Results for Author Stavrakidis-Zachou Orestis :
2024 |
Falconer, Lynne; Sparboe, Lars Olav; Dale, Trine; Hjøllo, Solfrid Sætre; Stavrakidis-Zachou, Orestis; Bergh, Øivind; James, Philip; Papandroulakis, Nikos; Puvanendran, Velmurugu; Siikavuopio, Sten Ivar; Hansen, Øyvind Johannes; Ytteborg, Elisabeth Diversification of marine aquaculture in Norway under climate change Journal Article Aquaculture, 593 , pp. 741350, 2024, ISSN: 00448486. @article{falconer_diversification_2024, title = {Diversification of marine aquaculture in Norway under climate change}, author = {Lynne Falconer and Lars Olav Sparboe and Trine Dale and Solfrid Sætre Hjøllo and Orestis Stavrakidis-Zachou and Øivind Bergh and Philip James and Nikos Papandroulakis and Velmurugu Puvanendran and Sten Ivar Siikavuopio and Øyvind Johannes Hansen and Elisabeth Ytteborg}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848624008111 https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Falconer-AQUA-37.pdf}, doi = {10.1016/j.aquaculture.2024.741350}, issn = {00448486}, year = {2024}, date = {2024-07-31}, urldate = {2024-07-31}, journal = {Aquaculture}, volume = {593}, pages = {741350}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2023 |
Stavrakidis-Zachou, Orestis; Papandroulakis, Nikos; Lika, Konstadia A bioenergetics approach to modelling tolerance limits under acute thermal stress in farmed finfish Journal Article Frontiers in Marine Science, 10 , pp. 1173358, 2023, ISSN: 2296-7745. @article{stavrakidis-zachou_bioenergetics_2023, title = {A bioenergetics approach to modelling tolerance limits under acute thermal stress in farmed finfish}, author = {Orestis Stavrakidis-Zachou and Nikos Papandroulakis and Konstadia Lika}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/06/2023-Stavrakidis-Zachou-Frontiers-MarSci-27.pdf https://www.frontiersin.org/articles/10.3389/fmars.2023.1173358/full}, doi = {10.3389/fmars.2023.1173358}, issn = {2296-7745}, year = {2023}, date = {2023-06-02}, urldate = {2023-06-09}, journal = {Frontiers in Marine Science}, volume = {10}, pages = {1173358}, abstract = {Pinpointing thermal tolerance thresholds for commercially important species, such as aquaculture finfish, under acute and chronic thermal stress is becoming increasingly relevant in the context of climate change. While experimental research, traditionally quantified by the determination of the Critical Thermal Maximum (CTmax), offers valuable insights, it is necessary to further develop appropriate tools to provide predictions and shed light on the underlying mechanisms of thermal tolerance. Bioenergetic models have long been used to study the effects of temperature on fish metabolism under chronic, but rarely under acute, scales. In this study, we present a modelling approach based on the Dynamic Energy Budget (DEB) theory that describes the tolerance limits of fish under acute thermal stress in bioenergetics terms. It adopts the notion of an energy-dependent tolerance to stress and defines acute tolerance limits at the intersection of fundamental energy fluxes, namely those relating to the mobilization of energy and to maintenance costs. To showcase this approach, DEB models for two finfish, the European sea bass ( Dicentrarchus labrax ) and the meagre ( Argyrosomus regius ) were used to run acute thermal challenge simulations and study shifts in the critical temperature achieved by the fish. The results suggest that the model can adequately capture the general tolerance patterns observed experimentally for the two species as well as pinpoint the parameters that may influence them. In particular, the simulations showed a positive relation between acclimation temperature and tolerance while the opposite stands for the body size of the fish, with smaller fish achieving higher critical temperatures than their larger counterparts. Also, tolerance limits were affected by the state of internal reserves, with well-fed fish exhibiting higher values. Finally, the potential application of this modelling approach on higher taxonomic scales was evaluated, by running simulations on species belonging to major fish orders. The preliminary results suggest that the method can capture differences among groups that are consistent with literature, suggesting it may be a realistic mechanistic approach for studying thermal tolerance in ectotherms.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Pinpointing thermal tolerance thresholds for commercially important species, such as aquaculture finfish, under acute and chronic thermal stress is becoming increasingly relevant in the context of climate change. While experimental research, traditionally quantified by the determination of the Critical Thermal Maximum (CTmax), offers valuable insights, it is necessary to further develop appropriate tools to provide predictions and shed light on the underlying mechanisms of thermal tolerance. Bioenergetic models have long been used to study the effects of temperature on fish metabolism under chronic, but rarely under acute, scales. In this study, we present a modelling approach based on the Dynamic Energy Budget (DEB) theory that describes the tolerance limits of fish under acute thermal stress in bioenergetics terms. It adopts the notion of an energy-dependent tolerance to stress and defines acute tolerance limits at the intersection of fundamental energy fluxes, namely those relating to the mobilization of energy and to maintenance costs. To showcase this approach, DEB models for two finfish, the European sea bass ( Dicentrarchus labrax ) and the meagre ( Argyrosomus regius ) were used to run acute thermal challenge simulations and study shifts in the critical temperature achieved by the fish. The results suggest that the model can adequately capture the general tolerance patterns observed experimentally for the two species as well as pinpoint the parameters that may influence them. In particular, the simulations showed a positive relation between acclimation temperature and tolerance while the opposite stands for the body size of the fish, with smaller fish achieving higher critical temperatures than their larger counterparts. Also, tolerance limits were affected by the state of internal reserves, with well-fed fish exhibiting higher values. Finally, the potential application of this modelling approach on higher taxonomic scales was evaluated, by running simulations on species belonging to major fish orders. The preliminary results suggest that the method can capture differences among groups that are consistent with literature, suggesting it may be a realistic mechanistic approach for studying thermal tolerance in ectotherms. |
Chatziantoniou, Andromachi; Papandroulakis, Nikos; Stavrakidis-Zachou, Orestis; Spondylidis, Spyros; Taskaris, Simeon; Topouzelis, Konstantinos Aquasafe: A Remote Sensing, Web-Based Platform for the Support of Precision Fish Farming Journal Article Applied Sciences, 13 (10), pp. 6122, 2023, ISSN: 2076-3417. @article{chatziantoniou_aquasafe_2023, title = {Aquasafe: A Remote Sensing, Web-Based Platform for the Support of Precision Fish Farming}, author = {Andromachi Chatziantoniou and Nikos Papandroulakis and Orestis Stavrakidis-Zachou and Spyros Spondylidis and Simeon Taskaris and Konstantinos Topouzelis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/06/2023-Chatziantoniou-AppSci-26.pdf https://www.mdpi.com/2076-3417/13/10/6122}, doi = {10.3390/app13106122}, issn = {2076-3417}, year = {2023}, date = {2023-05-31}, urldate = {2023-06-08}, journal = {Applied Sciences}, volume = {13}, number = {10}, pages = {6122}, abstract = {Marine aquaculture has been expanding rapidly in recent years, driven by the growing demand for marine products. However, this expansion has led to increased competition for space and resources with other coastal zone activities, which has resulted in the need for larger facilities and the relocation of operations to offshore areas. Moreover, the complex environment and exposure to environmental conditions and external threats further complicate the sustainable development of the sector. To address these challenges, new and innovative technologies are needed, such as the incorporation of remote sensing and in-situ data for comprehensive and continuous monitoring of aquaculture facilities. This study aims to create an integrated monitoring and decision support system utilizing both satellite and in-situ data to monitor aquaculture facilities on various scales, providing information on water quality, fish growth, and warning signs to alert managers and producers of potential hazards. This study focuses on identifying and estimating parameters that affect aquaculture processes, establishing indicators that can act as warning signs, and evaluating the system’s performance in real-life scenarios. The resulting monitoring tool, called “Aquasafe”, was evaluated for its effectiveness and performance by test users through real-life scenarios. The results of the implemented models showed high accuracy, with an R2 value of 0.67. Additionally, users were generally satisfied with the usefulness of the tool, suggesting that it holds promise for efficient management and decision making in marine aquaculture.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Marine aquaculture has been expanding rapidly in recent years, driven by the growing demand for marine products. However, this expansion has led to increased competition for space and resources with other coastal zone activities, which has resulted in the need for larger facilities and the relocation of operations to offshore areas. Moreover, the complex environment and exposure to environmental conditions and external threats further complicate the sustainable development of the sector. To address these challenges, new and innovative technologies are needed, such as the incorporation of remote sensing and in-situ data for comprehensive and continuous monitoring of aquaculture facilities. This study aims to create an integrated monitoring and decision support system utilizing both satellite and in-situ data to monitor aquaculture facilities on various scales, providing information on water quality, fish growth, and warning signs to alert managers and producers of potential hazards. This study focuses on identifying and estimating parameters that affect aquaculture processes, establishing indicators that can act as warning signs, and evaluating the system’s performance in real-life scenarios. The resulting monitoring tool, called “Aquasafe”, was evaluated for its effectiveness and performance by test users through real-life scenarios. The results of the implemented models showed high accuracy, with an R2 value of 0.67. Additionally, users were generally satisfied with the usefulness of the tool, suggesting that it holds promise for efficient management and decision making in marine aquaculture. |
Sánchez-Cueto, Pablo; Stavrakidis-Zachou, Orestis; Clos-Garcia, Marc; Bosch, Montse; Papandroulakis, Nikos; Lladó, Salvador Mediterranean Sea heatwaves jeopardize greater amberjack’s (Seriola dumerili) aquaculture productivity through impacts on the fish microbiota Journal Article ISME Communications, 3 (1), pp. 36, 2023, ISSN: 2730-6151. @article{sanchez-cueto_mediterranean_2023, title = {Mediterranean Sea heatwaves jeopardize greater amberjack’s (Seriola dumerili) aquaculture productivity through impacts on the fish microbiota}, author = {Pablo Sánchez-Cueto and Orestis Stavrakidis-Zachou and Marc Clos-Garcia and Montse Bosch and Nikos Papandroulakis and Salvador Lladó}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/06/2023-Sanchez-Cueto-ISME-23.pdf https://www.nature.com/articles/s43705-023-00243-7}, doi = {10.1038/s43705-023-00243-7}, issn = {2730-6151}, year = {2023}, date = {2023-05-26}, urldate = {2023-06-02}, journal = {ISME Communications}, volume = {3}, number = {1}, pages = {36}, abstract = {Abstract Climate change is dramatically increasing the frequency and severity of marine heatwaves (MHWs) in the Mediterranean basin, strongly affecting marine food production systems. However, how it will shape the ecology of aquaculture systems, and the cascading effects on productivity, is still a major knowledge gap. The present work aims to increase our understanding of future impacts, caused by raising water temperatures, on the interaction between water and fish microbiotas, and consequential effects upon fish growth. Thus, the bacterial communities present in the water tanks, and mucosal tissues (skin, gills and gut), of greater amberjack farmed in recirculatory aquaculture systems (RAS), at three different temperatures (24, 29 and 33 °C), were characterized in a longitudinal study. The greater amberjack ( Seriola dumerili ) is a teleost species with high potential for EU aquaculture diversification due to its fast growth, excellent flesh quality and global market. We show that higher water temperatures disrupt the greater amberjack’s microbiota. Our results demonstrate the causal mediation exerted by this bacterial community shifts on the reduction of fish growth. The abundance of members of the Pseudoalteromonas is positively correlated with fish performance, whereas members of the Psychrobacter, Chryseomicrobium, Paracoccus and Enterovibrio are suggested as biomarkers for dysbiosis, at higher water temperatures. Hence, opening new evidence-based avenues for the development of targeted microbiota-based biotechnological tools, designed to increase the resilience and adaptation to climate change of the Mediterranean aquaculture industry.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Climate change is dramatically increasing the frequency and severity of marine heatwaves (MHWs) in the Mediterranean basin, strongly affecting marine food production systems. However, how it will shape the ecology of aquaculture systems, and the cascading effects on productivity, is still a major knowledge gap. The present work aims to increase our understanding of future impacts, caused by raising water temperatures, on the interaction between water and fish microbiotas, and consequential effects upon fish growth. Thus, the bacterial communities present in the water tanks, and mucosal tissues (skin, gills and gut), of greater amberjack farmed in recirculatory aquaculture systems (RAS), at three different temperatures (24, 29 and 33 °C), were characterized in a longitudinal study. The greater amberjack ( Seriola dumerili ) is a teleost species with high potential for EU aquaculture diversification due to its fast growth, excellent flesh quality and global market. We show that higher water temperatures disrupt the greater amberjack’s microbiota. Our results demonstrate the causal mediation exerted by this bacterial community shifts on the reduction of fish growth. The abundance of members of the Pseudoalteromonas is positively correlated with fish performance, whereas members of the Psychrobacter, Chryseomicrobium, Paracoccus and Enterovibrio are suggested as biomarkers for dysbiosis, at higher water temperatures. Hence, opening new evidence-based avenues for the development of targeted microbiota-based biotechnological tools, designed to increase the resilience and adaptation to climate change of the Mediterranean aquaculture industry. |
2022 |
Chatziantoniou, Andromachi; Spondylidis, Spyros Charalampis; Stavrakidis-Zachou, Orestis; Papandroulakis, Nikos; Topouzelis, Konstantinos Dissolved oxygen estimation in aquaculture sites using remote sensing and machine learning Journal Article Remote Sensing Applications: Society and Environment, 28 , pp. 100865, 2022, ISSN: 23529385. @article{chatziantoniou_dissolved_2022, title = {Dissolved oxygen estimation in aquaculture sites using remote sensing and machine learning}, author = {Andromachi Chatziantoniou and Spyros Charalampis Spondylidis and Orestis Stavrakidis-Zachou and Nikos Papandroulakis and Konstantinos Topouzelis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/11/2022-Chatziantoniou-RSA-76.pdf https://linkinghub.elsevier.com/retrieve/pii/S2352938522001732}, doi = {10.1016/j.rsase.2022.100865}, issn = {23529385}, year = {2022}, date = {2022-11-18}, urldate = {2022-11-18}, journal = {Remote Sensing Applications: Society and Environment}, volume = {28}, pages = {100865}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Stavrakidis-Zachou, Orestis; Lika, Konstadia; Pavlidis, Michail; Asaad, Mohamed H; Papandroulakis, Nikos 2022, (Type: dataset). @misc{stavrakidis-zachou_dataset__2022, title = {Dataset_ metabolic scope performance and tolerance of juvenile European sea bass \textit{Dicentrarchus labrax} upon acclimation to high temperatures}, author = {Orestis Stavrakidis-Zachou and Konstadia Lika and Michail Pavlidis and Mohamed H. Asaad and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/09/2022-Stavrakidis-Zachou-PLOS-ONE-64.pdf https://zenodo.org/record/6901703}, doi = {10.5281/ZENODO.6901703}, year = {2022}, date = {2022-01-01}, urldate = {2022-09-26}, publisher = {Zenodo}, abstract = {This dataset contains the data associated with the article 'Metabolic scope, performance and tolerance of juvenile European sea bass Dicentrarchus labrax upon acclimation to high temperatures' by Stavrakidis-Zachou et al. accepted for publication on Plos one in July 2022.}, note = {Type: dataset}, keywords = {}, pubstate = {published}, tppubtype = {misc} } This dataset contains the data associated with the article 'Metabolic scope, performance and tolerance of juvenile European sea bass Dicentrarchus labrax upon acclimation to high temperatures' by Stavrakidis-Zachou et al. accepted for publication on Plos one in July 2022. |
2021 |
Stavrakidis-Zachou, Orestis; Lika, Konstadia; Michail, Pavlidis; Tsalafouta, Aleka; Mohamed, Asaad H; Nikos, Papandroulakis Thermal tolerance, metabolic scope and performance of meagre, Argyrosomus regius, reared under high water temperatures Journal Article 100 , pp. 103063, 2021, ISSN: 03064565. @article{stavrakidis-zachou_thermal_2021, title = {Thermal tolerance, metabolic scope and performance of meagre, Argyrosomus regius, reared under high water temperatures}, author = {Orestis Stavrakidis-Zachou and Konstadia Lika and Pavlidis Michail and Aleka Tsalafouta and Asaad H Mohamed and Papandroulakis Nikos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/09/2021-Stavrakidis-JoTB-65-pre-print.pdf https://linkinghub.elsevier.com/retrieve/pii/S030645652100231X}, doi = {10.1016/j.jtherbio.2021.103063}, issn = {03064565}, year = {2021}, date = {2021-09-01}, urldate = {2021-09-16}, volume = {100}, pages = {103063}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Cascarano, Maria Chiara; Stavrakidis-Zachou, Orestis; Mladineo, Ivona; Thompson, Kim D; Papandroulakis, Nikos; Katharios, Pantelis Mediterranean Aquaculture in a Changing Climate: Temperature Effects on Pathogens and Diseases of Three Farmed Fish Species Journal Article 10 (9), pp. 1205, 2021. @article{cascarano_mediterranean_2021, title = {Mediterranean Aquaculture in a Changing Climate: Temperature Effects on Pathogens and Diseases of Three Farmed Fish Species}, author = {Maria Chiara Cascarano and Orestis Stavrakidis-Zachou and Ivona Mladineo and Kim D Thompson and Nikos Papandroulakis and Pantelis Katharios}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/09/2021-Cascarano-pathogens-71.pdf https://www.mdpi.com/2076-0817/10/9/1205}, doi = {10.3390/pathogens10091205}, year = {2021}, date = {2021-09-01}, urldate = {2021-09-22}, volume = {10}, number = {9}, pages = {1205}, abstract = {Climate change is expected to have a drastic effect on aquaculture worldwide. As we move forward with the agenda to increase and diversify aquaculture production, rising temperatures will have a progressively relevant impact on fish farming, linked to a multitude of issues associated with fish welfare. Temperature affects the physiology of both fish and pathogens, and has the potential to lead to significant increases in disease outbreaks within aquaculture systems, resulting in severe financial impacts. Significant shifts in future temperature regimes are projected for the Mediterranean Sea. We therefore aim to review and discuss the existing knowledge relating to disease outbreaks in the context of climate change in Mediterranean finfish aquaculture. The objective is to describe the effects of temperature on the physiology of both fish and pathogens, and moreover to list and discuss the principal diseases of the three main fish species farmed in the Mediterranean, namely gilthead seabream (Sparus aurata), European seabass (Dicentrarchus labrax), and meagre (Argyrosomus regius). We will attempt to link the pathology of each disease to a specific temperature range, while discussing potential future disease threats associated with the available climate change trends for the Mediterranean Sea.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Climate change is expected to have a drastic effect on aquaculture worldwide. As we move forward with the agenda to increase and diversify aquaculture production, rising temperatures will have a progressively relevant impact on fish farming, linked to a multitude of issues associated with fish welfare. Temperature affects the physiology of both fish and pathogens, and has the potential to lead to significant increases in disease outbreaks within aquaculture systems, resulting in severe financial impacts. Significant shifts in future temperature regimes are projected for the Mediterranean Sea. We therefore aim to review and discuss the existing knowledge relating to disease outbreaks in the context of climate change in Mediterranean finfish aquaculture. The objective is to describe the effects of temperature on the physiology of both fish and pathogens, and moreover to list and discuss the principal diseases of the three main fish species farmed in the Mediterranean, namely gilthead seabream (Sparus aurata), European seabass (Dicentrarchus labrax), and meagre (Argyrosomus regius). We will attempt to link the pathology of each disease to a specific temperature range, while discussing potential future disease threats associated with the available climate change trends for the Mediterranean Sea. |
Stavrakidis-Zachou, Orestis; Lika, Konstadia; Anastasiadis, Panagiotis; Papandroulakis, Nikos Projecting climate change impacts on Mediterranean finfish production: a case study in Greece Journal Article Climatic Change, 165 (3), pp. 67, 2021, ISSN: 1573-1480. @article{stavrakidis-zachou_projecting_2021, title = {Projecting climate change impacts on Mediterranean finfish production: a case study in Greece}, author = {Orestis Stavrakidis-Zachou and Konstadia Lika and Panagiotis Anastasiadis and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/06/2021-Stavrakidis-Zachou-Climate-Chnage-38.pdf https://doi.org/10.1007/s10584-021-03096-y}, doi = {10.1007/s10584-021-03096-y}, issn = {1573-1480}, year = {2021}, date = {2021-01-01}, urldate = {2021-06-24}, journal = {Climatic Change}, volume = {165}, number = {3}, pages = {67}, abstract = {Finfish aquaculture in the Mediterranean Sea faces increasing challenges due to climate change, while potential adaptation requires a robust assessment of the arising threats and opportunities. This paper presents an approach developed to investigate effects of climate drivers on Greek aquaculture, a representative Mediterranean country with a leading role in the sector. Using a farm level approach, dynamic energy budget models for European seabass and meagre were developed, and environmental forcing was used to simulate changes in production and farm profitability under IPCC scenarios RCP45 and RCP85. The effects of temperature and extreme weather events at the individual and farm levels were considered along with that of husbandry parameters such as stocking timing, market size, and farm location (inshore, offshore) for nine regions. The simulations suggest that at the individual level, fish may benefit from warmer temperatures in the future in terms of growth, thus reaching commercial sizes faster, while the husbandry parameters may have as large an effect on growth as the projected shifts in climatic cues. However, this benefit will be largely offset by the adverse effects of extreme weather events at the population level. Such events will be more frequent in the future and, depending on the intensity one assigns to them, they could cause losses in biomass and farm profits that range from mild to detrimental for the industry. Overall, these results provide quantification of some of the potential threats for an important aquaculture sector while suggesting possibilities to benefit from emerging opportunities. Therefore, they could contribute to improving the sector’s readiness for tackling important challenges in the future.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Finfish aquaculture in the Mediterranean Sea faces increasing challenges due to climate change, while potential adaptation requires a robust assessment of the arising threats and opportunities. This paper presents an approach developed to investigate effects of climate drivers on Greek aquaculture, a representative Mediterranean country with a leading role in the sector. Using a farm level approach, dynamic energy budget models for European seabass and meagre were developed, and environmental forcing was used to simulate changes in production and farm profitability under IPCC scenarios RCP45 and RCP85. The effects of temperature and extreme weather events at the individual and farm levels were considered along with that of husbandry parameters such as stocking timing, market size, and farm location (inshore, offshore) for nine regions. The simulations suggest that at the individual level, fish may benefit from warmer temperatures in the future in terms of growth, thus reaching commercial sizes faster, while the husbandry parameters may have as large an effect on growth as the projected shifts in climatic cues. However, this benefit will be largely offset by the adverse effects of extreme weather events at the population level. Such events will be more frequent in the future and, depending on the intensity one assigns to them, they could cause losses in biomass and farm profits that range from mild to detrimental for the industry. Overall, these results provide quantification of some of the potential threats for an important aquaculture sector while suggesting possibilities to benefit from emerging opportunities. Therefore, they could contribute to improving the sector’s readiness for tackling important challenges in the future. |
Stavrakidis-Zachou, Orestis; Sturm, Astrid; Lika, Konstadia; Wätzold, Frank; Papandroulakis, Nikos ClimeGreAq: A software-based DSS for the climate change adaptation of Greek aquaculture Journal Article Environmental Modelling & Software, 143 , pp. 105121, 2021, ISSN: 13648152. @article{stavrakidis-zachou_climegreaq_2021, title = {ClimeGreAq: A software-based DSS for the climate change adaptation of Greek aquaculture}, author = {Orestis Stavrakidis-Zachou and Astrid Sturm and Konstadia Lika and Frank Wätzold and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/07/2021-Stavrakidis-EnvModSoft-56.pdf https://linkinghub.elsevier.com/retrieve/pii/S136481522100164X}, doi = {10.1016/j.envsoft.2021.105121}, issn = {13648152}, year = {2021}, date = {2021-01-01}, urldate = {2021-07-26}, journal = {Environmental Modelling & Software}, volume = {143}, pages = {105121}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Georgopoulou, Dimitra G; Stavrakidis-Zachou, Orestis; Mitrizakis, Nikos; Papandroulakis, Nikos Tracking and Analysis of the Movement Behavior of European Seabass (Dicentrarchus labrax) in Aquaculture Systems Journal Article Frontiers in Animal Science, 2 , pp. 79, 2021, ISSN: 2673-6225. @article{georgopoulou_tracking_2021, title = {Tracking and Analysis of the Movement Behavior of European Seabass (Dicentrarchus labrax) in Aquaculture Systems}, author = {Dimitra G Georgopoulou and Orestis Stavrakidis-Zachou and Nikos Mitrizakis and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/01/2021-Georgopoulou-FrontAS-83.pdf https://www.frontiersin.org/article/10.3389/fanim.2021.754520}, doi = {10.3389/fanim.2021.754520}, issn = {2673-6225}, year = {2021}, date = {2021-01-01}, urldate = {2022-01-12}, journal = {Frontiers in Animal Science}, volume = {2}, pages = {79}, abstract = {Monitoring and understanding fish behavior is crucial for achieving precision in everyday husbandry practices (i.e. for optimizing farm performance), and for improving fish welfare in aquaculture. Various intelligent monitoring and control methods, using mathematical models, acoustic methods and computer vision, have been recently developed for this reason. Here, a tracking algorithm based on computer vision that extracts short trajectories of individual European seabass in both recirculating aquaculture systems and sea cages was developed using videos from network cameras. Using this methodology, parameters such as instantaneous normalized speed, travel direction and preference for the tank surface by European seabass could be quantified. When testing the sensitivity of this algorithm for detecting fish swimming variations under different husbandry scenarios, we found that the algorithm could detect variations in all of the abovementioned parameters and could potentially be a useful tool for monitoring the behavioral state of European seabass.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Monitoring and understanding fish behavior is crucial for achieving precision in everyday husbandry practices (i.e. for optimizing farm performance), and for improving fish welfare in aquaculture. Various intelligent monitoring and control methods, using mathematical models, acoustic methods and computer vision, have been recently developed for this reason. Here, a tracking algorithm based on computer vision that extracts short trajectories of individual European seabass in both recirculating aquaculture systems and sea cages was developed using videos from network cameras. Using this methodology, parameters such as instantaneous normalized speed, travel direction and preference for the tank surface by European seabass could be quantified. When testing the sensitivity of this algorithm for detecting fish swimming variations under different husbandry scenarios, we found that the algorithm could detect variations in all of the abovementioned parameters and could potentially be a useful tool for monitoring the behavioral state of European seabass. |
2019 |
Stavrakidis-Zachou, Orestis; Ernst, Anneliese; Steinbach, Christian; Wagner, Kai; Waller, Uwe Development of denitrification in semi-automated moving bed biofilm reactors operated in a marine recirculating aquaculture system Journal Article Aquaculture International, 27 (5), pp. 1485–1501, 2019, ISSN: 0967-6120, 1573-143X, (AQUA). @article{stavrakidis-zachou_development_2019, title = {Development of denitrification in semi-automated moving bed biofilm reactors operated in a marine recirculating aquaculture system}, author = {Orestis Stavrakidis-Zachou and Anneliese Ernst and Christian Steinbach and Kai Wagner and Uwe Waller}, url = {http://link.springer.com/10.1007/s10499-019-00402-5}, doi = {10.1007/s10499-019-00402-5}, issn = {0967-6120, 1573-143X}, year = {2019}, date = {2019-10-01}, urldate = {2022-01-17}, journal = {Aquaculture International}, volume = {27}, number = {5}, pages = {1485--1501}, note = {AQUA}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2018 |
Stavrakidis-Zachou, O; Papandroulakis, N; Lika, K A DEB model for European sea bass (Dicentrarchus labrax): Parameterisation and application in aquaculture Journal Article Journal of Sea Research, 2018, ISSN: 13851101, (Publisher: Elsevier B.V.). @article{stavrakidis-zachou_deb_2018, title = {A DEB model for European sea bass (Dicentrarchus labrax): Parameterisation and application in aquaculture}, author = {O Stavrakidis-Zachou and N Papandroulakis and K Lika}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85048271464&doi=10.1016%2fj.seares.2018.05.008&partnerID=40&md5=035d420f79ff92d901d84ce9e157326c}, doi = {10.1016/j.seares.2018.05.008}, issn = {13851101}, year = {2018}, date = {2018-01-01}, journal = {Journal of Sea Research}, abstract = {The framework provided by the Dynamic Energy Budget (DEB) theory allows the quantification of metabolic processes and the associated biological rates that are of interest for aquaculture, such as growth and feeding. The DEB parameters were estimated for farmed European sea bass (Dicentrarchus labrax), a species of major importance for the Mediterranean aquaculture, using zero- and uni-variate literature data and achieving an overall good fit. The obtained parameter set was used to validate the model on sites representatively covering the geographic distribution of the aquaculture activity in Greece via comparison of model predictions to observations. Inter-individual variability of farmed fish was introduced through: 1) an individual initial weight and 2) a factor that acts as an individual-specific multiplier for some of the model parameters and produces scatter in maximum size, and age and size at puberty. Growth of E. sea bass was adequately predicted by the model while feeding tended to be underestimated, particularly during the period following the summer months when warmer temperatures promote high growth rates. The results suggest robustness of the model since it is able to simulate growth and food intake in several independent aquaculture production units, using a common parameter set. The accuracy of growth predictions supports the applicability of the model in variable environmental conditions in the context of climate change. Reconstruction of the feeding history from growth data revealed variations in the scaled functional response (f), i.e., the feeding rate as fraction of maximum possible one of an individual of a given size, throughout the production cycle. However, model simulations with constant f result in reasonably good predictions for growth and feeding in variable environmental conditions. Tendency of the model to underestimate the feeding process revealed both model weaknesses associated with higher temperatures as well as irregularities in the feeding protocols applied at the farm level. Our work demonstrates the capacity and potential of DEB theory for further development of tools that contribute to the assessment and improvement of feeding practices in aquaculture. © 2018 Elsevier B.V.}, note = {Publisher: Elsevier B.V.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The framework provided by the Dynamic Energy Budget (DEB) theory allows the quantification of metabolic processes and the associated biological rates that are of interest for aquaculture, such as growth and feeding. The DEB parameters were estimated for farmed European sea bass (Dicentrarchus labrax), a species of major importance for the Mediterranean aquaculture, using zero- and uni-variate literature data and achieving an overall good fit. The obtained parameter set was used to validate the model on sites representatively covering the geographic distribution of the aquaculture activity in Greece via comparison of model predictions to observations. Inter-individual variability of farmed fish was introduced through: 1) an individual initial weight and 2) a factor that acts as an individual-specific multiplier for some of the model parameters and produces scatter in maximum size, and age and size at puberty. Growth of E. sea bass was adequately predicted by the model while feeding tended to be underestimated, particularly during the period following the summer months when warmer temperatures promote high growth rates. The results suggest robustness of the model since it is able to simulate growth and food intake in several independent aquaculture production units, using a common parameter set. The accuracy of growth predictions supports the applicability of the model in variable environmental conditions in the context of climate change. Reconstruction of the feeding history from growth data revealed variations in the scaled functional response (f), i.e., the feeding rate as fraction of maximum possible one of an individual of a given size, throughout the production cycle. However, model simulations with constant f result in reasonably good predictions for growth and feeding in variable environmental conditions. Tendency of the model to underestimate the feeding process revealed both model weaknesses associated with higher temperatures as well as irregularities in the feeding protocols applied at the farm level. Our work demonstrates the capacity and potential of DEB theory for further development of tools that contribute to the assessment and improvement of feeding practices in aquaculture. © 2018 Elsevier B.V. |
Stavrakidis-Zachou, O; Papandroulakis, Nikos; Sturm, Astrid; Anastasiadis, Panagiotis; Wätzold, Frank; Lika, Konstadia Towards a computer-based decision support system for aquaculture stakeholders in Greece in the context of climate change Journal Article International Journal of Sustainable Agricultural Management and Informatics, 4 (3/4), pp. 219, 2018, ISSN: 2054-5819, 2054-5827. @article{stavrakidis-zachou_towards_2018, title = {Towards a computer-based decision support system for aquaculture stakeholders in Greece in the context of climate change}, author = {O Stavrakidis-Zachou and Nikos Papandroulakis and Astrid Sturm and Panagiotis Anastasiadis and Frank Wätzold and Konstadia Lika}, url = {http://www.inderscience.com/link.php?id=99235}, doi = {10.1504/IJSAMI.2018.099235}, issn = {2054-5819, 2054-5827}, year = {2018}, date = {2018-01-01}, urldate = {2020-08-26}, journal = {International Journal of Sustainable Agricultural Management and Informatics}, volume = {4}, number = {3/4}, pages = {219}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2025 |
Díaz-Avello, Ulises G; Skouridou, Vasso; Shkembi, Xhensila; Reverté, Jaume; Mandalakis, Manolis; Peristeraki, Panagiota; Campàs, Mònica; O'Sullivan, Ciara K Aptamer-antibody sandwich lateral flow test for rapid visual detection of tetrodotoxin in pufferfish Journal Article Science of The Total Environment, 978 , pp. 179419, 2025, ISSN: 00489697. @article{diaz-avello_aptamer-antibody_2025, title = {Aptamer-antibody sandwich lateral flow test for rapid visual detection of tetrodotoxin in pufferfish}, author = {Ulises G Díaz-Avello and Vasso Skouridou and Xhensila Shkembi and Jaume Reverté and Manolis Mandalakis and Panagiota Peristeraki and Mònica Campàs and Ciara K O'Sullivan}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969725010563 /wp-content/uploads/2025/05/2025-Díaz-Avello-TTX_LFA-test-DRAFT-SUBMITTED-23.pdf}, doi = {10.1016/j.scitotenv.2025.179419}, issn = {00489697}, year = {2025}, date = {2025-05-20}, urldate = {2025-05-20}, journal = {Science of The Total Environment}, volume = {978}, pages = {179419}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Ventriglia, Gianluca; Duncan, Neil; Giménez, Ignacio; Mylonas, Constantinos C; Pousis, Chrysovalentinos; Corriero, Aldo; Zupa, Rosa Spermatogenesis advancement in pre-pubertal meagre Argyrosomus regius treated with recombinant gonadotropins Journal Article Scientific Reports, 15 (1), pp. 15113, 2025, ISSN: 2045-2322. @article{ventriglia_spermatogenesis_2025, title = {Spermatogenesis advancement in pre-pubertal meagre Argyrosomus regius treated with recombinant gonadotropins}, author = {Gianluca Ventriglia and Neil Duncan and Ignacio Giménez and Constantinos C Mylonas and Chrysovalentinos Pousis and Aldo Corriero and Rosa Zupa}, url = {https://www.nature.com/articles/s41598-025-99372-3 /wp-content/uploads/2025/05/2025-Ventriglia-SciRep-22.pdf}, doi = {10.1038/s41598-025-99372-3}, issn = {2045-2322}, year = {2025}, date = {2025-05-13}, urldate = {2025-05-13}, journal = {Scientific Reports}, volume = {15}, number = {1}, pages = {15113}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Papadaki, Maria; Le, Ngoc-Son; Mylonas, Constantinos C; Sarropoulou, Elena Marine Biotechnology, 27 (2), pp. 74, 2025, ISSN: 1436-2228, 1436-2236. @article{papadaki_exploring_2025, title = {Exploring the Fanconi Anemia Gene Expression and Regulation by MicroRNAs in Gilthead Seabream (Sparus aurata) at Different Gonadal Development Stages}, author = {Maria Papadaki and Ngoc-Son Le and Constantinos C Mylonas and Elena Sarropoulou}, url = {https://link.springer.com/10.1007/s10126-025-10444-x /wp-content/uploads/2025/05/2025-Papadaki-MarBioteck-21.pdf}, doi = {10.1007/s10126-025-10444-x}, issn = {1436-2228, 1436-2236}, year = {2025}, date = {2025-05-06}, urldate = {2025-05-06}, journal = {Marine Biotechnology}, volume = {27}, number = {2}, pages = {74}, abstract = {Abstract Fanconi anaemia (FA) is a rare autosomal recessive disease in humans that is distributed worldwide. Fanconi anemia complementation (Fanc) proteins are essential for the appropriate functioning of the FA DNA repair pathway. They are also linked to a number of other biological processes, including oxygen metabolism, cell cycle regulation, haematopoiesis and apoptosis. So far, little research has been conducted on teleosts, but evidence shows that Fanc proteins play a significant role in immune response and sex reversal. For the examination of the expression of three fanc genes ( fancc , fancl, and fancd2 ), as well as the potential regulation of these genes by microRNAs (miRNAs) in gonadal tissues at different stages of development, the present study has selected the gilthead seabream ( Sparus aurata ), a significant aquaculture species that exhibits protandrous hermaphroditism. The obtained data suggested the role of fancl and fancd2 in the maturation of female gonads and the miRNAs miR-210, miR-217 and miR-10926 have been identified as putative regulators of fancd2 , fancc and fancl , respectively. Overall, the data indicated the potential use of fancl and fancd2 genes as sex biomarkers in conjunction with their respective regulation by miRNAs. To the best of our knowledge, this is the first study demonstrating the importance of fanc genes, along with putative regulatory miRNAs, in the reproduction of an important marine aquaculture species.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Fanconi anaemia (FA) is a rare autosomal recessive disease in humans that is distributed worldwide. Fanconi anemia complementation (Fanc) proteins are essential for the appropriate functioning of the FA DNA repair pathway. They are also linked to a number of other biological processes, including oxygen metabolism, cell cycle regulation, haematopoiesis and apoptosis. So far, little research has been conducted on teleosts, but evidence shows that Fanc proteins play a significant role in immune response and sex reversal. For the examination of the expression of three fanc genes ( fancc , fancl, and fancd2 ), as well as the potential regulation of these genes by microRNAs (miRNAs) in gonadal tissues at different stages of development, the present study has selected the gilthead seabream ( Sparus aurata ), a significant aquaculture species that exhibits protandrous hermaphroditism. The obtained data suggested the role of fancl and fancd2 in the maturation of female gonads and the miRNAs miR-210, miR-217 and miR-10926 have been identified as putative regulators of fancd2 , fancc and fancl , respectively. Overall, the data indicated the potential use of fancl and fancd2 genes as sex biomarkers in conjunction with their respective regulation by miRNAs. To the best of our knowledge, this is the first study demonstrating the importance of fanc genes, along with putative regulatory miRNAs, in the reproduction of an important marine aquaculture species. |
Thieme, Philipp; Fischbach, Vivian; Papadakis, Ioannis; Moritz, Timo Development of convergent adaptations reveal highly conserved early ontogenetic skull shape in fishes with amphibious vision Journal Article Scientific Reports, 15 (1), pp. 8411, 2025, ISSN: 2045-2322. @article{thieme_development_2025, title = {Development of convergent adaptations reveal highly conserved early ontogenetic skull shape in fishes with amphibious vision}, author = {Philipp Thieme and Vivian Fischbach and Ioannis Papadakis and Timo Moritz}, url = {https://www.nature.com/articles/s41598-025-91563-2 /wp-content/uploads/2025/04/2025-Thieme-SR-20.pdf}, doi = {10.1038/s41598-025-91563-2}, issn = {2045-2322}, year = {2025}, date = {2025-04-28}, urldate = {2025-04-28}, journal = {Scientific Reports}, volume = {15}, number = {1}, pages = {8411}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kapelonis, Zacharias; Chatzigeorgiou, Georgios; Ntoumas, Manolis; Grigoriou, Panos; Pettas, Manos; Michelinakis, Spyros; Correia, Ricardo; Lemos, Catarina Rasquilha; Pinheiro, Luis Menezes; Lomba, Caio; Fortuna, João; Loureiro, Rui; Santos, André; Chatzinikolaou, Eva Flying Robots Teach Floating Robots—A Machine Learning Approach for Marine Habitat Mapping Based on Combined Datasets Journal Article Journal of Marine Science and Engineering, 13 (3), pp. 611, 2025, ISSN: 2077-1312. @article{kapelonis_flying_2025, title = {Flying Robots Teach Floating Robots—A Machine Learning Approach for Marine Habitat Mapping Based on Combined Datasets}, author = {Zacharias Kapelonis and Georgios Chatzigeorgiou and Manolis Ntoumas and Panos Grigoriou and Manos Pettas and Spyros Michelinakis and Ricardo Correia and Catarina Rasquilha Lemos and Luis Menezes Pinheiro and Caio Lomba and João Fortuna and Rui Loureiro and André Santos and Eva Chatzinikolaou}, url = {https://www.mdpi.com/2077-1312/13/3/611 /wp-content/uploads/2025/04/2025-Kapelonis-Mar-Sci-Eng-19.pdf}, doi = {10.3390/jmse13030611}, issn = {2077-1312}, year = {2025}, date = {2025-04-11}, urldate = {2025-04-11}, journal = {Journal of Marine Science and Engineering}, volume = {13}, number = {3}, pages = {611}, abstract = {Unmanned aerial and autonomous surface vehicles (UAVs and ASVs, respectively) are two emerging technologies for the mapping of coastal and marine environments. Using UAV photogrammetry, the sea-bottom composition can be resolved with very high fidelity in shallow waters. At greater depths, acoustic methodologies have far better propagation properties compared to optics; therefore, ASVs equipped with multibeam echosounders (MBES) are better-suited for mapping applications in deeper waters. In this work, a sea-bottom classification methodology is presented for mapping the protected habitat of Mediterranean seagrass Posidonia oceanica (habitat code 1120) in a coastal subregion of Heraklion (Crete, Greece). The methodology implements a machine learning scheme, where knowledge obtained from UAV imagery is embedded (through training) into a classifier that utilizes acoustic backscatter intensity and features derived from the MBES data provided by an ASV. Accuracy and precision scores of greater than 85% compared with visual census ground-truth data for both optical and acoustic classifiers indicate that this hybrid mapping approach is promising to mitigate the depth-induced bias in UAV-only models. The latter is especially interesting in cases where the studied habitat boundaries extend beyond depths that can be studied via aerial devices’ optics, as is the case with P. oceanica meadows.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Unmanned aerial and autonomous surface vehicles (UAVs and ASVs, respectively) are two emerging technologies for the mapping of coastal and marine environments. Using UAV photogrammetry, the sea-bottom composition can be resolved with very high fidelity in shallow waters. At greater depths, acoustic methodologies have far better propagation properties compared to optics; therefore, ASVs equipped with multibeam echosounders (MBES) are better-suited for mapping applications in deeper waters. In this work, a sea-bottom classification methodology is presented for mapping the protected habitat of Mediterranean seagrass Posidonia oceanica (habitat code 1120) in a coastal subregion of Heraklion (Crete, Greece). The methodology implements a machine learning scheme, where knowledge obtained from UAV imagery is embedded (through training) into a classifier that utilizes acoustic backscatter intensity and features derived from the MBES data provided by an ASV. Accuracy and precision scores of greater than 85% compared with visual census ground-truth data for both optical and acoustic classifiers indicate that this hybrid mapping approach is promising to mitigate the depth-induced bias in UAV-only models. The latter is especially interesting in cases where the studied habitat boundaries extend beyond depths that can be studied via aerial devices’ optics, as is the case with P. oceanica meadows. |
Mukiibi, Robert; Ferraresso, Serena; Franch, Rafaella; Peruzza, Luca; Rovere, Giulia Dalla; Babbucci, Massimiliano; Bertotto, Daniela; Toffan, Anna; Pascoli, Francesco; Faggion, Sara; Peñaloza, Carolina; Tsigenopoulos, Costas S; Houston, Ross D; Bargelloni, Luca; Robledo, Diego Integrated functional genomic analysis identifies regulatory variants underlying a major QTL for disease resistance in European sea bass Journal Article BMC Biology, 23 (1), pp. 75, 2025, ISSN: 1741-7007. @article{mukiibi_integrated_2025, title = {Integrated functional genomic analysis identifies regulatory variants underlying a major QTL for disease resistance in European sea bass}, author = {Robert Mukiibi and Serena Ferraresso and Rafaella Franch and Luca Peruzza and Giulia Dalla Rovere and Massimiliano Babbucci and Daniela Bertotto and Anna Toffan and Francesco Pascoli and Sara Faggion and Carolina Peñaloza and Costas S Tsigenopoulos and Ross D Houston and Luca Bargelloni and Diego Robledo}, url = {https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-025-02180-4 /wp-content/uploads/2025/04/2025-Mukiibi-BMC-Biology-18.pdf}, doi = {10.1186/s12915-025-02180-4}, issn = {1741-7007}, year = {2025}, date = {2025-04-07}, urldate = {2025-04-07}, journal = {BMC Biology}, volume = {23}, number = {1}, pages = {75}, abstract = {Abstract Background Viral nervous necrosis (VNN) is an important viral disease threatening global aquaculture sustainability and affecting over 50 farmed and ecologically important fish species. A major QTL for resistance to VNN has been previously detected in European sea bass, but the underlying causal gene(s) and mutation(s) remain unknown. To identify the mechanisms and genetic factors underpinning resistance to VNN in European sea bass, we employed integrative analyses of multiple functional genomics assays in European sea bass. Results The estimated heritability of VNN resistance was high ( h 2 textasciitilde 0.40), and a major QTL explaining up to 38% of the genetic variance of the trait was confirmed on chromosome 3, with individuals with the resistant QTL genotype showing a 90% survivability against a VNN outbreak. Whole-genome resequencing analyses narrowed the location of this QTL to a small region containing 4 copies of interferon alpha inducible protein 27-like 2A ( IFI27L2A ) genes, and one copy of the interferon alpha inducible protein 27-like 2 ( IFI27L2 ) gene. RNA sequencing revealed a clear association between the QTL genotype and the expression of two of the IFI27L2A genes, and the IFI27L2 gene. Integration with chromatin accessibility and histone modification data pinpointed two SNPs in active regulatory regions of two of these genes ( IFI27L2A and IFI27L2 ), and transcription factor binding site gains for the resistant alleles were predicted. These alleles, particularly the SNP variant CHR3:10,077,301, exhibited higher frequencies (0.55 to 0.77) in Eastern Mediterranean Sea bass populations, which show considerably higher levels of resistance to VNN, as compared to susceptible West Mediterranean and Atlantic populations (0.15–0.25). Conclusions The SNP variant CHR3:10,077,301, through modulation of IFI27L2 and IFI27L2A genes, is likely the causative mutation underlying resistance to VNN in European sea bass. This is one of the first causative mutations discovered for disease resistance traits in fish and paves the way for marker-assisted selection as well as biotechnological approaches to enhance resistance to VNN in European sea bass and other susceptible species.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Background Viral nervous necrosis (VNN) is an important viral disease threatening global aquaculture sustainability and affecting over 50 farmed and ecologically important fish species. A major QTL for resistance to VNN has been previously detected in European sea bass, but the underlying causal gene(s) and mutation(s) remain unknown. To identify the mechanisms and genetic factors underpinning resistance to VNN in European sea bass, we employed integrative analyses of multiple functional genomics assays in European sea bass. Results The estimated heritability of VNN resistance was high ( h 2 textasciitilde 0.40), and a major QTL explaining up to 38% of the genetic variance of the trait was confirmed on chromosome 3, with individuals with the resistant QTL genotype showing a 90% survivability against a VNN outbreak. Whole-genome resequencing analyses narrowed the location of this QTL to a small region containing 4 copies of interferon alpha inducible protein 27-like 2A ( IFI27L2A ) genes, and one copy of the interferon alpha inducible protein 27-like 2 ( IFI27L2 ) gene. RNA sequencing revealed a clear association between the QTL genotype and the expression of two of the IFI27L2A genes, and the IFI27L2 gene. Integration with chromatin accessibility and histone modification data pinpointed two SNPs in active regulatory regions of two of these genes ( IFI27L2A and IFI27L2 ), and transcription factor binding site gains for the resistant alleles were predicted. These alleles, particularly the SNP variant CHR3:10,077,301, exhibited higher frequencies (0.55 to 0.77) in Eastern Mediterranean Sea bass populations, which show considerably higher levels of resistance to VNN, as compared to susceptible West Mediterranean and Atlantic populations (0.15–0.25). Conclusions The SNP variant CHR3:10,077,301, through modulation of IFI27L2 and IFI27L2A genes, is likely the causative mutation underlying resistance to VNN in European sea bass. This is one of the first causative mutations discovered for disease resistance traits in fish and paves the way for marker-assisted selection as well as biotechnological approaches to enhance resistance to VNN in European sea bass and other susceptible species. |
Wei, Xiao-Lei; Hao, Zhi-Wei; Kotzamanis, Yannis P; Zhang, Tian-Hua; Liu, Zhi-Bo; Yang, Hong; Luo, Zhi Aquaculture Reports, 42 , pp. 102739, 2025, ISSN: 23525134. @article{wei_dietary_2025, title = {Dietary iron oxide (Fe2O3) nanoparticles modulate growth performance, body composition, mineral content and intestinal health of yellow catfish juveniles (Pelteobagrus fulvidraco)}, author = {Xiao-Lei Wei and Zhi-Wei Hao and Yannis P Kotzamanis and Tian-Hua Zhang and Zhi-Bo Liu and Hong Yang and Zhi Luo}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352513425001255 /wp-content/uploads/2025/03/2025-Wei-AquaReports-16.pdf}, doi = {10.1016/j.aqrep.2025.102739}, issn = {23525134}, year = {2025}, date = {2025-03-31}, urldate = {2025-03-31}, journal = {Aquaculture Reports}, volume = {42}, pages = {102739}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Antoniou, Theodora; Dimitriou, Andreas C; Karameta, Emmanouela; Antoniou, Aglaia; Poulakakis, Nikos; Sfenthourakis, Spyros Comparative phylogeography of four lizard taxa within an oceanic island Journal Article Molecular Phylogenetics and Evolution, 205 , pp. 108295, 2025, ISSN: 10557903. @article{antoniou_comparative_2025, title = {Comparative phylogeography of four lizard taxa within an oceanic island}, author = {Theodora Antoniou and Andreas C Dimitriou and Emmanouela Karameta and Aglaia Antoniou and Nikos Poulakakis and Spyros Sfenthourakis}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1055790325000120 /wp-content/uploads/2025/03/2025-Antoniou-CompPhylo-pre-print-15.pdf}, doi = {10.1016/j.ympev.2025.108295}, issn = {10557903}, year = {2025}, date = {2025-03-24}, urldate = {2025-03-24}, journal = {Molecular Phylogenetics and Evolution}, volume = {205}, pages = {108295}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Droubogiannis, Stavros; Katharios, Pantelis Phage Therapy in Aquaculture Incollection Elumalai, Preetham; Lakshmi, Sreeja (Ed.): Antimicrobial Resistance in Aquaculture and Aquatic Environments, pp. 229–255, Springer Nature Singapore, Singapore, 2025, ISBN: 9789819773190 9789819773206. @incollection{elumalai_phage_2025, title = {Phage Therapy in Aquaculture}, author = {Stavros Droubogiannis and Pantelis Katharios}, editor = {Preetham Elumalai and Sreeja Lakshmi}, url = {https://link.springer.com/10.1007/978-981-97-7320-6_10 /wp-content/uploads/2025/03/2025-Droumbogiannis-and-Katharios-phage-therapy-in-aquaculture-pre-print-14.pdf}, doi = {10.1007/978-981-97-7320-6_10}, isbn = {9789819773190 9789819773206}, year = {2025}, date = {2025-03-20}, urldate = {2025-03-20}, booktitle = {Antimicrobial Resistance in Aquaculture and Aquatic Environments}, pages = {229--255}, publisher = {Springer Nature Singapore}, address = {Singapore}, keywords = {}, pubstate = {published}, tppubtype = {incollection} } |
Chalmoukis, Charalampos; Droubogiannis, Stavros; Michalopoulou, Vassiliki A; Triga, Adriana; Sarris, Panagiotis F; Katharios, Pantelis Pathogens, 14 (3), pp. 247, 2025, ISSN: 2076-0817. @article{chalmoukis_development_2025, title = {Development and Characterization of Fluorescent Protein-Tagged Vibrio harveyi Strains as a Versatile Tool for Studying Infection Dynamics and Strain Interactions}, author = {Charalampos Chalmoukis and Stavros Droubogiannis and Vassiliki A Michalopoulou and Adriana Triga and Panagiotis F Sarris and Pantelis Katharios}, url = {https://www.mdpi.com/2076-0817/14/3/247 /wp-content/uploads/2025/03/2025-Chalmoukis-pathogens-13.pdf}, doi = {10.3390/pathogens14030247}, issn = {2076-0817}, year = {2025}, date = {2025-03-18}, urldate = {2025-03-18}, journal = {Pathogens}, volume = {14}, number = {3}, pages = {247}, abstract = {Fluorescent protein-tagged bacterial strains are widely used tools for studying host-pathogen interactions and microbial dynamics. In this study, we developed and characterized Vibrio harveyi strains genetically modified to express green fluorescent protein (GFP) and red fluorescent protein (RFP). These strains were constructed using triparental mating and evaluated for phenotypic, genomic, and virulence attributes. Genomic analyses revealed strain-specific variations, including mutations in key regulatory and metabolic genes, such as luxO and transketolase. While plasmid acquisition imposed metabolic costs, resulting in altered growth and antibiotic sensitivities in certain transconjugants, others demonstrated robust phenotypic stability. Virulence assays using gilthead seabream larvae revealed that most tagged strains retained moderate pathogenicity, with visualization of co-infections highlighting the potential for studying strain-specific interactions. Furthermore, fluorescent microscopy confirmed the successful colonization and localization of tagged bacteria within host tissues. These findings underscore the utility of GFP- and RFP-tagged Vibrio harveyi as versatile tools for infection dynamics, offering a foundation for future research on strain interactions and pathogen-host relationships.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Fluorescent protein-tagged bacterial strains are widely used tools for studying host-pathogen interactions and microbial dynamics. In this study, we developed and characterized Vibrio harveyi strains genetically modified to express green fluorescent protein (GFP) and red fluorescent protein (RFP). These strains were constructed using triparental mating and evaluated for phenotypic, genomic, and virulence attributes. Genomic analyses revealed strain-specific variations, including mutations in key regulatory and metabolic genes, such as luxO and transketolase. While plasmid acquisition imposed metabolic costs, resulting in altered growth and antibiotic sensitivities in certain transconjugants, others demonstrated robust phenotypic stability. Virulence assays using gilthead seabream larvae revealed that most tagged strains retained moderate pathogenicity, with visualization of co-infections highlighting the potential for studying strain-specific interactions. Furthermore, fluorescent microscopy confirmed the successful colonization and localization of tagged bacteria within host tissues. These findings underscore the utility of GFP- and RFP-tagged Vibrio harveyi as versatile tools for infection dynamics, offering a foundation for future research on strain interactions and pathogen-host relationships. |
Costanzo, Di F; Marsico, Di M; Orefice, I; Kristoffersen, J B; Kasapidis, P; Chaumier, T; Ambrosino, L; Miralto, M; Cigliano, Aiese R; Verret, F; Tirichine, L; Trindade, M; Zyl, Van L; Dato, Di V; Romano, G High-quality genome assembly and annotation of Thalassiosira rotula (synonym of Thalassiosira gravida) Journal Article Scientific Data, 12 (1), pp. 310, 2025, ISSN: 2052-4463. @article{di_costanzo_high-quality_2025, title = {High-quality genome assembly and annotation of Thalassiosira rotula (synonym of Thalassiosira gravida)}, author = {F Di Costanzo and M Di Marsico and I Orefice and J B Kristoffersen and P Kasapidis and T Chaumier and L Ambrosino and M Miralto and R Aiese Cigliano and F Verret and L Tirichine and M Trindade and L Van Zyl and V Di Dato and G Romano}, url = {https://www.nature.com/articles/s41597-025-04634-4 /wp-content/uploads/2025/03/2025-Costanzo-SciData-12.pdf}, doi = {10.1038/s41597-025-04634-4}, issn = {2052-4463}, year = {2025}, date = {2025-03-14}, urldate = {2025-03-14}, journal = {Scientific Data}, volume = {12}, number = {1}, pages = {310}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Sarropoulou, Elena; Katharios, Pantelis; Kaitetzidou, Elisavet; Scapigliati, Giuseppe; Miccoli, Andrea Circulating miRNAs involved in the immune response of the European seabass (Dicentrarchus labrax) Journal Article Fish & Shellfish Immunology, 160 , pp. 110232, 2025, ISSN: 10504648. @article{sarropoulou_circulating_2025, title = {Circulating miRNAs involved in the immune response of the European seabass (Dicentrarchus labrax)}, author = {Elena Sarropoulou and Pantelis Katharios and Elisavet Kaitetzidou and Giuseppe Scapigliati and Andrea Miccoli}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1050464825001214 /wp-content/uploads/2025/03/2025-Sarropoulou-FishShelImm-11.pdf}, doi = {10.1016/j.fsi.2025.110232}, issn = {10504648}, year = {2025}, date = {2025-03-10}, urldate = {2025-03-11}, journal = {Fish & Shellfish Immunology}, volume = {160}, pages = {110232}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Katharios, Pantelis; Karageorgou, Evangelia Protozoan Co‐Infection Drives Fish Mortality Event in Crete's Karteros River Journal Article Journal of Fish Diseases, pp. e14099, 2025, ISSN: 0140-7775, 1365-2761. @article{katharios_protozoan_2025, title = {Protozoan Co‐Infection Drives Fish Mortality Event in Crete's Karteros River}, author = {Pantelis Katharios and Evangelia Karageorgou}, url = {https://onlinelibrary.wiley.com/doi/10.1111/jfd.14099 /wp-content/uploads/2025/03/2025-Katharios-JFD-10.pdf}, doi = {10.1111/jfd.14099}, issn = {0140-7775, 1365-2761}, year = {2025}, date = {2025-03-07}, urldate = {2025-03-10}, journal = {Journal of Fish Diseases}, pages = {e14099}, abstract = {ABSTRACT In August 2024, a significant fish kill involving hundreds of flathead grey mullet (\textit{Mugil cephalus} ) was reported in the delta region of the Karteros River, Crete, Greece. The investigation identified the primary cause of mortality as severe parasitic infections, specifically from the protozoan parasites Amyloodinium ocellatum and Trichodina sp., both of which heavily affected the gills of the fish. Concurrently, poor water quality in the area, likely due to reduced water volume and limited water renewal, created favourable conditions for parasite proliferation while weakening the fish's natural defences. This event raised concerns due to the location of the fish kill in the Karteros River delta, a highly protected area designated as a small island wetland.}, keywords = {}, pubstate = {published}, tppubtype = {article} } ABSTRACT In August 2024, a significant fish kill involving hundreds of flathead grey mullet (Mugil cephalus ) was reported in the delta region of the Karteros River, Crete, Greece. The investigation identified the primary cause of mortality as severe parasitic infections, specifically from the protozoan parasites Amyloodinium ocellatum and Trichodina sp., both of which heavily affected the gills of the fish. Concurrently, poor water quality in the area, likely due to reduced water volume and limited water renewal, created favourable conditions for parasite proliferation while weakening the fish's natural defences. This event raised concerns due to the location of the fish kill in the Karteros River delta, a highly protected area designated as a small island wetland. |
Brecko, Jonathan; Mathys, Aurore; Chatzinikolaou, Eva; Keklikoglou, Kleoniki; Blettery, Jonathan; Green, Laura; Musson, Alicia; Paton, Alan; Phillips, Sarah; Bastir, Markus; Wiltschke, Karin; Rainer, Heimo; Kroh, Andreas; Haston, Elspeth; Semal, Patrick DIGIT-KEY: an aid towards uniform 2D+ and 3D digitisation techniques within natural history collections Journal Article European Journal of Taxonomy, 976 , 2025, ISSN: 2118-9773. @article{brecko_digit-key_2025, title = {DIGIT-KEY: an aid towards uniform 2D+ and 3D digitisation techniques within natural history collections}, author = {Jonathan Brecko and Aurore Mathys and Eva Chatzinikolaou and Kleoniki Keklikoglou and Jonathan Blettery and Laura Green and Alicia Musson and Alan Paton and Sarah Phillips and Markus Bastir and Karin Wiltschke and Heimo Rainer and Andreas Kroh and Elspeth Haston and Patrick Semal}, url = {https://europeanjournaloftaxonomy.eu/index.php/ejt/article/view/2797 /wp-content/uploads/2025/03/2025-Brecko-EuJTax-9.pdf}, doi = {10.5852/ejt.2025.976.2797}, issn = {2118-9773}, year = {2025}, date = {2025-03-04}, urldate = {2025-03-04}, journal = {European Journal of Taxonomy}, volume = {976}, abstract = {Natural History institutes hold an immense number of specimens and artefacts. For years these collections were not accessible online, remaining inaccessible to researchers from far away and hidden from the general public. Large digitisation projects and cross-institutional agreements aim to bring their collections into the digital era, such as the SYNTHESYS+ project and the Distributed System of Scientific Collections (DiSSCo) Research Infrastructure. As specimens are 3D physical objects with different characteristics many techniques are available to 3D digitise them. For inexperienced users this can be quite overwhelming. Which techniques are already well tested in other institutions and are suitable for a specific specimen or collection? To investigate this, we have set up a dichotomous identification key for digitisation techniques: DIGIT-KEY, (https://digit.naturalheritage.be/digit-key). For each technique, examples used in SYNTHESYS+ Institutions are visualised and training manuals provided. All information can be easily updated and representatives can be contacted if necessary to request more information about a certain technique. This key can be helpful to achieve comparable results across institutions when digitising collections on demand in future DiSSCo research initiatives coordinated through the European Loans and Visits System (ELViS) for Virtual and Transnational Access.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Natural History institutes hold an immense number of specimens and artefacts. For years these collections were not accessible online, remaining inaccessible to researchers from far away and hidden from the general public. Large digitisation projects and cross-institutional agreements aim to bring their collections into the digital era, such as the SYNTHESYS+ project and the Distributed System of Scientific Collections (DiSSCo) Research Infrastructure. As specimens are 3D physical objects with different characteristics many techniques are available to 3D digitise them. For inexperienced users this can be quite overwhelming. Which techniques are already well tested in other institutions and are suitable for a specific specimen or collection? To investigate this, we have set up a dichotomous identification key for digitisation techniques: DIGIT-KEY, (https://digit.naturalheritage.be/digit-key). For each technique, examples used in SYNTHESYS+ Institutions are visualised and training manuals provided. All information can be easily updated and representatives can be contacted if necessary to request more information about a certain technique. This key can be helpful to achieve comparable results across institutions when digitising collections on demand in future DiSSCo research initiatives coordinated through the European Loans and Visits System (ELViS) for Virtual and Transnational Access. |
Grigorakis, Kriton; Kogiannou, Dimitra; Kotsiri, Mado; Kleidas, Ioannis; Mello, Paulo De H; Habiballah, Salaheldeen; Alshaikhi, Ali; Alhafedh, Youssef S; Mohamed, Asaad H W Freshness and Spoilage Patterns of Wild and Farmed Tropical Fish Species with Major Commercial Importance Originating from Saudi Arabian Waters Journal Article Foods, 14 (4), pp. 690, 2025, ISSN: 2304-8158. @article{grigorakis_freshness_2025, title = {Freshness and Spoilage Patterns of Wild and Farmed Tropical Fish Species with Major Commercial Importance Originating from Saudi Arabian Waters}, author = {Kriton Grigorakis and Dimitra Kogiannou and Mado Kotsiri and Ioannis Kleidas and Paulo H De Mello and Salaheldeen Habiballah and Ali Alshaikhi and Youssef S Alhafedh and Asaad H W Mohamed}, url = {https://www.mdpi.com/2304-8158/14/4/690 /wp-content/uploads/2025/02/2025-Grigorakis-foods-8.pdf}, doi = {10.3390/foods14040690}, issn = {2304-8158}, year = {2025}, date = {2025-02-24}, urldate = {2025-02-24}, journal = {Foods}, volume = {14}, number = {4}, pages = {690}, abstract = {Ice-stored farmed barramundi (Lates calcarifer), snubnose pompano (Trachinotus blochii) and sobaity bream (Sparidentex hasta), as well as wild-caught cobia (Rachycentron canadum), coral trout (Plectropomus leopardus), giant trevally (Caranx ignobilis), milkfish (Chanos chanos) and mangrove red snapper (Lutjanus argentimaculatus), were compared for their freshness/spoilage using sensory, chemical and microbiological methods. Quality Index Method schemes were developed to determine alterations in the sensory freshness. The shelf lives ranged from 8 (coral trout) to 18 days (sobaity bream). The farmed species always exhibited a significantly longer shelf life than the wild-caught species. The adenosine triphosphate (ATP) breakdown followed different patterns in the studied species. The K-values at the time of sensory rejection ranged from 30 to 80% depending on the species, while the microbial load reached or exceeded a level of 6 log cfu/g. Although the shelf life duration was dependent on the origin of the fish (wild or farmed), the ATP breakdown scheme, as well as the K-values and microbial loads at the time of rejection, were species-dependent and independent of the origin.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Ice-stored farmed barramundi (Lates calcarifer), snubnose pompano (Trachinotus blochii) and sobaity bream (Sparidentex hasta), as well as wild-caught cobia (Rachycentron canadum), coral trout (Plectropomus leopardus), giant trevally (Caranx ignobilis), milkfish (Chanos chanos) and mangrove red snapper (Lutjanus argentimaculatus), were compared for their freshness/spoilage using sensory, chemical and microbiological methods. Quality Index Method schemes were developed to determine alterations in the sensory freshness. The shelf lives ranged from 8 (coral trout) to 18 days (sobaity bream). The farmed species always exhibited a significantly longer shelf life than the wild-caught species. The adenosine triphosphate (ATP) breakdown followed different patterns in the studied species. The K-values at the time of sensory rejection ranged from 30 to 80% depending on the species, while the microbial load reached or exceeded a level of 6 log cfu/g. Although the shelf life duration was dependent on the origin of the fish (wild or farmed), the ATP breakdown scheme, as well as the K-values and microbial loads at the time of rejection, were species-dependent and independent of the origin. |
Carlot, J; Galobart, C; Gómez-Gras, D; Santamaría, J; Golo, R; Sini, M; Cebrian, E; Gerovasileiou, V; Ponti, M; Turicchia, E; Comeau, S; Rilov, G; Tamburello, L; Mantas, Pulido T; Cerrano, C; Ledoux, J B; Gattuso, J -P; Ramirez-Calero, S; Millan, L; Montefalcone, M; Katsanevakis, S; Bensoussan, N; Garrabou, J; Teixidó, N Vulnerability of benthic trait diversity across the Mediterranean Sea following mass mortality events Journal Article Nature Communications, 16 (1), pp. 1571, 2025, ISSN: 2041-1723. @article{carlot_vulnerability_2025, title = {Vulnerability of benthic trait diversity across the Mediterranean Sea following mass mortality events}, author = {J Carlot and C Galobart and D Gómez-Gras and J Santamaría and R Golo and M Sini and E Cebrian and V Gerovasileiou and M Ponti and E Turicchia and S Comeau and G Rilov and L Tamburello and T Pulido Mantas and C Cerrano and J B Ledoux and J -P Gattuso and S Ramirez-Calero and L Millan and M Montefalcone and S Katsanevakis and N Bensoussan and J Garrabou and N Teixidó}, url = {https://www.nature.com/articles/s41467-025-55949-0 /wp-content/uploads/2025/02/2025-Carlot-Nat-Comm-7.pdf}, doi = {10.1038/s41467-025-55949-0}, issn = {2041-1723}, year = {2025}, date = {2025-02-21}, urldate = {2025-02-20}, journal = {Nature Communications}, volume = {16}, number = {1}, pages = {1571}, abstract = {Abstract Unraveling the functional future of marine ecosystems amid global change poses a pressing challenge. This is particularly critical in the Mediterranean Sea, which is highly impacted by global and local drivers. Utilizing extensive mass mortality events (MMEs) datasets spanning from 1986 to 2020 across the Mediterranean Sea, we investigated the trait vulnerability of benthic species that suffered from MMEs induced by nine distinct mortality drivers. By analyzing changes in ten ecological traits across 389 benthic species—constituting an extensive compendium of Mediterranean ecological traits to date—we identified 228 functional entities (FEs), defined as groups of species sharing the same trait values. Our findings indicate that of these 55 FEs were impacted by MMEs, accentuating a heightened vulnerability within specific trait categories. Notably, more than half of the mortality records showed severe impacts on calcifying and larger species with slower growth which mostly account for tree-like and massive forms. Altogether, we highlight that 29 FEs suffered extreme mortality, leading to a maximum increase of 19.1% of the global trait volume vulnerability over 35 years. We also reveal that 10.8% of the trait volume may have been temporarily lost over the last five years, emphasizing the risk of a rapid ecological transformation in the Mediterranean Sea.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Unraveling the functional future of marine ecosystems amid global change poses a pressing challenge. This is particularly critical in the Mediterranean Sea, which is highly impacted by global and local drivers. Utilizing extensive mass mortality events (MMEs) datasets spanning from 1986 to 2020 across the Mediterranean Sea, we investigated the trait vulnerability of benthic species that suffered from MMEs induced by nine distinct mortality drivers. By analyzing changes in ten ecological traits across 389 benthic species—constituting an extensive compendium of Mediterranean ecological traits to date—we identified 228 functional entities (FEs), defined as groups of species sharing the same trait values. Our findings indicate that of these 55 FEs were impacted by MMEs, accentuating a heightened vulnerability within specific trait categories. Notably, more than half of the mortality records showed severe impacts on calcifying and larger species with slower growth which mostly account for tree-like and massive forms. Altogether, we highlight that 29 FEs suffered extreme mortality, leading to a maximum increase of 19.1% of the global trait volume vulnerability over 35 years. We also reveal that 10.8% of the trait volume may have been temporarily lost over the last five years, emphasizing the risk of a rapid ecological transformation in the Mediterranean Sea. |
Daraghmeh, Nauras; Exter, Katrina; Pagnier, Justine; Balazy, Piotr; Cancio, Ibon; Chatzigeorgiou, Giorgos; Chatzinikolaou, Eva; Chelchowski, Maciej; Chrismas, Nathan Alexis Mitchell; Comtet, Thierry; Dailianis, Thanos; Deneudt, Klaas; Cerio, Oihane Diaz De; Digenis, Markos; Gerovasileiou, Vasilis; González, José; Kauppi, Laura; Kristoffersen, Jon Bent; Kukliński, Piotr; Lasota, Rafał; Levy, Liraz; Małachowicz, Magdalena; Mavrič, Borut; Mortelmans, Jonas; Paredes, Estefania; Poćwierz‐Kotus, Anita; Reiss, Henning; Santi, Ioulia; Sarafidou, Georgia; Skouradakis, Grigorios; Solbakken, Jostein; Staehr, Peter A U; Tajadura, Javier; Thyrring, Jakob; Troncoso, Jesus S; Vernadou, Emmanouela; Viard, Frederique; Zafeiropoulos, Haris; Zbawicka, Małgorzata; Pavloudi, Christina; Obst, Matthias A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020 Journal Article Molecular Ecology Resources, pp. e14073, 2025, ISSN: 1755-098X, 1755-0998. @article{daraghmeh_longterm_2025, title = {A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020}, author = {Nauras Daraghmeh and Katrina Exter and Justine Pagnier and Piotr Balazy and Ibon Cancio and Giorgos Chatzigeorgiou and Eva Chatzinikolaou and Maciej Chelchowski and Nathan Alexis Mitchell Chrismas and Thierry Comtet and Thanos Dailianis and Klaas Deneudt and Oihane Diaz De Cerio and Markos Digenis and Vasilis Gerovasileiou and José González and Laura Kauppi and Jon Bent Kristoffersen and Piotr Kukliński and Rafał Lasota and Liraz Levy and Magdalena Małachowicz and Borut Mavrič and Jonas Mortelmans and Estefania Paredes and Anita Poćwierz‐Kotus and Henning Reiss and Ioulia Santi and Georgia Sarafidou and Grigorios Skouradakis and Jostein Solbakken and Peter A U Staehr and Javier Tajadura and Jakob Thyrring and Jesus S Troncoso and Emmanouela Vernadou and Frederique Viard and Haris Zafeiropoulos and Małgorzata Zbawicka and Christina Pavloudi and Matthias Obst}, url = {https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.14073 /wp-content/uploads/2025/02/2025-Daraghmeh-MolEcoRes-6.pdf}, doi = {10.1111/1755-0998.14073}, issn = {1755-098X, 1755-0998}, year = {2025}, date = {2025-02-05}, urldate = {2025-02-05}, journal = {Molecular Ecology Resources}, pages = {e14073}, abstract = {ABSTRACT Molecular methods such as DNA/eDNA metabarcoding have emerged as useful tools to document the biodiversity of complex communities over large spatio‐temporal scales. We established an international Marine Biodiversity Observation Network (ARMS‐MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with metabarcoding for genetic monitoring of marine hard‐bottom benthic communities. Here, we present the data of our first sampling campaign comprising 56 ARMS units deployed in 2018–2019 and retrieved in 2018–2020 across 15 observatories along the coasts of Europe and adjacent regions. We describe the open‐access data set (image, genetic and metadata) and explore the genetic data to show its potential for marine biodiversity monitoring and ecological research. Our analysis shows that ARMS recovered more than 60 eukaryotic phyla capturing diversity of up to textasciitilde5500 amplicon sequence variants and textasciitilde1800 operational taxonomic units, and up to textasciitilde250 and textasciitilde50 species per observatory using the cytochrome c oxidase subunit I (COI) and 18S rRNA marker genes, respectively. Further, ARMS detected threatened, vulnerable and non‐indigenous species often targeted in biological monitoring. We show that while deployment duration does not drive diversity estimates, sampling effort and sequencing depth across observatories do. We recommend that ARMS should be deployed for at least 3–6 months during the main growth season to use resources as efficiently as possible and that post‐sequencing curation is applied to enable statistical comparison of spatio‐temporal entities. We suggest that ARMS should be used in biological monitoring programs and long‐term ecological research and encourage the adoption of our ARMS‐MBON protocols.}, keywords = {}, pubstate = {published}, tppubtype = {article} } ABSTRACT Molecular methods such as DNA/eDNA metabarcoding have emerged as useful tools to document the biodiversity of complex communities over large spatio‐temporal scales. We established an international Marine Biodiversity Observation Network (ARMS‐MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with metabarcoding for genetic monitoring of marine hard‐bottom benthic communities. Here, we present the data of our first sampling campaign comprising 56 ARMS units deployed in 2018–2019 and retrieved in 2018–2020 across 15 observatories along the coasts of Europe and adjacent regions. We describe the open‐access data set (image, genetic and metadata) and explore the genetic data to show its potential for marine biodiversity monitoring and ecological research. Our analysis shows that ARMS recovered more than 60 eukaryotic phyla capturing diversity of up to textasciitilde5500 amplicon sequence variants and textasciitilde1800 operational taxonomic units, and up to textasciitilde250 and textasciitilde50 species per observatory using the cytochrome c oxidase subunit I (COI) and 18S rRNA marker genes, respectively. Further, ARMS detected threatened, vulnerable and non‐indigenous species often targeted in biological monitoring. We show that while deployment duration does not drive diversity estimates, sampling effort and sequencing depth across observatories do. We recommend that ARMS should be deployed for at least 3–6 months during the main growth season to use resources as efficiently as possible and that post‐sequencing curation is applied to enable statistical comparison of spatio‐temporal entities. We suggest that ARMS should be used in biological monitoring programs and long‐term ecological research and encourage the adoption of our ARMS‐MBON protocols. |
Chen, I-Hao; Georgopoulou, Dimitra G; Ebbesson, Lars O E; Voskakis, Dimitris; Munthe-Kaas, Antonella Zanna; Papandroulakis, Nikos Acoustic tags versus camera—a case study on feeding behaviour of European seabass in sea cages Journal Article Frontiers in Marine Science, 11 , pp. 1497336, 2025, ISSN: 2296-7745. @article{chen_acoustic_2025, title = {Acoustic tags versus camera—a case study on feeding behaviour of European seabass in sea cages}, author = {I-Hao Chen and Dimitra G Georgopoulou and Lars O E Ebbesson and Dimitris Voskakis and Antonella Zanna Munthe-Kaas and Nikos Papandroulakis}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2024.1497336/full https://imbbc.hcmr.gr/wp-content/uploads/2025/01/2025-Chen-fmars-5.pdf}, doi = {10.3389/fmars.2024.1497336}, issn = {2296-7745}, year = {2025}, date = {2025-01-30}, urldate = {2025-01-30}, journal = {Frontiers in Marine Science}, volume = {11}, pages = {1497336}, abstract = {Intoduction With the expansion of the aquaculture industry, the need arises for scalable, reliable, and robust methods to assess fish behaviour in sea cages to guide operational management, which includes feeding optimisation and welfare assessments. Fish cage monitoring utilising either acoustic transmitters or underwater cameras is well-studied. However, the relationship between those two different measurement types seems to have not been explored, nor have they been evaluated together in one experimental site. Methods In our 1-month study, we compared the activity of 14 sentinel fish and the artificial intelligence (AI)-inferred speed of individuals from the European seabass ( Dicentrarchus labrax ) sea cage population in three feeding trials. Comparisons include a maximum activity comparison using persistent peaks, fish behavioural pattern establishment and retention, and periodical behavioural patterns. Results Our results demonstrate that under certain circumstances, both technologies are interchangeable from the perspective of persistent peaks and periodicity, but complementary when it comes to behaviour analysis such as food anticipatory behaviour (FAB). Discussion We anticipate that our findings will stimulate advances where multiple sensor types are in use to achieve a more holistic understanding of fish behaviour in the aquaculture sector using underwater technologies.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Intoduction With the expansion of the aquaculture industry, the need arises for scalable, reliable, and robust methods to assess fish behaviour in sea cages to guide operational management, which includes feeding optimisation and welfare assessments. Fish cage monitoring utilising either acoustic transmitters or underwater cameras is well-studied. However, the relationship between those two different measurement types seems to have not been explored, nor have they been evaluated together in one experimental site. Methods In our 1-month study, we compared the activity of 14 sentinel fish and the artificial intelligence (AI)-inferred speed of individuals from the European seabass ( Dicentrarchus labrax ) sea cage population in three feeding trials. Comparisons include a maximum activity comparison using persistent peaks, fish behavioural pattern establishment and retention, and periodical behavioural patterns. Results Our results demonstrate that under certain circumstances, both technologies are interchangeable from the perspective of persistent peaks and periodicity, but complementary when it comes to behaviour analysis such as food anticipatory behaviour (FAB). Discussion We anticipate that our findings will stimulate advances where multiple sensor types are in use to achieve a more holistic understanding of fish behaviour in the aquaculture sector using underwater technologies. |
Oikonomou, Stavroula; Tasiouli, Katerina; Tsaparis, Dimitrios; Manousaki, Tereza; Vallecillos, Antonio; Oikonomaki, Katerina; Tzokas, Konstantinos; Katribouzas, Nikolaos; Batargias, Costas; Chatziplis, Dimitrios; Tsigenopoulos, Costas S Genomic evaluation for body weight, length and growth estimates in meagre Argyrosomus regius Journal Article Aquaculture, 595 , pp. 741622, 2025, ISSN: 00448486. @article{oikonomou_genomic_2025, title = {Genomic evaluation for body weight, length and growth estimates in meagre Argyrosomus regius}, author = {Stavroula Oikonomou and Katerina Tasiouli and Dimitrios Tsaparis and Tereza Manousaki and Antonio Vallecillos and Katerina Oikonomaki and Konstantinos Tzokas and Nikolaos Katribouzas and Costas Batargias and Dimitrios Chatziplis and Costas S Tsigenopoulos}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848624010846 /wp-content/uploads/2025/01/2025-Oikonomou-AQUA-3.pdf}, doi = {10.1016/j.aquaculture.2024.741622}, issn = {00448486}, year = {2025}, date = {2025-01-24}, urldate = {2025-01-24}, journal = {Aquaculture}, volume = {595}, pages = {741622}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Lancerotto, Stefano; Fakriadis, Ioannis; Papadaki, Maria; Giménez, Ignacio; Genovés, José Vicente Roig; Mylonas, Constantinos C Aquaculture, 594 , pp. 741401, 2025, ISSN: 00448486. @article{lancerotto_overcoming_2025, title = {Overcoming dysfunctional gametogenesis in hatchery-produced greater amberjack, Seriola dumerili using recombinant gonadotropins, and spawning induction using gonadotropin releasing hormone agonist-loaded implants}, author = {Stefano Lancerotto and Ioannis Fakriadis and Maria Papadaki and Ignacio Giménez and José Vicente Roig Genovés and Constantinos C Mylonas}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848624008627 https://imbbc.hcmr.gr/wp-content/uploads/2025/01/2025-Lancerotto-AQUA-2.pdf}, doi = {10.1016/j.aquaculture.2024.741401}, issn = {00448486}, year = {2025}, date = {2025-01-21}, urldate = {2025-01-21}, journal = {Aquaculture}, volume = {594}, pages = {741401}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kourkouta, Chara; Tsipourlianos, Andreas; Papandroulakis, Nikos; Moutou, Katerina A; Koumoundouros, George Ray‐Resorption Syndrome in European Seabass, textitDicentrarchus labrax (Linnaeus, 1758) Journal Article Journal of Fish Diseases, 48 (2), pp. e14042, 2025, ISSN: 0140-7775, 1365-2761. @article{kourkouta_rayresorption_2025, title = {Ray‐Resorption Syndrome in European Seabass, textitDicentrarchus labrax (Linnaeus, 1758)}, author = {Chara Kourkouta and Andreas Tsipourlianos and Nikos Papandroulakis and Katerina A Moutou and George Koumoundouros}, url = {https://onlinelibrary.wiley.com/doi/10.1111/jfd.14042 https://imbbc.hcmr.gr/wp-content/uploads/2025/01/2025-Kourkouta-JFD-4.pdf}, doi = {10.1111/jfd.14042}, issn = {0140-7775, 1365-2761}, year = {2025}, date = {2025-01-13}, urldate = {2025-01-13}, journal = {Journal of Fish Diseases}, volume = {48}, number = {2}, pages = {e14042}, abstract = {ABSTRACT Fin abnormalities are common in reared fish. They mainly consist of partial to complete lack of rays and severe abnormalities of fin‐supporting skeletal elements, which develop during the larval stage, up to the completion of fin skeleton ontogeny. This study reports a new abnormal condition, ray‐resorption syndrome (RSS), which developed after the completion of fin ontogeny in initially normal European seabass larvae, leading to extensive loss of fin rays. At 49 days post‐fertilisation (dpf) (15 mm standard length, SL) all fish presented normal fins. However, nineteen days later (21 mm SL), significant fin damage, characterised by ray loss or fractures, was observed in all studied populations. The dorsal fin was most affected (55%–84%), followed by the pelvic (27%–53%) and anal fins (7%–17%). Microscopically, multiple non‐mineralised areas resembling resorption lacunae were evident along all fin lepidotrichia. By 98 dpf (40 mm SL), the fin‐ray loss had advanced, reaching its higher frequency in the dorsal (74%–83%) and caudal fins (71%–94%). Gene expression analysis revealed a significant upregulation of bglap (osteoblast maturation marker), acp5a (osteoclast maturation marker) and mmp13a (extracellular‐matrix remodelling marker) in RSS specimens. The results are discussed in respect of the possible causative factors of RSS.}, keywords = {}, pubstate = {published}, tppubtype = {article} } ABSTRACT Fin abnormalities are common in reared fish. They mainly consist of partial to complete lack of rays and severe abnormalities of fin‐supporting skeletal elements, which develop during the larval stage, up to the completion of fin skeleton ontogeny. This study reports a new abnormal condition, ray‐resorption syndrome (RSS), which developed after the completion of fin ontogeny in initially normal European seabass larvae, leading to extensive loss of fin rays. At 49 days post‐fertilisation (dpf) (15 mm standard length, SL) all fish presented normal fins. However, nineteen days later (21 mm SL), significant fin damage, characterised by ray loss or fractures, was observed in all studied populations. The dorsal fin was most affected (55%–84%), followed by the pelvic (27%–53%) and anal fins (7%–17%). Microscopically, multiple non‐mineralised areas resembling resorption lacunae were evident along all fin lepidotrichia. By 98 dpf (40 mm SL), the fin‐ray loss had advanced, reaching its higher frequency in the dorsal (74%–83%) and caudal fins (71%–94%). Gene expression analysis revealed a significant upregulation of bglap (osteoblast maturation marker), acp5a (osteoclast maturation marker) and mmp13a (extracellular‐matrix remodelling marker) in RSS specimens. The results are discussed in respect of the possible causative factors of RSS. |
Bušelić, Ivana; Trumbić, Željka; Hrabar, Jerko; Lepen-Pleić, Ivana; Šegvić-Bubić, Tanja; Kaitetzidou, Elisavet; Tibaldi, Emilio; Bočina, Ivana; Grubišić, Leon; Sarropoulou, Elena 594 , pp. 741385, 2025, ISSN: 00448486. @article{buselic_unravelling_2025, title = {Unravelling the intricate language of fish guts: Impact of plant-based vs. plant-insect-poultry-based diets on intestinal pathways in European seabass}, author = {Ivana Bušelić and Željka Trumbić and Jerko Hrabar and Ivana Lepen-Pleić and Tanja Šegvić-Bubić and Elisavet Kaitetzidou and Emilio Tibaldi and Ivana Bočina and Leon Grubišić and Elena Sarropoulou}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848624008469 https://imbbc.hcmr.gr/wp-content/uploads/2025/01/2025-Buselic-AQUA-1.pdf}, doi = {10.1016/j.aquaculture.2024.741385}, issn = {00448486}, year = {2025}, date = {2025-01-08}, urldate = {2025-01-08}, volume = {594}, pages = {741385}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Pavloudi, Christina; Santi, Ioulia; Azua, Iñigo; Baña, Zuriñe; Bastianini, Mauro; Belser, Caroline; Bilbao, Jone; Bitz-Thorsen, Julie; Broudin, Caroline; Camusat, Mathieu; Cancio, Ibon; Caray-Counil, Louis; Casotti, Raffaella; Castel, Jade; Comtet, Thierry; Cox, Cymon; Daguin, Claire; Cerio, Oihane Díaz De; Exter, Katrina; Fauvelot, Cécile; Frada, Miguel; Galand, Pierre; Garczarek, Laurence; Fernández, Jose González; Guillou, Laure; Hablützel, Pascal; Heynderickx, Hanneloor; Houbin, Céline; Kervella, Anne; Krystallas, Apostolos; Lagaisse, Rune; Laroquette, Arnaud; Lescure, Lyvia; Lopes, Eva; Loulakaki, Melina; Louro, Bruno; Magalhaes, Catarina; Maidanou, Maria; Margiotta, Francesca; Montresor, Marina; Not, Fabrice; Paredes, Estefanía; Percopo, Isabella; Péru, Erwan; Poulain, Julie; Præbel, Kim; Rigaut-Jalabert, Fabienne; Romac, Sarah; Stavroulaki, Melanthia; Troncoso, Jesús Souza; Thiébaut, Eric; Thomas, Wilfried; Tkacz, Andrzej; Trano, Anna Chiara; Wincker, Patrick; Pade, Nicolas First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples Journal Article Biodiversity Data Journal, 13 , pp. e143585, 2025, ISSN: 1314-2828, 1314-2836. @article{pavloudi_first_2025, title = {First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples}, author = {Christina Pavloudi and Ioulia Santi and Iñigo Azua and Zuriñe Baña and Mauro Bastianini and Caroline Belser and Jone Bilbao and Julie Bitz-Thorsen and Caroline Broudin and Mathieu Camusat and Ibon Cancio and Louis Caray-Counil and Raffaella Casotti and Jade Castel and Thierry Comtet and Cymon Cox and Claire Daguin and Oihane Díaz De Cerio and Katrina Exter and Cécile Fauvelot and Miguel Frada and Pierre Galand and Laurence Garczarek and Jose González Fernández and Laure Guillou and Pascal Hablützel and Hanneloor Heynderickx and Céline Houbin and Anne Kervella and Apostolos Krystallas and Rune Lagaisse and Arnaud Laroquette and Lyvia Lescure and Eva Lopes and Melina Loulakaki and Bruno Louro and Catarina Magalhaes and Maria Maidanou and Francesca Margiotta and Marina Montresor and Fabrice Not and Estefanía Paredes and Isabella Percopo and Erwan Péru and Julie Poulain and Kim Præbel and Fabienne Rigaut-Jalabert and Sarah Romac and Melanthia Stavroulaki and Jesús Souza Troncoso and Eric Thiébaut and Wilfried Thomas and Andrzej Tkacz and Anna Chiara Trano and Patrick Wincker and Nicolas Pade}, url = {https://bdj.pensoft.net/article/143585/ /wp-content/uploads/2025/04/2025-Pavloudi-BDJ-17.pdf}, doi = {10.3897/BDJ.13.e143585}, issn = {1314-2828, 1314-2836}, year = {2025}, date = {2025-01-01}, urldate = {2025-04-03}, journal = {Biodiversity Data Journal}, volume = {13}, pages = {e143585}, abstract = {The European Marine Omics Biodiversity Observation Network (EMO BON) is an initiative of the European Marine Biological Resource Centre (EMBRC) to establish a persistent genomic observatory amongst designated European coastal marine sites, sharing the same protocols for sampling and data curation. Environmental samples are collected from the water column and, at some sites, soft sediments and hard substrates (Autonomous Reef Monitoring Structures - ARMS), together with a set of mandatory and discretionary metadata (including Essential Ocean Variables - EOVs). Samples are collected following standardised protocols at regular and specified intervals and sequenced in large six-monthly batches at a centralised sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity amongst the data collected from the sites. Coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, this ensures maximum comparability amongst samples and enhances reusability and interoperability of the data with other data sources. The observatory network was launched in June 2021, when the first sampling campaign took place.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The European Marine Omics Biodiversity Observation Network (EMO BON) is an initiative of the European Marine Biological Resource Centre (EMBRC) to establish a persistent genomic observatory amongst designated European coastal marine sites, sharing the same protocols for sampling and data curation. Environmental samples are collected from the water column and, at some sites, soft sediments and hard substrates (Autonomous Reef Monitoring Structures - ARMS), together with a set of mandatory and discretionary metadata (including Essential Ocean Variables - EOVs). Samples are collected following standardised protocols at regular and specified intervals and sequenced in large six-monthly batches at a centralised sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity amongst the data collected from the sites. Coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, this ensures maximum comparability amongst samples and enhances reusability and interoperability of the data with other data sources. The observatory network was launched in June 2021, when the first sampling campaign took place. |
2024 |
Voskakis, Dimitris; Kelasidi, Eleni; Papandroulakis, Nikos Design and Development of Underwater Robotic Arm for Automated Camera Calibration for Aquatic Environment Inproceedings 2024 10th International Conference on Automation, Robotics and Applications (ICARA), pp. 50–56, IEEE, Athens, Greece, 2024, ISBN: 9798350394245. @inproceedings{voskakis_design_2024, title = {Design and Development of Underwater Robotic Arm for Automated Camera Calibration for Aquatic Environment}, author = {Dimitris Voskakis and Eleni Kelasidi and Nikos Papandroulakis}, url = {https://ieeexplore.ieee.org/document/10552983/ https://imbbc.hcmr.gr/wp-content/uploads/2025/01/ICARA-2024-Voskakis-pre-print.pdf}, doi = {10.1109/ICARA60736.2024.10552983}, isbn = {9798350394245}, year = {2024}, date = {2024-12-31}, urldate = {2025-01-10}, booktitle = {2024 10th International Conference on Automation, Robotics and Applications (ICARA)}, pages = {50--56}, publisher = {IEEE}, address = {Athens, Greece}, keywords = {}, pubstate = {published}, tppubtype = {inproceedings} } |
Mladineo, Ivona; Hrabar, Jerko; Trumbić, Željka; Rasouli-Dogaheh, Somayeh; Beraldo, Paola; Rigos, George; Palenzuela, Oswado; Sitjà-Bobadilla, Ariadna Aquaculture, 598 , pp. 741997, 2024, ISSN: 00448486. @article{mladineo_mediterranean-wide_2025, title = {Mediterranean-wide transfer of the polyopisthocotylean Sparicotyle chrysophrii between wild sparids and farmed gilthead seabream (Sparus aurata) inferred by ddRAD loci}, author = {Ivona Mladineo and Jerko Hrabar and Željka Trumbić and Somayeh Rasouli-Dogaheh and Paola Beraldo and George Rigos and Oswado Palenzuela and Ariadna Sitjà-Bobadilla}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848624014595 https://imbbc.hcmr.gr/wp-content/uploads/2025/01/2024-Mladineo...Rigos-et-al-pre-print-48.pdf}, doi = {10.1016/j.aquaculture.2024.741997}, issn = {00448486}, year = {2024}, date = {2024-12-30}, urldate = {2025-01-08}, journal = {Aquaculture}, volume = {598}, pages = {741997}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Livanou, Eleni; Sauzède, Raphaëlle; Psarra, Stella; Mandalakis, Manolis; Dall’Olmo, Giorgio; Brewin, Robert J W; Raitsos, Dionysios E Evaluating MULTIOBS Chlorophyll-a with Ground-Truth Observations in the Eastern Mediterranean Sea Journal Article Remote Sensing, 16 (24), pp. 4705, 2024, ISSN: 2072-4292. @article{livanou_evaluating_2024, title = {Evaluating MULTIOBS Chlorophyll-a with Ground-Truth Observations in the Eastern Mediterranean Sea}, author = {Eleni Livanou and Raphaëlle Sauzède and Stella Psarra and Manolis Mandalakis and Giorgio Dall’Olmo and Robert J W Brewin and Dionysios E Raitsos}, url = {https://www.mdpi.com/2072-4292/16/24/4705 /wp-content/uploads/2024/12/2024-Livanou-Remote-Sensing-49.pdf}, doi = {10.3390/rs16244705}, issn = {2072-4292}, year = {2024}, date = {2024-12-23}, urldate = {2024-12-23}, journal = {Remote Sensing}, volume = {16}, number = {24}, pages = {4705}, abstract = {Satellite-derived observations of ocean colour provide continuous data on chlorophyll-a concentration (Chl-a) at global scales but are limited to the ocean’s surface. So far, biogeochemical models have been the only means of generating continuous vertically resolved Chl-a profiles on a regular grid. MULTIOBS is a multi-observations oceanographic dataset that provides depth-resolved biological data based on merged satellite- and Argo-derived in situ hydrological data. This product is distributed by the European Union’s Copernicus Marine Service and offers global multiyear, gridded Chl-a profiles within the ocean’s productive zone at a weekly temporal resolution. MULTIOBS addresses the scarcity of observation-based vertically resolved Chl-a datasets, particularly in less sampled regions like the Eastern Mediterranean Sea (EMS). Here, we conduct an independent evaluation of the MULTIOBS dataset in the oligotrophic waters of the EMS using in situ Chl-a profiles. Our analysis shows that this product accurately and precisely retrieves Chl-a across depths, with a slight 1% overestimation and an observed 1.5-fold average deviation between in situ data and MULTIOBS estimates. The deep chlorophyll maximum (DCM) is adequately estimated by MULTIOBS both in terms of positioning (root mean square error}, keywords = {}, pubstate = {published}, tppubtype = {article} } Satellite-derived observations of ocean colour provide continuous data on chlorophyll-a concentration (Chl-a) at global scales but are limited to the ocean’s surface. So far, biogeochemical models have been the only means of generating continuous vertically resolved Chl-a profiles on a regular grid. MULTIOBS is a multi-observations oceanographic dataset that provides depth-resolved biological data based on merged satellite- and Argo-derived in situ hydrological data. This product is distributed by the European Union’s Copernicus Marine Service and offers global multiyear, gridded Chl-a profiles within the ocean’s productive zone at a weekly temporal resolution. MULTIOBS addresses the scarcity of observation-based vertically resolved Chl-a datasets, particularly in less sampled regions like the Eastern Mediterranean Sea (EMS). Here, we conduct an independent evaluation of the MULTIOBS dataset in the oligotrophic waters of the EMS using in situ Chl-a profiles. Our analysis shows that this product accurately and precisely retrieves Chl-a across depths, with a slight 1% overestimation and an observed 1.5-fold average deviation between in situ data and MULTIOBS estimates. The deep chlorophyll maximum (DCM) is adequately estimated by MULTIOBS both in terms of positioning (root mean square error |
Apostolaki, Eugenia T; Lavery, Paul S; Litsi‐Mizan, Victoria; Serrano, Eduard; Inostroza, Karina; Gerakaris, Vasilis; Dailianis, Thanos; Glampedakis, Julius; Holitzki, Tara; Johnson, Erik; Mateo, Miguel A; Serrano, Oscar Patterns of Carbon and Nitrogen Accumulation in Seagrass ( textitPosidonia oceanica ) Meadows of the Eastern Mediterranean Sea Journal Article Journal of Geophysical Research: Biogeosciences, 129 (12), pp. e2024JG008163, 2024, ISSN: 2169-8953, 2169-8961. @article{apostolaki_patterns_2024, title = {Patterns of Carbon and Nitrogen Accumulation in Seagrass ( textitPosidonia oceanica ) Meadows of the Eastern Mediterranean Sea}, author = {Eugenia T Apostolaki and Paul S Lavery and Victoria Litsi‐Mizan and Eduard Serrano and Karina Inostroza and Vasilis Gerakaris and Thanos Dailianis and Julius Glampedakis and Tara Holitzki and Erik Johnson and Miguel A Mateo and Oscar Serrano}, url = {https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2024JG008163 https://imbbc.hcmr.gr/wp-content/uploads/2024/12/2024-Apostolaki-JGR-BiosSci-47-1.pdf}, doi = {10.1029/2024JG008163}, issn = {2169-8953, 2169-8961}, year = {2024}, date = {2024-12-18}, urldate = {2024-12-18}, journal = {Journal of Geophysical Research: Biogeosciences}, volume = {129}, number = {12}, pages = {e2024JG008163}, abstract = {Abstract The variability in stocks and accumulation rates of organic carbon (C org ), nitrogen (N), and carbonate (CaCO 3 ) was studied in fifteen Posidonia oceanica meadows spread throughout the South Aegean Sea (Greece). In addition, the abiotic and biotic drivers determining the pattern of variability in the accumulation rates were assessed by exploring the influence of sediment characteristics, seagrass traits, and environmental settings. The meadows supported on average (±STDEV) 14.6 ± 5.0 kg C org m −2 , 0.47 ± 0.17 kg N m −2 , and 249 ± 210 kg CaCO 3 m −2 in the top meter of their sediments, with mean accumulation rates over the last 500 years of 33.6 ± 23.6 g C org m −2 yr −1 , 1.00 ± 0.62 g N m −2 yr −1 , and 405 ± 336 g CaCO 3 m −2 yr −1 across sites. A redundancy analysis (RDA) explained 70% of the variation in C org , N, and CaCO 3 accumulation rates, with three sediment characteristics (i.e., sediment C org :N and C org :C inorg ratios and P . oceanica contribution to the sediment C org pool) emerging as the primary set of factors shaping the accumulation of matter, followed by seagrass traits (i.e., leaf biomass and rhizome elongation) and environmental variables (i.e., suspended organic matter). The high degree of variability within the region emphasizes the need for fine‐scale assessments to understand the local conditions influencing sequestration. Our findings underscored the critical role of seagrass meadows in carbon and nitrogen sequestration in the region, urging conservation efforts to protect these ecosystems and prevent potential losses of stored carbon and nitrogen following seagrass degradation. , Plain Language Summary In the present study, we explored the abiotic and biotic factors influencing the accumulation patterns of carbon, nitrogen, and carbonate in 15 seagrass ( Posidonia oceanica ) meadows across the South Aegean Sea (Greece). Sediment characteristics (i.e., sediment C org :N and C org :C inorg ratios and P . ocenica contribution to the sediment C org pool) mainly drove the pattern of carbon, nitrogen, and carbonate accumulation, with seagrass traits (i.e., leaf biomass and rhizome elongation) and environmental conditions (i.e., suspended organic matter) contributing to a lesser extent. Overall, seagrass meadows play a crucial role in storing carbon and nitrogen in the studied region, serving as important natural sinks, and thus, protecting these ecosystems is important to prevent the loss of these stored elements. Additionally, understanding the factors that shape the variability in Posidonia oceanica storage capacity is crucial for management and conservation efforts. , Key Points Seagrass ( Posidonia oceanica ) meadows of the South Aegean Sea (Greece) represent important natural sinks for organic carbon, nitrogen, and carbonate. The accumulation pattern of organic carbon, nitrogen, and carbonate in the underlying seagrass sediments was mainly driven by sediment characteristics, followed by seagrass traits and environmental conditions. Fine‐scale assessments are crucial for understanding the local factors shaping the storage capacity of seagrass meadows to support management decisions.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract The variability in stocks and accumulation rates of organic carbon (C org ), nitrogen (N), and carbonate (CaCO 3 ) was studied in fifteen Posidonia oceanica meadows spread throughout the South Aegean Sea (Greece). In addition, the abiotic and biotic drivers determining the pattern of variability in the accumulation rates were assessed by exploring the influence of sediment characteristics, seagrass traits, and environmental settings. The meadows supported on average (±STDEV) 14.6 ± 5.0 kg C org m −2 , 0.47 ± 0.17 kg N m −2 , and 249 ± 210 kg CaCO 3 m −2 in the top meter of their sediments, with mean accumulation rates over the last 500 years of 33.6 ± 23.6 g C org m −2 yr −1 , 1.00 ± 0.62 g N m −2 yr −1 , and 405 ± 336 g CaCO 3 m −2 yr −1 across sites. A redundancy analysis (RDA) explained 70% of the variation in C org , N, and CaCO 3 accumulation rates, with three sediment characteristics (i.e., sediment C org :N and C org :C inorg ratios and P . oceanica contribution to the sediment C org pool) emerging as the primary set of factors shaping the accumulation of matter, followed by seagrass traits (i.e., leaf biomass and rhizome elongation) and environmental variables (i.e., suspended organic matter). The high degree of variability within the region emphasizes the need for fine‐scale assessments to understand the local conditions influencing sequestration. Our findings underscored the critical role of seagrass meadows in carbon and nitrogen sequestration in the region, urging conservation efforts to protect these ecosystems and prevent potential losses of stored carbon and nitrogen following seagrass degradation. , Plain Language Summary In the present study, we explored the abiotic and biotic factors influencing the accumulation patterns of carbon, nitrogen, and carbonate in 15 seagrass ( Posidonia oceanica ) meadows across the South Aegean Sea (Greece). Sediment characteristics (i.e., sediment C org :N and C org :C inorg ratios and P . ocenica contribution to the sediment C org pool) mainly drove the pattern of carbon, nitrogen, and carbonate accumulation, with seagrass traits (i.e., leaf biomass and rhizome elongation) and environmental conditions (i.e., suspended organic matter) contributing to a lesser extent. Overall, seagrass meadows play a crucial role in storing carbon and nitrogen in the studied region, serving as important natural sinks, and thus, protecting these ecosystems is important to prevent the loss of these stored elements. Additionally, understanding the factors that shape the variability in Posidonia oceanica storage capacity is crucial for management and conservation efforts. , Key Points Seagrass ( Posidonia oceanica ) meadows of the South Aegean Sea (Greece) represent important natural sinks for organic carbon, nitrogen, and carbonate. The accumulation pattern of organic carbon, nitrogen, and carbonate in the underlying seagrass sediments was mainly driven by sediment characteristics, followed by seagrass traits and environmental conditions. Fine‐scale assessments are crucial for understanding the local factors shaping the storage capacity of seagrass meadows to support management decisions. |
Rotter, Ana; Varamogianni-Mamatsi, Despoina; Pobirk, Alenka Zvonar; Matjaž, Mirjam Gosenca; Cueto, Mercedes; Díaz-Marrero, Ana R; Jónsdóttir, Rósa; Sveinsdóttir, Kolbrún; Catalá, Teresa S; Romano, Giovanna; Guler, Bahar Aslanbay; Atak, Eylem; Zrimec, Maja Berden; Bosch, Daniel; Deniz, Irem; Gaudêncio, Susana P; Grigalionyte-Bembič, Ernesta; Klun, Katja; Zidar, Luen; Rius, Anna Coll; Baebler, Špela; Bilela, Lada Lukić; Rinkevich, Baruch; Mandalakis, Manolis Marine cosmetics and the blue bioeconomy: From sourcing to success stories Journal Article iScience, 27 (12), pp. 111339, 2024, ISSN: 25890042. @article{rotter_marine_2024, title = {Marine cosmetics and the blue bioeconomy: From sourcing to success stories}, author = {Ana Rotter and Despoina Varamogianni-Mamatsi and Alenka Zvonar Pobirk and Mirjam Gosenca Matjaž and Mercedes Cueto and Ana R Díaz-Marrero and Rósa Jónsdóttir and Kolbrún Sveinsdóttir and Teresa S Catalá and Giovanna Romano and Bahar Aslanbay Guler and Eylem Atak and Maja Berden Zrimec and Daniel Bosch and Irem Deniz and Susana P Gaudêncio and Ernesta Grigalionyte-Bembič and Katja Klun and Luen Zidar and Anna Coll Rius and Špela Baebler and Lada Lukić Bilela and Baruch Rinkevich and Manolis Mandalakis}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2589004224025641 /wp-content/uploads/2024/12/2024-Rotter-iScience-46.pdf}, doi = {10.1016/j.isci.2024.111339}, issn = {25890042}, year = {2024}, date = {2024-12-09}, urldate = {2024-12-10}, journal = {iScience}, volume = {27}, number = {12}, pages = {111339}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Skliros, Dimitrios; Kostakou, Maria; Kokkari, Constantina; Tsertou, Maria Ioanna; Pavloudi, Christina; Zafeiropoulos, Haris; Katharios, Pantelis; Flemetakis, Emmanouil Microorganisms, 12 (11), pp. 2281, 2024, ISSN: 2076-2607. @article{skliros_unveiling_2024, title = {Unveiling Emerging Opportunistic Fish Pathogens in Aquaculture: A Comprehensive Seasonal Study of Microbial Composition in Mediterranean Fish Hatcheries}, author = {Dimitrios Skliros and Maria Kostakou and Constantina Kokkari and Maria Ioanna Tsertou and Christina Pavloudi and Haris Zafeiropoulos and Pantelis Katharios and Emmanouil Flemetakis}, url = {https://www.mdpi.com/2076-2607/12/11/2281 https://imbbc.hcmr.gr/wp-content/uploads/2024/11/2024-Skliros-microorganisms-45.pdf}, doi = {10.3390/microorganisms12112281}, issn = {2076-2607}, year = {2024}, date = {2024-11-12}, urldate = {2024-11-12}, journal = {Microorganisms}, volume = {12}, number = {11}, pages = {2281}, abstract = {The importance of microbial communities in fish hatcheries for fish health and welfare has been recognized, with several studies mapping these communities during healthy rearing conditions and disease outbreaks. In this study, we analyzed the bacteriome of the live feeds, such as microalgae, rotifers, and Artemia, used in fish hatcheries that produce Mediterranean species. Our goal was to provide baseline information about their structure, emphasizing in environmental putative fish pathogenic bacteria. We conducted 16S rRNA amplicon Novaseq sequencing for our analysis, and we inferred 46,745 taxonomically annotated ASVs. Results showed that incoming environmental water plays a significant role in the presence of important taxa that constitute presumptive pathogens. Bio-statistical analyses revealed a relatively stable bacteriome among seasonal samplings for every hatchery but a diverse bacteriome between sampling stations and a distinct core bacteriome for each hatchery. Analysis of putative opportunistic fish pathogenic genera revealed some co-occurrence correlation events and a high average relative abundance of Vibrio, Tenacibaculum, and Photobacterium genera in live feeds, reaching a grand mean average of up to 7.3% for the hatchery of the Hellenic Center of Marine Research (HCMR), 12% for Hatchery A, and 11.5% for Hatchery B. Mapping the bacteriome in live feeds is pivotal for understanding the marine environment and distinct aquaculture practices and can guide improvements in hatchery management, enhancing fish health and sustainability in the Mediterranean region.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The importance of microbial communities in fish hatcheries for fish health and welfare has been recognized, with several studies mapping these communities during healthy rearing conditions and disease outbreaks. In this study, we analyzed the bacteriome of the live feeds, such as microalgae, rotifers, and Artemia, used in fish hatcheries that produce Mediterranean species. Our goal was to provide baseline information about their structure, emphasizing in environmental putative fish pathogenic bacteria. We conducted 16S rRNA amplicon Novaseq sequencing for our analysis, and we inferred 46,745 taxonomically annotated ASVs. Results showed that incoming environmental water plays a significant role in the presence of important taxa that constitute presumptive pathogens. Bio-statistical analyses revealed a relatively stable bacteriome among seasonal samplings for every hatchery but a diverse bacteriome between sampling stations and a distinct core bacteriome for each hatchery. Analysis of putative opportunistic fish pathogenic genera revealed some co-occurrence correlation events and a high average relative abundance of Vibrio, Tenacibaculum, and Photobacterium genera in live feeds, reaching a grand mean average of up to 7.3% for the hatchery of the Hellenic Center of Marine Research (HCMR), 12% for Hatchery A, and 11.5% for Hatchery B. Mapping the bacteriome in live feeds is pivotal for understanding the marine environment and distinct aquaculture practices and can guide improvements in hatchery management, enhancing fish health and sustainability in the Mediterranean region. |
Daniso, Enrico; Sarropoulou, Elena; Kaitetzidou, Elisavet; Beraldo, Paola; Tibaldi, Emilio; Cerri, Roberto; Cardinaletti, Gloriana Effect of increasing levels of Hermetia illucens in a fishmeal-free diet at sea bream (Sparus aurata, L.) gastrointestinal level Journal Article Aquaculture Reports, 39 , pp. 102410, 2024, ISSN: 23525134. @article{daniso_effect_2024, title = {Effect of increasing levels of Hermetia illucens in a fishmeal-free diet at sea bream (Sparus aurata, L.) gastrointestinal level}, author = {Enrico Daniso and Elena Sarropoulou and Elisavet Kaitetzidou and Paola Beraldo and Emilio Tibaldi and Roberto Cerri and Gloriana Cardinaletti}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352513424004988 /wp-content/uploads/2024/10/2024-Daniso-AquaReports-44.pdf}, doi = {10.1016/j.aqrep.2024.102410}, issn = {23525134}, year = {2024}, date = {2024-10-09}, urldate = {2024-10-09}, journal = {Aquaculture Reports}, volume = {39}, pages = {102410}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kotsiri, Mado; Kleidas, Ioannis; Kogiannou, Dimitra; Vryonides, Katerina; Papadouli, Christina; Golomazou, Eleni; Rigos, George Evaluation of the long-term effects of formaldehyde on the physiology of the Mediterranean mussel, Mytilus galloprovincialis Journal Article Chemosphere, 364 , pp. 143190, 2024, ISSN: 00456535. @article{kotsiri_evaluation_2024, title = {Evaluation of the long-term effects of formaldehyde on the physiology of the Mediterranean mussel, Mytilus galloprovincialis}, author = {Mado Kotsiri and Ioannis Kleidas and Dimitra Kogiannou and Katerina Vryonides and Christina Papadouli and Eleni Golomazou and George Rigos}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0045653524020873 https://imbbc.hcmr.gr/wp-content/uploads/2024/10/2024-Kotsiri-43-pre-print.pdf}, doi = {10.1016/j.chemosphere.2024.143190}, issn = {00456535}, year = {2024}, date = {2024-09-30}, urldate = {2024-10-01}, journal = {Chemosphere}, volume = {364}, pages = {143190}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Reverté, Jaume; Rambla-Alegre, Maria; Sanchez-Henao, Andres; Mandalakis, Manolis; Peristeraki, Panagiota; Molgó, Jordi; Diogène, Jorge; Sureda, Francesc X; Campàs, Mònica Toxicity Equivalency Factors for Tetrodotoxin Analogues Determined with Automated Patch Clamp on Voltage-Gated Sodium Channels in Neuro-2a Cells Journal Article Journal of Agricultural and Food Chemistry, 72 (32), pp. 18192–18200, 2024, ISSN: 0021-8561, 1520-5118. @article{reverte_toxicity_2024, title = {Toxicity Equivalency Factors for Tetrodotoxin Analogues Determined with Automated Patch Clamp on Voltage-Gated Sodium Channels in Neuro-2a Cells}, author = {Jaume Reverté and Maria Rambla-Alegre and Andres Sanchez-Henao and Manolis Mandalakis and Panagiota Peristeraki and Jordi Molgó and Jorge Diogène and Francesc X Sureda and Mònica Campàs}, url = {https://pubs.acs.org/doi/10.1021/acs.jafc.4c04321 https://imbbc.hcmr.gr/wp-content/uploads/2024/09/2024-Reverte-JAFC-42-pre-print.pdf}, doi = {10.1021/acs.jafc.4c04321}, issn = {0021-8561, 1520-5118}, year = {2024}, date = {2024-09-26}, urldate = {2024-09-26}, journal = {Journal of Agricultural and Food Chemistry}, volume = {72}, number = {32}, pages = {18192--18200}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Skouradakis, Grigorios; Vernadou, Emmanouela; Koulouri, Panayota; Dailianis, Thanos Mass mortality of the invasive echinoid Diadema setosum (Leske, 1778) in Crete, East Mediterranean Sea Journal Article Mediterranean Marine Science, 25 (2), pp. 480–483, 2024, ISSN: 1791-6763, 1108-393X. @article{skouradakis_mass_2024, title = {Mass mortality of the invasive echinoid Diadema setosum (Leske, 1778) in Crete, East Mediterranean Sea}, author = {Grigorios Skouradakis and Emmanouela Vernadou and Panayota Koulouri and Thanos Dailianis}, url = {https://ejournals.epublishing.ekt.gr/index.php/hcmr-med-mar-sc/article/view/36447 https://imbbc.hcmr.gr/wp-content/uploads/2024/09/2024-Skouradakis-MMS-41.pdf}, doi = {10.12681/mms.36447}, issn = {1791-6763, 1108-393X}, year = {2024}, date = {2024-09-23}, urldate = {2024-09-23}, journal = {Mediterranean Marine Science}, volume = {25}, number = {2}, pages = {480--483}, abstract = {Diadema setosum is an echinoid of Indo-Pacific origin that invaded the Mediterranean Sea in 2006. It is an ecosystem engineer with an important ecological function in its native range, but it can have a detrimental effect on Mediterranean reefs. Recently in 2022 a mass mortality event (MME) affecting this species was recorded in the east Aegean Sea in the eastern part of the Mediterranean basin. We are reporting herein a westward progression of the MME in 2023 affecting established populations in various locations around the island of Crete.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Diadema setosum is an echinoid of Indo-Pacific origin that invaded the Mediterranean Sea in 2006. It is an ecosystem engineer with an important ecological function in its native range, but it can have a detrimental effect on Mediterranean reefs. Recently in 2022 a mass mortality event (MME) affecting this species was recorded in the east Aegean Sea in the eastern part of the Mediterranean basin. We are reporting herein a westward progression of the MME in 2023 affecting established populations in various locations around the island of Crete. |
Lavecchia, Anna; Virgilio, Caterina De; Mansi, Luigi; Manzari, Caterina; Mylonas, Constantinos C; Picardi, Ernesto; Pousis, Chrysovalentinos; Cox, Sharon N; Ventriglia, Gianluca; Zupa, Rosa; Pesole, Graziano; Corriero, Aldo Comparison of ovarian mRNA expression levels in wild and hatchery-produced greater amberjack Seriola dumerili Journal Article Scientific Reports, 14 (1), pp. 18034, 2024, ISSN: 2045-2322. @article{lavecchia_comparison_2024, title = {Comparison of ovarian mRNA expression levels in wild and hatchery-produced greater amberjack Seriola dumerili}, author = {Anna Lavecchia and Caterina De Virgilio and Luigi Mansi and Caterina Manzari and Constantinos C Mylonas and Ernesto Picardi and Chrysovalentinos Pousis and Sharon N Cox and Gianluca Ventriglia and Rosa Zupa and Graziano Pesole and Aldo Corriero}, url = {https://www.nature.com/articles/s41598-024-69091-2 https://imbbc.hcmr.gr/wp-content/uploads/2024/09/2024-Lavecchia-SciRep-40.pdf}, doi = {10.1038/s41598-024-69091-2}, issn = {2045-2322}, year = {2024}, date = {2024-09-16}, urldate = {2024-09-16}, journal = {Scientific Reports}, volume = {14}, number = {1}, pages = {18034}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Papadaki, Maria; Mylonas, C C; Sarropoulou, Elena MicroRNAs are involved in ovarian physiology of greater amberjack (Seriola dumerili) under captivity Journal Article General and Comparative Endocrinology, 357 , pp. 114581, 2024, ISSN: 00166480. @article{papadaki_micrornas_2024, title = {MicroRNAs are involved in ovarian physiology of greater amberjack (Seriola dumerili) under captivity}, author = {Maria Papadaki and C C Mylonas and Elena Sarropoulou}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648024001436 /wp-content/uploads/2024/08/2024-Papadaki-GCE-39.pdf}, doi = {10.1016/j.ygcen.2024.114581}, issn = {00166480}, year = {2024}, date = {2024-08-05}, urldate = {2024-08-13}, journal = {General and Comparative Endocrinology}, volume = {357}, pages = {114581}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kotsakiozi, Panayiota; Antoniou, Aglaia; Psonis, Nikolaos; Sagonas, Κostas; Karameta, Emmanouela; Ilgaz, Çetin; Kumlutaş, Yusuf; Avcı, Aziz; Jablonski, Daniel; Darriba, Diego; Stamatakis, Alexandros; Lymberakis, Petros; Poulakakis, Nikos Cryptic diversity and phylogeographic patterns of Mediodactylus species in the Eastern Mediterranean region Journal Article Molecular Phylogenetics and Evolution, 197 , pp. 108091, 2024, ISSN: 10557903. @article{kotsakiozi_cryptic_2024, title = {Cryptic diversity and phylogeographic patterns of Mediodactylus species in the Eastern Mediterranean region}, author = {Panayiota Kotsakiozi and Aglaia Antoniou and Nikolaos Psonis and Κostas Sagonas and Emmanouela Karameta and Çetin Ilgaz and Yusuf Kumlutaş and Aziz Avcı and Daniel Jablonski and Diego Darriba and Alexandros Stamatakis and Petros Lymberakis and Nikos Poulakakis}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1055790324000836 /wp-content/uploads/2024/08/2024-Kotsakiozi-MPE-38-pre-print.pdf}, doi = {10.1016/j.ympev.2024.108091}, issn = {10557903}, year = {2024}, date = {2024-08-01}, urldate = {2024-08-12}, journal = {Molecular Phylogenetics and Evolution}, volume = {197}, pages = {108091}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Falconer, Lynne; Sparboe, Lars Olav; Dale, Trine; Hjøllo, Solfrid Sætre; Stavrakidis-Zachou, Orestis; Bergh, Øivind; James, Philip; Papandroulakis, Nikos; Puvanendran, Velmurugu; Siikavuopio, Sten Ivar; Hansen, Øyvind Johannes; Ytteborg, Elisabeth Diversification of marine aquaculture in Norway under climate change Journal Article Aquaculture, 593 , pp. 741350, 2024, ISSN: 00448486. @article{falconer_diversification_2024, title = {Diversification of marine aquaculture in Norway under climate change}, author = {Lynne Falconer and Lars Olav Sparboe and Trine Dale and Solfrid Sætre Hjøllo and Orestis Stavrakidis-Zachou and Øivind Bergh and Philip James and Nikos Papandroulakis and Velmurugu Puvanendran and Sten Ivar Siikavuopio and Øyvind Johannes Hansen and Elisabeth Ytteborg}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848624008111 https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Falconer-AQUA-37.pdf}, doi = {10.1016/j.aquaculture.2024.741350}, issn = {00448486}, year = {2024}, date = {2024-07-31}, urldate = {2024-07-31}, journal = {Aquaculture}, volume = {593}, pages = {741350}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Zrnčić, Snježana; Katharios, Pantelis; Padrós, Francesc; Fioravanti, Marialetizia; Gustinelli, Andrea; Breton, Alain Le; Toffan, Anna New Challenges and Achievements in Mediterranean Fish Health Management Journal Article Bulletin of the European Association of Fish Pathologists, 2024, ISSN: 3005-4648, 0108-0288. @article{zrncic_new_2024, title = {New Challenges and Achievements in Mediterranean Fish Health Management}, author = {Snježana Zrnčić and Pantelis Katharios and Francesc Padrós and Marialetizia Fioravanti and Andrea Gustinelli and Alain Le Breton and Anna Toffan}, url = {https://eafpbulletin.scholasticahq.com/article/118459-new-challenges-and-achievements-in-mediterranean-fish-health-management https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Katharios-Bulletin-of-EAFP-36.pdf}, doi = {10.48045/001c.118459}, issn = {3005-4648, 0108-0288}, year = {2024}, date = {2024-07-26}, urldate = {2024-07-26}, journal = {Bulletin of the European Association of Fish Pathologists}, abstract = {The European seabass ( Dicentrarchus labrax ) and gilthead seabream ( Sparus aurata ) are key species in marine aquaculture, cultivated in both EU and North African/Levant Mediterranean regions. Production disparities between these areas emphasize a significant reliance on trade for juveniles, feed, and other resources, posing notable biosecurity risks. Addressing shared health concerns across the Mediterranean requires a regional approach to ensure successful management. A recent workshop delved into pivotal topics, including insights from concluded Horizon 2020 projects, effectiveness of nutraceuticals in combating parasitic infections, legal considerations surrounding autogenous vaccines, updated knowledge in betanodavirus infections, and biosecurity measures in Mediterranean aquaculture. Discussions also explored upcoming challenges such as sustainability in cage-based production, impact of climate change, enhancing diagnostic capabilities, fortifying biosecurity measures, advocating for education, and fostering networking opportunities.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The European seabass ( Dicentrarchus labrax ) and gilthead seabream ( Sparus aurata ) are key species in marine aquaculture, cultivated in both EU and North African/Levant Mediterranean regions. Production disparities between these areas emphasize a significant reliance on trade for juveniles, feed, and other resources, posing notable biosecurity risks. Addressing shared health concerns across the Mediterranean requires a regional approach to ensure successful management. A recent workshop delved into pivotal topics, including insights from concluded Horizon 2020 projects, effectiveness of nutraceuticals in combating parasitic infections, legal considerations surrounding autogenous vaccines, updated knowledge in betanodavirus infections, and biosecurity measures in Mediterranean aquaculture. Discussions also explored upcoming challenges such as sustainability in cage-based production, impact of climate change, enhancing diagnostic capabilities, fortifying biosecurity measures, advocating for education, and fostering networking opportunities. |
Buck, Bela H; Bjelland, Hans V; Bockus, Abigail; Chambers, Michael; Costa-Pierce, Barry Antonio; Dewhurst, Tobias; Ferreira, Joao G; Føre, Heidi Moe; Fredriksson, David W; Goseberg, Nils; Holmyard, John; Isbert, Wolf; Krause, Gesche; Markus, Till; Papandroulakis, Nikos; Sclodnick, Tyler; Silkes, Bill; Strand, Åsa; Troell, Max; Wieczorek, Daniel; Burg, Sander Van Den W K; Heasman, Kevin G Resolving the term “offshore aquaculture” by decoupling “exposed” and “distance from the coast” Journal Article Frontiers in Aquaculture, 3 , pp. 1428056, 2024, ISSN: 2813-5334. @article{buck_resolving_2024, title = {Resolving the term “offshore aquaculture” by decoupling “exposed” and “distance from the coast”}, author = {Bela H Buck and Hans V Bjelland and Abigail Bockus and Michael Chambers and Barry Antonio Costa-Pierce and Tobias Dewhurst and Joao G Ferreira and Heidi Moe Føre and David W Fredriksson and Nils Goseberg and John Holmyard and Wolf Isbert and Gesche Krause and Till Markus and Nikos Papandroulakis and Tyler Sclodnick and Bill Silkes and Åsa Strand and Max Troell and Daniel Wieczorek and Sander W K Van Den Burg and Kevin G Heasman}, url = {https://www.frontiersin.org/articles/10.3389/faquc.2024.1428056/full https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Buck-Frontiers-35.pdf}, doi = {10.3389/faquc.2024.1428056}, issn = {2813-5334}, year = {2024}, date = {2024-07-22}, urldate = {2024-07-22}, journal = {Frontiers in Aquaculture}, volume = {3}, pages = {1428056}, abstract = {The terms “offshore” and “open ocean” have been used to describe aquaculture sites that are further from the coast or in higher energy environments. Neither term has been clearly defined in the scientific literature nor in a legal context, and the terms are often used interchangeably. These and other related terms (for example “exposed”, “high-energy”) variously refer to aspects of a site such as the geographic distance from shore or infrastructure, the level of exposure to large waves and strong currents, the geographic fetch, the water depth, or some combination of these parameters. The ICES Working Group (ICES, 2024) on Open Ocean Aquaculture (WGOOA) therefore identified a need to define the terminology to reduce ambiguity for these types of aquaculture sites or more precisely, to: (1) promote a common understanding and avoid misuse for different classifications; (2) enable regulators to identify the characteristics of a marine site; (3) allow farmers to be able to assess or quantitatively compare sites for development; (4) equip developers and producers to identify operational parameters in which the equipment and vessels will need to operate; (5) provide insurers and investors with the terminology to consistently assess risk and premiums; and (6) circumvent the emergence of narratives that root in different cognitive interpretations of the terminology in public discourse. This paper describes the evolution of the use of the term “offshore aquaculture” and define the most relevant parameters to shift to a more definitive and robust term “exposed aquaculture” that can inherently relay clearer information. Adoption of this more definitive definition of “exposed” will allow the user to define a site with more than just distance from shore. Key differences and the importance of these terms are discussed that affect various interest groups. Follow-up articles in this compilation from scientific members of the WGOOA as well as other scientists outside ICES are incorporated that develop a set of definitions and a rigorous exposure index.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The terms “offshore” and “open ocean” have been used to describe aquaculture sites that are further from the coast or in higher energy environments. Neither term has been clearly defined in the scientific literature nor in a legal context, and the terms are often used interchangeably. These and other related terms (for example “exposed”, “high-energy”) variously refer to aspects of a site such as the geographic distance from shore or infrastructure, the level of exposure to large waves and strong currents, the geographic fetch, the water depth, or some combination of these parameters. The ICES Working Group (ICES, 2024) on Open Ocean Aquaculture (WGOOA) therefore identified a need to define the terminology to reduce ambiguity for these types of aquaculture sites or more precisely, to: (1) promote a common understanding and avoid misuse for different classifications; (2) enable regulators to identify the characteristics of a marine site; (3) allow farmers to be able to assess or quantitatively compare sites for development; (4) equip developers and producers to identify operational parameters in which the equipment and vessels will need to operate; (5) provide insurers and investors with the terminology to consistently assess risk and premiums; and (6) circumvent the emergence of narratives that root in different cognitive interpretations of the terminology in public discourse. This paper describes the evolution of the use of the term “offshore aquaculture” and define the most relevant parameters to shift to a more definitive and robust term “exposed aquaculture” that can inherently relay clearer information. Adoption of this more definitive definition of “exposed” will allow the user to define a site with more than just distance from shore. Key differences and the importance of these terms are discussed that affect various interest groups. Follow-up articles in this compilation from scientific members of the WGOOA as well as other scientists outside ICES are incorporated that develop a set of definitions and a rigorous exposure index. |
Waterhouse, Robert M; Adam-Blondon, Anne-Françoise; Balech, Bachir; Barta, Endre; Chua, Physilia Ying Shi; Cola, Valeria Di; Heil, Katharina F; Hughes, Graham M; Jermiin, Lars S; Kalaš, Matúš; Lanfear, Jerry; Pafilis, Evangelos; Palagi, Patricia M; Papageorgiou, Aristotelis C; Paupério, Joana; Psomopoulos, Fotis; Raes, Niels; Burgin, Josephine; Gabaldón, Toni The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity Journal Article F1000Research, 12 , pp. 499, 2024, ISSN: 2046-1402. @article{waterhouse_elixir_2024, title = {The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity}, author = {Robert M Waterhouse and Anne-Françoise Adam-Blondon and Bachir Balech and Endre Barta and Physilia Ying Shi Chua and Valeria Di Cola and Katharina F Heil and Graham M Hughes and Lars S Jermiin and Matúš Kalaš and Jerry Lanfear and Evangelos Pafilis and Patricia M Palagi and Aristotelis C Papageorgiou and Joana Paupério and Fotis Psomopoulos and Niels Raes and Josephine Burgin and Toni Gabaldón}, url = {https://f1000research.com/articles/12-499/v2 /wp-content/uploads/2024/07/2024-Waterhouse-F1000-Research-34.pdf}, doi = {10.12688/f1000research.133724.2}, issn = {2046-1402}, year = {2024}, date = {2024-07-16}, urldate = {2024-07-15}, journal = {F1000Research}, volume = {12}, pages = {499}, abstract = {Biodiversity loss is now recognised as one of the major challenges for humankind to address over the next few decades. Unless major actions are taken, the sixth mass extinction will lead to catastrophic effects on the Earth’s biosphere and human health and well-being. ELIXIR can help address the technical challenges of biodiversity science, through leveraging its suite of services and expertise to enable data management and analysis activities that enhance our understanding of life on Earth and facilitate biodiversity preservation and restoration. This white paper, prepared by the ELIXIR Biodiversity Community, summarises the current status and responses, and presents a set of plans, both technical and community-oriented, that should both enhance how ELIXIR Services are applied in the biodiversity field and how ELIXIR builds connections across the many other infrastructures active in this area. We discuss the areas of highest priority, how they can be implemented in cooperation with the ELIXIR Platforms, and their connections to existing ELIXIR Communities and international consortia. The article provides a preliminary blueprint for a Biodiversity Community in ELIXIR and is an appeal to identify and involve new stakeholders.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Biodiversity loss is now recognised as one of the major challenges for humankind to address over the next few decades. Unless major actions are taken, the sixth mass extinction will lead to catastrophic effects on the Earth’s biosphere and human health and well-being. ELIXIR can help address the technical challenges of biodiversity science, through leveraging its suite of services and expertise to enable data management and analysis activities that enhance our understanding of life on Earth and facilitate biodiversity preservation and restoration. This white paper, prepared by the ELIXIR Biodiversity Community, summarises the current status and responses, and presents a set of plans, both technical and community-oriented, that should both enhance how ELIXIR Services are applied in the biodiversity field and how ELIXIR builds connections across the many other infrastructures active in this area. We discuss the areas of highest priority, how they can be implemented in cooperation with the ELIXIR Platforms, and their connections to existing ELIXIR Communities and international consortia. The article provides a preliminary blueprint for a Biodiversity Community in ELIXIR and is an appeal to identify and involve new stakeholders. |
Loufi, Katerina; Papadakis, Ioannis E; Makridis, Pavlos Aquaculture Nutrition, 2024 , pp. 1–15, 2024, ISSN: 1365-2095, 1353-5773. @article{loufi_use_2024, title = {The Use of Acartia tonsa Nauplii during the First Days of Feeding on the Ontogeny of the Digestive System of Greater Amberjack (Seriola dumerili Risso, 1810)}, author = {Katerina Loufi and Ioannis E Papadakis and Pavlos Makridis}, editor = {Yanjiao Zhang}, url = {https://www.hindawi.com/journals/anu/2024/1826300/ https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Loufi-AquaNutri-33.pdf}, doi = {10.1155/2024/1826300}, issn = {1365-2095, 1353-5773}, year = {2024}, date = {2024-07-10}, urldate = {2024-07-10}, journal = {Aquaculture Nutrition}, volume = {2024}, pages = {1--15}, abstract = {The effect of feeding greater amberjack with copepod nauplii (Acartia tonsa) on the ontogeny of the digestive system was observed until 40 days after hatching (DAH). Copepods are part of the diet of fish larvae in nature, and they are rich in highly unsaturated fatty acids and free amino acids that enhance the digestive capacity of the fish. In a marine hatchery, four cylindroconical tanks of 2,700 L were stocked with about 150 × 103 greater amberjack larvae (Seriola dumerili) in each. The larvae were initially fed from 3 to 17 DAH in two tanks with copepod nauplii and rotifers (Brachionus sp.; Copepods group), while in the other two tanks, they were fed only with rotifers (Control group) during the same period. All the tanks were fed with rotifers (3–27 DAH), Artemia nauplii (12–22 DAH), enriched Artemia metanauplii (20–30 DAH), and formulated diet (25–40 DAH). Fish samples were taken regularly (every 2 or 4 days) for histological analysis and every day for the measurement of total length (TL). The TL was 3.7, 4.5 ± 0.1, 6.1, 11, 17.3 ± 0.1 and 20.3 ± 2.3 mm at 4, 10, 16, 22, 30, and 40 DAH, respectively. Copepod-fed fish showed higher TL in the last 2 days of the trial ( p textless 0.05 ), while mortality rates were lower in the beginning of the trial 10–17 DAH, ( p textless 0.05 ). In addition, copepods-fed fish had less skeletal deformities ( p textless 0.05 ). Pyloric caeca appeared earlier in the Copepods group compared with the Control, while the length and surface of the villi, the abundance of goblet cells/100 μm of intestine length, and the area covered with lipid vacuoles in the liver were significantly higher in the Copepods group ( p textless 0.05 ). We can conclude that the use of copepods in the diet of the greater amberjack larvae can improve the ontogeny of the digestive system.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The effect of feeding greater amberjack with copepod nauplii (Acartia tonsa) on the ontogeny of the digestive system was observed until 40 days after hatching (DAH). Copepods are part of the diet of fish larvae in nature, and they are rich in highly unsaturated fatty acids and free amino acids that enhance the digestive capacity of the fish. In a marine hatchery, four cylindroconical tanks of 2,700 L were stocked with about 150 × 103 greater amberjack larvae (Seriola dumerili) in each. The larvae were initially fed from 3 to 17 DAH in two tanks with copepod nauplii and rotifers (Brachionus sp.; Copepods group), while in the other two tanks, they were fed only with rotifers (Control group) during the same period. All the tanks were fed with rotifers (3–27 DAH), Artemia nauplii (12–22 DAH), enriched Artemia metanauplii (20–30 DAH), and formulated diet (25–40 DAH). Fish samples were taken regularly (every 2 or 4 days) for histological analysis and every day for the measurement of total length (TL). The TL was 3.7, 4.5 ± 0.1, 6.1, 11, 17.3 ± 0.1 and 20.3 ± 2.3 mm at 4, 10, 16, 22, 30, and 40 DAH, respectively. Copepod-fed fish showed higher TL in the last 2 days of the trial ( p textless 0.05 ), while mortality rates were lower in the beginning of the trial 10–17 DAH, ( p textless 0.05 ). In addition, copepods-fed fish had less skeletal deformities ( p textless 0.05 ). Pyloric caeca appeared earlier in the Copepods group compared with the Control, while the length and surface of the villi, the abundance of goblet cells/100 μm of intestine length, and the area covered with lipid vacuoles in the liver were significantly higher in the Copepods group ( p textless 0.05 ). We can conclude that the use of copepods in the diet of the greater amberjack larvae can improve the ontogeny of the digestive system. |
Hartle-Mougiou, Katherine; Gubili, Chrysoula; Xanthopoulou, Panagiota; Kasapidis, Panagiotis; Valiadi, Martha; Gizeli, Electra Frontiers in Marine Science, 11 , pp. 1358793, 2024, ISSN: 2296-7745. @article{hartle-mougiou_development_2024, title = {Development of a quantitative colorimetric LAMP assay for fast and targeted molecular detection of the invasive lionfish Pterois miles from environmental DNA}, author = {Katherine Hartle-Mougiou and Chrysoula Gubili and Panagiota Xanthopoulou and Panagiotis Kasapidis and Martha Valiadi and Electra Gizeli}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Hartle-Mougiou-fmars-32.pdf https://www.frontiersin.org/articles/10.3389/fmars.2024.1358793/full}, doi = {10.3389/fmars.2024.1358793}, issn = {2296-7745}, year = {2024}, date = {2024-07-08}, urldate = {2024-07-08}, journal = {Frontiers in Marine Science}, volume = {11}, pages = {1358793}, abstract = {The Mediterranean basin has faced an increased influx of invasive species since the Suez Canal expansion in 2015. The invasive lionfish species, Pterois miles , has rapidly established new populations in the Eastern Mediterranean Sea, impacting local fish biodiversity. Here, we have developed a new, fast (< 35 min) molecular approach to detect and quantify P. miles environmental DNA (eDNA) in combination with a portable device for field-based analysis. Using a species-specific real-time colorimetric loop-mediated isothermal amplification (qcLAMP) for the cytochrome oxidase subunit 1 (COI) gene, we demonstrate a high sensitivity with a limit of detection of 0.002 ng DNA per reaction, equivalent to only 50 copies of the COI gene. The assay is specific to the target in the presence of closely related and co-occurring species, and it is quantitative over five orders of magnitude. We validated the assay using aquarium water samples and further demonstrated its utility on natural eDNA samples collected from locations around the island of Crete where P. miles had been sighted. P. miles was indeed detected in three out of nine locations, two nature reserves and a closed bay. Lack of detection in the remaining locations suggests that populations are still at a low density. We also demonstrate the feasibility of P. miles eDNA qualitative detection directly from the filter used to collect eDNA-containing particles, completely omitting DNA extraction. Overall, we present a new approach for fast and targeted eDNA quantification. The developed LAMP assay together, with the quantitative real-time colorimetric detection approach, open new possibilities for monitoring invasive P. miles in the field.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The Mediterranean basin has faced an increased influx of invasive species since the Suez Canal expansion in 2015. The invasive lionfish species, Pterois miles , has rapidly established new populations in the Eastern Mediterranean Sea, impacting local fish biodiversity. Here, we have developed a new, fast (< 35 min) molecular approach to detect and quantify P. miles environmental DNA (eDNA) in combination with a portable device for field-based analysis. Using a species-specific real-time colorimetric loop-mediated isothermal amplification (qcLAMP) for the cytochrome oxidase subunit 1 (COI) gene, we demonstrate a high sensitivity with a limit of detection of 0.002 ng DNA per reaction, equivalent to only 50 copies of the COI gene. The assay is specific to the target in the presence of closely related and co-occurring species, and it is quantitative over five orders of magnitude. We validated the assay using aquarium water samples and further demonstrated its utility on natural eDNA samples collected from locations around the island of Crete where P. miles had been sighted. P. miles was indeed detected in three out of nine locations, two nature reserves and a closed bay. Lack of detection in the remaining locations suggests that populations are still at a low density. We also demonstrate the feasibility of P. miles eDNA qualitative detection directly from the filter used to collect eDNA-containing particles, completely omitting DNA extraction. Overall, we present a new approach for fast and targeted eDNA quantification. The developed LAMP assay together, with the quantitative real-time colorimetric detection approach, open new possibilities for monitoring invasive P. miles in the field. |
Kovačić, Marcelo; Gerovasileiou, Vasilis; Patzner, Robert A Fishes in Marine Caves Journal Article Fishes, 9 (6), pp. 243, 2024, ISSN: 2410-3888. @article{kovacic_fishes_2024, title = {Fishes in Marine Caves}, author = {Marcelo Kovačić and Vasilis Gerovasileiou and Robert A Patzner}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Kovacic-fishes-31.pdf https://www.mdpi.com/2410-3888/9/6/243}, doi = {10.3390/fishes9060243}, issn = {2410-3888}, year = {2024}, date = {2024-07-04}, urldate = {2024-07-04}, journal = {Fishes}, volume = {9}, number = {6}, pages = {243}, abstract = {Fishes in marine caves have attracted limited attention by the scientific community in comparison to subterranean fishes which have lost eyes and pigmentation. They constitute a largely unexplored component of marine fish diversity, except for the relatively well-studied marine caves of the Mediterranean Sea. These habitats are characterized by steep environmental gradients of decreasing light and decreasing water exchange. The fishes recorded so far in marine caves are not exclusive residents of this habitat and they are also present at least in the other mesolithial habitats. In the Mediterranean marine caves, 132 fishes have been recorded to date, representing about 17% of the total Mediterranean fish species richness. Most of these species are reported from the anterior cave zones where some light still exists, while a smaller number of species are known from the totally dark zones. Among them, 27.3% are accidental visitors, 53.8% are the regular mesolithial visitors and switchers between mesolithion and open water, 5.3% are permanent residents of the mesolithion, but also occur in other habitats, and 13.6% are exclusive permanent residents of mesolithion. Some mesolithial exclusive permanent residents recorded in marine caves share similar morphology, probably as adaptations to these habitats.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Fishes in marine caves have attracted limited attention by the scientific community in comparison to subterranean fishes which have lost eyes and pigmentation. They constitute a largely unexplored component of marine fish diversity, except for the relatively well-studied marine caves of the Mediterranean Sea. These habitats are characterized by steep environmental gradients of decreasing light and decreasing water exchange. The fishes recorded so far in marine caves are not exclusive residents of this habitat and they are also present at least in the other mesolithial habitats. In the Mediterranean marine caves, 132 fishes have been recorded to date, representing about 17% of the total Mediterranean fish species richness. Most of these species are reported from the anterior cave zones where some light still exists, while a smaller number of species are known from the totally dark zones. Among them, 27.3% are accidental visitors, 53.8% are the regular mesolithial visitors and switchers between mesolithion and open water, 5.3% are permanent residents of the mesolithion, but also occur in other habitats, and 13.6% are exclusive permanent residents of mesolithion. Some mesolithial exclusive permanent residents recorded in marine caves share similar morphology, probably as adaptations to these habitats. |
Superio, Joshua; Resseguier, Julien; Nobrega, Rafael Henrique; Grebstad, Caroline M; Fakriadis, Ioannis; Foss, Atle; Hagen, Ørjan; Zhang, Meiling; García-Hernández, Maria Del Pilar; Galindo-Villegas, Jorge Aquaculture, 592 , pp. 741214, 2024, ISSN: 00448486. @article{superio_unravelling_2024, title = {Unravelling spermatogenesis in spotted wolffish: Insights from the ultrastructure of juvenile male testes to the cryopreservation of broodstock sperm}, author = {Joshua Superio and Julien Resseguier and Rafael Henrique Nobrega and Caroline M Grebstad and Ioannis Fakriadis and Atle Foss and Ørjan Hagen and Meiling Zhang and Maria Del Pilar García-Hernández and Jorge Galindo-Villegas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/07/2024-Superio-AQUA-30.pdf https://linkinghub.elsevier.com/retrieve/pii/S0044848624006756}, doi = {10.1016/j.aquaculture.2024.741214}, issn = {00448486}, year = {2024}, date = {2024-07-01}, urldate = {2024-07-01}, journal = {Aquaculture}, volume = {592}, pages = {741214}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Bolanakis, Giannis; Paragkamian, Savvas; Chatzaki, Maria; Kotitsa, Nefeli; Kardaki, Liubitsa; Trichas, Apostolos The conservation status of the Cretan endemic Arthropods under Natura 2000 network Journal Article Biodiversity and Conservation, 2024, ISSN: 0960-3115, 1572-9710. @article{bolanakis_conservation_2024, title = {The conservation status of the Cretan endemic Arthropods under Natura 2000 network}, author = {Giannis Bolanakis and Savvas Paragkamian and Maria Chatzaki and Nefeli Kotitsa and Liubitsa Kardaki and Apostolos Trichas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/06/2024-Bolanakis-Biodiv-b-Conservation-pre-print-29.pdf https://link.springer.com/10.1007/s10531-024-02877-y}, doi = {10.1007/s10531-024-02877-y}, issn = {0960-3115, 1572-9710}, year = {2024}, date = {2024-06-26}, urldate = {2024-06-26}, journal = {Biodiversity and Conservation}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Roussos, Efstratios; Triantaphyllidis, George; Ilia, Vassiliki; Tsagarakis, Konstantinos; Machias, Athanasios; Tziveleka, Leto-Aikaterini; Roussis, Vassilios; Ioannou, Efstathia; Kotzamanis, Yannis Status of Fishery Discards and By-Products in Greece and Potential Valorization Scenarios towards a National Exploitation Master Plan Journal Article Marine Drugs, 22 (6), pp. 264, 2024, ISSN: 1660-3397. @article{roussos_status_2024, title = {Status of Fishery Discards and By-Products in Greece and Potential Valorization Scenarios towards a National Exploitation Master Plan}, author = {Efstratios Roussos and George Triantaphyllidis and Vassiliki Ilia and Konstantinos Tsagarakis and Athanasios Machias and Leto-Aikaterini Tziveleka and Vassilios Roussis and Efstathia Ioannou and Yannis Kotzamanis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/06/2024-Roussos-Marinedrugs-28.pdf https://www.mdpi.com/1660-3397/22/6/264}, doi = {10.3390/md22060264}, issn = {1660-3397}, year = {2024}, date = {2024-06-17}, urldate = {2024-06-17}, journal = {Marine Drugs}, volume = {22}, number = {6}, pages = {264}, abstract = {The valorization of aquaculture/fishery processing by-products, as well as unavoidable/unwanted catches and discards in Greece, is currently an underutilized activity despite the fact that there are several best practices in Northern Europe and overseas. One of the main challenges is to determine whether the available quantities for processing are sufficient to warrant the valorization of discards and fish side streams. This is the first attempt to systematically record and analyze the available quantities of fish by-products and discards in Greece spatially and temporally in an effort to create a national exploitation Master Plan for the valorization of this unavoidable and unwanted biomass. A thorough survey conducted within the VIOAXIOPIO project unveiled a substantial biomass of around 19,000 tonnes annually that could be harnessed for valorization. Furthermore, the production of various High-Added-Value Biomolecules (HAVBs) was investigated and experimental trials were conducted to assess the potential yields, with the collected data used to formulate four valorization scenarios.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The valorization of aquaculture/fishery processing by-products, as well as unavoidable/unwanted catches and discards in Greece, is currently an underutilized activity despite the fact that there are several best practices in Northern Europe and overseas. One of the main challenges is to determine whether the available quantities for processing are sufficient to warrant the valorization of discards and fish side streams. This is the first attempt to systematically record and analyze the available quantities of fish by-products and discards in Greece spatially and temporally in an effort to create a national exploitation Master Plan for the valorization of this unavoidable and unwanted biomass. A thorough survey conducted within the VIOAXIOPIO project unveiled a substantial biomass of around 19,000 tonnes annually that could be harnessed for valorization. Furthermore, the production of various High-Added-Value Biomolecules (HAVBs) was investigated and experimental trials were conducted to assess the potential yields, with the collected data used to formulate four valorization scenarios. |
Papadaki, Maria; Karamanlidis, Dimitris; Sigelaki, Eirini; Fakriadis, Ioannis; Mylonas, Constantinos C Evolution of sex ratio and egg production of gilthead seabream (Sparus aurata) over the course of five reproductive seasons Journal Article Aquaculture and Fisheries, 9 (4), pp. 534–542, 2024, ISSN: 2468550X. @article{papadaki_evolution_2024, title = {Evolution of sex ratio and egg production of gilthead seabream (Sparus aurata) over the course of five reproductive seasons}, author = {Maria Papadaki and Dimitris Karamanlidis and Eirini Sigelaki and Ioannis Fakriadis and Constantinos C Mylonas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/06/2024-Papadaki-AquaFish-27.pdf https://linkinghub.elsevier.com/retrieve/pii/S2468550X22001836}, doi = {10.1016/j.aaf.2022.10.006}, issn = {2468550X}, year = {2024}, date = {2024-06-13}, urldate = {2024-06-13}, journal = {Aquaculture and Fisheries}, volume = {9}, number = {4}, pages = {534--542}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Gioti, Anastasia; Theodosopoulou, Danai; Bravakos, Panos; Magoulas, Antonios; Kotoulas, Georgios The bioinformatics landscape in environmental omics: Lessons from a national ELIXIR survey Journal Article iScience, 27 (6), pp. 110062, 2024, ISSN: 25890042. @article{gioti_bioinformatics_2024, title = {The bioinformatics landscape in environmental omics: Lessons from a national ELIXIR survey}, author = {Anastasia Gioti and Danai Theodosopoulou and Panos Bravakos and Antonios Magoulas and Georgios Kotoulas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/06/2024-Gioti-iScience-26.pdf https://linkinghub.elsevier.com/retrieve/pii/S2589004224012872}, doi = {10.1016/j.isci.2024.110062}, issn = {25890042}, year = {2024}, date = {2024-06-08}, urldate = {2024-06-10}, journal = {iScience}, volume = {27}, number = {6}, pages = {110062}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Aplakidou, Eleni; Vergoulidis, Nikolaos; Chasapi, Maria; Venetsianou, Nefeli K; Kokoli, Maria; Panagiotopoulou, Eleni; Iliopoulos, Ioannis; Karatzas, Evangelos; Pafilis, Evangelos; Georgakopoulos-Soares, Ilias; Kyrpides, Nikos C; Pavlopoulos, Georgios A; Baltoumas, Fotis A Visualizing metagenomic and metatranscriptomic data: A comprehensive review Journal Article Computational and Structural Biotechnology Journal, 23 , pp. 2011–2033, 2024, ISSN: 20010370. @article{aplakidou_visualizing_2024, title = {Visualizing metagenomic and metatranscriptomic data: A comprehensive review}, author = {Eleni Aplakidou and Nikolaos Vergoulidis and Maria Chasapi and Nefeli K Venetsianou and Maria Kokoli and Eleni Panagiotopoulou and Ioannis Iliopoulos and Evangelos Karatzas and Evangelos Pafilis and Ilias Georgakopoulos-Soares and Nikos C Kyrpides and Georgios A Pavlopoulos and Fotis A Baltoumas}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2001037024001430 https://imbbc.hcmr.gr/wp-content/uploads/2024/05/2024-Aplakidou-CSB-Journal-25.pdf}, doi = {10.1016/j.csbj.2024.04.060}, issn = {20010370}, year = {2024}, date = {2024-05-14}, urldate = {2024-05-16}, journal = {Computational and Structural Biotechnology Journal}, volume = {23}, pages = {2011--2033}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Tzortzatos, Odysseas-Panagiotis; Toubanaki, Dimitra K; Kolygas, Markos N; Kotzamanis, Yannis; Roussos, Efstratios; Bakopoulos, Vasileios; Chatzopoulos, Achilleas; Athanassopoulou, Fotini; Karagouni, Evdokia Dietary Artemisia arborescens Supplementation Effects on Growth, Oxidative Status, and Immunity of Gilthead Seabream (Sparus aurata L.) Journal Article Animals, 14 (8), pp. 1161, 2024, ISSN: 2076-2615. @article{tzortzatos_dietary_2024, title = {Dietary Artemisia arborescens Supplementation Effects on Growth, Oxidative Status, and Immunity of Gilthead Seabream (Sparus aurata L.)}, author = {Odysseas-Panagiotis Tzortzatos and Dimitra K Toubanaki and Markos N Kolygas and Yannis Kotzamanis and Efstratios Roussos and Vasileios Bakopoulos and Achilleas Chatzopoulos and Fotini Athanassopoulou and Evdokia Karagouni}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/05/2024-Tzortzatos-ANIMALS-24.pdf https://www.mdpi.com/2076-2615/14/8/1161}, doi = {10.3390/ani14081161}, issn = {2076-2615}, year = {2024}, date = {2024-04-29}, urldate = {2024-05-13}, journal = {Animals}, volume = {14}, number = {8}, pages = {1161}, abstract = {Fish infectious diseases are one of the main constraints of the aquaculture sector. The use of medicinal plants provides a sustainable way of protection using safe, eco-friendly compounds in a more cost-effective way of treatment, compared to antibiotics. The aim of the present study is the assessment of Artemisia arborescens (AA) feed-supplementation effects on gilthead seabream (Sparus aurata). Fish with an average initial body weight of 109.43 ± 3.81 g, were divided into two groups based on AA feed composition (A25 and A50). Following two months of ad libitum feeding, the effect of diets on fish weight and length were measured. Fish serum and mucus were analyzed for non-specific immune parameters (nitric oxide, lysozyme, myeloperoxidase, protease-/anti-protease activity, and complement), antibody responses, oxidative stress (cytochrome P450 1A1, metallothionein), and metabolism markers (total protein, alkaline phosphatase, and glucose). Expression levels of antioxidants (sod1, gpx1), cytokines (il-1b, il-10, tfgb1, and tnfa), hepcidin, and heat shock protein grp75 genes were measured in spleen samples. A results analysis indicated that A. arborescens use as a feed supplement has a compromised positive effect on the growth performance, immune response, and blood parameters of gilthead seabream. Overall, the suitability of A. arborescens as an efficient food supplement for gilthead seabream health improvement was investigated, setting the basis for its application assessment in Mediterranean aquaculture.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Fish infectious diseases are one of the main constraints of the aquaculture sector. The use of medicinal plants provides a sustainable way of protection using safe, eco-friendly compounds in a more cost-effective way of treatment, compared to antibiotics. The aim of the present study is the assessment of Artemisia arborescens (AA) feed-supplementation effects on gilthead seabream (Sparus aurata). Fish with an average initial body weight of 109.43 ± 3.81 g, were divided into two groups based on AA feed composition (A25 and A50). Following two months of ad libitum feeding, the effect of diets on fish weight and length were measured. Fish serum and mucus were analyzed for non-specific immune parameters (nitric oxide, lysozyme, myeloperoxidase, protease-/anti-protease activity, and complement), antibody responses, oxidative stress (cytochrome P450 1A1, metallothionein), and metabolism markers (total protein, alkaline phosphatase, and glucose). Expression levels of antioxidants (sod1, gpx1), cytokines (il-1b, il-10, tfgb1, and tnfa), hepcidin, and heat shock protein grp75 genes were measured in spleen samples. A results analysis indicated that A. arborescens use as a feed supplement has a compromised positive effect on the growth performance, immune response, and blood parameters of gilthead seabream. Overall, the suitability of A. arborescens as an efficient food supplement for gilthead seabream health improvement was investigated, setting the basis for its application assessment in Mediterranean aquaculture. |