determine the effect of the use of the drug "SmartBiotic", produced on the basis of humic acids, on the quality and safety of the fish products obtained, namely, the detection of free ammonia in the selected samples of rainbow trout. Three groups of rainbow trout fingerlings (Oncorhynchus mykiss) were formed to conduct the study. One group served as a control, and the other two were experimental subjects. The first experimental group of fingerlings received the drug at a concentration of 0.15%, and the second experimental group – at a dose of 0.25%. In the control group of rainbow trout, the drug "SmartBiotic" wasn’t used.

ANALYSIS OF ORGANOLEPTIC PARAMETERS OF RAINBOW TROUT (ONCHORYNCHYS MYKISS) WHEN USING THE DRUG "SMARTBIOTIC"

Biological additives, biocоrrectors, mycotoxin eliminators favorably affect the quality and safety of the products obtained, as evidenced by a large number of studies, and also affect the immune status, therefore, the purpose of our study was to conduct an organoleptic evaluation of rainbow trout samples and find out whether the use of a humic acid-based drug affects such organoleptic parameters like appearance, color, consistency and smell. Feed additives have a beneficial effect on the quality and safety of the products obtained and affect the immune status. The purpose of our study was to determine the effect of the use of the drug "SmartBiotic", produced on the basis of humic acids, on the organoleptic characteristics of the products obtained.Three groups of rainbow trout fingerlings (Oncorhynchus mykiss) were formed to conduct the study. One group served as a control, and the other two were experimental. The first experimental group of fingerlings received the drug at a concentration of 0.15%, and the second experimental group – at a dose of 0.25%. In the control group of rainbow trout, the drug "SmartBiotic" was not used. The determination of organoleptic parameters of rainbow trout (Oncorhynchus mykiss) samples was carried out on the basis of the laboratory of the Department of Veterinary and Sanitary Examination of the St. Petersburg State University of Veterinary Medicine according to generally accepted methods and in accordance with the requirements of RNS 814-2019 "Chilled fish. Technical conditions", with the help of which it is also possible to identify the increasingly common falsification of products.To conduct the study, samples were selected from the formed three groups of rainbow trout fingerlings (Oncorhynchus mykiss) for organoleptic analysis.

Antimicrobial Susceptibility Profiles of Bacteria Commonly Isolated from Farmed Salmonids in Atlantic Canada (2000-2021).

Bacterial infection and antimicrobial resistance are important constraints in the production and sustainability of farmed salmonids. This retrospective study aimed to describe the frequency of bacterial isolates and antimicrobial resistance profiles in salmonid aquaculture in Atlantic Canada. Bacterial isolates and antimicrobial susceptibility testing (AST) results assessed by disk diffusion testing were summarized for 18,776 Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss) samples from 2291 unique cases submitted to the Atlantic Veterinary College, Aquatic Diagnostic Services Bacteriology Laboratory from 2000 to 2021. Kidney was the most commonly submitted tissue (60.29%, n = 11,320), and these specimens were mostly submitted as swabs (63.68%, n = 11,957). The most prevalent pathogens detected in these cases were Yersinia ruckeri type 1 (5.54%, n = 127), Renibacterium salmoninarum (2.10%, n = 48), Aeromonas salmonicida (atypical) (1.66%, n = 38), and Pseudomonas fluorescens (1.22%, n = 28). Most bacterial isolates tested (n = 918) showed resistance to florfenicol, oxytetracycline, ormetoprim-sulfadimethoxine, and trimethoprim-sulfamethoxazole, but not to enrofloxacin. This report provides baseline data for antimicrobial surveillance programs that investigate emerging antimicrobial resistance trends in salmonid aquaculture in Atlantic Canada.

Chorion Alterations in Eyed-Stage Salmonid Eggs Farmed in La Araucanía, Chile: A Retrospective Study.

Simple SummaryThe chorion (also called egg envelope) is the primary envelope that protects the fish embryo against drying, mechanical actions, and abrupt changes in the water conditions. Alterations of the chorion during the embryo incubation are not unusual, but these are scarcely reported. Increased occurrence of chorion alterations can lead to decreased reproductive performance and important losses for fish farms. Here, we described several chorion alterations observed in samples of embryonated eggs collected from different salmon and trout farms located in southern Chile over a period of 14 years. We detected four types of chorion alterations and found soft chorion as the most prevalent alteration in the years analyzed, affecting mainly Atlantic and Coho Salmon. Eggs of Rainbow Trout displayed fewer chorion alterations among the three species analyzed. As the eggs analyzed here were produced under standard industrial conditions, we conclude that these alterations are possibly linked to changes in water conditions, which need to be further investigated.The chorion is the primary envelop that protects the fish embryo against mechanical actions, pathogens, and abrupt changes in physical and chemicals conditions of the incubation medium. During embryo development, chorion alterations are not rare, but the occurrence of these is scarcely reported. Increased frequency of chorion alterations can result in increased embryo mortality and thus decreased reproductive performance and losses for fish farms. In this study, we characterize different chorion alterations observed in samples collected over 14 years from 12 salmon and trout farms located in the region of La Araucanía in southern Chile, which sent live eyed-stage embryos (‘eyed-eggs’) for quality analysis to our laboratory. We found soft chorion as the most common alteration observed, being present in the whole 14-year series analyzed in Atlantic Salmon (Salmo salar) and affecting up to 35.0% of the samples examined in a year. This alteration also affected up to 20.0 and 5.7% of Coho Salmon (Oncorhynchus kisutch) and Rainbow Trout (Oncorhynchus mykiss) samples analyzed in a year, respectively. We also found an increase of other chorion alterations, including perforated and white-spotted chorion in Atlantic and Coho Salmon, in the last 8 years. Among the three species, Rainbow Trout exhibited fewer chorion alterations. As the embryonated eggs analyzed here were obtained from broodstocks maintained under standard industrial conditions, these alterations might be linked to changes in environmental conditions affecting the incubation water that need to be further investigated.

Multi-Approach Assessment for Stress Evaluation in Rainbow Trout Females, Oncorhynchus mykiss (Walbaum, 1792) from Three Different Farms during the Summer Season.

Simple SummaryRainbow trout is one of the main freshwater fish species farmed in Romania, in a temperate continental climate. Blood biochemistry parameter values are well known for humans and other higher vertebrates, including some species of fish, and are fundamental for the assessment of physiological status. In this study, we examined the physicochemical parameters of water quality and the blood profile (hematological and hormonal profiles, antioxidant enzyme activities) of rainbow trout females reared in three farms, during the summer season, to monitor stress. These findings permit the progress of knowledge of blood parameters in fish and will encourage efforts to expand hematological and biochemical studies to assess the health of salmonids, which is essential for the sustainable development of aquaculture.Blood biochemistry parameters are valuable tools for monitoring fish health. Their baseline values are still undefined for a multitude of farmed fish species. In this study, changes in the blood profile of rainbow trout females (Oncorhynchus mykiss) from three farms were investigated using different biomarkers during the summer season. In the given context, the main water physicochemical parameters were investigated and twelve biochemical parameters were measured from blood samples of rainbow trout reared in the Fiad, Șoimul de Jos, and Strâmba farms. We selected these farms because the genetic background of the rainbow trout is the same, with all studied specimens coming from the Fiad farm, which has an incubation station. Forty-five samples were collected monthly (May to August) throughout summer to observe the changes in the blood profile of rainbow trout. Principal component analysis showed a clear separation both among the studied farms and months. Furthermore, significant correlations (p < 0.05) between the majority of the biochemical parameters were found, indicating that the environmental parameters can influence several blood parameters at the same time. The present study provides several useful norms for assessing the welfare of rainbow trout, indicating that the relationships among different parameters are important factors in interpreting the blood biochemical profiles.

Flavobacterium bernardetii sp. nov., a possible emerging pathogen of farmed rainbow trout (Oncorhynchus mykiss) in cold water

Identification of novel Flavobacterium species from fish samples has growing importance due to their notorious effects on freshwater fish species. During the course of studying farmed rainbow trout (Oncorhynchus mykiss, Walbaum, 1792) samples exhibiting clinical signs in Rize, Turkey, two isolates were recovered, and their taxonomic positions were revealed based on a genome-based polyphasic taxonomy approach. Pairwise sequence analyses of the 16S rRNA genes confirmed that strains F-372T and F-408 belonged to the genus Flavobacterium. Strain F-372T exhibited the highest identity level of 98.37% with Flavobacterium terrigena DSM 17934T (=KCTC 12761T) while the 16S rRNA gene sequence identity between strain F-372T and F-408 was 99.8% A polyphasic taxonomy approach including phenotypic characterization as well as genomic and chemotaxonomic analyses was employed to confirm the novelty of the strains in the genus Flavobacterium. The major fatty acids were isoC15:0 and C15:1 ω6c for both strains while their predominant menaquinone was MK-6. Both strains have genome size of 3.3 Mb. The genomic DNA G + C content of the strains was 30.89 mol%. In addition, strain F-372T was found to carry 68 high confidence (HC) functional genes encoding AMR and virulence factors implying a possible correlation between those factors and mortality in the rainbow trout. Phylogenomic analysis and whole genome nucleotide sequences confirmed that the isolates represent a new species for which the name Flavobacterium bernardetii sp. nov. is proposed, with F-372T as the type strain (=JCM 34204T = KCTC 82264 T).

Flavobacterium turcicum sp. nov. and Flavobacterium kayseriense sp. nov. isolated from farmed rainbow trout in Turkey

During a study on culturable microorganisms from fish farms, four yellow-pigmented gram negative, rod shaped isolates, F-47T, F-339T, F-380 and F-400, were recovered from rainbow trout samples exhibiting clinical signs. Based on 16S rRNA gene sequence analysis, the strains were identified as members of the genus Flavobacterium. Strains F-47T and F-380 shared the highest 16S rRNA gene sequence identity level of 97.6% with the type strain of Flavobacterium frigoris DSM 15719T while strains F-339T and F-400 shared the highest identity level of 97.6% with the type strain of F. caseinilyticum AT-3-2T. A polyphasic taxonomic approach including phenotypic and genomic characterization as well as whole-cell MALDI-TOF mass spectrometry analyses was employed to ascertain the taxonomic position of the strains within the genus Flavobacterium. Digital DNA-DNA hybridization (dDDH) and average nucleotide identity (ANI) analyses between strains F-47T, F-339T and their close neighbours F. frigoris DSM 15719T and F. caseinilyticum AT-3-2T, respectively, confirmed that both strains represent novel species in the genus Flavobacterium. The DNA G+C contents of the strains F-47T and F-339T are 34.3% and 35.3%, respectively. It can be concluded on the basis of polyphasic characterization as well as pairwise genome comparisons that the strains F-47T and F-339T represent two novel species within the genus Flavobacterium, for which Flavobacterium kayseriense sp. nov. F-47T (=JCM 34195T=KCTC 82255T) and Flavobacterium turcicum sp. nov. F-339T (=JCM 34202T=KCTC 82262T) are proposed, respectively.

Efficacy of stinging nettle extract in combination with ε-polylysine on the quality, safety, and shelf life of rainbow trout fillets.

The effects of incorporation of stinging nettle extract (3% and 6%) and ɛ‐polylysine (0.1% and 0.2%) on chemical, microbial properties, and stability of rainbow trout fish fillets wrapped in polyethylene bags (in atmosphere condition) and refrigerated for 12 days at 4°C were evaluated. No remarkable differences regarding the chemical composition of rainbow trout fish (protein, moisture, fat, and ash content) resulting from the treatments were noted. The lowest TBARS (thiobarbituric acid reactive substance) and the highest phenolic compounds were noted in samples treated with 6% SNE + 0.2% ɛ‐PL on day 12, while the highest inhibitory effects against the growth of TVC, psychrotrophic bacteria, coliform, yeast, and molds corresponded to samples treated with 6% SNE (T4 and T5) at day 12. During the storage, the samples' TVB‐N (total volatile base nitrogen) increased, whereas the total phenolic content of the rainbow trout samples declined. The rainbow trout samples treated with 6% SNE + 0.2% ɛ‐PL had the highest amount of redness and the lowest TVB‐N values. Therefore, these natural ingredients could be used to maintain rainbow trout meat quality and shelf life.