Journal Description
Fishes
Fishes
is an international, peer-reviewed, scientific, open access journal published monthly online by MDPI. It covers fishes and aquatic animals research. The Iberian Society of Ichthyology (SIBIC) and the Brazilian Society of Aquaculture and Aquatic Biology (Aquabio) are affiliated with Fishes and their members receive a discount on the article processing charges.
- Open Access— free for readers, with article processing charges (APC) paid by authors or their institutions.
- High Visibility: indexed within Scopus, SCIE (Web of Science), PubAg, FSTA, and other databases.
- Journal Rank: JCR - Q2 (Marine & Freshwater Biology)
- Rapid Publication: manuscripts are peer-reviewed and a first decision is provided to authors approximately 15.7 days after submission; acceptance to publication is undertaken in 2.8 days (median values for papers published in this journal in the second half of 2023).
- Recognition of Reviewers: reviewers who provide timely, thorough peer-review reports receive vouchers entitling them to a discount on the APC of their next publication in any MDPI journal, in appreciation of the work done.
- Testimonials: See what our editors and authors say about Fishes.
Impact Factor:
2.3 (2022);
5-Year Impact Factor:
2.4 (2022)
Latest Articles
The Effects of Different Concentrations of Hydrogen−Rich Water on the Growth Performance, Digestive Ability, Antioxidant Capacity, Glucose Metabolism Pathway, mTOR Signaling Pathway, and Gut Microbiota of Largemouth Bass (Micropterus salmoides)
Fishes 2024, 9(6), 210; https://doi.org/10.3390/fishes9060210 (registering DOI) - 1 Jun 2024
Abstract
Hydrogen−rich water (HRW) is widely recognized for its growth promoting, antioxidant, and anti−inflammatory properties. However, little is known about the role of HRW in aquaculture. This study aims to investigate how different concentrations of HRW affect the growth performance, digestive ability, antioxidant capacity,
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Hydrogen−rich water (HRW) is widely recognized for its growth promoting, antioxidant, and anti−inflammatory properties. However, little is known about the role of HRW in aquaculture. This study aims to investigate how different concentrations of HRW affect the growth performance, digestive ability, antioxidant capacity, mTOR signaling pathway, and gut microbiota of juvenile largemouth bass. We randomly assigned 360 fish (13.73 ± 0.1 g) to three treatments. The control group was maintained in regular water, while the treatment groups were treated with different concentrations of H2 dissolved in water, which were H1 (179.65 ± 31.95 ppb) and H2 (280.65 ± 64.43 ppb), respectively. Through an analysis of the three treatments, it was found that H1 significantly increased the final body weight, weight gain rate, specific growth rate, and survival rate, and reduced the feed conversion ratio (p < 0.05). In addition, the trypsin activity was significantly increased in the intestine (p < 0.05), and the expression of genes related to the glucose metabolism (pk and pepck) and mTOR (tor, akt, s6k1, 4ebp1, and ampka) signaling pathways were significantly increased in the liver in H1 (p < 0.05). The relative abundance of Blautia in the gut microbiota (p < 0.05) was significantly increased in H1. Therefore, these results indicated that H1 can significantly improve growth performance, promote intestinal digestion, activate the glucose metabolism pathway and mTOR signaling pathway, and increase the abundance of beneficial bacteria in the gut of largemouth bass. These findings provided valuable support for the application of HRW to support the healthy aquaculture of largemouth bass.
Full article
(This article belongs to the Section Physiology and Biochemistry)
Open AccessArticle
Environmental Influences on Illex argentinus Trawling Grounds in the Southwest Atlantic High Seas
by
Delong Xiang, Yang Li, Keji Jiang, Haibin Han, Yuhan Wang, Shenglong Yang, Heng Zhang and Yuyan Sun
Fishes 2024, 9(6), 209; https://doi.org/10.3390/fishes9060209 (registering DOI) - 1 Jun 2024
Abstract
To understand the spatial temporal distribution characteristics of Illex argentinus caught by trawl fishing vessels in the Southwestern Atlantic Ocean and their relationship with key marine environmental factors, this study analyzed the temporal and spatial changes in the fishing ground center of trawl
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To understand the spatial temporal distribution characteristics of Illex argentinus caught by trawl fishing vessels in the Southwestern Atlantic Ocean and their relationship with key marine environmental factors, this study analyzed the temporal and spatial changes in the fishing ground center of trawl vessels at the ten-day scale from December 2019 to May 2022, combining Chinese trawl fishing log data marine environmental data with satellite remote sensing marine environmental data. Utilizing the Maxent model, ten-day intervals were used as the temporal scale, and ten marine environmental factors, including sea surface temperature, sea surface height, sea surface salinity, chlorophyll concentration, temperature at 50 m and 100 m depth, and the meridional and zonal velocities of ocean currents were quantitatively analyzed to explore the correlation between the spatial distribution of catch and environmental factors. The study reveals that the trawl fishing grounds for Illex argentinus are divided into southern and northern grounds. The southern grounds first appear near 45°20′ S in December, gradually moving southeastward in February and March. The northern grounds do not appear until April, near 42° S in the high seas. On the ten-day time scale, the central fishing grounds of Illex argentinus show significant spatial variability but minor interannual differences. The Maxent model results indicate that sea surface temperature and chlorophyll a concentration are the key environmental factors influencing the spatial and temporal variability of the high seas trawl fishing grounds for most of the time, with high environmental contribution rates during the fishing season. While the range of suitable habitats with an HSI > 0.6 identified by the Maxent model varies significantly between years, a pattern is observed where the range expands at the start and end of the fishing season and contracts during the peak fishing season. This suggests that a more concentrated range of suitable habitats is conducive to accurate predictions of trawl fishing grounds, enabling efficient fishing operations.
Full article
(This article belongs to the Section Biology and Ecology)
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Open AccessReview
Tropical Shrimp Biofloc Aquaculture within Greenhouses in the Mediterranean: Preconditions, Perspectives, and a Prototype Description
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Dimitrios K. Papadopoulos, Maria V. Alvanou, Athanasios Lattos, Kosmas Ouroulis and Ioannis A. Giantsis
Fishes 2024, 9(6), 208; https://doi.org/10.3390/fishes9060208 (registering DOI) - 1 Jun 2024
Abstract
Biofloc technology (BFT) offers an innovative eco-friendly approach that is particularly applicable in shrimp farming. Penaeus vannamei is the most important seafood species in terms of global economic value. Nevertheless, its increasing global demand highlights the necessity for sustainable production of P. vannamei
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Biofloc technology (BFT) offers an innovative eco-friendly approach that is particularly applicable in shrimp farming. Penaeus vannamei is the most important seafood species in terms of global economic value. Nevertheless, its increasing global demand highlights the necessity for sustainable production of P. vannamei shrimps outside their native range, assuring the avoidance of genetic pollution risk. Towards this direction, the present study focuses on the feasibility of tropical shrimp species aquaculture in indoor systems evaluating BFT application in temperate zones. The achievability of P. vannamei cultivation inside greenhouses in temperate latitudes is thoroughly examined and a representative experimental biofloc setup for P. vannamei within a greenhouse in Northern Greece is demonstrated. Nevertheless, there are two major limitations, related to economy and ecology, namely the energy demand for high seawater temperature and the fact that most reared shrimps are non-indigenous species setting risk for genetic pollution, respectively. To overcome the former, energy-saving measures such as tank and greenhouse insulation in combination with a microclimate chamber construction were implemented to optimize water temperature at minimal cost. Concerning the latter, there is clear evidence that P. vannamei populations cannot be established in the Mediterranean, setting aside any environmental risk. Overall, based on the developed and tested pilot prototype, employment of optimal management practices, innovative manufacturing and clean energy alternatives, and the utilization of ecosystem services could reduce the environmental impact and maximize the profitability of biofloc operations. These actions could probably permit sustainable and economically viable farming of P. vannamei employing BFT within greenhouses in the Mediterranean.
Full article
(This article belongs to the Special Issue Advances in Shrimp Aquaculture)
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Open AccessArticle
Influence of Feeding, Temperature and Photoperiod on Purple Sea Urchin (Paracentrotus lividus) Gonad Development
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João Araújo, Margarida Gamboa, Ioannis Choulis, Ana Candeias-Mendes, Elsa Cabrita, Pedro Pousão-Ferreira and Florbela Soares
Fishes 2024, 9(6), 207; https://doi.org/10.3390/fishes9060207 (registering DOI) - 1 Jun 2024
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Understanding and controlling reproductive cycles and gonad maturation in cultivated species are crucial in aquaculture. The sea urchin Paracentrotus lividus, known for its edible gonads, requires careful maturation control for both reproduction and commercialization. This study explores the impact of temperature, photoperiod,
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Understanding and controlling reproductive cycles and gonad maturation in cultivated species are crucial in aquaculture. The sea urchin Paracentrotus lividus, known for its edible gonads, requires careful maturation control for both reproduction and commercialization. This study explores the impact of temperature, photoperiod, and diet on gonad development to enhance year-round aquaculture practices. Using two independent cultivation systems, we manipulated environmental conditions to mimic different seasons. Sea urchins were exposed to natural or manipulated temperature and photoperiod conditions and fed either natural (Ulva spp.) or formulated diets. The gonadosomatic index (GI) and histological analysis were used to assess gonad development. The results revealed a clear correlation between environmental conditions, diet, and gonad maturation. Manipulated conditions accelerated maturation, with sea urchins showing advanced stages compared to natural conditions. Furthermore, sea urchins fed formulated diets exhibited higher GI values, indicating enhanced maturation. Histological analysis confirmed accelerated maturation, particularly in females. This study underscores the feasibility of controlling gonad maturation through environmental manipulation and diet, enabling year-round marketable gonad production. Providing formulated diets rich in polyunsaturated fatty acids, notably docosahexaenoic acid (DHA), enhances the commercial value of sea urchins. These findings optimize aquaculture practices for P. lividus, highlighting its adaptability to the maximal production of gonads throughout the year.
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Open AccessArticle
Research on Measuring the Bodies of Underwater Fish with Inclined Positions Using the YOLOv8 Model and a Line-Laser System
by
Jiakang Li, Shengmao Zhang, Penglong Li, Yang Dai and Zuli Wu
Fishes 2024, 9(6), 206; https://doi.org/10.3390/fishes9060206 (registering DOI) - 1 Jun 2024
Abstract
Fish body measurement is essential for monitoring fish farming and evaluating growth. Non-destructive underwater measurements play a significant role in aquaculture management. This study involved annotating images of fish in aquaculture settings and utilized a line laser for underwater distance calibration and fish
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Fish body measurement is essential for monitoring fish farming and evaluating growth. Non-destructive underwater measurements play a significant role in aquaculture management. This study involved annotating images of fish in aquaculture settings and utilized a line laser for underwater distance calibration and fish body inclined-angle calculation. The YOLOv8 model was employed for fish identification and key-point detection, enabling the determination of actual body dimensions through a mathematical model. The results show a root-mean-square error of 6.8 pixels for underwater distance calibration using the line laser. The pre-training YOLOv8-n, with its lower parameter counts and higher MAP values, proved more effective for fish identification and key-point detection, considering speed and accuracy. Average body length measurements within 1.5 m of the camera showed a minor deviation of 2.46% compared to manual measurements. The average relative errors for body length and width were 2.46% and 5.11%, respectively, with corresponding average absolute errors. This study introduces innovative techniques for fish body measurement in aquaculture, promoting the digitization and informatization of aquaculture processes.
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(This article belongs to the Special Issue AI and Fisheries)
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Open AccessFeature PaperArticle
Feed Additives Based on N. gaditana and A. platensis Blend Improve Quality Parameters of Aquacultured Gilthead Seabream (Sparus aurata) Fresh Fillets
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María Isabel Sáez, Alba Galafat, Silvana Teresa Tapia Paniagua, Juan Antonio Martos-Sitcha, Francisco Javier Alarcón-López and Tomás Francisco Martínez Moya
Fishes 2024, 9(6), 205; https://doi.org/10.3390/fishes9060205 - 31 May 2024
Abstract
The aim of this research is to explore the potential effects of two microalgae-based additives included in finishing feeds on the quality and shelf-life of seabream fillets. In a 41-day feeding trial, seabream specimens were fed with experimental aquafeeds containing 10% of the
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The aim of this research is to explore the potential effects of two microalgae-based additives included in finishing feeds on the quality and shelf-life of seabream fillets. In a 41-day feeding trial, seabream specimens were fed with experimental aquafeeds containing 10% of the bioactive supplements. These additives consisted of a blend of Nannochloropsis gaditana and Arthrospira platensis biomass, which was utilized as either raw (LB-CB) or enzymatically hydrolyzed (LB-CBplus). A control group received a microalgae-free diet. The results showed that the functional aquafeeds improved the nutritional profile of seabream fillets, increasing protein and PUFA-n3 contents while reducing the atherogenic index, especially for the LB-CBplus treatment. LB-CBplus also enhanced the texture parameters (hardness and chewiness) of fillets during the initial 5 days under cold storage. Regarding skin pigmentation, fillets showed increased greenish and yellowish coloration compared to control fish, mostly attributed to the inclusion of crude algal biomass (LB-CB). Moreover, diets enriched with microalgae additives effectively delayed muscle lipid oxidation processes under refrigeration for up to 12 days, with LB-CBplus exhibiting higher antioxidant effects. These findings highlight the potential of microalgae-based additives to enhance both the nutritional and organoleptic quality of seabream fillets.
Full article
(This article belongs to the Special Issue Effects of Feed Additives on Fish Health and Fillet Quality)
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Open AccessArticle
Feature Selection for Explaining Yellowfin Tuna Catch per Unit Effort Using Least Absolute Shrinkage and Selection Operator Regression
by
Ling Yang and Weifeng Zhou
Fishes 2024, 9(6), 204; https://doi.org/10.3390/fishes9060204 - 30 May 2024
Abstract
To accurately identify the key features influencing the fisheries distribution of Pacific yellowfin tuna, this study analyzed data from 43 longline fishing vessels operated from 2008 to 2019. These vessels operated in the Pacific Ocean region (0° to 30° S; 110° E to
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To accurately identify the key features influencing the fisheries distribution of Pacific yellowfin tuna, this study analyzed data from 43 longline fishing vessels operated from 2008 to 2019. These vessels operated in the Pacific Ocean region (0° to 30° S; 110° E to 170° W), with a specific focus on 25 features of yellowfin tuna derived from marine environment data. For this purpose, this study opted for the Lasso regression analysis method to select features to predict Pacific yellowfin tuna fishing grounds, exploring the relationship between the catch per unit effort (CPUE) of yellowfin tuna and multiple features. This study reveals that latitude and water temperature at various depths, particularly the sea surface temperature of the preceding and subsequent months and the temperature at depths between 300 and 450 m, are the most significant features influencing CPUE. Additionally, chlorophyll concentration and large-scale climate indices (ONI and NPGIO) also have a notable impact on the distribution of CPUE for yellowfin tuna. Lasso regression effectively identifies features that are significantly correlated with the CPUE of yellowfin tuna, thereby demonstrating superior fit and predictive accuracy in comparison with other models. It provides a suitable methodological approach for selecting fishing ground features of yellowfin tuna in the Pacific Ocean.
Full article
(This article belongs to the Special Issue AI and Fisheries)
Open AccessArticle
Exploring Cellular Dynamics in the Goldfish Bulbus Arteriosus: A Multifaceted Perspective
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Doaa M. Mokhtar, Enas A. Abd-Elhafez, Marco Albano, Giacomo Zaccone and Manal T. Hussein
Fishes 2024, 9(6), 203; https://doi.org/10.3390/fishes9060203 - 29 May 2024
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The bulbus arteriosus of goldfish, Carassius auratus, possesses unique structural features. The wall of the bulbus arteriosus is exceptionally thick, with an inner surface characterized by longitudinally arranged finger-like ridges, resulting in an uneven luminal appearance. These ridges are covered by endocardium
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The bulbus arteriosus of goldfish, Carassius auratus, possesses unique structural features. The wall of the bulbus arteriosus is exceptionally thick, with an inner surface characterized by longitudinally arranged finger-like ridges, resulting in an uneven luminal appearance. These ridges are covered by endocardium and encased in an amorphous extracellular matrix. The inner surface of the bulbus arteriosus also contains rodlet cells at different developmental stages, often clustered beneath the endothelium lining the bulbar lumen. Ruptured rodlet cells release their contents via a holocrine secretion process. The high abundance of rodlet cells in the bulbus arteriosus suggests that this is the site of origin for these cells. Within the middle layer of the bulbus arteriosus, smooth muscle cells, branched telocytes (TCs), and collagen bundles coexist. TCs and their telopodes form complex connections within a dense collagen matrix, extending to rodlet cells and macrophages. Moreover, the endothelium makes direct contact with telopodes. The endocardial cells within the bulbus arteriosus display irregular, stellate shapes and numerous cell processes that establish direct contact with TCs. TEM reveals that they contain moderately dense bodies and membrane-bound vacuoles, suggesting a secretory activity. TCs exhibit robust secretory activity, evident from their telopodes containing numerous secretory vesicles. Furthermore, TCs release excretory vesicles containing bioactive molecules into the extracellular matrix, which strengthens evidence for telocytes as promising candidates for cellular therapies and regeneration in various heart pathologies.
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Open AccessArticle
Food Web Structure and Ecosystem Functions of the Water Source in the Middle Route of China’s South-to-North Water Diversion Project
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Yuanyuan Zhang, Kaidi Gu, Xinyu Wang, Ji’ao Zhang, Jiaoyang Duan, Zhongjun Hu and Qigen Liu
Fishes 2024, 9(6), 202; https://doi.org/10.3390/fishes9060202 - 28 May 2024
Abstract
The Danjiangkou Reservoir is the water source of the middle route of China’s South-to-North Water Diversion Project, encompassing the Dan Reservoir and Han Reservoir. However, little is known about the ecological functions of this important ecosystem. Based on a survey conducted in 2023
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The Danjiangkou Reservoir is the water source of the middle route of China’s South-to-North Water Diversion Project, encompassing the Dan Reservoir and Han Reservoir. However, little is known about the ecological functions of this important ecosystem. Based on a survey conducted in 2023 in the Dan Reservoir, a mass balance model was constructed using Ecopath with Ecosim 6.6 software to characterize its food web structure and ecosystem properties. The model consisted of 18 functional groups, including producers, consumers, and detritus, covering the entire process of energy flow in the ecosystem. The outputs indicated that the fractional trophic level of functional groups in the Dan Reservoir ecosystem ranged from 1.00 to 3.50. The ecotrophic efficiencies of the main economic fish species were all less than 0.9, and the ecotrophic efficiencies of phytoplankton and detritus were less than 0.5. There were two main food chains: the detritus food chain (39%) and the grazing food chain (61%). The total energy transfer efficiency between trophic levels was only 6.02%, and there was a significant phenomenon of energy transfer blockage between trophic levels II and V. Analysis of the overall characteristics of the ecosystem revealed that the total primary production to total biomass (67.96619), connectance index (0.274), and Finn’s cycling index (2.856) of the Dan Reservoir ecosystem all indicate that the ecosystem is immature, with low nutrient recycling efficiency and poor resistance to external disturbances. This may be related to the low proportion of silver carp and bighead carp in the reservoir and the unreasonable structure of the fish community. Our results suggest that it is necessary to scientifically adjust the structure of the fish community, enhance the proportion of filter-feeding and omnivorous fish to improve the energy flow efficiency, and promote the maturity and stability of the Dan Reservoir.
Full article
(This article belongs to the Section Biology and Ecology)
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Open AccessArticle
Genetic Characterization of Endangered Sterlet (Acipenser ruthenus, Linnaeus 1758) Gene Bank Broodstock, Natural and Cultured Populations in Hungary
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Gyöngyvér Fazekas, Gyula Kovács, Zsuzsanna J. Sándor, Katalin Bogár, Aliz Géczi and Balázs Kovács
Fishes 2024, 9(6), 201; https://doi.org/10.3390/fishes9060201 - 28 May 2024
Abstract
The sterlet (Acipenser ruthenus) is the smallest-bodied endangered species among the six native sturgeon species of the Danube River, and self-sustaining populations still inhabit the Hungarian section of the Danube River and its largest tributary, the Tisza River. Their populations are
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The sterlet (Acipenser ruthenus) is the smallest-bodied endangered species among the six native sturgeon species of the Danube River, and self-sustaining populations still inhabit the Hungarian section of the Danube River and its largest tributary, the Tisza River. Their populations are drastically decreasing; however, they still have natural reproduction in these habitats. For the genetic conservation of the species, an ex situ gene bank is maintained in Hungary. The present study aimed to analyze the genetic resources of a gene bank with a near 40-year history and to compare it with natural populations and farmed stocks. Twelve microsatellites were used for population genetics analyses and individual genotyping of 268 specimens from two natural habitats (Danube and Tisza Rivers) and three captive stocks (a gene bank broodstock and two farms). Microsatellites revealed similar patterns among wild populations and gene bank stocks and did not show genetic differentiation (FST: 0.016–0.017) among them. These results confirmed that the gene bank broodstock properly represents the genetic background of the Danube and Tisza populations and is suitable as a source of breeding materials for the restocking programs. Negative trends were detected in the farmed stocks, reflected in reduced polymorphism at a few loci. The results of the principal component analyses indicate the farm stocks’ separation from the wild and gene bank stocks. The present genetic characterization study reveals a valuable captive stock of the endangered sterlet populations and provides unique information about the genetic similarities and differences among farms and wild stocks in Hungary. Our results provide information that contributes to preserving the genetic structure and variability in sterlet populations and supports the management of gene bank broodstock—avoiding inbreeding and preserving the unique genetic background of the Carpathian basin.
Full article
(This article belongs to the Section Genetics and Biotechnology)
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Open AccessFeature PaperArticle
Assessing Economic Contributions of the Virginia Seafood Industry: An Estimation Framework Utilizing Primary Data
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Fernando H. Gonçalves, Jonathan van Senten, Michael H. Schwarz and Shraddha Hegde
Fishes 2024, 9(6), 200; https://doi.org/10.3390/fishes9060200 - 26 May 2024
Abstract
With a focus on seafood industries, this study provides a framework for economic contribution assessments, outlines Virginia’s seafood supply chain components, and evaluates the direct, indirect, and induced economic impacts of Virginia’s seafood industry in 2019. Utilizing an analysis-by-parts method in IMPLAN, primary
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With a focus on seafood industries, this study provides a framework for economic contribution assessments, outlines Virginia’s seafood supply chain components, and evaluates the direct, indirect, and induced economic impacts of Virginia’s seafood industry in 2019. Utilizing an analysis-by-parts method in IMPLAN, primary expenditure data from watermen, aquaculture farmers, processors, and distributors were collected through surveys. The efficacy of obtaining primary data through stakeholder surveys heavily relies on the investigator’s interpersonal skills to establish trust and elucidate the study’s benefits, particularly its potential to inform policy decisions. In 2019, the Virginia seafood industry’s estimated total economic contributions amounted to USD 1.1 billion, supporting 7187 individuals. This impact encompasses 6050 direct jobs, 523 indirect jobs, and 614 induced jobs, primarily benefiting watermen and coastal communities. Furthermore, the industry’s influence extends beyond its immediate economic sphere, supporting diverse sectors such as polystyrene foam manufacturing, boat building, sporting and athletic goods, and commercial and industrial machinery. Wages and salaries disbursed throughout the seafood supply chain ripple to Virginia’s economy, benefiting nondepository credit intermediation, owner-occupied dwellings, and real estate sectors. Future research focusing on seafood sales in restaurants and retail outlets will complete the understanding of the seafood industry’s broader economic impact on the state.
Full article
(This article belongs to the Section Fishery Economics, Policy, and Management)
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Open AccessArticle
Protective Effects of Roselle Aqueous Extracts against UV-Induced Damage in Zebrafish Fins
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I-Ting Lee, Ching-Yuan Huang, Wei-Lin Su, Tran M. Truong, Chi-Chung Wen, Bo-Chang Wang and Yau-Hung Chen
Fishes 2024, 9(6), 199; https://doi.org/10.3390/fishes9060199 - 26 May 2024
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(1) Background: Roselle (Hibiscus sabdariffa) is a flowering plant reported to have anti-obesity, antioxidant, antibacterial, and anti-inflammatory effects. This study aims to evaluate the UV-absorbing and antioxidant activities of roselle aqueous extracts (RAE) and test the protective effects of RAE against
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(1) Background: Roselle (Hibiscus sabdariffa) is a flowering plant reported to have anti-obesity, antioxidant, antibacterial, and anti-inflammatory effects. This study aims to evaluate the UV-absorbing and antioxidant activities of roselle aqueous extracts (RAE) and test the protective effects of RAE against UV radiation in zebrafish embryos. (2) Methods: DPPH assay and UV-spectrum methods were applied to evaluate the antioxidant and UV-absorbing activities, respectively. The protective effects of RAE were evaluated using fin morphology recording, Kaplan–Meier analysis, and Cox proportional hazards regression. Real-time PCR experiments were also applied to detect both the UV- and RAE-induced gene expressions. (3) Results: Our results show that (i) RAE had UV-absorbing abilities and significantly reduced ROS production in vitro; (ii) the mean times of malformed fins in the UV + RAE (36 and 48 ppm) groups were 3.56 and 4.44 days, respectively, and were prolonged compared to those in the UV-only group (3.36 days); (iii) zebrafish in the UV + RAE (36 and 48 ppm) groups were 0.963 and 0.496 (p < 0.001) times more likely to develop to malformed fins, respectively, than those in the UV-only group; and (iv) the RAE treatment led to the 0.19- to 0.62-fold downregulation of the p53, p21, mdm2, and bcl2 gene expressions, compared to the UV-only group. (4) Conclusions: The UV-protective effects of RAE might derive from both the in vitro UV-absorbing activity and in vivo regulation of the p53, p21, mdm2, and bcl2 gene expressions.
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Open AccessArticle
Effect of CRISPR/Cas9 Targets Associated with Iron Metabolism and Its Variation on Transcriptional Regulation of SHK-1 Cell Line as a Model for Iron Metabolism
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Phillip Dettleff, Yehwa Jin, Carolina Peñaloza, Rodrigo Pulgar, Alejandro Sáez, Diego Robledo and Sebastian Escobar-Aguirre
Fishes 2024, 9(6), 198; https://doi.org/10.3390/fishes9060198 - 26 May 2024
Abstract
In this study, we investigated the function of a gene associated with iron metabolism using CRISPR-Cas9 and RNA sequencing in SHK-1 salmon cells. Our objective was to understand how different guide RNA (gRNA) sequences against the transferrin gene tf could influence gene expression
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In this study, we investigated the function of a gene associated with iron metabolism using CRISPR-Cas9 and RNA sequencing in SHK-1 salmon cells. Our objective was to understand how different guide RNA (gRNA) sequences against the transferrin gene tf could influence gene expression and cellular processes related to iron uptake. RNA-Seq analysis was performed to evaluate the transcriptomic effects of two distinct gRNA targets with high knock-out (KO) efficiencies for the targeted tf gene in the SHK-1 genome. Our results showed no significant differential expression in transferrin-related transcripts between wild-type and CRISPR-edited cells; however, there were major differences between their transcriptomes, indicating complex transcriptional regulation changes. Enrichment analysis highlighted specific processes and molecular functions, including those related to the nucleus, cytoplasm, and protein binding. Notably, different sgRNAs targeting tf might result in different mutations at DNA levels in SHK-1 salmon cells.
Full article
(This article belongs to the Special Issue Aquatic Animal Transgene and Gene Editing Technology)
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Open AccessArticle
Diets, Condition, and Reproductive Fitness of Slimy Sculpin (Uranidea cognata) after Catastrophic Flooding in Trout Streams in Southeastern Minnesota, USA
by
Neal D. Mundahl
Fishes 2024, 9(6), 197; https://doi.org/10.3390/fishes9060197 - 25 May 2024
Abstract
Slimy sculpin (Uranidea cognata) inhabit coldwater streams in southeastern Minnesota, USA, many of which were subjected to probable 2000-year flood events in August 2007. Floods scoured streambeds, created new stream channels, and greatly reduced benthic invertebrate communities that serve as the
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Slimy sculpin (Uranidea cognata) inhabit coldwater streams in southeastern Minnesota, USA, many of which were subjected to probable 2000-year flood events in August 2007. Floods scoured streambeds, created new stream channels, and greatly reduced benthic invertebrate communities that serve as the primary food resource for sculpin. Diets and Fulton condition of sculpin in Gilmore Creek (with moderate flooding) and Garvin Brook (with very severe flooding) had been examined just prior to flooding and were re-examined 2 weeks after flooding to assess possible diet and condition changes. Diets, body condition, and reproductive fitness of sculpin were examined 7 months post-flood in these same two streams, plus nearby Trout Run (which also experienced very severe flooding). Sculpin condition declined slightly post-flood in Garvin Brook but improved in Gilmore Creek. Prior to spring spawning, the condition of Garvin Brook sculpin had improved, but Gilmore Creek fish condition had worsened. Sculpin diets were more diverse before and after flooding in Gilmore Creek than in Garvin Brook, although the diets of fish from both streams were dominated (>55%) by midge (Diptera: Chironomidae) larvae. Diets remained largely unchanged before versus after flooding in the more severely flooded Garvin Brook, but they changed in Gilmore Creek, becoming more midge-dominated. Prey number per sculpin stomach declined post-flood in Gilmore Creek but not in Garvin Brook, although the dry mass of prey/fish wet mass declined post-flood in both streams. Pre-spawn sculpin displayed no patterns in reproductive fitness (gonadosomatic index, hepatosomatic index, oocyte number) among the three streams that may have been related to flooding severity the previous summer. Sculpin diets and condition were not altered as expected by flooding, and food resource recovery apparently was rapid enough to prevent longer-term impacts on sculpin condition and reproductive fitness in the streams examined.
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Open AccessArticle
Critically Small Contemporaneous Effective Population Sizes Estimated for Stocks of the African Bonytongue in Western Africa
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Luis A. Hurtado, Mariana Mateos, Isabel C. Caballero, Tofunmi E. Oladimeji, Alphonse Adite, Michael O. Awodiran, Kirk O. Winemiller and Matthew B. Hamilton
Fishes 2024, 9(6), 196; https://doi.org/10.3390/fishes9060196 - 25 May 2024
Abstract
Inland capture fisheries play a critical role in supporting food security and livelihoods in Africa. Therefore, it is important to evaluate the genetic health of exploited fish populations. The African bonytongue, Heterotis niloticus, supports important commercial and subsistence fisheries in western Africa.
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Inland capture fisheries play a critical role in supporting food security and livelihoods in Africa. Therefore, it is important to evaluate the genetic health of exploited fish populations. The African bonytongue, Heterotis niloticus, supports important commercial and subsistence fisheries in western Africa. However, sharp declines in stocks have been reported. Herein, we estimate contemporary effective population sizes (Ne) of four Heterotis populations in Nigeria, three in Benin, and five in Cameroon using Linkage Disequilibrium methods. Ne estimates were used to assess genetic short-term (i.e., inbreeding depression) and long-term (i.e., loss of evolutionary potential) risks. Ne point estimates obtained with the best estimator (out of 16), as determined by computer simulations, were <50 (range = 5.1–36.2) for nine of the twelve populations examined, which is below the minimum recommended for avoiding the potential deleterious effects of inbreeding depression (original criterion Ne ≥ 50, revised to Ne ≥ 100); and well below the minimum recommended for populations to retain evolutionary potential (original criterion Ne ≥ 500; revised to Ne ≥ 1000). The lower bound of the confidence interval for two of the remaining populations was below the minimum recommended to retain evolutionary potential (with the point estimate of one of them also below this threshold), and for some methods, values were lower than the minimum recommended to avoid inbreeding depression. Accordingly, our results suggest that urgent conservation and management plans are needed to guarantee the persistence and sustainability of the H. niloticus populations examined.
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(This article belongs to the Special Issue Molecular Ecology and Genetic Diversity of Fish)
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Open AccessArticle
Partial Replacement of Fishmeal with Seafood Discards for Juvenile Penaeus japonicus: Effects on Growth, Flesh Quality, Chemical and Fatty Acid Composition
by
Marco Ragni, Maria Antonietta Colonna, Laura Di Turi, Claudia Carbonara, Francesco Giannico, Michela Cariglia, Giuseppe Palma and Simona Tarricone
Fishes 2024, 9(6), 195; https://doi.org/10.3390/fishes9060195 - 24 May 2024
Abstract
The present study was designed to assess the influence of fishmeal replacement with increasing percentages of fresh seafood discards (0, 25, 50 and 75%) in diets for Penaeus japonicus on growth performance, physical characteristics and the chemical and fatty acid composition of shrimp
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The present study was designed to assess the influence of fishmeal replacement with increasing percentages of fresh seafood discards (0, 25, 50 and 75%) in diets for Penaeus japonicus on growth performance, physical characteristics and the chemical and fatty acid composition of shrimp flesh. Each diet was administered for 108 days, and the trial was assayed in triplicate. The final body weight and the specific growth rate were significantly higher (p < 0.05) in shrimps fed with 75% fishmeal replacement as compared to 25%, while the abdomen weight and the total length were the highest (p < 0.01). Moreover, 75% replacement showed a significantly (p < 0.05) lower value of hardness and a greater crude protein and lipid content as compared to the 0% replacement. The shrimps fed with high levels of seafood discards (50 and 75%) showed a lower saturated fatty acid concentration and, in turn, a greater amount of polyunsaturated fatty acids in shrimp meat significantly (p < 0.05) affected the lower atherogenic and thrombogenic indices. In conclusion, replacing 75% of fishmeal with seafood discards provided satisfactory results. An economic analysis based on ESG indicators and PESTLE methodology is provided in order to show the socio-economic and governance impacts affecting the replacement of shrimps’ diet with fish discard.
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(This article belongs to the Section Nutrition and Feeding)
Open AccessArticle
Identification and Characterization of microRNAs in Morphological Color Change of Polychromatic Midas Cichlids (Amphilophus citrinellus)
by
Guoqiang Wu, Xidong Mu, Yi Liu, Chao Liu, Xuejie Wang, Yexin Yang and Hongmei Song
Fishes 2024, 9(6), 194; https://doi.org/10.3390/fishes9060194 - 24 May 2024
Abstract
As a representative genetic and economic trait, pigmentation has a strong impact on speciation and adaptation. However, information and reports on microRNAs (miRNAs) associated with pigmentation remain limited. The Midas cichlid fish, with three typical distinct stages of body color pattern, “black-gray-gold”, is
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As a representative genetic and economic trait, pigmentation has a strong impact on speciation and adaptation. However, information and reports on microRNAs (miRNAs) associated with pigmentation remain limited. The Midas cichlid fish, with three typical distinct stages of body color pattern, “black-gray-gold”, is an ideal model system for investigating pigmentation traits. In this study, miRNA libraries from scale tissues with the attached epidermis of Midas cichlids at three distinct stages of color transformation, black (B), transition (T), and gold (G), were sequenced using Illumina sequencing technology. In total, 53 (B vs. G), 88 (B vs. T), and 57 (T vs. G) miRNAs were differentially expressed between the respective groups. Target genes of the identified miRNAs were predicted, and the results showed that multiple target genes were related to pigmentation and pigment–cell differentiation. The miRNA–mRNA regulatory network suggests that miR-183-x and miR-133-x were predicted to be involved in regulating morphological color changes in Midas cichlids. The results advance our understanding of potential functions of miRNAs in skin pigment differentiation and early skin color fading of fishes.
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(This article belongs to the Special Issue Genetics and Breeding in Aquaculture)
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Quantifying Variability in Zebrafish Larvae Locomotor Behavior across Experimental Conditions: A Learning-Based Tracker
by
Zhuo Zhang, Xinyu Chai, Guoning Si and Xuping Zhang
Fishes 2024, 9(6), 193; https://doi.org/10.3390/fishes9060193 - 23 May 2024
Abstract
This study investigated the effects of environmental changes on zebrafish larval behavior, using single-factor and orthogonal experiments to assess locomotion during temperature and pH changes. In single-factor experiments, zebrafish larvae were exposed to variations in temperature (22 to 30 °C) and pH levels
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This study investigated the effects of environmental changes on zebrafish larval behavior, using single-factor and orthogonal experiments to assess locomotion during temperature and pH changes. In single-factor experiments, zebrafish larvae were exposed to variations in temperature (22 to 30 °C) and pH levels (6.0, 7.0, 9.0). The simultaneous temperature and pH changes were investigated by orthogonal tests. In both experiments, each zebrafish larva was recorded in three 5 min videos at different stages (before exposure, during short-term exposure (10 min), and after long-term exposure (60 min)). You Look Only Once (YOLOv5) and Deep Simple Online Real Time Tracking (DeepSORT) models were adopted to develop a zebrafish larva tracking system, and YOLOv5 was improved in two aspects of anchor clustering and network structure. The tracking accuracy of the tracking system for small targets effectively improved, reaching more than 98% MOTA (Multiple Object Tracking Accuracy). Principal Component Analysis (PCA) was employed to extract three behavioral features from 13 motion parameters, namely motion activity, edge behavior, and motion direction preference. Our findings reveal that lower temperatures and acidic conditions both led to a decrease in motion behavioral activity, and the former also increased edge behavior. Conversely, elevated temperatures and alkaline conditions had a muted impact on these behaviors. Interestingly, concurrent changes in temperature and pH significantly altered directional preference. Additionally, we observed that lower temperatures elicited distinct temporal behavioral patterns at a constant pH level. In summary, we recommend the precise control and explicit reporting of ambient temperature and pH in both breeding devices and experimental wells to minimize the environmental impact on zebrafish behavior and enhance experiment repeatability and reliability.
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(This article belongs to the Special Issue AI and Fisheries)
Open AccessFeature PaperArticle
Exploring Seasonal Variations in Fish Communities: A Study of the Yellow River Estuary and Its Adjacent Waters Using eDNA and Trawl Surveys
by
Xiaoyang Wang, Fan Li, Fei Shao, Hongjun Song, Na Song, Xiaomin Zhang and Linlin Zhao
Fishes 2024, 9(6), 192; https://doi.org/10.3390/fishes9060192 - 23 May 2024
Abstract
The Yellow River Estuary and its adjacent waters serve as crucial spawning, foraging, and nursery areas for marine organisms, possessing abundant biological resources. Monitoring fish communities provides a baseline for implementing the sustainable utilization of marine resources. In this study, data were collected
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The Yellow River Estuary and its adjacent waters serve as crucial spawning, foraging, and nursery areas for marine organisms, possessing abundant biological resources. Monitoring fish communities provides a baseline for implementing the sustainable utilization of marine resources. In this study, data were collected from 15 spring surface and bottom sites and 17 summer surface sites using eDNA and trawl surveys. The results showed that 37, 40, and 35 fish species were detected using eDNA in the spring (surface and bottom) and summer (surface), respectively, with 38 fish species caught during summer trawling. The dominant species mainly belonged to Engraulidae of Clupeiformes in the spring and Gobiidae of Perciformes in the summer, characterized by smaller-sized, short-lived, and pelagic fish species. The summer surface communities exhibited higher diversity than the spring surface and bottom communities. NMDS analysis revealed a degree of seasonal differences in fish communities and that there may be a lack of vertical stratification in the spring communities. The pH and DO were identified as the key environmental factors affecting the fish community. Additionally, the combination of eDNA and trawl surveys was regarded as a superior survey method. Our study provides valuable information for understanding seasonal fish communities in the Yellow River Estuary and its adjacent waters, contributing to fishery resource management and conservation in the region.
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(This article belongs to the Special Issue Assessment and Management of Fishery Resources)
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Effect of Organic or Inorganic Fertilization on Microbial Flocs Production in Integrated Cultivation of Ulva lactuca with Oreochromis niloticus and Penaeus vannamei
by
Andrezza Carvalho, Hellyjúnyor Brandão, Julio C. Zemor, Alessandro Pereira Cardozo, Felipe N. Vieira, Marcelo H. Okamoto, Gamze Turan and Luís H. Poersch
Fishes 2024, 9(6), 191; https://doi.org/10.3390/fishes9060191 - 23 May 2024
Abstract
Different fertilization regimes in biofloc systems influence the predominance of distinct bacterial populations, impacting water quality and organism performance. This study evaluates the growth and nutrient absorption of the macroalgae Ulva lactuca when cultivated in an integrated system with Penaeus vannamei and Oreochromis
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Different fertilization regimes in biofloc systems influence the predominance of distinct bacterial populations, impacting water quality and organism performance. This study evaluates the growth and nutrient absorption of the macroalgae Ulva lactuca when cultivated in an integrated system with Penaeus vannamei and Oreochromis niloticus in chemoautotrophic and heterotrophic systems. The experiment lasted 45 days and comprised two treatments, each with three replicates: chemoautotrophic—utilizing chemical fertilizers; heterotrophic—employing inoculum from mature biofloc shrimp cultivation, supplemented with organic fertilizers. Each treatment consisted of three systems, each containing a 4 m3 tank for shrimp, 0.7 m3 for tilapia, and 0.35 m3 for macroalgae, with continuous water circulation between tanks and constant aeration. Water quality analyses were carried out during the experiment, as were the performances of the macroalgae and animals. The data were subjected to a statistical analysis. Results revealed an increase in macroalgae biomass and the removal of nitrate (57%) and phosphate (47%) during cultivation, with a higher specific growth rate observed in the chemoautotrophic treatment. Nonetheless, the heterotrophic treatment exhibited higher levels of protein in the macroalgae (18% dry matter) and phosphate removal rates (56%), along with superior maintenance of water quality parameters. Tilapia performance varied across treatments, with a higher final weight and weight gain recorded in the heterotrophic treatment. The recycling of water from an ongoing biofloc cultivation with organic fertilization demonstrated viability for macroalgae cultivation within an integrated system involving shrimp and fish.
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(This article belongs to the Special Issue Integrated Aquaculture and Monoculture of Low-Trophic Species)
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