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1.
Proc Natl Acad Sci U S A ; 119(8)2022 02 22.
Article in English | MEDLINE | ID: mdl-35165196

ABSTRACT

Life on Earth has been characterized by recurring cycles of ecological stasis and disruption, relating biological eras to geological and climatic transitions through the history of our planet. Due to the increasing degree of ecological abruption caused by human influences many advocate that we now have entered the geological era of the Anthropocene, or "the age of man." Considering the ongoing mass extinction and ecosystem reshuffling observed worldwide, a better understanding of the drivers of ecological stasis will be a requisite for identifying routes of intervention and mitigation. Ecosystem stability may rely on one or a few keystone species, and the loss of such species could potentially have detrimental effects. The Atlantic cod (Gadus morhua) has historically been highly abundant and is considered a keystone species in ecosystems of the northern Atlantic Ocean. Collapses of cod stocks have been observed on both sides of the Atlantic and reported to have detrimental effects that include vast ecosystem reshuffling. By whole-genome resequencing we demonstrate that stabilizing selection maintains three extensive "supergenes" in Atlantic cod, linking these genes to species persistence and ecological stasis. Genomic inference of historic effective population sizes shows continued declines for cod in the North Sea-Skagerrak-Kattegat system through the past millennia, consistent with an early onset of the marine Anthropocene through industrialization and commercialization of fisheries throughout the medieval period.


Subject(s)
Aquaculture/methods , Conservation of Natural Resources/methods , Gadus morhua/genetics , Animals , Atlantic Ocean , Ecosystem , Fisheries , Gadus morhua/growth & development , Genome , Genomics , Humans , North Sea , Population Dynamics
2.
Metabolomics ; 20(2): 23, 2024 Feb 12.
Article in English | MEDLINE | ID: mdl-38347335

ABSTRACT

INTRODUCTION: Animal welfare in aquaculture is becoming increasingly important, and detailed knowledge of the species concerned is essential for further optimization on farms. Every organism is controlled by an internal clock, the circadian rhythm, which is crucial for metabolic processes and is partially influenced by abiotic factors, making it important for aquaculture practices. OBJECTIVE: In order to determine the circadian rhythm of adult turbot (Scophthalmus maximus), blood samples were collected over a 24-h period and plasma metabolite profiles were analyzed by 1H-NMR spectroscopy. METHODS: The fish were habituated to feeding times at 9 am and 3 pm and with the NMR spectroscopy 46 metabolites could be identified, eight of which appeared to shift throughout the day. RESULTS: We noted exceptionally high values around 3 pm for the amino acids isoleucine, leucine, valine, phenylalanine, lysine, and the stress indicator lactate. These metabolic peaks were interpreted as either habituation to the usual feeding time or as natural peak levels in turbot in a 24-h circle because other indicators for stress (glucose, cortisol and lysozymes) showed a stable baseline, indicating that the animals had no or very little stress during the experimental period. CONCLUSION: This study provides initial insights into the diurnal variation of metabolites in adult turbot; however, further studies are needed to confirm present findings of possible fluctuations in amino acids and sugars. Implementing optimized feeding times (with high levels of sugars and low levels of stress metabolites) could lead to less stress, fewer disease outbreaks and overall improved fish welfare in aquaculture facilities.


Subject(s)
Flatfishes , Animals , Flatfishes/metabolism , Metabolomics , Circadian Rhythm , Aquaculture/methods , Amino Acids/metabolism , Sugars/metabolism
3.
Fish Shellfish Immunol ; 147: 109459, 2024 Apr.
Article in English | MEDLINE | ID: mdl-38369068

ABSTRACT

Probiotics in shrimp aquaculture have gained considerable attention as a potential solution to enhance production efficiency, disease management, and overall sustainability. Probiotics, beneficial microorganisms, have shown promising effects when administered to shrimp as dietary supplements or water additives. Their inclusion has been linked to improved gut health, nutrient absorption, and disease resistance in shrimp. Probiotics also play a crucial role in maintaining a balanced microbial community within the shrimp pond environment, enhancing water quality and reducing pathogen prevalence. This article briefly summarizes the many ways that probiotics are used in shrimp farming and the advantages that come with them. Despite the promising results, challenges such as strain selection, dosage optimization, and environmental conditions are carefully addressed for successful probiotic integration in shrimp aquaculture. The potential of probiotics as a sustainable and ecologically friendly method of promoting shrimp development and health while advancing environmentally friendly shrimp farming techniques is highlighted in this analysis. Further research is required to fully exploit probiotics' benefits and develop practical guidelines for their effective implementation in shrimp aquaculture.


Subject(s)
Penaeidae , Probiotics , Animals , Crustacea , Aquaculture/methods , Seafood , Water Quality
4.
Mol Biol Rep ; 51(1): 616, 2024 May 09.
Article in English | MEDLINE | ID: mdl-38722391

ABSTRACT

BACKGROUND: Chlorpyrifos (CPF) is a widely used pesticide in the production of plant crops. Despite rapid CPF biodegradation, fish were exposed to wastewater containing detectable residues. Recently, medicinal plants and algae were intensively used in aquaculture to replace antibiotics and ameliorate stress impacts. METHODS AND RESULTS: An indoor experiment was conducted to evaluate the deleterious impacts of CPF pollution on Nile tilapia health and the potential mitigation role of Chlorella vulgaris algae. Firstly, the median lethal concentration LC50 - 72 h of CPF was determined to be 85.8 µg /L in Nile tilapia (35.6 ± 0.5 g body weight) at a water temperature of 27.5 °C. Secondly, fish were exposed to 10% of LC50 - 72 h for six weeks, and tissue samples were collected and examined every two weeks. Also, Nile tilapia were experimentally infected with Streptococcus agalactiae. Exposed fish were immunosuppressed expressed with a decrease in gene expressions of interleukin (IL) 1ß, IL-10, and tumor necrosis factor (TNF)-α. Also, a decline was recorded in glutathione peroxidase (GPx), superoxide dismutase (SOD), and catalase (CAT) gene expression in the head kidney tissue. A high mortality rate (MR) of 100% was recorded in fish exposed to CPF for six weeks and challenged with S. agalactiae. Fish that received dietary C. vulgaris could restore gene expression cytokines and antioxidants compared to the control. After six weeks of CPF exposure, fish suffered from anemia as red blood cell count (RBCs), hemoglobin (Hb), and packed cell volume (PCV) significantly declined along with downregulation of serum total protein (TP), globulin (GLO), and albumin (ALB). Liver enzymes were significantly upregulated in fish exposed to CPF pollution, alanine aminotransferase (ALT) (42.5, 53.3, and 61.7 IU/L) and aspartate aminotransferase (AST) (30.1, 31.2, and 22.8) after 2, 4, and 6 weeks, respectively. On S. agalactiae challenge, high MR was recorded in Nile tilapia exposed to CPF (G3) 60%, 60%, and 100% in week 2, week 4, and week 6, and C. vulgaris provided a relative protection level (RPL) of 0, 14.29, and 20%, respectively. CONCLUSIONS: It was concluded that CPF pollution induces immunosuppressed status, oxidative stress, and anemic signs in Nile tilapia. In contrast, C. vulgaris at a 50 g/kg fish feed dose could partially ameliorate such withdrawals, restoring normal physiological parameters.


Subject(s)
Antioxidants , Chlorella vulgaris , Chlorpyrifos , Cichlids , Fish Diseases , Streptococcus agalactiae , Animals , Streptococcus agalactiae/drug effects , Cichlids/metabolism , Cichlids/microbiology , Cichlids/genetics , Chlorpyrifos/toxicity , Antioxidants/metabolism , Fish Diseases/microbiology , Streptococcal Infections/veterinary , Superoxide Dismutase/metabolism , Superoxide Dismutase/genetics , Catalase/metabolism , Catalase/genetics , Water Pollutants, Chemical/toxicity , Glutathione Peroxidase/metabolism , Glutathione Peroxidase/genetics , Oxidative Stress/drug effects , Aquaculture/methods
6.
Environ Res ; 251(Pt 1): 118619, 2024 Jun 15.
Article in English | MEDLINE | ID: mdl-38442817

ABSTRACT

The utilization of antibiotics increases the prevalence of antibiotic resistance genes (ARGs) in various matrices and poses the potential risk of ARG transmission, garnering global attention. Antimicrobial peptides (AMPs) represent a promising novel category of antimicrobials that may address the urgent issue of antibiotic resistance. Here, a zebrafish cultivation assay in which zebrafish were fed a diet supplemented with AMP (Cecropin A) or antibiotics was conducted to determine the effects of the intervention on the microorganisms and antibiotic resistance spectrum in zebrafish gut samples. Cecropin A treatment decreased the α-diversity of the microbiota. Moreover, NMDS (nonmetric multidimensional scaling) results revealed that the ß-diversity in the microbiota was more similar between the control (CK) and Cecropin A samples than between the antibiotic treatment groups. The absolute quantity of ARGs in the AMP treatment was less than that observed in the antibiotic treatment. The findings indicated that FFCH7168, Chitinibacter and Cetobacterium were the most significant biomarkers detected in the CK, Cecropin A and antibiotic treatments, respectively. Although the use of antibiotics notably enhanced the occurrence of multidrug-resistant bacteria, the application of Cecropin A did not lead to this phenomenon. The results indicated that the application of AMPs can effectively manage and control ARGs in aquaculture.


Subject(s)
Anti-Bacterial Agents , Antimicrobial Peptides , Aquaculture , Zebrafish , Animals , Aquaculture/methods , Anti-Bacterial Agents/pharmacology , Antimicrobial Peptides/pharmacology , Drug Resistance, Microbial/genetics , Antimicrobial Cationic Peptides/pharmacology , Antimicrobial Cationic Peptides/genetics , Gastrointestinal Microbiome/drug effects
7.
Gen Comp Endocrinol ; 354: 114531, 2024 08 01.
Article in English | MEDLINE | ID: mdl-38670468

ABSTRACT

To date, the eel industry still depends on wild-caught juveniles that are grown to marketable size. There is an urgent need to close the eel life cycle in captivity to make aquaculture independent of the natural population. With this artificial reproduction protocol, yolk-sac larvae can be produced but egg quality may be impaired. Low survival rates and high deformity rates are frequently observed during the first week after hatching. Over the past four years, we have conducted studies with the aim to optimize the artificial reproduction protocol, thereby focussing on increasing egg and larval quality. Weekly carp or salmon pituitary extract (PE) treatment was successfully replaced with recombinant gonadotropins (rGTHs) to mature female eels and produce larvae. 17α,20ß-dihydroxy-4-pregnen-3-one (DHP) was replaced with upstream precursor progesterone (P) to induce the endogenous production of DHP by the female eel. DHP and P were found equally potent in inducing oocyte maturation and ovulation. The effects of antibiotics on larval survival and the occurrence of deformities were investigated. Antibiotic treatment increased survival and decreased the occurrence of deformities indicating bacterial infection as an important cause. A deformity determination key for young eel larvae has been developed that provides a framework of reference for larval deformities which will be instrumental with gaining insights on the reasons behind each larval deformity. These improvements of the artificial reproduction protocol and hatchery practices will contribute to the production of robust eel larvae that survive, grow and metamorphose into juveniles that will later be able to reproduce in captivity.


Subject(s)
Anguilla , Larva , Animals , Anguilla/physiology , Larva/physiology , Female , Ovum/physiology , Aquaculture/methods
8.
Nucleic Acids Res ; 50(W1): W66-W74, 2022 07 05.
Article in English | MEDLINE | ID: mdl-35639514

ABSTRACT

It is of vital importance to understand the population structure, dissect the genetic bases of performance traits, and make proper strategies for selection in breeding programs. However, there is no single webserver covering the specific needs in aquaculture. We present Aquaculture Molecular Breeding Platform (AMBP), the first web server for genetic data analysis in aquatic species of farming interest. AMBP integrates the haplotype reference panels of 18 aquaculture species, which greatly improves the accuracy of genotype imputation. It also supports multiple tools to infer genetic structures, dissect the genetic architecture of performance traits, estimate breeding values, and predict optimum contribution. All the tools are coherently linked in a web-interface for users to generate interpretable results and evaluate statistical appropriateness. The webserver supports standard VCF and PLINK (PED, MAP) files, and implements automated pipelines for format transformation and visualization to simplify the process of analysis. As a demonstration, we applied the webserver to Pacific white shrimp and Atlantic salmon datasets. In summary, AMBP constitutes comprehensive resources and analytical tools for exploring genetic data and guiding practical breeding programs. AMBP is available at http://mgb.qnlm.ac.


Subject(s)
Aquaculture , DNA Shuffling , Polymorphism, Single Nucleotide , Software , Aquaculture/methods , Genotype , Phenotype , Animals , Breeding , Internet
9.
Mar Drugs ; 22(4)2024 Mar 28.
Article in English | MEDLINE | ID: mdl-38667767

ABSTRACT

Chitosan (CH) shows great potential as an immunostimulatory feed additive in aquaculture. This study evaluates the effects of varying dietary CH levels on the growth, immunity, intestinal morphology, and antioxidant status of Nile tilapia (Oreochromis niloticus) reared in a biofloc system. Tilapia fingerlings (mean weight 13.54 ± 0.05 g) were fed diets supplemented with 0 (CH0), 5 (CH5), 10 (CH10), 20 (CH20), and 40 (CH40) mL·kg-1 of CH for 8 weeks. Parameters were assessed after 4 and 8 weeks. Their final weight was not affected by CH supplementation, but CH at 10 mL·kg-1 significantly improved weight gain (WG) and specific growth rate (SGR) compared to the control (p < 0.05) at 8 weeks. Skin mucus lysozyme and peroxidase activities were lower in the chitosan-treated groups at weeks 4 and 8. Intestinal villi length and width were enhanced by 10 and 20 mL·kg-1 CH compared to the control. However, 40 mL·kg-1 CH caused detrimental impacts on the villi and muscular layer. CH supplementation, especially 5-10 mL·kg-1, increased liver and intestinal expressions of interleukin 1 (IL-1), interleukin 8 (IL-8), LPS-binding protein (LBP), glutathione reductase (GSR), glutathione peroxidase (GPX), and glutathione S-transferase (GST-α) compared to the control group. Overall, dietary CH at 10 mL·kg-1 can effectively promote growth, intestinal morphology, innate immunity, and antioxidant capacity in Nile tilapia fingerlings reared in biofloc systems.


Subject(s)
Animal Feed , Aquaculture , Chitosan , Cichlids , Intestines , Animals , Chitosan/pharmacology , Cichlids/growth & development , Cichlids/immunology , Cichlids/metabolism , Intestines/drug effects , Aquaculture/methods , Dietary Supplements , Antioxidants/pharmacology , Antioxidants/metabolism , Gene Expression/drug effects
10.
J Fish Dis ; 47(6): e13932, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38373053

ABSTRACT

This study aimed to evaluate and unveil the positive impact of biofloc culture on Vibrio parahaemolyticus infection of Pacific white shrimp by reducing quorum sensing (QS) and virulence gene expression and enhancing shrimp's immunity. The shrimp with an average body weight of 0.50 ± 0.09 g were reared in containers with a volume of 2.5 L, 21 units, and a density of 20 shrimp L-1. The shrimp were cultured for 5 days, with each treatment including biofloc system maintenance with a C/N ratio of 10 and a control treatment without biofloc, followed by a challenge test through immersion using V. parahaemolyticus at densities of 103, 105, and 107 CFU mL-1 initially. The results of the in vitro experiment showed that biofloc suspension can inhibit and disperse biofilm formation, as well as reduce the exo-enzyme activity (amylase, protease, and chitinase) of V. parahaemolyticus. Furthermore, the biofloc treatment significantly reduced the expression of the QS regulatory gene OpaR, the PirB toxin gene, and the virulence factor genes T6SS1 and T6SS2 in both in vitro and in vivo. The biofloc system also increased the expression of shrimp immunity-related genes (LGBP, proPO, SP, and PE) and the survival rate of white shrimp challenged with V. parahaemolyticus.


Subject(s)
Penaeidae , Quorum Sensing , Vibrio parahaemolyticus , Animals , Vibrio parahaemolyticus/physiology , Vibrio parahaemolyticus/pathogenicity , Penaeidae/microbiology , Penaeidae/immunology , Virulence , Virulence Factors/genetics , Aquaculture/methods , Biofilms
11.
J Fish Dis ; 47(2): e13884, 2024 Feb.
Article in English | MEDLINE | ID: mdl-37929301

ABSTRACT

The mucus layers of fish serve as the main interface between the organism and the environment. They play an important biological and ecological role. The current study focuses on Nile tilapia epidermal mucus reared under different commercial feeds (coded A and B) and environments (biofloc technology and earthen pond systems). Crude protein levels in feed A and B were 30% and 28%, respectively. Water parameters in all culturing systems were suitable for tilapia throughout the study period. The antimicrobial potency of tilapia (n = 5 from each) epidermal mucus was tested in vitro against human and fish pathogenic strains viz. Staphylococcus epidermidis, Staphylococcus aureus, Escherichia coli, Pseudomonas aeruginosa, Francisella noatunensis, and Aeromonas hydrophila. To determine the antimicrobial activity, zones of inhibition (ZOI) were measured in millimetres and compared with two antibiotics (chloramphenicol and ciprofloxacin). SDS-PAGE analysis was performed on skin mucus samples of tilapia to determine protein quantity and size (molecular weight). Results of tilapia skin mucus (crude and aqueous) revealed a strong antibacterial effect against all the selected pathogenic strains. However, variation has been observed in the mucus potency and ZOI values between the biofloc and pond tilapia mucus. The crude mucus of tilapia fed on feed A and cultured in the pond exhibited strong antibacterial effects and high ZOI values compared to the mucus of biofloc tilapia, aqueous mucus extracts and positive control chloramphenicol (antibiotic). The SDS-PAGE results showed that the high molecular weight proteins were found in the collected epidermal mucus of BFT-B (240 kDa) and EP-B (230 kDa). Several peptides in fish skin mucus may play a crucial role in the protection of fish against disease-causing pathogens. Thus, it can be utilized in the human and veterinary sectors as an 'antimicrobial' for treating various bacterial infections.


Subject(s)
Anti-Infective Agents , Cichlids , Fish Diseases , Tilapia , Animals , Animal Feed/analysis , Anti-Bacterial Agents/pharmacology , Aquaculture/methods , Chloramphenicol/analysis , Diet/veterinary , Fish Diseases/prevention & control , Fish Diseases/microbiology , Mucus/chemistry , Ponds , Tilapia/microbiology
12.
J Fish Dis ; 47(7): e13941, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38523339

ABSTRACT

The emergence of antibiotic-resistant bacteria (ARBs) and genes (ARGs) in aquaculture underscores the urgent need for alternative veterinary strategies to combat antimicrobial resistance (AMR). These measures are vital to reduce the likelihood of entering a post-antibiotic era. Identifying environmentally friendly biotechnological solutions to prevent and treat bacterial diseases is crucial for the sustainability of aquaculture and for minimizing the use of antimicrobials, especially antibiotics. The development of probiotics with quorum-quenching (QQ) capabilities presents a promising non-antibiotic strategy for sustainable aquaculture. Recent research has demonstrated the effectiveness of QQ probiotics (QQPs) against a range of significant fish pathogens in aquaculture. QQ disrupts microbial communication (quorum sensing, QS) by inhibiting the production, replication, and detection of signalling molecules, thereby reducing bacterial virulence factors. With their targeted anti-virulence approach, QQPs have substantial promise as a potential alternative to antibiotics. The application of QQPs in aquaculture, however, is still in its early stages and requires additional research. Key challenges include determining the optimal dosage and treatment regimens, understanding the long-term effects, and integrating QQPs with other disease control methods in diverse aquaculture systems. This review scrutinizes the current literature on antibiotic usage, AMR prevalence in aquaculture, QQ mechanisms and the application of QQPs as a sustainable alternative to antibiotics.


Subject(s)
Aquaculture , Fish Diseases , Probiotics , Quorum Sensing , Quorum Sensing/drug effects , Aquaculture/methods , Probiotics/pharmacology , Animals , Fish Diseases/prevention & control , Fish Diseases/microbiology , Fishes , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/administration & dosage , Drug Resistance, Bacterial
13.
An Acad Bras Cienc ; 96(2): e20230892, 2024.
Article in English | MEDLINE | ID: mdl-38747793

ABSTRACT

Taurine is considered a conditionally essential amino acid for fish, so its supplementation may improve feed conversion. This study evaluated the supplementation of taurine on growth performance, hematological and immunological parameters, production costs, and survival of Nile tilapia (Oreochromis niloticus) juveniles raised in a recirculating aquaculture system (RAS). A control diet was formulated with 360 g kg-1 of crude protein without fish meal and without taurine supplementation (Control). From the control diet, another diet supplemented with 9.7 g of taurine per kg of feed (Taurine) was produced. Fish fed diet supplemented with taurine had lower daily average weight gain and final average weight compared to the control diet (p < 0.05). It was observed that taurine had no influence on condition factor, survival, or hemato-immunological parameters of Nile tilapia juveniles, but there was a higher mean corpuscular volume and greater nitrogen retention in fish from the control group (p < 0.05). It is concluded that Nile tilapia juveniles do not benefit from taurine supplementation in RAS, even when fed diet containing plant-based protein sources.


Subject(s)
Animal Feed , Aquaculture , Cichlids , Dietary Supplements , Taurine , Animals , Taurine/pharmacology , Taurine/administration & dosage , Aquaculture/methods , Cichlids/growth & development
14.
An Acad Bras Cienc ; 96(1): e20220805, 2024.
Article in English | MEDLINE | ID: mdl-38656052

ABSTRACT

Piaractus mesopotamicus, is a fish usually farmed in semi-intensive systems with access to natural food and supplementary feed. This study evaluates effects of feed allowance on the productive performance, carbon turnover and proportions of nutrient (carbon) contribution of feed and natural food for the growth of pacu. Juvenile fish were stocked in fiberglass tanks and fed to 100, 75, 50, 25, 0% apparent satiety (ApS), with a practical, extruded (C4 photosynthetic pathway) feed in a randomized design trial (n=3); plankton production for simulated semi-intensive farming system condition was induced by chemical fertilization. A control treatment was set up in tanks devoid of natural food. Data on muscle stable carbon isotope ratios were used to study carbon turnover using a relative growth-based model. Low variation of the δ13C impaired fitting a turnover model curve for the 0 and 25 % ApS treatments. Fish of the 100% and 75% ApS treatments reached circa 95% and 82.85% of the carbon turnover, respectively. Extruded feed was the main nutrient source for the growth of pacu in the semi-intensive, simulated farming condition. The current study contributes to the knowledge of the relationship between feeding rates and carbon turnover rates in the pacu muscle.


Subject(s)
Animal Feed , Carbon Isotopes , Carbon , Animals , Animal Feed/analysis , Carbon/metabolism , Carbon/analysis , Carbon Isotopes/analysis , Characidae/physiology , Characidae/growth & development , Characidae/metabolism , Aquaculture/methods , Animal Nutritional Physiological Phenomena
15.
J Anim Breed Genet ; 141(4): 390-402, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38240192

ABSTRACT

The objective of this study was to define desired genetic gains from economically important traits of Pacific white shrimp (Litopenaeus vannamei) using participatory approaches. Two questionnaires were sent out to 100 Pacific white shrimp farmers in all five Iranian shrimp farming provinces. Questionnaire A (Q-A) includes management factors and farming environments. Moreover, in this questionnaire, farmers were asked to rank the fourth most important traits in shrimp among 10 economic traits in the list for genetic improvement. In questionnaire B (Q-B), priorities of the four traits with the highest value were obtained using pairwise comparison. The results showed that the four most important traits were white spot syndrome virus resistance (WSSV), growth rate before 4 months (GR), acute hepatopancreatic necrosis disease resistance (AHPND), and female total weight at ablation (FTW). Medians of the best individual preference values were WSSV (0.222), GR (0.173), AHPND (0.157), and FTW (0.053). Most disagreements were found between the social group preference values in the commercial products and water salinity categories. Desired genetic gains were 1.71%, 1.57%, 0.53% and 0.31% for GR, AHPND, WSSV and FTW, respectively. This study highlighted that despite environmental and management differences, participatory approaches can achieve desired genetic results for Pacific white shrimp breeding programme.


Subject(s)
Aquaculture , Breeding , Penaeidae , Animals , Penaeidae/genetics , Penaeidae/virology , Penaeidae/growth & development , Aquaculture/methods , Disease Resistance/genetics , Female , Surveys and Questionnaires , White spot syndrome virus 1/physiology
16.
Sensors (Basel) ; 24(11)2024 Jun 04.
Article in English | MEDLINE | ID: mdl-38894438

ABSTRACT

Accurate identification of Seriola dumerili (SD) offers crucial technical support for aquaculture practices and behavioral research of this species. However, the task of discerning S. dumerili from complex underwater settings, fluctuating light conditions, and schools of fish presents a challenge. This paper proposes an intelligent recognition model based on the YOLOv8 network called SD-YOLOv8. By adding a small object detection layer and head, our model has a positive impact on the recognition capabilities for both close and distant instances of S. dumerili, significantly improving them. We construct a convenient S. dumerili dataset and introduce the deformable convolution network v2 (DCNv2) to enhance the information extraction process. Additionally, we employ the bottleneck attention module (BAM) and redesign the spatial pyramid pooling fusion (SPPF) for multidimensional feature extraction and fusion. The Inner-MPDIoU bounding box regression function adjusts the scale factor and evaluates geometric ratios to improve box positioning accuracy. The experimental results show that our SD-YOLOv8 model achieves higher accuracy and average precision, increasing from 89.2% to 93.2% and from 92.2% to 95.7%, respectively. Overall, our model enhances detection accuracy, providing a reliable foundation for the accurate detection of fishes.


Subject(s)
Algorithms , Animals , Fishes , Neural Networks, Computer , Aquaculture/methods
17.
Sensors (Basel) ; 24(9)2024 May 02.
Article in English | MEDLINE | ID: mdl-38733022

ABSTRACT

Shrimp fry counting is an important task for biomass estimation in aquaculture. Accurate counting of the number of shrimp fry in tanks can not only assess the production of mature shrimp but also assess the density of shrimp fry in the tanks, which is very helpful for the subsequent growth status, transportation management, and yield assessment. However, traditional manual counting methods are often inefficient and prone to counting errors; a more efficient and accurate method for shrimp fry counting is urgently needed. In this paper, we first collected and labeled the images of shrimp fry in breeding tanks according to the constructed experimental environment and generated corresponding density maps using the Gaussian kernel function. Then, we proposed a multi-scale attention fusion-based shrimp fry counting network called the SFCNet. Experiments showed that our proposed SFCNet model reached the optimal performance in terms of shrimp fry counting compared to CNN-based baseline counting models, with MAEs and RMSEs of 3.96 and 4.682, respectively. This approach was able to effectively calculate the number of shrimp fry and provided a better solution for accurately calculating the number of shrimp fry.


Subject(s)
Aquaculture , Penaeidae , Animals , Penaeidae/physiology , Aquaculture/methods , Algorithms , Biomass , Neural Networks, Computer
18.
Sensors (Basel) ; 24(11)2024 Jun 06.
Article in English | MEDLINE | ID: mdl-38894471

ABSTRACT

The integration of cutting-edge technologies such as the Internet of Things (IoT), robotics, and machine learning (ML) has the potential to significantly enhance the productivity and profitability of traditional fish farming. Farmers using traditional fish farming methods incur enormous economic costs owing to labor-intensive schedule monitoring and care, illnesses, and sudden fish deaths. Another ongoing issue is automated fish species recommendation based on water quality. On the one hand, the effective monitoring of abrupt changes in water quality may minimize the daily operating costs and boost fish productivity, while an accurate automatic fish recommender may aid the farmer in selecting profitable fish species for farming. In this paper, we present AquaBot, an IoT-based system that can automatically collect, monitor, and evaluate the water quality and recommend appropriate fish to farm depending on the values of various water quality indicators. A mobile robot has been designed to collect parameter values such as the pH, temperature, and turbidity from all around the pond. To facilitate monitoring, we have developed web and mobile interfaces. For the analysis and recommendation of suitable fish based on water quality, we have trained and tested several ML algorithms, such as the proposed custom ensemble model, random forest (RF), support vector machine (SVM), decision tree (DT), K-nearest neighbor (KNN), logistic regression (LR), bagging, boosting, and stacking, on a real-time pond water dataset. The dataset has been preprocessed with feature scaling and dataset balancing. We have evaluated the algorithms based on several performance metrics. In our experiment, our proposed ensemble model has delivered the best result, with 94% accuracy, 94% precision, 94% recall, a 94% F1-score, 93% MCC, and the best AUC score for multi-class classification. Finally, we have deployed the best-performing model in a web interface to provide cultivators with recommendations for suitable fish farming. Our proposed system is projected to not only boost production and save money but also reduce the time and intensity of the producer's manual labor.


Subject(s)
Machine Learning , Ponds , Water Quality , Animals , Fishes , Algorithms , Environmental Monitoring/methods , Support Vector Machine , Aquaculture/methods , Internet of Things , Fisheries
19.
Sensors (Basel) ; 24(8)2024 Apr 10.
Article in English | MEDLINE | ID: mdl-38676049

ABSTRACT

Long-term, automated fish detection provides invaluable data for deep-sea aquaculture, which is crucial for safe and efficient seawater aquafarming. In this paper, we used an infrared camera installed on a deep-sea truss-structure net cage to collect fish images, which were subsequently labeled to establish a fish dataset. Comparison experiments with our dataset based on Faster R-CNN as the basic objection detection framework were conducted to explore how different backbone networks and network improvement modules influenced fish detection performances. Furthermore, we also experimented with the effects of different learning rates, feature extraction layers, and data augmentation strategies. Our results showed that Faster R-CNN with the EfficientNetB0 backbone and FPN module was the most competitive fish detection network for our dataset, since it took a significantly shorter detection time while maintaining a high AP50 value of 0.85, compared to the best AP50 value of 0.86 being achieved by the combination of VGG16 with all improvement modules plus data augmentation. Overall, this work has verified the effectiveness of deep learning-based object detection methods and provided insights into subsequent network improvements.


Subject(s)
Aquaculture , Deep Learning , Fishes , Animals , Aquaculture/methods , Infrared Rays , Image Processing, Computer-Assisted/methods , Neural Networks, Computer
20.
Sensors (Basel) ; 24(3)2024 Jan 28.
Article in English | MEDLINE | ID: mdl-38339568

ABSTRACT

This study is related to Smart Aqua Farm, which combines artificial intelligence (AI) and Internet of things (IoT) technology. This study aimed to monitor fish growth in indoor aquaculture while automatically measuring the average size and area in real time. Automatic fish size measurement technology is one of the essential elements for unmanned aquaculture. Under the condition of labor shortage, operators have much fatigue because they use a primitive method that samples the size and weight of fish just before fish shipment and measures them directly by humans. When this kind of process is automated, the operator's fatigue can be significantly reduced. Above all, after measuring the fish growth, predicting the final fish shipment date is possible by estimating how much feed and time are required until the fish becomes the desired size. In this study, a video camera and a developed light-emitting grid panel were installed in indoor aquaculture to acquire images of fish, and the size measurement of a mock-up fish was implemented using the proposed method.


Subject(s)
Aquaculture , Artificial Intelligence , Humans , Animals , Aquaculture/methods , Fishes , Computer Systems , Technology
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