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Tilapia

Tilapia: A versatile freshwater fish species widely cultivated for aquaculture.
Tilapia are known for their hardy nature, rapid growth, and adaptability to diverse environmental conditions.
They are an important source of protein and income, especially in developing regions.
Researching optimal tilapia rearing protocols is crucial for improving productivity, reporoducibility, and sustainability of tilapia aquaculture.

Most cited protocols related to «Tilapia»

1
Analyzing Tilapia Transcriptome Responses to Thyroid Hormones
We used as example to test our website two datasets. The first example contains data from the Pasilla Bioconductor library (Brooks et al., 2010 (link)), taking in account only the gene level counts. This dataset contains RNA-Seq count data for treated and untreated cells from the S2-DRSC cell line. The second example file which can be used to test the batch effect error awareness, was taken from the NBPSeq CRAN package (Di et al., 2014 ). This dataset contains the Arabidopsis thaliana RNA-Seq data (Cumbie et al., 2011 (link)), comparing ΔhrcC challenged and mock-inoculated samples. In this case, the samples were collected in three batches.
We also obtained RNA-Seq publicly available data already reported (Olvera et al., 2017 (link)) that was generated to determine the effect of 3,5-di-iodothyronine (T2) and 3,5,3′-tri-iodothyronine (T3) exogenous treatment on the transcriptome of tilapia (Oreochromis niloticus) liver. For control and each hormone treatment, two biological replicates were generated. The FASTQ raw data can be found under the following SRA identifiers: SRX2630485, SRX2630486, SRX2630487, SRX2630488, SRX2630489, and SRX2630490.
Briefly, the quality control(QC) and filtering for the raw data was performed using the FASTQC software (Babraham Bioinformatics - FastQC A Quality Control tool for High Throughput Sequence Data Babraham Bioinformatics - FastQC A Quality Control tool for High Throughput Sequence Data) and contamination and adapter removal was carried out using in-house Perl scripts. QC’ed reads were mapped using the Bowtie 1.1.234 aligner (Langmead et al., 2009 (link)) to the annotated Oreochromis_niloticus (Orenil1.0.cds.all, 21,437 coding genes) CDS dataset downloaded from Ensembl repository database (Aken et al., 2016 (link)) using the BioMart utility. Quantification and repetitiveness normalization were carried out using eXpress software 1.535 (Roberts et al., 2011 (link)). Total effective counts for each sample were merged; a matrix was generated using the “abundance_estimates_to_matrix.pl” Perl script included in the Trinity pipeline (Grabherr et al., 2011 (link); Roberts et al., 2011 (link)). The resulting matrix was used as input for the differential expression analysis in the IDEAMEX web server. The select parameters were: p-adj/FDR = 0.05; logFC = 2; CPM = 1.
Jiménez-Jacinto V., Sanchez-Flores A, & Vega-Alvarado L. (2019). Integrative Differential Expression Analysis for Multiple EXperiments (IDEAMEX): A Web Server Tool for Integrated RNA-Seq Data Analysis. Frontiers in Genetics, 10, 279.
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Publication 2019
3-monoiodothyronine Arabidopsis thalianas Awareness Biopharmaceuticals cDNA Library Cell Lines Genes High-Throughput Nucleotide Sequencing Hormones Liver Oreochromis niloticus RNA-Seq Tilapia Transcriptome
2
Genetic Basis of Sex Determination in Tilapia
Sex comparisons were run on the O_niloticus_UMD1 assembly for two species of tilapia, O. niloticus and O. aureus. The O. niloticus sequence data used in this study was previously described [48 (link)]. The O. aureus individuals used were F1 individuals derived from a stock originally provided by Dr. Gideon Hulata (Institute of Animal Science, Agricultural Research Organization, The Volcani Center, Bet Dagan, Israel) and maintained at University of Maryland. These animal procedures were conducted in accordance with University of Maryland IACUC Protocol #R-10-74. A total of 58 O. niloticus XY males, 33 O. niloticus XX females, 22 O. aureus ZZ males and 22 O. aureus WZ females were pooled separately, sheared to ~500 bp on a Covaris shearer, and sequenced on an Illumina HiSeq 2000. The reads from each pool were separately mapped to O_niloticus_UMD1 using BWA mem (v0.7.12). The alignments were sorted and duplicates were marked with Picard (v2.1.0). Alignments were converted into an mpileup file using Samtools (v0.1.18) and subsequently into a sync file using Popoolation2 (v1201) [78 (link)]. Estimates of FST and analyses of sex-patterned variants (SNPs and short deletions that are fixed or nearly fixed in the homogametic sex and in intermediate frequency in the heterogametic sex) were carried out using Sex_SNP_finder_GA.pl (https://github.com/Gammerdinger/sex-SNP-finder). For the O. niloticus sex comparison, the XX females were set to be the homogametic sex. For the O. aureus comparison, the ZZ males were set to be the homogametic sex.
Conte M.A., Gammerdinger W.J., Bartie K.L., Penman D.J, & Kocher T.D. (2017). A high quality assembly of the Nile Tilapia (Oreochromis niloticus) genome reveals the structure of two sex determination regions. BMC Genomics, 18, 341.
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Publication 2017
Animals Dagan Females Gene Deletion Institutional Animal Care and Use Committees Males Sex Deviations Tilapia
3
Jamaican Autism Study on Environmental Exposures
The Jamaican Autism study is a NIH-supported age- and sex-matched case–control study that began enrollment of Jamaican children 2–8 years of age in December 2009, investigating whether environmental exposures to several heavy metals, including mercury, have a role in the onset of an ASD. Information regarding the recruitment and assessment of ASD cases and controls has been described previously (Rahbar etal. 2012 (link)). In short, we administered the Autism Diagnostic Observation Schedule (ADOS) (Lord et al. 2002 ) and the Autism Diagnostic Interview-Revised (ADI-R) (Rutter et al. 2003 ) to confirm the diagnosis of an ASD in case children. As the ADOS and ADI-R assessments take a considerable amount of time (Dixon et al. 2009 ), and we wished to reduce any undue burden on potential control children and their parents, we instead administered the Lifetime form of the Social Communication Questionnaire (SCQ) (Rutter et al. 2003 ) to the parents/guardians of control children to rule out symptoms of ASDs.
We also administered a pre-tested questionnaire to the parents/guardians of both cases and controls to collect demographic and socioeconomic (SES) information (e.g., ownership of a car by the family), parental levels of education, medication and immunization history of children, and potential exposure to mercury through food, with a particular focus on the types and amount of seafood consumed by children. The types of seafood considered included salt water fish, fresh water fish (pond fish, tilapia), sardine or mackerel (canned fish), tuna (canned fish), salt fish (pickled mackerel), shellfish (lobsters, crabs), and shrimp. The frequency of seafood consumption by children was measured through the number of servings (number of meals) of seafood consumed per week. At the end of each interview, the UWI project coordinator, who has received phlebotomy training, collected about 2 mL of venous whole blood from each child using stainless steel needles into plastic tubes containing EDTA which were prescreened for mercury, cadmium, and lead. We also collected hair samples (only from children with long hair, at least 3 in). The blood samples were frozen and stored at −20 °C until they were transported to the Michigan Department of Community Health (MDCH) Trace Metals Lab at ambient temperature on ice packs for trace metal analyses, including mercury.
All participating parents provided written informed consent. In addition, this study was approved by the Institutional Review Boards of the University of Texas Health Science Center at Houston (UTHealth) and the University of the West Indies in Kingston, Jamaica. The data presented herein represent an analysis of 65 matched case–control pairs. As shown below, the available data provide sufficient power to detect meaningful effect sizes for continuous variables, such as blood mercury concentrations, between any two groups compared (e.g., ASD cases and controls or those who eat or do not eat seafood).
Rahbar M.H., Samms-Vaughan M., Loveland K.A., Ardjomand-Hessabi M., Chen Z., Bressler J., Shakespeare-Pellington S., Grove M.L., Bloom K., Pearson D.A., Lalor G.C, & Boerwinkle E. (2012). Seafood Consumption and Blood Mercury Concentrations in Jamaican Children With and Without Autism Spectrum Disorders. Neurotoxicity research, 23(1), 22-38.
Publication 2012
Autistic Disorder BLOOD Cadmium Child Croakers Diagnosis Edetic Acid Environmental Exposure Ethics Committees, Research Fishes Food Freezing Hair Immunization Legal Guardians Louses, Crab Mercury Metals Metals, Heavy Needles Only Child Parent Pharmaceutical Preparations Phlebotomy Salts Seafood Shellfish Specimen Collection Stainless Steel Tilapia Tuna Veins
4
Validating Gonadal Gene Expression in Tilapia
Validation of the expression profiles of the selected DIGs was carried out in two ways: 1) for characterized genes, transcriptome data were compared to published data; and 2) for uncharacterized genes without published data, real-time PCR (qPCR) was performed as described previously to verify the expression profile obtained from the transcriptome data. To perform qPCR, gonads were dissected from XX and XY tilapia at 5, 30, 90, or 180 dah, and total RNA was isolated from each sample and reverse-transcribed using MMLV reverse transcriptase (Invitrogen, Carlsbad, CA, U.S.) according to the manufacturer's protocol. An online real-time PCR primer design tool, GenScript Primer Design (http://www.genscript.com/cgi-bin/tools/primer_genscript.cgi), was used to design the primers (listed in Table S3). The SYBR Green I Master Mix (TaKaRa, Dalian, China) was used for qPCR. qPCR products were quantified using an Applied Biosystems Prism 7500-fast real-time PCR system. The PCR reactions were initiated by denaturation at 95°C for 5 min; followed by 40 amplification cycles at 95°C for 15 s and 60°C for 30 s. Dissociation protocols were used to measure melting curves and to control non-specific signals from the primers. Four β-actin genes were found in Nile tilapia. One of them (GenBank ID: XM_003443127) has been proved to be uniformly expressed in XX and XY gonads. It has been widely used as an internal control for qPCR [55] (link), [56] , [57] (link). It was also used as an internal control in the present study. Primers for β-actin were according to Yoshiura et al.[55] (link). Relative expression levels were calculated as described previously [56] . The statistical package GraphPad Prism (GraphPad Software, Inc.) was used to analyze data from all experiments. The averages of the relative quantities of biological replications (3–4) were used in a two-tailed Student's t-test with a 95% confidence level (P<0.05) to determine the significance with respect to differences between gene expression values for ovary vs. testis.
Tao W., Yuan J., Zhou L., Sun L., Sun Y., Yang S., Li M., Zeng S., Huang B, & Wang D. (2013). Characterization of Gonadal Transcriptomes from Nile Tilapia (Oreochromis niloticus) Reveals Differentially Expressed Genes. PLoS ONE, 8(5), e63604.
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Publication 2013
Actins Biopharmaceuticals DNA Replication Gene Expression Genes Gonads Oligonucleotide Primers Oreochromis niloticus Ovary prisma Real-Time Polymerase Chain Reaction RNA-Directed DNA Polymerase SYBR Green I Testis Tilapia Transcriptome
5
Comprehensive Identification of Transposable Elements
We established species-specific TE libraries by combining automatic and manual annotations for the following species: amphioxus, lamprey, elephant shark, fugu, tetraodon, stickleback, tilapia, platyfish, zebrafish (manual and Repbase sequences; Jurka 2000 (link)), and spotted gar. Manual annotation involved searching the downloaded genomes, using TBLASTN (Altschul et al. 1990 (link)) using TE proteins from different superfamilies as queries. In this process, reverse transcriptases were used to find retrotransposons, and transposases to detect DNA transposons. The longest sequences derived from BLAST hits containing TE-specific features such as TIRs or LTRs as well as characteristic open reading frames were kept for further analyses, including molecular phylogeny-based positioning of the elements in the TE classification. Censor (Jurka et al. 1996 (link)) was also used to identify the sequences. Automatic annotation was performed using the RepeatModeler software (Smit, AFA, Hubley, R. RepeatModeler software weblink: http://www.repeatmasker.org, last accessed January 30, 2015) with default parameters. For the coelacanth, we used and reannotated the library from Amemiya et al. (2013) (link).
Chalopin D., Naville M., Plard F., Galiana D, & Volff J.N. (2015). Comparative Analysis of Transposable Elements Highlights Mobilome Diversity and Evolution in Vertebrates. Genome Biology and Evolution, 7(2), 567-580.
Publication 2015
DNA Library DNA Transposons Elephants Genome Lampreys Lancelets Long Terminal Repeat Open Reading Frames Platyfish Proteins Retrotransposons RNA-Directed DNA Polymerase Sharks Sticklebacks Takifugu Tilapia Transposase Zebrafish

Most recents protocols related to «Tilapia»

1
Tilapia Collagen Sponge Characterization
The collagen of tilapia was extracted by the method of acidase combination, and after moderate freeze-drying, it was prepared into collagen concentrate, placed in a mold, and then freeze-dried to obtain collagen sponge with certain spatial structure. The collagen sponge was prepared into a 0.3✕0.5✕0.5 mm3 cube, sprayed with gold (7Pa, 15mA, 200s), and its spatial structure, porosity, pore size, etc. were observed under a scanning electron microscope to determine whether its pore structure was suitable for cell adhesion and crawling.
Wang L., Qu Y., Li W., Wang K, & Qin S. (2023). Effects and metabolism of fish collagen sponge in repairing acute wounds of rat skin. Frontiers in Bioengineering and Biotechnology, 11, 1087139.
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Publication 2023
Cell Adhesion Collagen Freezing Fungus, Filamentous Gold Porifera Scanning Electron Microscopy Tilapia
2
Tilapia Skin Collagen Sponge for Tissue Regeneration
Fish collagen sponge (which was extracted by acid-enzyme combination from tilapia skin (Pal et al., 2016 (link))), Bovine collagen sponge (Wuxi Beidi Bioengineering Co., LTD.), SD rat (Jinan Peng Yue Animal Breeding Center), Immunohistochemical kit (Beijing Solaibao Technology Co., LTD.), FGF antibody, VEGF antibody, Col I antibody (Abcam), Col III antibody (Amyjet), FITC (Thermo), CCK-8 kit (Beijing Solaibo Technology Co., LTD.), Live cell/dead cell double staining kit (Calcein-AM/PI), L929 (mouse fibroblast, Qingqi (Shanghai) Biotechnology Development Co., LTD.), Roswell Park Memorial Institute (RPMI) 1640 (Thermo), Glutaraldehyde (Maclin), Hematoxylin-Eosin (HE) Stain Kit (Beijing Solaibao Technology Co., LTD.), Masson’s Trichrome Stain Kit (Beijing Solaibao Technology Co., LTD.).
Wang L., Qu Y., Li W., Wang K, & Qin S. (2023). Effects and metabolism of fish collagen sponge in repairing acute wounds of rat skin. Frontiers in Bioengineering and Biotechnology, 11, 1087139.
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Publication 2023
Acids Animals Bos taurus Cells Collagen Enzymes Eosin Fibroblasts Fishes Fluorescein-5-isothiocyanate fluorexon Glutaral Hematoxylin Immunoglobulins Mus Porifera Sincalide Skin Tilapia trichrome stain Vascular Endothelial Growth Factors
3
Tilapia Acclimation and Water Quality Maintenance
This research used tilapia O. niloticus from a fish farm in Pasuruan, East Java that measured 10.1 ± 0.7 cm in length and weighed 16.1 ± 0.5 g. A plastic bag containing oxygenated fresh water was used to bring them to the laboratory. The animals were then acclimated for two weeks in laboratory acclimation tanks (250 L) using dechlorinated tap water at 28-29°C and 12-hour light/12-hour dark photoperiods [26 (link)]. A biofilter made up of gravel, sand, and sponge filters, maintained water quality by recirculating the water continuously. Pellet fish meal equal to 1% of the fishes' daily estimated body weight was given to them [26 (link)]. To preserve the water quality at an adequate level for fish, excrement, uneaten food scraps, and other undesired things were removed daily. During acclimation and testing, daily measurements showed that the optimal ranges for temperature (28.5 ± 0.6°C), pH (7.9 ± 0.2), and dissolved oxygen (7.4 ± 0.3 mg/L).
Soegianto A., Yulianto B., Payus C.M., Affandi M., Mukholladun W., Indriyasari K.N., Marchellina A, & Rahmatin N.M. (2023). Sublethal Effects of Cadmium on the Osmoregulatory and Acid-Base Parameters of Tilapia (Oreochromis niloticus) at Various Times. Journal of Toxicology, 2023, 2857650.
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Publication 2023
Acclimatization Animals Body Weight Fishes Food Light Oxygen Porifera Tilapia
4
Cadmium Quantification in Tilapia Gills
Soegianto et al. [28 (link)] technique was used to measure Cd in tilapia gills. To attain a uniform weight, tilapia gills were excised and dried in the oven at 65°C for 48 h. Next, the dried gills were pulverized. Following this, 0.5 g of pulverized gills were digested for 4 h at 90°C in 3 mL of H2NO3 (Merck, Darmstadt, Germany). After the digested gill sample was cooled, it was filtered using Whatman filter paper with a pore size of 0.45 μm and the volume was brought up to 50 mL with deionized water. Concentrations of Cd were determined using a Shimadzu AA-7000 atomic absorption spectrophotometer (Tokyo, Japan), with values expressed in mg/kg dry weight and a limit of detection of 0.001 mg/kg. The analytical method was confirmed by measuring heavy metals in standard reference material (DORM-4) from the National Research Council of Canada. Validation of the analytical method found the Cd recovery to be 106% of the certificate of DORM-4.
Soegianto A., Yulianto B., Payus C.M., Affandi M., Mukholladun W., Indriyasari K.N., Marchellina A, & Rahmatin N.M. (2023). Sublethal Effects of Cadmium on the Osmoregulatory and Acid-Base Parameters of Tilapia (Oreochromis niloticus) at Various Times. Journal of Toxicology, 2023, 2857650.
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Publication 2023
Gills Metals, Heavy Strains Tilapia
5
Characterization of Formalin-Inactivated GBS Vaccine
The vaccine strain, GBS isolate MRI Z2-388, belongs to ST283, and was originally isolated by the authors from the brain of a clinically affected tilapia in the Mekong Delta area, Vietnam, in 2016. To preserve the structural integrity of the bacteria, they were formalin-inactivated in 2% paraformaldehyde (1 h at room temperature, then 24 h at 4°C), followed by suspension to a calculated concentration of 109 colony forming units (CFU)/mL in 0.1 M PBS, pH 7.4.
The challenge bacteria, GBS isolate 0101030, also belongs to the ST283 strain, and was also isolated by the authors from the brain of a clinically affected tilapia in the Mekong Delta area, Vietnam. Both isolates were identified to species and strain level by colony morphology, Gram stain, and multi-locus sequence typing (MLST) as described in [6 ].
To determine the morphological characteristics of the formalin-inactivated bacteria used in the vaccine formulation, samples of a dilute dispersion of GBS (in de-ionized water, 107 CFU/ml) were mounted onto aluminum stubs and allowed to dry overnight before being sputter coated with gold in a high-vacuum evaporator for 3 min at 30mA (Emitech K550, Ashford, England) and photographed using a scanning electron microscope (SEM, Philips XL30, Eindhoven, Holland). The particle size and zeta potential of GBS organisms was measured by dynamic light scattering using the Zeta sizer Ultra (Malvern instruments Ltd, Worcestershire, UK), using a GBS suspension (at a concentration of 106 CFU/mL in deionized water).
Bashir S., Phuoc N.N., Herath T., Basit A., Zadoks R.N, & Murdan S. (2023). An oral pH-responsive Streptococcus agalactiae vaccine formulation provides protective immunity to pathogen challenge in tilapia: A proof-of-concept study. PLOS ONE, 18(3), e0278277.
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Publication 2023
Aluminum Bacteria Brain Formalin Gold Gram's stain paraform Scanning Electron Microscopy Strains Technique, Dilution Tilapia Vaccines Vacuum

Top products related to «Tilapia»

1
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MS-222 is a chemical compound commonly used as a fish anesthetic in research and aquaculture settings. It is a white, crystalline powder that can be dissolved in water to create a sedative solution for fish. The primary function of MS-222 is to temporarily immobilize fish, allowing for safe handling, examination, or other procedures to be performed. This product is widely used in the scientific community to facilitate the study and care of various fish species.
2
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TRIzol reagent is a monophasic solution of phenol, guanidine isothiocyanate, and other proprietary components designed for the isolation of total RNA, DNA, and proteins from a variety of biological samples. The reagent maintains the integrity of the RNA while disrupting cells and dissolving cell components.
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TRIzol is a monophasic solution of phenol and guanidine isothiocyanate that is used for the isolation of total RNA from various biological samples. It is a reagent designed to facilitate the disruption of cells and the subsequent isolation of RNA.
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Primescript rt master mix perfect real time kit by Takara Bio
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The PrimeScript RT Master Mix Perfect Real Time Kit is a reagent kit designed for reverse transcription and real-time PCR. It contains the necessary components for the rapid and efficient conversion of RNA to cDNA, as well as for the subsequent real-time amplification and detection of the target sequence.
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The CM1860 is a cryostat from Leica Biosystems, designed for the preparation of frozen tissue samples for histological analysis. It is a laboratory equipment used for cutting thin sections of frozen tissue specimens for microscopic examination.
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More about "Tilapia"

Tilapia, an Aquacultural Powerhouse: Unlocking the Potential of a Versatile Freshwater Fish Tilapia, a resilient and rapidly-growing freshwater fish, has emerged as a true aquacultural superstar.
Known for its hardy nature, adaptability to diverse environments, and impressive growth rates, tilapia has become an increasingly important source of protein and income, particularly in developing regions.
Optimizing Tilapia Rearing Protocols: Key to Improving Productivity and Sustainability Tilapia aquaculture research is a crucial focus area, as scientists and farmers strive to develop the most effective rearing protocols.
By identifying the optimal conditions for tilapia growth, reproduction, and overall health, researchers can enhance the productivity, reproducibility, and sustainability of tilapia farming.
This encompasses exploring factors such as water quality, feed formulations, and environmental parameters.
Synergizing Cutting-Edge Technologies for Tilapia Research Researchers leveraging advanced technologies like MS-222 (an anesthetic agent), TRIzol reagent (for RNA extraction), NanoDrop 2000 (for nucleic acid quantification), and the PrimeScript RT Master Mix Perfect Real Time Kit (for cDNA synthesis) can gain critical insights into tilapia biology, genetics, and physiology.
Similarly, tools like the CM1860 flow cytometer, HiSeq 2500 sequencing platform, and 2100 Bioanalyzer can provide valuable data on tilapia cell dynamics, genomic profiles, and transcriptional patterns.
Enzyme-Assisted Tilapia Processing: Enhancing Quality and Efficiency Beyond the rearing stage, the processing of tilapia also presents opportunities for optimization.
Enzymes like Pepsin can play a crucial role in improving the texture, flavor, and nutritional profile of tilapia products, while also streamlining the processing workflow.
Genetic Engineering and Tilapia Aquaculture: Unlocking New Frontiers Cutting-edge genetic engineering techniques, such as the utilization of the pGEM-T Easy vector system, hold the potential to unlock new avenues for tilapia aquaculture.
By selectively breeding or genetically modifying tilapia, researchers can explore ways to enhance desirable traits, like disease resistance, growth rates, and environmental adaptability.
As the global demand for sustainable, high-quality protein sources continues to rise, the role of tilapia aquaculture becomes increasingly pivotal.
By optimizing rearing protocols, leveraging advanced technologies, and exploring genetic engineering possibilities, the aquaculture industry can unlock the full potential of this versatile freshwater fish, driving towards a more food-secure and environmentally responsible future.