2024 |
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. |
Iliopoulou, Elisavet; Papadogiannis, Vasileios; Tsigenopoulos, Costas S; Manousaki, Tereza Extensive Loss and Gain of Conserved Noncoding Elements During Early Teleost Evolution Journal Article Genome Biology and Evolution, 16 (4), pp. evae061, 2024, ISSN: 1759-6653. @article{iliopoulou_extensive_2024, title = {Extensive Loss and Gain of Conserved Noncoding Elements During Early Teleost Evolution}, author = {Elisavet Iliopoulou and Vasileios Papadogiannis and Costas S Tsigenopoulos and Tereza Manousaki}, editor = {Bonnie Fraser}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Iliopoulou-GBE-23.pdf https://academic.oup.com/gbe/article/doi/10.1093/gbe/evae061/7655401}, doi = {10.1093/gbe/evae061}, issn = {1759-6653}, year = {2024}, date = {2024-04-24}, urldate = {2024-04-24}, journal = {Genome Biology and Evolution}, volume = {16}, number = {4}, pages = {evae061}, abstract = {Abstract Conserved noncoding elements in vertebrates are enriched around transcription factor loci associated with development. However, loss and rapid divergence of conserved noncoding elements has been reported in teleost fish, albeit taking only few genomes into consideration. Taking advantage of the recent increase in high-quality teleost genomes, we focus on studying the evolution of teleost conserved noncoding elements, carrying out targeted genomic alignments and comparisons within the teleost phylogeny to detect conserved noncoding elements and reconstruct the ancestral teleost conserved noncoding elements repertoire. This teleost-centric approach confirms previous observations of extensive vertebrate conserved noncoding elements loss early in teleost evolution, but also reveals massive conserved noncoding elements gain in the teleost stem-group over 300 million years ago. Using synteny-based association to link conserved noncoding elements to their putatively regulated target genes, we show the most teleost gained conserved noncoding elements are found in the vicinity of orthologous loci involved in transcriptional regulation and embryonic development that are also associated with conserved noncoding elements in other vertebrates. Moreover, teleost and vertebrate conserved noncoding elements share a highly similar motif and transcription factor binding site vocabulary. We suggest that early teleost conserved noncoding element gains reflect a restructuring of the ancestral conserved noncoding element repertoire through both extreme divergence and de novo emergence. Finally, we support newly identified pan-teleost conserved noncoding elements have potential for accurate resolution of teleost phylogenetic placements in par with coding sequences, unlike ancestral only elements shared with spotted gar. This work provides new insight into conserved noncoding element evolution with great value for follow-up work on phylogenomics, comparative genomics, and the study of gene regulation evolution in teleosts.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Conserved noncoding elements in vertebrates are enriched around transcription factor loci associated with development. However, loss and rapid divergence of conserved noncoding elements has been reported in teleost fish, albeit taking only few genomes into consideration. Taking advantage of the recent increase in high-quality teleost genomes, we focus on studying the evolution of teleost conserved noncoding elements, carrying out targeted genomic alignments and comparisons within the teleost phylogeny to detect conserved noncoding elements and reconstruct the ancestral teleost conserved noncoding elements repertoire. This teleost-centric approach confirms previous observations of extensive vertebrate conserved noncoding elements loss early in teleost evolution, but also reveals massive conserved noncoding elements gain in the teleost stem-group over 300 million years ago. Using synteny-based association to link conserved noncoding elements to their putatively regulated target genes, we show the most teleost gained conserved noncoding elements are found in the vicinity of orthologous loci involved in transcriptional regulation and embryonic development that are also associated with conserved noncoding elements in other vertebrates. Moreover, teleost and vertebrate conserved noncoding elements share a highly similar motif and transcription factor binding site vocabulary. We suggest that early teleost conserved noncoding element gains reflect a restructuring of the ancestral conserved noncoding element repertoire through both extreme divergence and de novo emergence. Finally, we support newly identified pan-teleost conserved noncoding elements have potential for accurate resolution of teleost phylogenetic placements in par with coding sequences, unlike ancestral only elements shared with spotted gar. This work provides new insight into conserved noncoding element evolution with great value for follow-up work on phylogenomics, comparative genomics, and the study of gene regulation evolution in teleosts. |
Triga, Adriana; Issa, Zeenat Atinuke; Smyrli, Maria; Fenske, Linda; Katharios, Pantelis Virulence and pangenome analysis of Vibrio harveyi strains from Greek and Red Sea marine aquaculture Journal Article Aquaculture, 587 , pp. 740839, 2024, ISSN: 00448486. @article{triga_virulence_2024, title = {Virulence and pangenome analysis of Vibrio harveyi strains from Greek and Red Sea marine aquaculture}, author = {Adriana Triga and Zeenat Atinuke Issa and Maria Smyrli and Linda Fenske and Pantelis Katharios}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Triga-AQUA-preprint-22.pdf https://linkinghub.elsevier.com/retrieve/pii/S0044848624003004}, doi = {10.1016/j.aquaculture.2024.740839}, issn = {00448486}, year = {2024}, date = {2024-04-19}, urldate = {2024-04-19}, journal = {Aquaculture}, volume = {587}, pages = {740839}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Digenis, Markos; Akyol, Okan; Benoit, Laure; Biel-Cabanelas, Marina; Çamlik, Öznur Yazilan; Charalampous, Konstantinos; Chatzispyrou, Archontia; Crocetta, Fabio; Deval, Mehmet Cengiz; Capua, Iole Di; Domenichetti, Filippo; Đorđević, Nikola; Ferruzzi, Silvio; Galiya, Mohamad Younis; Gammoudi, Mehrez; García-Charton, José Antonio; Grech, Daniele; Hoffman, Razy; Langeneck, Joachim; Martinelli, Michela; Mastrototaro, Francesco; Mavrič, Borut; Navarro-Barranco, Carlos; Okudan, Emine Sukran; Orenes-Salazar, Víctor; Orlando-Bonaca, Martina; Othman, Ranim Mohamad; Petović, Slavica; Putignano, Matteo; P., Julien Renoult; Ruíz, Juan Manuel; Muriel, Andreu Santín; Taşkin, Ergün; Tiralongo, Francesco; Tosunoğlu, Zafer; Tuney, Inci; Tursi, Andrea; Vannini, Jessica; Zacchetti, Lorenzo; Zamuda, Leon Lojze; Gerovasileiou, Vasilis New records of rarely reported species in the Mediterranean Sea (March 2024) Journal Article Mediterranean Marine Science, 25 (1), pp. 84–115, 2024, ISSN: 1791-6763, 1108-393X. @article{digenis_new_2024, title = {New records of rarely reported species in the Mediterranean Sea (March 2024)}, author = {Markos Digenis and Okan Akyol and Laure Benoit and Marina Biel-Cabanelas and Öznur Yazilan Çamlik and Konstantinos Charalampous and Archontia Chatzispyrou and Fabio Crocetta and Mehmet Cengiz Deval and Iole Di Capua and Filippo Domenichetti and Nikola Đorđević and Silvio Ferruzzi and Mohamad Younis Galiya and Mehrez Gammoudi and José Antonio García-Charton and Daniele Grech and Razy Hoffman and Joachim Langeneck and Michela Martinelli and Francesco Mastrototaro and Borut Mavrič and Carlos Navarro-Barranco and Emine Sukran Okudan and Víctor Orenes-Salazar and Martina Orlando-Bonaca and Ranim Mohamad Othman and Slavica Petović and Matteo Putignano and Julien Renoult P. and Juan Manuel Ruíz and Andreu Santín Muriel and Ergün Taşkin and Francesco Tiralongo and Zafer Tosunoğlu and Inci Tuney and Andrea Tursi and Jessica Vannini and Lorenzo Zacchetti and Leon Lojze Zamuda and Vasilis Gerovasileiou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Digenis-MMS-21.pdf https://ejournals.epublishing.ekt.gr/index.php/hcmr-med-mar-sc/article/view/37214}, doi = {10.12681/mms.37214}, issn = {1791-6763, 1108-393X}, year = {2024}, date = {2024-04-15}, urldate = {2024-04-15}, journal = {Mediterranean Marine Science}, volume = {25}, number = {1}, pages = {84--115}, abstract = {This Collective Article presents information about 30 species with records in eight countries (Greece, Israel, Italy, Montenegro, Slovenia, Spain, Syria and Türkiye) and six ecoregions extending from the Alboran to the Levantine Seas. The recorded species belong to eight Phyla (4 Chlorophyta, 1 Rhodophyta, 1 Porifera, 3 Cnidaria, 2 Platyhelminthes, 2 Arthropoda, 2 Mollusca and 15 Chordata) as follows: Chlorophyta: Didymosporangium repens, Ochlochaete hystrix and Phaeophila hirsuta are reported for the first time from the Aegean coasts of Türkiye and Penicillus capitatus is firstly recorded in Slovenian coastal waters; Rhodophyta: Ptilophora dentata is recorded for the first time in Turkish coasts, from the entrance of a marine cave; Porifera: Tethya meloni is reported from Montenegrin waters; Cnidaria: Savalia savaglia and Dendrophyllia ramea are firstly observed north of the Almeria-Oran front in the southeastern Iberian Peninsula, while Spinimuricea cf. atlantica is firstly recorded in the Gulf of Lion constituting the easternmost record of the species in the Mediterranean Sea; Platyhelminthes: the polyclad flatworms Thysanozoon brocchii and Planocera graffi are reported for the first time from Greek waters, observed inside marine caves; Mollusca: Ascobulla fragilis is firstly reported from the Eastern Levantine Sea while the blanket octopus Tremoctopus violaceus is recorded in Izmir Bay constituting its fifth sighting in the Aegean Sea after a quarter of a century; Arthropoda: the copepod Ditrychocorycaeus africanus is firstly recorded in the Ionian Sea while the tufted ghost crab Ocypode cursor is detected further north in the Tyrrhenian Sea; Chordata: the bothid flounder Arnoglossus grohmanni is firstly reported in Spain while specimens of the rare bythitid Bellottia apoda are presented for the Adriatic Sea; the chondrichthyans Chimaera monstrosa, Dalatias licha, Heptranchias perlo, Leucoraja circularis, Mustelus mustelus, Oxynotus centrina, Squatina aculeata and Torpedo marmorata are presented as collected within 13 continuous years in the bathyal zone of the Antalya Bay; the speleophilic fish Grammonus ater is firstly recorded in the Alboran Sea, observed in a marine cave; the critically endangered sandy ray Leucoraja circularis is reported from the eastern Ionian Sea; the crested oarfish Lophotus lacepede is reported for the first time from Sardinia, based on evidence dating back 20 years; the white trevally Pseudocaranx dentex is firstly recorded in Tremiti Islands (Adriatic Sea, Italy) while the phaeton dragonet Synchiropus phaeton and the gobid Zebrus pallaoroi are firstly reported from Syrian and Italian waters, respectively.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This Collective Article presents information about 30 species with records in eight countries (Greece, Israel, Italy, Montenegro, Slovenia, Spain, Syria and Türkiye) and six ecoregions extending from the Alboran to the Levantine Seas. The recorded species belong to eight Phyla (4 Chlorophyta, 1 Rhodophyta, 1 Porifera, 3 Cnidaria, 2 Platyhelminthes, 2 Arthropoda, 2 Mollusca and 15 Chordata) as follows: Chlorophyta: Didymosporangium repens, Ochlochaete hystrix and Phaeophila hirsuta are reported for the first time from the Aegean coasts of Türkiye and Penicillus capitatus is firstly recorded in Slovenian coastal waters; Rhodophyta: Ptilophora dentata is recorded for the first time in Turkish coasts, from the entrance of a marine cave; Porifera: Tethya meloni is reported from Montenegrin waters; Cnidaria: Savalia savaglia and Dendrophyllia ramea are firstly observed north of the Almeria-Oran front in the southeastern Iberian Peninsula, while Spinimuricea cf. atlantica is firstly recorded in the Gulf of Lion constituting the easternmost record of the species in the Mediterranean Sea; Platyhelminthes: the polyclad flatworms Thysanozoon brocchii and Planocera graffi are reported for the first time from Greek waters, observed inside marine caves; Mollusca: Ascobulla fragilis is firstly reported from the Eastern Levantine Sea while the blanket octopus Tremoctopus violaceus is recorded in Izmir Bay constituting its fifth sighting in the Aegean Sea after a quarter of a century; Arthropoda: the copepod Ditrychocorycaeus africanus is firstly recorded in the Ionian Sea while the tufted ghost crab Ocypode cursor is detected further north in the Tyrrhenian Sea; Chordata: the bothid flounder Arnoglossus grohmanni is firstly reported in Spain while specimens of the rare bythitid Bellottia apoda are presented for the Adriatic Sea; the chondrichthyans Chimaera monstrosa, Dalatias licha, Heptranchias perlo, Leucoraja circularis, Mustelus mustelus, Oxynotus centrina, Squatina aculeata and Torpedo marmorata are presented as collected within 13 continuous years in the bathyal zone of the Antalya Bay; the speleophilic fish Grammonus ater is firstly recorded in the Alboran Sea, observed in a marine cave; the critically endangered sandy ray Leucoraja circularis is reported from the eastern Ionian Sea; the crested oarfish Lophotus lacepede is reported for the first time from Sardinia, based on evidence dating back 20 years; the white trevally Pseudocaranx dentex is firstly recorded in Tremiti Islands (Adriatic Sea, Italy) while the phaeton dragonet Synchiropus phaeton and the gobid Zebrus pallaoroi are firstly reported from Syrian and Italian waters, respectively. |
Preine, Jonas; Karstens, Jens; Hübscher, Christian; Druitt, Tim; Kutterolf, Steffen; Nomikou, Paraskevi; Manga, Michael; Gertisser, Ralf; Pank, Katharina; Beethe, Sarah; Berthod, Carole; Crutchley, Gareth; McIntosh, Iona; Ronge, Thomas; Tominaga, Masako; Clark, Acacia; DeBari, Susan; Johnston, Raymond; Mateo, Zenon; Peccia, Ally; Jones, Christopher; Kletetschka, Günther; Metcalfe, Abigail; Bernard, Alexis; Chen, Hehe; Chiyonobu, Shun; Fernandez-Perez, Tatiana; Joshi, Kumar Batuk; Koukousioura, Olga; McCanta, Molly; Morris, Antony; Polymenakou, Paraskevi; Woodhouse, Adam; Yamamoto, Yuzuru; Wang, Kuo-Lung; Lee, Hao-Yang; Li, Xiaohui; Papanikolaou, Dimitrios Hazardous explosive eruptions of a recharging multi-cyclic island arc caldera Journal Article Nature Geoscience, 2024, ISSN: 1752-0894, 1752-0908. @article{preine_hazardous_2024, title = {Hazardous explosive eruptions of a recharging multi-cyclic island arc caldera}, author = {Jonas Preine and Jens Karstens and Christian Hübscher and Tim Druitt and Steffen Kutterolf and Paraskevi Nomikou and Michael Manga and Ralf Gertisser and Katharina Pank and Sarah Beethe and Carole Berthod and Gareth Crutchley and Iona McIntosh and Thomas Ronge and Masako Tominaga and Acacia Clark and Susan DeBari and Raymond Johnston and Zenon Mateo and Ally Peccia and Christopher Jones and Günther Kletetschka and Abigail Metcalfe and Alexis Bernard and Hehe Chen and Shun Chiyonobu and Tatiana Fernandez-Perez and Kumar Batuk Joshi and Olga Koukousioura and Molly McCanta and Antony Morris and Paraskevi Polymenakou and Adam Woodhouse and Yuzuru Yamamoto and Kuo-Lung Wang and Hao-Yang Lee and Xiaohui Li and Dimitrios Papanikolaou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Preine-Nature-GeoSci-20.pdf https://www.nature.com/articles/s41561-024-01392-7}, doi = {10.1038/s41561-024-01392-7}, issn = {1752-0894, 1752-0908}, year = {2024}, date = {2024-04-11}, urldate = {2024-04-11}, journal = {Nature Geoscience}, abstract = {Abstract Caldera-forming eruptions of silicic volcanic systems are among the most devastating events on Earth. By contrast, post-collapse volcanic activity initiating new caldera cycles is generally considered less hazardous. Formed after Santorini’s latest caldera-forming eruption of textasciitilde1600 bce , the Kameni Volcano in the southern Aegean Sea enables the eruptive evolution of a recharging multi-cyclic caldera to be reconstructed. Kameni’s eruptive record has been documented by onshore products and historical descriptions of mainly effusive eruptions dating back to 197 bce . Here we combine high-resolution seismic reflection data with cored lithologies from International Ocean Discovery Program Expedition 398 at four sites to determine the submarine architecture and volcanic history of intra-caldera deposits from Kameni. Our shore-crossing analysis reveals the deposits of a submarine explosive eruption that produced up to 3.1 km 3 of pumice and ash, which we relate to a historical eruption in 726 ce . The estimated volcanic explosivity index of magnitude 5 exceeds previously considered worst-case eruptive scenarios for Santorini. Our finding that the Santorini caldera is capable of producing large explosive eruptions at an early stage in the caldera cycle implies an elevated hazard potential for the eastern Mediterranean region, and potentially for other recharging silicic calderas.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Caldera-forming eruptions of silicic volcanic systems are among the most devastating events on Earth. By contrast, post-collapse volcanic activity initiating new caldera cycles is generally considered less hazardous. Formed after Santorini’s latest caldera-forming eruption of textasciitilde1600 bce , the Kameni Volcano in the southern Aegean Sea enables the eruptive evolution of a recharging multi-cyclic caldera to be reconstructed. Kameni’s eruptive record has been documented by onshore products and historical descriptions of mainly effusive eruptions dating back to 197 bce . Here we combine high-resolution seismic reflection data with cored lithologies from International Ocean Discovery Program Expedition 398 at four sites to determine the submarine architecture and volcanic history of intra-caldera deposits from Kameni. Our shore-crossing analysis reveals the deposits of a submarine explosive eruption that produced up to 3.1 km 3 of pumice and ash, which we relate to a historical eruption in 726 ce . The estimated volcanic explosivity index of magnitude 5 exceeds previously considered worst-case eruptive scenarios for Santorini. Our finding that the Santorini caldera is capable of producing large explosive eruptions at an early stage in the caldera cycle implies an elevated hazard potential for the eastern Mediterranean region, and potentially for other recharging silicic calderas. |
Los, Wouter; Năpăruş-Aljančič, Magdalena; Bileva, Tatyana; Chatzinikolaou, Eva; Graber-Soudry, Ohad; Moncuit, Lucas De; Neto, Marta; Pesole, Graziano; Abascal, Maria Vallejo; Grozdanova, Dafinka The lifeblood of LifeWatch ERIC: national in-kind contributions Journal Article Research Ideas and Outcomes, 10 , pp. e121887, 2024, ISSN: 2367-7163. @article{los_lifeblood_2024, title = {The lifeblood of LifeWatch ERIC: national in-kind contributions}, author = {Wouter Los and Magdalena Năpăruş-Aljančič and Tatyana Bileva and Eva Chatzinikolaou and Ohad Graber-Soudry and Lucas De Moncuit and Marta Neto and Graziano Pesole and Maria Vallejo Abascal and Dafinka Grozdanova}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Wouter-RIOA-19.pdf https://riojournal.com/article/121887/}, doi = {10.3897/rio.10.e121887}, issn = {2367-7163}, year = {2024}, date = {2024-04-08}, urldate = {2024-04-08}, journal = {Research Ideas and Outcomes}, volume = {10}, pages = {e121887}, abstract = {A distributed research infrastructure such as LifeWatch ERIC necessitates close cooperation among the various components that constitute the research infrastructure and contribute to the overall services, facilities and resources it offers to the user community. In-kind contributions are non-monetary contributions, consisting of labour, services, facilities and access to resources, typically provided by the distributed components of the research infrastructure. The financing for in-kind contributions is usually provided by the national funding agency on behalf of the LifeWatch member country or by the member directly, with a value being accredited towards the member's funding obligations to LifeWatch ERIC. The management and validation of in-kind contributions towards shared objectives are integral to the legal framework supporting LifeWatch ERIC. This involves a rigorous assessment process to verify each in-kind contribution. This short article outlines that process and explores the function of the In-Kind Contributions Committee (IKCC) at LifeWatch ERIC.}, keywords = {}, pubstate = {published}, tppubtype = {article} } A distributed research infrastructure such as LifeWatch ERIC necessitates close cooperation among the various components that constitute the research infrastructure and contribute to the overall services, facilities and resources it offers to the user community. In-kind contributions are non-monetary contributions, consisting of labour, services, facilities and access to resources, typically provided by the distributed components of the research infrastructure. The financing for in-kind contributions is usually provided by the national funding agency on behalf of the LifeWatch member country or by the member directly, with a value being accredited towards the member's funding obligations to LifeWatch ERIC. The management and validation of in-kind contributions towards shared objectives are integral to the legal framework supporting LifeWatch ERIC. This involves a rigorous assessment process to verify each in-kind contribution. This short article outlines that process and explores the function of the In-Kind Contributions Committee (IKCC) at LifeWatch ERIC. |
Nicolosi, Giuseppe; Gerovasileiou, Vasilis Towards invasion ecology for subterranean ecosystems Journal Article Biodiversity and Conservation, 33 (4), pp. 1561–1569, 2024, ISSN: 0960-3115, 1572-9710. @article{nicolosi_towards_2024, title = {Towards invasion ecology for subterranean ecosystems}, author = {Giuseppe Nicolosi and Vasilis Gerovasileiou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Nicolosi-BioDIv-Cons-18.pdf https://link.springer.com/10.1007/s10531-024-02820-1}, doi = {10.1007/s10531-024-02820-1}, issn = {0960-3115, 1572-9710}, year = {2024}, date = {2024-04-05}, urldate = {2024-04-05}, journal = {Biodiversity and Conservation}, volume = {33}, number = {4}, pages = {1561--1569}, abstract = {Abstract Invasive alien species (IAS) are widely recognized as a major threat to ecosystems globally. Despite the growing interest and research effort on biological invasions, the impact of IAS on both terrestrial and aquatic subterranean habitats remains considerably under-studied in comparison to other environments. The Convention on Biological Diversity (CBD) has established global targets to mitigate the impacts of IAS, emphasizing the need for countries, organizations, and the scientific community to identify gaps in knowledge, monitoring, and management strategies for IAS. To this end, we mapped knowledge gaps in biological invasions of subterranean habitats that emerged from the first systematic surveys of the available information. We suggest that there are five main gaps restricting our ability to understand and tackle biological invasions in subterranean ecosystems. Given the vulnerability of subterranean ecosystems and the lack of attention they have received in conservation policies, it is crucial to increase research emphasis on IAS. This opinion paper aims to stimulate such efforts and contribute to the preservation of these ecosystems.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Invasive alien species (IAS) are widely recognized as a major threat to ecosystems globally. Despite the growing interest and research effort on biological invasions, the impact of IAS on both terrestrial and aquatic subterranean habitats remains considerably under-studied in comparison to other environments. The Convention on Biological Diversity (CBD) has established global targets to mitigate the impacts of IAS, emphasizing the need for countries, organizations, and the scientific community to identify gaps in knowledge, monitoring, and management strategies for IAS. To this end, we mapped knowledge gaps in biological invasions of subterranean habitats that emerged from the first systematic surveys of the available information. We suggest that there are five main gaps restricting our ability to understand and tackle biological invasions in subterranean ecosystems. Given the vulnerability of subterranean ecosystems and the lack of attention they have received in conservation policies, it is crucial to increase research emphasis on IAS. This opinion paper aims to stimulate such efforts and contribute to the preservation of these ecosystems. |
Kondylatos, Gerasimos; Theocharis, Alexandros; Mandalakis, Manolis; Avgoustinaki, Maria; Karagyaurova, Teodora; Koulocheri, Zoi; Vardali, Sofia; Klaoudatos, Dimitris The Devil Firefish Pterois miles (Bennett, 1828): Life History Traits of a Potential Fishing Resource in Rhodes (Eastern Mediterranean) Journal Article Hydrobiology, 3 (1), pp. 31–50, 2024, ISSN: 2673-9917. @article{kondylatos_devil_2024, title = {The Devil Firefish Pterois miles (Bennett, 1828): Life History Traits of a Potential Fishing Resource in Rhodes (Eastern Mediterranean)}, author = {Gerasimos Kondylatos and Alexandros Theocharis and Manolis Mandalakis and Maria Avgoustinaki and Teodora Karagyaurova and Zoi Koulocheri and Sofia Vardali and Dimitris Klaoudatos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/04/2024-Kondylatos-hydrobiology-17.pdf https://www.mdpi.com/2673-9917/3/1/3}, doi = {10.3390/hydrobiology3010003}, issn = {2673-9917}, year = {2024}, date = {2024-04-01}, urldate = {2024-04-02}, journal = {Hydrobiology}, volume = {3}, number = {1}, pages = {31--50}, abstract = {The devil firefish Pterois miles (Bennett 1828) is recognized as one of the 100 worst invasive alien species (IAS) in the Mediterranean Sea with significant socioeconomic and ecological implications. A total of 363 individuals were collected between April 2021 and March 2022 from the Levantine Sea (the Eastern Mediterranean), aiming to assess the current progression of the population. The male to female ratio (1:1.03) did not significantly depart from 1:1, with length–weight relationships exhibiting positive allometric growth. Five age groups were identified, with the third and fourth age groups being the predominant (74% of the population). The highest reproductive intensity was observed during summer followed by autumn. The onset of sexual maturity (L50) for the total population was estimated at 22.44 cm in total length (2.1 years). The asymptotic length was estimated at 45.35 cm for the total population, with males growing larger than females. Longevity was estimated at 14.4 years for the total population. The inflection point was estimated at 4.31 years for the total population. Length with a 50% probability of capture (LC50) was estimated at 23.03 cm, with the respective age (t50) of 2.2 years. The exploitation rate (E = 0.48) indicated that the population is underexploited. The optimum (Fopt) and target (Flim) fishing mortality were higher in comparison with the present fishing mortality (F = 0.41), indicating a potential for commercial exploitation of the species.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The devil firefish Pterois miles (Bennett 1828) is recognized as one of the 100 worst invasive alien species (IAS) in the Mediterranean Sea with significant socioeconomic and ecological implications. A total of 363 individuals were collected between April 2021 and March 2022 from the Levantine Sea (the Eastern Mediterranean), aiming to assess the current progression of the population. The male to female ratio (1:1.03) did not significantly depart from 1:1, with length–weight relationships exhibiting positive allometric growth. Five age groups were identified, with the third and fourth age groups being the predominant (74% of the population). The highest reproductive intensity was observed during summer followed by autumn. The onset of sexual maturity (L50) for the total population was estimated at 22.44 cm in total length (2.1 years). The asymptotic length was estimated at 45.35 cm for the total population, with males growing larger than females. Longevity was estimated at 14.4 years for the total population. The inflection point was estimated at 4.31 years for the total population. Length with a 50% probability of capture (LC50) was estimated at 23.03 cm, with the respective age (t50) of 2.2 years. The exploitation rate (E = 0.48) indicated that the population is underexploited. The optimum (Fopt) and target (Flim) fishing mortality were higher in comparison with the present fishing mortality (F = 0.41), indicating a potential for commercial exploitation of the species. |
Zhao, Tao; Xu, Jie-Jie; Kotzamanis, Yannis P; Zhang, Dian-Guang; Xu, Yi-Chuang; Zheng, Hua; Han, Ya-Kang; Luo, Zhi Aquaculture, 582 , pp. 740569, 2024, ISSN: 00448486. @article{zhao_effects_2024, title = {Effects of dietary citric acid on growth performance, mineral status, body and muscle composition, muscle growth and mTOR signaling in yellow catfish Pelteobagrus fulvidraco fed with low-manganese diets}, author = {Tao Zhao and Jie-Jie Xu and Yannis P Kotzamanis and Dian-Guang Zhang and Yi-Chuang Xu and Hua Zheng and Ya-Kang Han and Zhi Luo}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/03/2024-Kotzamanis-et-al-AQUA-16.pdf https://linkinghub.elsevier.com/retrieve/pii/S0044848624000309}, doi = {10.1016/j.aquaculture.2024.740569}, issn = {00448486}, year = {2024}, date = {2024-03-22}, urldate = {2024-03-22}, journal = {Aquaculture}, volume = {582}, pages = {740569}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Zhao, Tao; Zheng, Hua; Xu, Jie-Jie; Pantopoulos, Kostas; Xu, Yi-Chuang; Liu, Lu-Lu; Lei, Xi-Jun; Kotzamanis, Yannis P; Luo, Zhi MnO2 nanoparticles trigger hepatic lipotoxicity and mitophagy via mtROS-dependent Hsf1Ser326 phosphorylation Journal Article Free Radical Biology and Medicine, 210 , pp. 390–405, 2024, ISSN: 08915849. @article{zhao_mno2_2024, title = {MnO2 nanoparticles trigger hepatic lipotoxicity and mitophagy via mtROS-dependent Hsf1Ser326 phosphorylation}, author = {Tao Zhao and Hua Zheng and Jie-Jie Xu and Kostas Pantopoulos and Yi-Chuang Xu and Lu-Lu Liu and Xi-Jun Lei and Yannis P Kotzamanis and Zhi Luo}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/03/2024-Kotzamanis-et-al-pre-print-FRBM-15.pdf https://linkinghub.elsevier.com/retrieve/pii/S0891584923011383}, doi = {10.1016/j.freeradbiomed.2023.11.037}, issn = {08915849}, year = {2024}, date = {2024-03-19}, urldate = {2024-03-19}, journal = {Free Radical Biology and Medicine}, volume = {210}, pages = {390--405}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Katirtzoglou, Aikaterini; Tsaparis, Dimitris; Kolios, Evangelos; Magoulas, Antonios; Mylonas, Constantinos C; Fakriadis, Ioannis; Manousaki, Tereza; Tsigenopoulos, Costas S Frontiers in Fish Science, 2 , pp. 1356313, 2024, ISSN: 2813-9097. @article{katirtzoglou_population_2024, title = {Population genomic analysis of the greater amberjack (\textit{Seriola dumerili}) in the Mediterranean and the Northeast Atlantic, based on SNPs, microsatellites, and mitochondrial DNA sequences}, author = {Aikaterini Katirtzoglou and Dimitris Tsaparis and Evangelos Kolios and Antonios Magoulas and Constantinos C Mylonas and Ioannis Fakriadis and Tereza Manousaki and Costas S Tsigenopoulos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/03/2024-Kaitirtzoglou-frish-14.pdf https://www.frontiersin.org/articles/10.3389/frish.2024.1356313/full}, doi = {10.3389/frish.2024.1356313}, issn = {2813-9097}, year = {2024}, date = {2024-03-14}, urldate = {2024-03-14}, journal = {Frontiers in Fish Science}, volume = {2}, pages = {1356313}, abstract = {The greater amberjack ( Seriola dumerili ) has attracted considerable economic interest since the 1990s because it possesses traits that distinguish it as a promising candidate in aquaculture. However, the challenges of its successful rearing, combined with the need to develop proper management practices, underline the importance of research into the genetic diversity of both wild and farmed stocks. We aimed to decipher the genetic structure of S. dumerili in the Eastern Mediterranean and the Northeast Atlantic using three types of genetic markers (mitochondrial control region sequences, microsatellites, and single nucleotide polymorphisms, or SNPs) to evaluate the population genetic structure of the species. The results were compared to those of previous studies of the species focusing on the Central Mediterranean and confirmed the presence of two divergent mtDNA haplogroups distributed without any detectable geographical structuring within the Mediterranean and the Atlantic. However, population analyses of the genetic structure of the species using either 10 microsatellites or a set of 1,051 SNP markers suggest that the species forms three genetically distinct groups, one in the Mediterranean and two in the Atlantic. The latter has so far not been reported in the Northeast Atlantic, and that this differentiation refers to samples from the Canary Islands is surprising. Fifteen candidate outlier SNP loci were identified in the data set, one located within the tead1a /TEF-1A gene, which has been associated with temperature acclimation of the medaka. This work enriches our knowledge of the genetic diversity of wild populations of the greater amberjack in the Mediterranean and the Northeast Atlantic and attempts to investigate signs of local adaptation toward a better understanding of the species distribution patterns. Future studies should be conducted to investigate the genomic regions associated with temperature acclimation in marine organisms that have to adapt to the ongoing climate change pressures, such as sea temperature rise, in order to survive.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The greater amberjack ( Seriola dumerili ) has attracted considerable economic interest since the 1990s because it possesses traits that distinguish it as a promising candidate in aquaculture. However, the challenges of its successful rearing, combined with the need to develop proper management practices, underline the importance of research into the genetic diversity of both wild and farmed stocks. We aimed to decipher the genetic structure of S. dumerili in the Eastern Mediterranean and the Northeast Atlantic using three types of genetic markers (mitochondrial control region sequences, microsatellites, and single nucleotide polymorphisms, or SNPs) to evaluate the population genetic structure of the species. The results were compared to those of previous studies of the species focusing on the Central Mediterranean and confirmed the presence of two divergent mtDNA haplogroups distributed without any detectable geographical structuring within the Mediterranean and the Atlantic. However, population analyses of the genetic structure of the species using either 10 microsatellites or a set of 1,051 SNP markers suggest that the species forms three genetically distinct groups, one in the Mediterranean and two in the Atlantic. The latter has so far not been reported in the Northeast Atlantic, and that this differentiation refers to samples from the Canary Islands is surprising. Fifteen candidate outlier SNP loci were identified in the data set, one located within the tead1a /TEF-1A gene, which has been associated with temperature acclimation of the medaka. This work enriches our knowledge of the genetic diversity of wild populations of the greater amberjack in the Mediterranean and the Northeast Atlantic and attempts to investigate signs of local adaptation toward a better understanding of the species distribution patterns. Future studies should be conducted to investigate the genomic regions associated with temperature acclimation in marine organisms that have to adapt to the ongoing climate change pressures, such as sea temperature rise, in order to survive. |
Georgopoulou, Dimitra G; Vouidaskis, Charalabos; Papandroulakis, Nikos Swimming behavior as a potential metric to detect satiation levels of European seabass in marine cages Journal Article Frontiers in Marine Science, 11 , pp. 1350385, 2024, ISSN: 2296-7745. @article{georgopoulou_swimming_2024, title = {Swimming behavior as a potential metric to detect satiation levels of European seabass in marine cages}, author = {Dimitra G Georgopoulou and Charalabos Vouidaskis and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/03/2024-Georgopoulou-Frontiers-MS-13.pdf https://www.frontiersin.org/articles/10.3389/fmars.2024.1350385/full}, doi = {10.3389/fmars.2024.1350385}, issn = {2296-7745}, year = {2024}, date = {2024-03-11}, urldate = {2024-03-11}, journal = {Frontiers in Marine Science}, volume = {11}, pages = {1350385}, abstract = {Aquaculture is anticipated to contribute to two-thirds of the world’s fish consumption by 2030, emphasizing the need for innovative methods to optimize practices for economic viability, social responsibility, and environmental sustainability. Feeding practices play a pivotal role in aquaculture success and the feeding requirements are dynamic, influenced by factors like fish size, environmental conditions, and health status necessitating ongoing improvements in feeding practices. This study addresses a critical gap in feeding control systems in sea cages. It introduces a continuous, real-time monitoring system for analyzing the feeding behavior of European seabass, employing advanced AI models (YOLO and DEEPSORT) and computer vision techniques. The investigation focuses on key parameters, including speed and the newly defined feeding behavior index (FBI), to evaluate swimming responses under varying feeding scenarios exploring meal frequency, feeding time, and feeding quantity. The findings reveal a sensitivity of fish speed and the feeding behavior index (FBI) to different feeding scenarios, elucidating distinct behavioral patterns in response to varying frequencies, times, and quantities of feeding, such as increased activity in the morning relative to later times and the emergence of asymmetric activity patterns when fish are underfed or overfed. Notably, this study is one of the few in the field, presenting the development of a continuous, real-time monitoring system for feeding control in sea cages. Simultaneously, it explores reference curves and threshold values to enhance the overall efficacy of feeding control measures.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Aquaculture is anticipated to contribute to two-thirds of the world’s fish consumption by 2030, emphasizing the need for innovative methods to optimize practices for economic viability, social responsibility, and environmental sustainability. Feeding practices play a pivotal role in aquaculture success and the feeding requirements are dynamic, influenced by factors like fish size, environmental conditions, and health status necessitating ongoing improvements in feeding practices. This study addresses a critical gap in feeding control systems in sea cages. It introduces a continuous, real-time monitoring system for analyzing the feeding behavior of European seabass, employing advanced AI models (YOLO and DEEPSORT) and computer vision techniques. The investigation focuses on key parameters, including speed and the newly defined feeding behavior index (FBI), to evaluate swimming responses under varying feeding scenarios exploring meal frequency, feeding time, and feeding quantity. The findings reveal a sensitivity of fish speed and the feeding behavior index (FBI) to different feeding scenarios, elucidating distinct behavioral patterns in response to varying frequencies, times, and quantities of feeding, such as increased activity in the morning relative to later times and the emergence of asymmetric activity patterns when fish are underfed or overfed. Notably, this study is one of the few in the field, presenting the development of a continuous, real-time monitoring system for feeding control in sea cages. Simultaneously, it explores reference curves and threshold values to enhance the overall efficacy of feeding control measures. |
Fakriadis, Ioannis; Meiri-Ashkenazi, Iris; Bracha, Chen; Rosenfeld, Hanna; Corriero, Aldo; Zupa, Rosa; Pousis, Chrysovalentinos; Papadaki, Maria; Mylonas, Constantinos C Gonadotropin expression, pituitary and plasma levels in the reproductive cycle of wild and captive-reared greater amberjack (Seriola dumerili) Journal Article General and Comparative Endocrinology, 350 , pp. 114465, 2024, ISSN: 00166480. @article{fakriadis_gonadotropin_2024, title = {Gonadotropin expression, pituitary and plasma levels in the reproductive cycle of wild and captive-reared greater amberjack (Seriola dumerili)}, author = {Ioannis Fakriadis and Iris Meiri-Ashkenazi and Chen Bracha and Hanna Rosenfeld and Aldo Corriero and Rosa Zupa and Chrysovalentinos Pousis and Maria Papadaki and Constantinos C Mylonas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/03/2024-Fakriadis-GCE-12.pdf https://linkinghub.elsevier.com/retrieve/pii/S001664802400025X}, doi = {10.1016/j.ygcen.2024.114465}, issn = {00166480}, year = {2024}, date = {2024-03-05}, urldate = {2024-03-05}, journal = {General and Comparative Endocrinology}, volume = {350}, pages = {114465}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Cotou, Efthimia; Miliou, Helen; Chatzoglou, Evanthia; Schoina, Eirini; Politakis, Nektarios; Kogiannou, Dimitra; Fountoulaki, Eleni; Androni, Afrodite; Konstantinopoulou, Aggeliki; Assimakopoulou, Georgia; Nathanailides, Cosmas Fishes, 9 (2), pp. 69, 2024, ISSN: 2410-3888. @article{cotou_growth_2024, title = {Growth Performance and Environmental Quality Indices and Biomarkers in a Co-Culture of the European Sea Bass with Filter and Deposit Feeders: A Case Study of an IMTA System}, author = {Efthimia Cotou and Helen Miliou and Evanthia Chatzoglou and Eirini Schoina and Nektarios Politakis and Dimitra Kogiannou and Eleni Fountoulaki and Afrodite Androni and Aggeliki Konstantinopoulou and Georgia Assimakopoulou and Cosmas Nathanailides}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/02/2024-Cotou-et-al-Fishes-11.pdf https://www.mdpi.com/2410-3888/9/2/69 }, doi = {10.3390/fishes9020069}, issn = {2410-3888}, year = {2024}, date = {2024-02-27}, urldate = {2024-02-28}, journal = {Fishes}, volume = {9}, number = {2}, pages = {69}, abstract = {This study aimed to evaluate the efficiency of an integrated multi-trophic aquaculture (IMTA) system comprising co-cultured fed fish and organic extractive species representing three distinct trophic levels as well as the impact and potential utilization of two commercially available fish feeds made up of 35% fish meal (FM) and 20% fish meal (LFM) ingredients, using a multi-indicator assessment approach. Significant alterations were observed in growth performance indicators (GPIs), water and sediment quality indices, toxicity tests and biomarkers within the IMTA system. The fish survival, weight gain (WG), and specific growth rate (SGR) were higher in the IMTA system with significantly lower feed conversion ratios (FCRs) and higher feed efficiency (FE) in comparison to the fed fish monoculture system. Yet, organic filter feeders displayed 100% survival, and increased shell growth, while deposit feeders exhibited successful survival and significant weight gain. In the comparison between FM-IMTA and LFM-IMTA, fed fish in FM-IMTA showed higher WG, SGR, and FE with lower FCR. Environmental parameters like temperature, oxygen, and nutrient concentrations fluctuated but generally improved in the IMTA system, indicating lower mesotrophic conditions. Sediment fatty acid profiles differed between systems and toxicity assessments, which suggested a lower impact in IMTA and FM-IMTA systems. The sediment microbial community displayed high similarity within IMTA systems and between FM-IMTA and LFM-IMTA. These findings underscore the potential of IMTA systems for sustainable aquaculture, emphasizing improved growth performance and reduced environmental impact, particularly when using fish meal feeds.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This study aimed to evaluate the efficiency of an integrated multi-trophic aquaculture (IMTA) system comprising co-cultured fed fish and organic extractive species representing three distinct trophic levels as well as the impact and potential utilization of two commercially available fish feeds made up of 35% fish meal (FM) and 20% fish meal (LFM) ingredients, using a multi-indicator assessment approach. Significant alterations were observed in growth performance indicators (GPIs), water and sediment quality indices, toxicity tests and biomarkers within the IMTA system. The fish survival, weight gain (WG), and specific growth rate (SGR) were higher in the IMTA system with significantly lower feed conversion ratios (FCRs) and higher feed efficiency (FE) in comparison to the fed fish monoculture system. Yet, organic filter feeders displayed 100% survival, and increased shell growth, while deposit feeders exhibited successful survival and significant weight gain. In the comparison between FM-IMTA and LFM-IMTA, fed fish in FM-IMTA showed higher WG, SGR, and FE with lower FCR. Environmental parameters like temperature, oxygen, and nutrient concentrations fluctuated but generally improved in the IMTA system, indicating lower mesotrophic conditions. Sediment fatty acid profiles differed between systems and toxicity assessments, which suggested a lower impact in IMTA and FM-IMTA systems. The sediment microbial community displayed high similarity within IMTA systems and between FM-IMTA and LFM-IMTA. These findings underscore the potential of IMTA systems for sustainable aquaculture, emphasizing improved growth performance and reduced environmental impact, particularly when using fish meal feeds. |
Føre, Martin; Alver, Morten Omholt; Alfredsen, Jo Arve; Rasheed, Adil; Hukkelås, Thor; Bjelland, Hans V; Su, Biao; Ohrem, Sveinung J; Kelasidi, Eleni; Norton, Tomas; Papandroulakis, Nikos Digital Twins in intensive aquaculture — Challenges, opportunities and future prospects Journal Article Computers and Electronics in Agriculture, 218 , pp. 108676, 2024, ISSN: 01681699. @article{fore_digital_2024, title = {Digital Twins in intensive aquaculture — Challenges, opportunities and future prospects}, author = {Martin Føre and Morten Omholt Alver and Jo Arve Alfredsen and Adil Rasheed and Thor Hukkelås and Hans V Bjelland and Biao Su and Sveinung J Ohrem and Eleni Kelasidi and Tomas Norton and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/02/2024-Fore-CompElectAgriculture-10.pdf https://linkinghub.elsevier.com/retrieve/pii/S016816992400067X}, doi = {10.1016/j.compag.2024.108676}, issn = {01681699}, year = {2024}, date = {2024-02-19}, urldate = {2024-02-20}, journal = {Computers and Electronics in Agriculture}, volume = {218}, pages = {108676}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Sabotič, Jerica; Bayram, Engin; Ezra, David; Gaudêncio, Susana P; Haznedaroğlu, Berat Z; Janež, Nika; Ktari, Leila; Luganini, Anna; Mandalakis, Manolis; Safarik, Ivo; Simes, Dina; Strode, Evita; Toruńska-Sitarz, Anna; Varamogianni-Mamatsi, Despoina; Varese, Giovanna Cristina; Vasquez, Marlen I A guide to the use of bioassays in exploration of natural resources Journal Article Biotechnology Advances, 71 , pp. 108307, 2024, ISSN: 07349750. @article{sabotic_guide_2024, title = {A guide to the use of bioassays in exploration of natural resources}, author = {Jerica Sabotič and Engin Bayram and David Ezra and Susana P Gaudêncio and Berat Z Haznedaroğlu and Nika Janež and Leila Ktari and Anna Luganini and Manolis Mandalakis and Ivo Safarik and Dina Simes and Evita Strode and Anna Toruńska-Sitarz and Despoina Varamogianni-Mamatsi and Giovanna Cristina Varese and Marlen I Vasquez}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/02/2024-Sabotic-Bioassays-Review-9.pdf https://linkinghub.elsevier.com/retrieve/pii/S0734975024000016}, doi = {10.1016/j.biotechadv.2024.108307}, issn = {07349750}, year = {2024}, date = {2024-02-15}, urldate = {2024-02-15}, journal = {Biotechnology Advances}, volume = {71}, pages = {108307}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Johnston, Ian A; Kent, Matthew P; Boudinot, Pierre; Looseley, Mark; Bargelloni, Luca; Faggion, Sara; Merino, Gabriela A; Ilsley, Garth R; Bobe, Julien; Tsigenopoulos, Costas S; Robertson, Joseph; Harrison, Peter W; Martinez, Paulino; Robledo, Diego; Macqueen, Daniel J; Lien, Sigbjørn Advancing fish breeding in aquaculture through genome functional annotation Journal Article Aquaculture, 583 , pp. 740589, 2024, ISSN: 00448486. @article{johnston_advancing_2024, title = {Advancing fish breeding in aquaculture through genome functional annotation}, author = {Ian A Johnston and Matthew P Kent and Pierre Boudinot and Mark Looseley and Luca Bargelloni and Sara Faggion and Gabriela A Merino and Garth R Ilsley and Julien Bobe and Costas S Tsigenopoulos and Joseph Robertson and Peter W Harrison and Paulino Martinez and Diego Robledo and Daniel J Macqueen and Sigbjørn Lien}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/02/2024-Johnston-AQUA-8.pdf https://linkinghub.elsevier.com/retrieve/pii/S0044848624000504}, doi = {10.1016/j.aquaculture.2024.740589}, issn = {00448486}, year = {2024}, date = {2024-02-12}, urldate = {2024-02-13}, journal = {Aquaculture}, volume = {583}, pages = {740589}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Ventriglia, G; Fakriadis, I; Papadaki, M; Zupa, R; Pousis, C; Mandalakis, M; Corriero, A; Mylonas, C C Effects of different hormonal treatments on spermatogenesis advancement in hatchery-produced greater amberjack Seriola dumerili (Risso 1810) Journal Article 348 , pp. 114447, 2024, ISSN: 00166480. @article{ventriglia_effects_2024, title = {Effects of different hormonal treatments on spermatogenesis advancement in hatchery-produced greater amberjack Seriola dumerili (Risso 1810)}, author = {G Ventriglia and I Fakriadis and M Papadaki and R Zupa and C Pousis and M Mandalakis and A Corriero and C C Mylonas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/02/2024-Ventriglia-GCE-7.pdf https://linkinghub.elsevier.com/retrieve/pii/S0016648024000078}, doi = {10.1016/j.ygcen.2024.114447}, issn = {00166480}, year = {2024}, date = {2024-02-05}, urldate = {2024-02-09}, volume = {348}, pages = {114447}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Skaraki, Katerina; Pavloudi, Christina; Dailianis, Thanos; Lagnel, Jacques; Pantazidou, Adriani; Magoulas, Antonios; Kotoulas, Georgios Microbial diversity in four Mediterranean irciniid sponges Journal Article Biodiversity Data Journal, 12 , pp. e114809, 2024, ISSN: 1314-2828, 1314-2836. @article{skaraki_microbial_2024, title = {Microbial diversity in four Mediterranean irciniid sponges}, author = {Katerina Skaraki and Christina Pavloudi and Thanos Dailianis and Jacques Lagnel and Adriani Pantazidou and Antonios Magoulas and Georgios Kotoulas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/02/2024-Skaraki-BioDDJ-6.pdf https://bdj.pensoft.net/article/114809/}, doi = {10.3897/BDJ.12.e114809}, issn = {1314-2828, 1314-2836}, year = {2024}, date = {2024-02-01}, urldate = {2024-02-05}, journal = {Biodiversity Data Journal}, volume = {12}, pages = {e114809}, abstract = {This paper describes a dataset of microbial communities from four different sponge species: Ircinia oros (Schmidt, 1864), Ircinia variabilis (Schmidt, 1862), Sarcotragus spinosulus Schmidt, 1862 and Sarcotragus fasciculatus (Pallas, 1766). The examined sponges all belong to Demospongiae (Class); Keratosa (Subclass); Dictyoceratida (Order); Irciniidae (Family). Samples were collected by scuba diving at depths between 6-14 m from two sampling sites of rocky formations at the northern coast of Crete (Cretan Sea, eastern Mediterranean) and were subjected to metabarcoding for the V5-V6 region of the 16S rRNA gene.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This paper describes a dataset of microbial communities from four different sponge species: Ircinia oros (Schmidt, 1864), Ircinia variabilis (Schmidt, 1862), Sarcotragus spinosulus Schmidt, 1862 and Sarcotragus fasciculatus (Pallas, 1766). The examined sponges all belong to Demospongiae (Class); Keratosa (Subclass); Dictyoceratida (Order); Irciniidae (Family). Samples were collected by scuba diving at depths between 6-14 m from two sampling sites of rocky formations at the northern coast of Crete (Cretan Sea, eastern Mediterranean) and were subjected to metabarcoding for the V5-V6 region of the 16S rRNA gene. |
Druitt, Tim; Kutterolf, Steffen; Ronge, Thomas A; Hübscher, Christian; Nomikou, Paraskevi; Preine, Jonas; Gertisser, Ralf; Karstens, Jens; Keller, Jörg; Koukousioura, Olga; Manga, Michael; Metcalfe, Abigail; McCanta, Molly; McIntosh, Iona; Pank, Katharina; Woodhouse, Adam; Beethe, Sarah; Berthod, Carole; Chiyonobu, Shun; Chen, Hehe; Clark, Acacia; DeBari, Susan; Johnston, Raymond; Peccia, Ally; Yamamoto, Yuzuru; Bernard, Alexis; Perez, Tatiana Fernandez; Jones, Christopher; Joshi, Kumar Batuk; Kletetschka, Günther; Li, Xiaohui; Morris, Antony; Polymenakou, Paraskevi; Tominaga, Masako; Papanikolaou, Dimitrios; Wang, Kuo-Lung; Lee, Hao-Yang Giant offshore pumice deposit records a shallow submarine explosive eruption of ancestral Santorini Journal Article Communications Earth & Environment, 5 (1), pp. 24, 2024, ISSN: 2662-4435. @article{druitt_giant_2024, title = {Giant offshore pumice deposit records a shallow submarine explosive eruption of ancestral Santorini}, author = {Tim Druitt and Steffen Kutterolf and Thomas A Ronge and Christian Hübscher and Paraskevi Nomikou and Jonas Preine and Ralf Gertisser and Jens Karstens and Jörg Keller and Olga Koukousioura and Michael Manga and Abigail Metcalfe and Molly McCanta and Iona McIntosh and Katharina Pank and Adam Woodhouse and Sarah Beethe and Carole Berthod and Shun Chiyonobu and Hehe Chen and Acacia Clark and Susan DeBari and Raymond Johnston and Ally Peccia and Yuzuru Yamamoto and Alexis Bernard and Tatiana Fernandez Perez and Christopher Jones and Kumar Batuk Joshi and Günther Kletetschka and Xiaohui Li and Antony Morris and Paraskevi Polymenakou and Masako Tominaga and Dimitrios Papanikolaou and Kuo-Lung Wang and Hao-Yang Lee}, url = {/wp-content/uploads/2024/01/2024-Druitt-Comm-EarthEnvironment-4.pdf https://www.nature.com/articles/s43247-023-01171-z}, doi = {10.1038/s43247-023-01171-z}, issn = {2662-4435}, year = {2024}, date = {2024-01-19}, urldate = {2024-01-23}, journal = {Communications Earth & Environment}, volume = {5}, number = {1}, pages = {24}, abstract = {Abstract Large explosive volcanic eruptions from island arcs pour pyroclastic currents into marine basins, impacting ecosystems and generating tsunamis that threaten coastal communities and infrastructures. Risk assessments require robust records of such highly hazardous events, which is challenging as most of the products lie buried under the sea. Here we report the discovery by IODP Expedition 398 of a giant rhyolitic pumice deposit emplaced 520 ± 10 ky ago at water depths of 200 to 1000 m during a high-intensity, shallow submarine eruption of ancestral Santorini Volcano. Pyroclastic currents discharged into the sea transformed into turbidity currents and slurries, forming a textgreater89 ± 8 km 3 volcaniclastic megaturbidite up to 150 m thick in the surrounding marine basins, while breaching of the sea surface by the eruption column laid down veneers of ignimbrite on three islands. The eruption is one of the largest recorded on the South Aegean Volcanic Arc, and highlights the hazards from submarine explosive eruptions.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Large explosive volcanic eruptions from island arcs pour pyroclastic currents into marine basins, impacting ecosystems and generating tsunamis that threaten coastal communities and infrastructures. Risk assessments require robust records of such highly hazardous events, which is challenging as most of the products lie buried under the sea. Here we report the discovery by IODP Expedition 398 of a giant rhyolitic pumice deposit emplaced 520 ± 10 ky ago at water depths of 200 to 1000 m during a high-intensity, shallow submarine eruption of ancestral Santorini Volcano. Pyroclastic currents discharged into the sea transformed into turbidity currents and slurries, forming a textgreater89 ± 8 km 3 volcaniclastic megaturbidite up to 150 m thick in the surrounding marine basins, while breaching of the sea surface by the eruption column laid down veneers of ignimbrite on three islands. The eruption is one of the largest recorded on the South Aegean Volcanic Arc, and highlights the hazards from submarine explosive eruptions. |
Vasileiadou, Katerina; Chatzinikolaou, Eva; Klayn, Stefania; Pavloudi, Christina; Reizopoulou, Sofia Editorial: Marine biodiversity hotspots – challenges and resilience Journal Article Frontiers in Marine Science, 11 , pp. 1338242, 2024, ISSN: 2296-7745. @article{vasileiadou_editorial_2024, title = {Editorial: Marine biodiversity hotspots – challenges and resilience}, author = {Katerina Vasileiadou and Eva Chatzinikolaou and Stefania Klayn and Christina Pavloudi and Sofia Reizopoulou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2024-Vasileiadou-fmars-3.pdf https://www.frontiersin.org/articles/10.3389/fmars.2024.1338242/full}, doi = {10.3389/fmars.2024.1338242}, issn = {2296-7745}, year = {2024}, date = {2024-01-17}, urldate = {2024-01-22}, journal = {Frontiers in Marine Science}, volume = {11}, pages = {1338242}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
García-Escudero, Catalina A; Tsigenopoulos, Costas S; Manousaki, Tereza; Tsakogiannis, Alexandros; Marbà, Núria; Vizzini, Salvatrice; Duarte, Carlos M; Apostolaki, Eugenia T Population genomics unveils the century-old invasion of the Seagrass Halophila stipulacea in the Mediterranean Sea Journal Article Marine Biology, 171 (2), pp. 40, 2024, ISSN: 0025-3162, 1432-1793. @article{garcia-escudero_population_2024, title = {Population genomics unveils the century-old invasion of the Seagrass Halophila stipulacea in the Mediterranean Sea}, author = {Catalina A García-Escudero and Costas S Tsigenopoulos and Tereza Manousaki and Alexandros Tsakogiannis and Núria Marbà and Salvatrice Vizzini and Carlos M Duarte and Eugenia T Apostolaki}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2024-Garcia-Escudero-2.pdf https://link.springer.com/10.1007/s00227-023-04361-7}, doi = {10.1007/s00227-023-04361-7}, issn = {0025-3162, 1432-1793}, year = {2024}, date = {2024-01-11}, urldate = {2024-01-19}, journal = {Marine Biology}, volume = {171}, number = {2}, pages = {40}, abstract = {Abstract The tropical seagrass Halophila stipulacea invaded the Eastern Mediterranean Sea in the late nineteenth century and progressively spread throughout the basin ever since. Its spread is expected to continue north-westward as the Mediterranean Sea becomes warmer, potentially changing the seagrass biogeography of the basin. Given the power of genomics to assess invasion dynamics in non-model species, we report the first ddRAD-seq study of H. stipulacea and small-scale population genomic analysis addressing its century-old Mediterranean invasion. Based on 868 SNPs and 35 genotyped native (Red Sea) and exotic (from Cyprus, Greece, and Italy) samples, results suggest that genetic structure was high, especially between major geographic discontinuities, and that exotic populations maintain comparably lower genetic diversity than native populations, despite 130 years of invasion. The evidence of high heterozygosity excess, coupled with previously reported male-dominated and rare flowering records in the exotic range, suggests that clonal propagation likely played a pivotal role in the successful colonization and spread of H. stipulacea in the Mediterranean. This shift in reproductive strategy, particularly evident in the Italian populations located closest to the western boundary and representing more recent establishments, underscores the importance of this cost-effective mode of reproduction, especially during the initial stages of invasion, raising questions about the species future expansion trajectory. Our findings serve as a catalyst for future research into the species’ invasion dynamics, including deciphering the intricate roles of acclimatization and rapid adaptation, important for a comprehensive assessment of invasion risks and improving management strategies aimed at conserving seagrass ecosystems.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract The tropical seagrass Halophila stipulacea invaded the Eastern Mediterranean Sea in the late nineteenth century and progressively spread throughout the basin ever since. Its spread is expected to continue north-westward as the Mediterranean Sea becomes warmer, potentially changing the seagrass biogeography of the basin. Given the power of genomics to assess invasion dynamics in non-model species, we report the first ddRAD-seq study of H. stipulacea and small-scale population genomic analysis addressing its century-old Mediterranean invasion. Based on 868 SNPs and 35 genotyped native (Red Sea) and exotic (from Cyprus, Greece, and Italy) samples, results suggest that genetic structure was high, especially between major geographic discontinuities, and that exotic populations maintain comparably lower genetic diversity than native populations, despite 130 years of invasion. The evidence of high heterozygosity excess, coupled with previously reported male-dominated and rare flowering records in the exotic range, suggests that clonal propagation likely played a pivotal role in the successful colonization and spread of H. stipulacea in the Mediterranean. This shift in reproductive strategy, particularly evident in the Italian populations located closest to the western boundary and representing more recent establishments, underscores the importance of this cost-effective mode of reproduction, especially during the initial stages of invasion, raising questions about the species future expansion trajectory. Our findings serve as a catalyst for future research into the species’ invasion dynamics, including deciphering the intricate roles of acclimatization and rapid adaptation, important for a comprehensive assessment of invasion risks and improving management strategies aimed at conserving seagrass ecosystems. |
Lancerotto, Stefano; Fakriadis, Ioannis; Papadaki, Maria; Mandalakis, Manolis; Sigelaki, Irini; Mylonas, Constantinos C Timing of puberty in F1-generation hatchery-produced greater amberjack (Seriola dumerili) Journal Article General and Comparative Endocrinology, 347 , pp. 114414, 2024, ISSN: 00166480. @article{lancerotto_timing_2024, title = {Timing of puberty in F1-generation hatchery-produced greater amberjack (Seriola dumerili)}, author = {Stefano Lancerotto and Ioannis Fakriadis and Maria Papadaki and Manolis Mandalakis and Irini Sigelaki and Constantinos C Mylonas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2024-Lancerotto-GCE-SI-12ISRPF-1.pdf https://linkinghub.elsevier.com/retrieve/pii/S0016648023002198}, doi = {10.1016/j.ygcen.2023.114414}, issn = {00166480}, year = {2024}, date = {2024-01-01}, urldate = {2024-01-10}, journal = {General and Comparative Endocrinology}, volume = {347}, pages = {114414}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2023 |
Vardali, Sofia; Papadouli, Christina; Maniaki, Myrto; Karatzinos, Theodoros; Rigos, George; Nengas, Ioannis; Panagiotaki, Panagiota; Golomazou, Eleni Detection of Mycotoxins in Aquaculture Feed Ingredients Using a Rapid FT-NIR Method Journal Article Journal of Aquaculture Research & Development, 14 (12), pp. 1–7, 2023, ISSN: 2155-9546. @article{vardali_detection_2024, title = {Detection of Mycotoxins in Aquaculture Feed Ingredients Using a Rapid FT-NIR Method}, author = {Sofia Vardali and Christina Papadouli and Myrto Maniaki and Theodoros Karatzinos and George Rigos and Ioannis Nengas and Panagiota Panagiotaki and Eleni Golomazou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2023-Vardali-JAquaRD-69-2.pdf https://www.walshmedicalmedia.com/abstract/detection-of-mycotoxins-in-aquaculture-feed-ingredients-using-a-rapid-ftnir-method-125229.html}, issn = {2155-9546}, year = {2023}, date = {2023-12-28}, urldate = {2024-01-18}, journal = {Journal of Aquaculture Research & Development}, volume = {14}, number = {12}, pages = {1--7}, abstract = {Mycotoxins are secondary metabolites produced by different types of fungi. They are frequently present in fish feed ingredients and may negatively impact fish farming operations. In this study aquafeed ingredients collected from suppliers in Greece were spectrally analyzed with Fourier-transform Near Infrared Spectroscopy (FT-NIR). Mycotoxin concentration was indirectly estimated by measuring the spectral absorption from organic compounds present in the samples. In the examined samples, Fumonisin B1 (FB1), Fumonisin B2 (FB2), Zearalenone (ZEN), and Deoxynivalenol (DON) were measured as the predominant mycotoxins, whereas Aflatoxin B1 (AFB1) and Ochratoxin A (OTA) were not detected. Notably, all mycotoxin concentrations in aquafeed ingredients remained well below the Maximum Permitted Limits (MPL), affirming the safety of aquaculture feeds used in Greece in compliance with the relevant legislation. This underscores the importance of continuous monitoring of fish feed ingredients, given the presence of mycotoxins at low concentrations that may pose a threat to animal health. Moreover, the application of FT-NIR confirms that it is a valuable analytical tool for contaminant detection, offering distinct advantages compared to traditional analytical methods, including speed, cost-effectiveness, safety, and simultaneous analysis of multiple parameters.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Mycotoxins are secondary metabolites produced by different types of fungi. They are frequently present in fish feed ingredients and may negatively impact fish farming operations. In this study aquafeed ingredients collected from suppliers in Greece were spectrally analyzed with Fourier-transform Near Infrared Spectroscopy (FT-NIR). Mycotoxin concentration was indirectly estimated by measuring the spectral absorption from organic compounds present in the samples. In the examined samples, Fumonisin B1 (FB1), Fumonisin B2 (FB2), Zearalenone (ZEN), and Deoxynivalenol (DON) were measured as the predominant mycotoxins, whereas Aflatoxin B1 (AFB1) and Ochratoxin A (OTA) were not detected. Notably, all mycotoxin concentrations in aquafeed ingredients remained well below the Maximum Permitted Limits (MPL), affirming the safety of aquaculture feeds used in Greece in compliance with the relevant legislation. This underscores the importance of continuous monitoring of fish feed ingredients, given the presence of mycotoxins at low concentrations that may pose a threat to animal health. Moreover, the application of FT-NIR confirms that it is a valuable analytical tool for contaminant detection, offering distinct advantages compared to traditional analytical methods, including speed, cost-effectiveness, safety, and simultaneous analysis of multiple parameters. |
Alfonso, Sébastien; Mente, Elena; Fiocchi, Eleonora; Manfrin, Amedeo; Dimitroglou, Arkadios; Papaharisis, Leonidas; Barkas, Dimitris; Toomey, Lola; Boscarato, Marilena; Losasso, Carmen; Peruzzo, Arianna; Stefani, Annalisa; Zupa, Walter; Spedicato, Maria Teresa; Nengas, Ioannis; Lembo, Giuseppe; Carbonara, Pierluigi Scientific Reports, 13 (1), pp. 21269, 2023, ISSN: 2045-2322. @article{alfonso_growth_2023, title = {Growth performance, gut microbiota composition, health and welfare of European sea bass (Dicentrarchus labrax) fed an environmentally and economically sustainable low marine protein diet in sea cages}, author = {Sébastien Alfonso and Elena Mente and Eleonora Fiocchi and Amedeo Manfrin and Arkadios Dimitroglou and Leonidas Papaharisis and Dimitris Barkas and Lola Toomey and Marilena Boscarato and Carmen Losasso and Arianna Peruzzo and Annalisa Stefani and Walter Zupa and Maria Teresa Spedicato and Ioannis Nengas and Giuseppe Lembo and Pierluigi Carbonara}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2023-Alfonso-Sci-rep-68.pdf https://www.nature.com/articles/s41598-023-48533-3}, doi = {10.1038/s41598-023-48533-3}, issn = {2045-2322}, year = {2023}, date = {2023-12-28}, urldate = {2024-01-16}, journal = {Scientific Reports}, volume = {13}, number = {1}, pages = {21269}, abstract = {Abstract The large use of fish meal/fish oil in carnivorous fish feeds is the main concern regarding environmental sustainability of aquaculture. Here, we evaluated the effects of an innovative diet, designed to be (1) environmentally sustainable by lowering the marine protein content while being (2) cost effective by using sustainable alternative raw materials with acceptable cost and produced on an industrial scale, on growth performance, gut microbiota composition, health and welfare of European sea bass ( Dicentrarchus labrax ), a key species of the Mediterranean marine aquaculture, reared in sea cages. Results show that the specific growth rate of fish fed the low marine protein diet was significantly lower than those fed conventional diet (0.67% vs 0.69%). Fatty acid profile of fillets from fish fed a low marine protein diet presented significant lower n-6 and higher n-3 content when compared to conventional ones. Then, a significant increase in the abundance of Vibrio and reduction of Photobacterium were found in the gut of fish fed with the low marine protein diet but effects on sea bass health needs further investigation. Finally, no major health and welfare alterations for fish fed the low marine protein diet were observed, combined with a potential slight benefit related to humoral immunity. Overall, these results suggest that despite the low marine protein diet moderately affects growth performance, it nevertheless may enhance environmental and economic sustainability of the sea bass aquaculture.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract The large use of fish meal/fish oil in carnivorous fish feeds is the main concern regarding environmental sustainability of aquaculture. Here, we evaluated the effects of an innovative diet, designed to be (1) environmentally sustainable by lowering the marine protein content while being (2) cost effective by using sustainable alternative raw materials with acceptable cost and produced on an industrial scale, on growth performance, gut microbiota composition, health and welfare of European sea bass ( Dicentrarchus labrax ), a key species of the Mediterranean marine aquaculture, reared in sea cages. Results show that the specific growth rate of fish fed the low marine protein diet was significantly lower than those fed conventional diet (0.67% vs 0.69%). Fatty acid profile of fillets from fish fed a low marine protein diet presented significant lower n-6 and higher n-3 content when compared to conventional ones. Then, a significant increase in the abundance of Vibrio and reduction of Photobacterium were found in the gut of fish fed with the low marine protein diet but effects on sea bass health needs further investigation. Finally, no major health and welfare alterations for fish fed the low marine protein diet were observed, combined with a potential slight benefit related to humoral immunity. Overall, these results suggest that despite the low marine protein diet moderately affects growth performance, it nevertheless may enhance environmental and economic sustainability of the sea bass aquaculture. |
Pogorevc, Neža; Dotsev, Arsen; Upadhyay, Maulik; Sandoval‐Castellanos, Edson; Hannemann, Elisabeth; Simčič, Mojca; Antoniou, Aglaia; Papachristou, Dimitris; Koutsouli, Panagiota; Rahmatalla, Siham; Brockmann, Gudrun; Sölkner, Johann; Burger, Pamela; Lymberakis, Petros; Poulakakis, Nikos; Bizelis, Iosif; Zinovieva, Natalia; Horvat, Simon; Medugorac, Ivica Whole‐genome SNP genotyping unveils ancestral and recent introgression in wild and domestic goats Journal Article Molecular Ecology, 33 (1), pp. e17190, 2023, ISSN: 0962-1083, 1365-294X. @article{pogorevc_wholegenome_2024, title = {Whole‐genome SNP genotyping unveils ancestral and recent introgression in wild and domestic goats}, author = {Neža Pogorevc and Arsen Dotsev and Maulik Upadhyay and Edson Sandoval‐Castellanos and Elisabeth Hannemann and Mojca Simčič and Aglaia Antoniou and Dimitris Papachristou and Panagiota Koutsouli and Siham Rahmatalla and Gudrun Brockmann and Johann Sölkner and Pamela Burger and Petros Lymberakis and Nikos Poulakakis and Iosif Bizelis and Natalia Zinovieva and Simon Horvat and Ivica Medugorac}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2023-Pogorevc-Molecular-Ecology-67.pdf https://onlinelibrary.wiley.com/doi/10.1111/mec.17190}, doi = {10.1111/mec.17190}, issn = {0962-1083, 1365-294X}, year = {2023}, date = {2023-12-28}, urldate = {2024-01-15}, journal = {Molecular Ecology}, volume = {33}, number = {1}, pages = {e17190}, abstract = {Abstract After the domestication of goats around 10,000 years before the present (BP), humans transported goats far beyond the range of their wild ancestor, the bezoar goat. This brought domestic goats into contact with many wild goat species such as ibex and markhor, enabling introgression between domestic and wild goats. To investigate this, while shedding light on the taxonomic status of wild and domestic goats, we analysed genome‐wide SNP data of 613 specimens from 14 taxonomic units, including Capra hircus , C. pyrenaica , C. ibex (from Switzerland, Austria, Germany and Slovenia), C. aegagrus aegagrus , C. a. cretica , C. h. dorcas , C. caucasica caucasica , C. c. severtzovi , C. c. cylindricornis , C. falconeri , C. sibirica sibirica , C. s. alaiana and C. nubiana , as well as Oreamnos americanus (mountain goat) as an outgroup. To trace gene flow between domestic and wild goats, we integrated genotype data of local goat breeds from the Alps as well as from countries such as Spain, Greece, Türkiye, Egypt, Sudan, Iran, Russia (Caucasus and Altai) and Pakistan. Our phylogenetic analyses displayed a clear separation between bezoar‐type and ibex‐type clades with wild goats from the Greek islands of Crete and Youra clustered within domestic goats, confirming their feral origin. Our analyses also revealed gene flow between the lineages of Caucasian tur and domestic goats that most likely occurred before or during early domestication. Within the clade of domestic goats, analyses inferred gene flow between African and Iberian goats. The detected events of introgression were consistent with previous reports and offered interesting insights into the historical relationships among domestic and wild goats.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract After the domestication of goats around 10,000 years before the present (BP), humans transported goats far beyond the range of their wild ancestor, the bezoar goat. This brought domestic goats into contact with many wild goat species such as ibex and markhor, enabling introgression between domestic and wild goats. To investigate this, while shedding light on the taxonomic status of wild and domestic goats, we analysed genome‐wide SNP data of 613 specimens from 14 taxonomic units, including Capra hircus , C. pyrenaica , C. ibex (from Switzerland, Austria, Germany and Slovenia), C. aegagrus aegagrus , C. a. cretica , C. h. dorcas , C. caucasica caucasica , C. c. severtzovi , C. c. cylindricornis , C. falconeri , C. sibirica sibirica , C. s. alaiana and C. nubiana , as well as Oreamnos americanus (mountain goat) as an outgroup. To trace gene flow between domestic and wild goats, we integrated genotype data of local goat breeds from the Alps as well as from countries such as Spain, Greece, Türkiye, Egypt, Sudan, Iran, Russia (Caucasus and Altai) and Pakistan. Our phylogenetic analyses displayed a clear separation between bezoar‐type and ibex‐type clades with wild goats from the Greek islands of Crete and Youra clustered within domestic goats, confirming their feral origin. Our analyses also revealed gene flow between the lineages of Caucasian tur and domestic goats that most likely occurred before or during early domestication. Within the clade of domestic goats, analyses inferred gene flow between African and Iberian goats. The detected events of introgression were consistent with previous reports and offered interesting insights into the historical relationships among domestic and wild goats. |
Litsi-Mizan, Victoria; García-Escudero, Catalina A; Tsigenopoulos, Costas S; Tsiaras, Kostas; Gerakaris, Vasilis; Apostolaki, Eugenia T Unravelling the genetic pattern of seagrass (Posidonia oceanica) meadows in the Eastern Mediterranean Sea Journal Article Biodiversity and Conservation, 2023, ISSN: 0960-3115, 1572-9710. @article{litsi-mizan_unravelling_2023, title = {Unravelling the genetic pattern of seagrass (Posidonia oceanica) meadows in the Eastern Mediterranean Sea}, author = {Victoria Litsi-Mizan and Catalina A García-Escudero and Costas S Tsigenopoulos and Kostas Tsiaras and Vasilis Gerakaris and Eugenia T Apostolaki}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2023-Litsi-Mizan-BioDivConser-66.pdf https://link.springer.com/10.1007/s10531-023-02746-0}, doi = {10.1007/s10531-023-02746-0}, issn = {0960-3115, 1572-9710}, year = {2023}, date = {2023-12-27}, urldate = {2024-01-12}, journal = {Biodiversity and Conservation}, abstract = {Abstract The genetic traits of seagrass populations are a crucial aspect of their ecology and evolution, influencing their adaptability and resilience. Here, we studied the genetic diversity, population structure, and connectivity of eighteen Posidonia oceanica meadows extending in the Eastern Mediterranean Sea (Aegean, Ionian and Cretan Seas, Greece), combining twelve microsatellite markers and Lagrangian particle drift modelling. Our findings revealed a strong genetic differentiation between the Ionian Sea and the Aegean and Cretan Seas, suggesting limited genetic exchange between these two groups. High gene flow was observed within the meadows of the Aegean and Cretan Seas, indicating a well-connected group of populations. Notably, populations of the North Aegean Sea displayed the lowest genetic diversity and the highest clonality compared to the rest of the populations. The lack of substantial oceanographic connectivity between Ionian and Aegean/Cretan Sea populations supported their genetic differentiation. However, the Lagrangian simulations did not fully support gene flow patterns in the Aegean Sea, suggesting that in addition to contemporary processes, historical events may have contributed to the formation of the observed genetic pattern. The genetic information provided here can be incorporated into management strategies aimed at identifying suitable areas as management units in conservation efforts and determining meadows that may serve as donor sites in transplantation initiatives.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract The genetic traits of seagrass populations are a crucial aspect of their ecology and evolution, influencing their adaptability and resilience. Here, we studied the genetic diversity, population structure, and connectivity of eighteen Posidonia oceanica meadows extending in the Eastern Mediterranean Sea (Aegean, Ionian and Cretan Seas, Greece), combining twelve microsatellite markers and Lagrangian particle drift modelling. Our findings revealed a strong genetic differentiation between the Ionian Sea and the Aegean and Cretan Seas, suggesting limited genetic exchange between these two groups. High gene flow was observed within the meadows of the Aegean and Cretan Seas, indicating a well-connected group of populations. Notably, populations of the North Aegean Sea displayed the lowest genetic diversity and the highest clonality compared to the rest of the populations. The lack of substantial oceanographic connectivity between Ionian and Aegean/Cretan Sea populations supported their genetic differentiation. However, the Lagrangian simulations did not fully support gene flow patterns in the Aegean Sea, suggesting that in addition to contemporary processes, historical events may have contributed to the formation of the observed genetic pattern. The genetic information provided here can be incorporated into management strategies aimed at identifying suitable areas as management units in conservation efforts and determining meadows that may serve as donor sites in transplantation initiatives. |
Guerra-García, José Manuel; Revanales, Triana; Saenz-Arias, Pablo; Navarro-Barranco, Carlos; Ruiz-Velasco, Sofía; Pastor-Montero, María; Sempere-Valverde, Juan; Chebaane, Sahar; Vélez-Ruiz, Alberto; Martínez-Laiz, Gemma; Santos-Simón, Mar; Ferrario, Jasmine; Marchini, Agnese; Nour, Ola Mohamed; Gouillieux, Benoit; Hosie, Andrew Mark; Gerovasileiou, Vasilis; Carvalho, Susana; Balistreri, Paolo; Sirchia, Benedetto; Ruvolo, Vincenzo; Mancini, Emanuele; Bonifazi, Andrea; Tempesti, Jonathan; Tiralongo, Francesco; Ignoto, Sara; Fernandez-Gonzalez, Victoria; Vázquez-Luis, Maite; Cabezas, María Del Pilar; Ros, Macarena Quick spreading of the exotic amphipod Laticorophium baconi (Shoemaker, 1934): another small stowaway overlooked? Journal Article Mediterranean Marine Science, 24 (3), pp. 644–655, 2023, ISSN: 1791-6763, 1108-393X. @article{guerra-garcia_quick_2023, title = {Quick spreading of the exotic amphipod Laticorophium baconi (Shoemaker, 1934): another small stowaway overlooked?}, author = {José Manuel Guerra-García and Triana Revanales and Pablo Saenz-Arias and Carlos Navarro-Barranco and Sofía Ruiz-Velasco and María Pastor-Montero and Juan Sempere-Valverde and Sahar Chebaane and Alberto Vélez-Ruiz and Gemma Martínez-Laiz and Mar Santos-Simón and Jasmine Ferrario and Agnese Marchini and Ola Mohamed Nour and Benoit Gouillieux and Andrew Mark Hosie and Vasilis Gerovasileiou and Susana Carvalho and Paolo Balistreri and Benedetto Sirchia and Vincenzo Ruvolo and Emanuele Mancini and Andrea Bonifazi and Jonathan Tempesti and Francesco Tiralongo and Sara Ignoto and Victoria Fernandez-Gonzalez and Maite Vázquez-Luis and María Del Pilar Cabezas and Macarena Ros}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2023-Guerra-García-MMS-66-1.pdf https://ejournals.epublishing.ekt.gr/index.php/hcmr-med-mar-sc/article/view/35817}, doi = {10.12681/mms.35817}, issn = {1791-6763, 1108-393X}, year = {2023}, date = {2023-12-22}, urldate = {2024-01-11}, journal = {Mediterranean Marine Science}, volume = {24}, number = {3}, pages = {644--655}, abstract = {Studies of non-indigenous species (NIS) often tend to focus on medium and large-sized taxa with potential for remarkable ecological and/or economic impact, whereas the early detection of small invertebrates is often delayed due to taxonomic challenge, lack of consistent, standardised monitoring efforts and limited funding. This study represents the first records of the marine amphipod Laticorophium baconi (Shoemaker, 1934) in Morocco, Tunisia, Corsica (France), Italy, Greece, Egypt, Saudi Arabia and New Caledonia (France). Furthermore, it reports an expansion of its known distribution in Portugal (earliest and northernmost record for the country and first record for Macaronesia), Spain (earliest record for Atlantic and Mediterranean European waters), and Australia (first record for Indian Ocean). Recreational boating and commercial shipping, mainly through hull fouling and secondarily ballast waters, are proposed as vectors for introduction and secondary spread of L. baconi. The following traits, analysed during the present study, could contribute to its invasive potential: (i) quick and extensive spread of the species worldwide, (ii) high densities in marinas, harbours, hull fouling and other artificial habitats, including aquaculture facilities and floating debris, (iii) high ability for short-term colonisation of empty artificial niches, (iv) diet based on detritus suggesting an opportunistic feeding behaviour, and (v) population survival during seasonal fluctuations in different regions. Taxonomic expertise and scientific collaboration, based on multidisciplinary networks of experts, are crucial for the early detection, distribution updates, and risk assessment of small and overlooked stowaways in marine environments.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Studies of non-indigenous species (NIS) often tend to focus on medium and large-sized taxa with potential for remarkable ecological and/or economic impact, whereas the early detection of small invertebrates is often delayed due to taxonomic challenge, lack of consistent, standardised monitoring efforts and limited funding. This study represents the first records of the marine amphipod Laticorophium baconi (Shoemaker, 1934) in Morocco, Tunisia, Corsica (France), Italy, Greece, Egypt, Saudi Arabia and New Caledonia (France). Furthermore, it reports an expansion of its known distribution in Portugal (earliest and northernmost record for the country and first record for Macaronesia), Spain (earliest record for Atlantic and Mediterranean European waters), and Australia (first record for Indian Ocean). Recreational boating and commercial shipping, mainly through hull fouling and secondarily ballast waters, are proposed as vectors for introduction and secondary spread of L. baconi. The following traits, analysed during the present study, could contribute to its invasive potential: (i) quick and extensive spread of the species worldwide, (ii) high densities in marinas, harbours, hull fouling and other artificial habitats, including aquaculture facilities and floating debris, (iii) high ability for short-term colonisation of empty artificial niches, (iv) diet based on detritus suggesting an opportunistic feeding behaviour, and (v) population survival during seasonal fluctuations in different regions. Taxonomic expertise and scientific collaboration, based on multidisciplinary networks of experts, are crucial for the early detection, distribution updates, and risk assessment of small and overlooked stowaways in marine environments. |
Saccò, Mattia; Mammola, Stefano; Altermatt, Florian; Alther, Roman; Bolpagni, Rossano; Brancelj, Anton; Brankovits, David; Fišer, Cene; Gerovasileiou, Vasilis; Griebler, Christian; Guareschi, Simone; Hose, Grant C; Korbel, Kathryn; Lictevout, Elisabeth; Malard, Florian; Martínez, Alejandro; Niemiller, Matthew L; Robertson, Anne; Tanalgo, Krizler C; Bichuette, Maria Elina; Borko, Špela; Brad, Traian; Campbell, Matthew A; Cardoso, Pedro; Celico, Fulvio; Cooper, Steven J B; Culver, David; Di Lorenzo, Tiziana; Galassi, Diana M P; Guzik, Michelle T; Hartland, Adam; Humphreys, William F; Ferreira, Rodrigo Lopes; Lunghi, Enrico; Nizzoli, Daniele; Perina, Giulia; Raghavan, Rajeev; Richards, Zoe; Reboleira, Ana Sofia P S; Rohde, Melissa M; Fernández, David Sánchez; Schmidt, Susanne I; Heyde, Mieke Van Der; Weaver, Louise; White, Nicole E; Zagmajster, Maja; Hogg, Ian; Ruhi, Albert; Gagnon, Marthe M; Allentoft, Morten E; Reinecke, Robert Groundwater is a hidden global keystone ecosystem Journal Article Global Change Biology, 30 (1), pp. e17066, 2023, ISSN: 1354-1013, 1365-2486. @article{sacco_groundwater_2024, title = {Groundwater is a hidden global keystone ecosystem}, author = {Mattia Saccò and Stefano Mammola and Florian Altermatt and Roman Alther and Rossano Bolpagni and Anton Brancelj and David Brankovits and Cene Fišer and Vasilis Gerovasileiou and Christian Griebler and Simone Guareschi and Grant C Hose and Kathryn Korbel and Elisabeth Lictevout and Florian Malard and Alejandro Martínez and Matthew L Niemiller and Anne Robertson and Krizler C Tanalgo and Maria Elina Bichuette and Špela Borko and Traian Brad and Matthew A Campbell and Pedro Cardoso and Fulvio Celico and Steven J B Cooper and David Culver and Tiziana Di Lorenzo and Diana M P Galassi and Michelle T Guzik and Adam Hartland and William F Humphreys and Rodrigo Lopes Ferreira and Enrico Lunghi and Daniele Nizzoli and Giulia Perina and Rajeev Raghavan and Zoe Richards and Ana Sofia P S Reboleira and Melissa M Rohde and David Sánchez Fernández and Susanne I Schmidt and Mieke Van Der Heyde and Louise Weaver and Nicole E White and Maja Zagmajster and Ian Hogg and Albert Ruhi and Marthe M Gagnon and Morten E Allentoft and Robert Reinecke}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2024/01/2023-Saccò-Global-Change-Biology-64.pdf https://onlinelibrary.wiley.com/doi/10.1111/gcb.17066}, doi = {10.1111/gcb.17066}, issn = {1354-1013, 1365-2486}, year = {2023}, date = {2023-12-18}, urldate = {2024-01-09}, journal = {Global Change Biology}, volume = {30}, number = {1}, pages = {e17066}, abstract = {Abstract Groundwater is a vital ecosystem of the global water cycle, hosting unique biodiversity and providing essential services to societies. Despite being the largest unfrozen freshwater resource, in a period of depletion by extraction and pollution, groundwater environments have been repeatedly overlooked in global biodiversity conservation agendas. Disregarding the importance of groundwater as an ecosystem ignores its critical role in preserving surface biomes. To foster timely global conservation of groundwater, we propose elevating the concept of keystone species into the realm of ecosystems, claiming groundwater as a keystone ecosystem that influences the integrity of many dependent ecosystems. Our global analysis shows that over half of land surface areas (52.6%) has a medium‐to‐high interaction with groundwater, reaching up to 74.9% when deserts and high mountains are excluded. We postulate that the intrinsic transboundary features of groundwater are critical for shifting perspectives towards more holistic approaches in aquatic ecology and beyond. Furthermore, we propose eight key themes to develop a science‐policy integrated groundwater conservation agenda. Given ecosystems above and below the ground intersect at many levels, considering groundwater as an essential component of planetary health is pivotal to reduce biodiversity loss and buffer against climate change.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Groundwater is a vital ecosystem of the global water cycle, hosting unique biodiversity and providing essential services to societies. Despite being the largest unfrozen freshwater resource, in a period of depletion by extraction and pollution, groundwater environments have been repeatedly overlooked in global biodiversity conservation agendas. Disregarding the importance of groundwater as an ecosystem ignores its critical role in preserving surface biomes. To foster timely global conservation of groundwater, we propose elevating the concept of keystone species into the realm of ecosystems, claiming groundwater as a keystone ecosystem that influences the integrity of many dependent ecosystems. Our global analysis shows that over half of land surface areas (52.6%) has a medium‐to‐high interaction with groundwater, reaching up to 74.9% when deserts and high mountains are excluded. We postulate that the intrinsic transboundary features of groundwater are critical for shifting perspectives towards more holistic approaches in aquatic ecology and beyond. Furthermore, we propose eight key themes to develop a science‐policy integrated groundwater conservation agenda. Given ecosystems above and below the ground intersect at many levels, considering groundwater as an essential component of planetary health is pivotal to reduce biodiversity loss and buffer against climate change. |
Grypioti, Emilia; Richard, Hugues; Kryovrysanaki, Nikoleta; Jaubert, Marianne; Falciatore, Angela; Verret, Frédéric; Kalantidis, Kriton Dicer‐dependent heterochromatic small textlessspan style= Journal Article New Phytologist, pp. nph.19429, 2023, ISSN: 0028-646X, 1469-8137. @article{grypioti_dicerdependent_2023, title = {Dicer‐dependent heterochromatic small textlessspan style=}, author = {Emilia Grypioti and Hugues Richard and Nikoleta Kryovrysanaki and Marianne Jaubert and Angela Falciatore and Frédéric Verret and Kriton Kalantidis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/12/2023-Grypioti-E-New-Phytol-63.pdf https://nph.onlinelibrary.wiley.com/doi/10.1111/nph.19429}, doi = {10.1111/nph.19429}, issn = {0028-646X, 1469-8137}, year = {2023}, date = {2023-12-11}, urldate = {2023-12-11}, journal = {New Phytologist}, pages = {nph.19429}, abstract = {Summary Diatoms are eukaryotic microalgae responsible for nearly half of the marine productivity. RNA interference (RNAi) is a mechanism of regulation of gene expression mediated by small RNAs (sRNAs) processed by the endoribonuclease Dicer (DCR). To date, the mechanism and physiological role of RNAi in diatoms are unknown. We mined diatom genomes and transcriptomes for key RNAi effectors and retraced their phylogenetic history. We generated DCR knockout lines in the model diatom species Phaeodactylum tricornutum and analyzed their mRNA and sRNA populations, repression‐associated histone marks, and acclimatory response to nitrogen starvation. Diatoms presented a diversification of key RNAi effectors whose distribution across species suggests the presence of distinct RNAi pathways. P. tricornutum DCR was found to process 26–31‐nt‐long double‐stranded sRNAs originating mostly from transposons covered by repression‐associated epigenetic marks. In parallel, P. tricornutum DCR was necessary for the maintenance of the repression‐associated histone marks H3K9me2/3 and H3K27me3. Finally, PtDCR‐KO lines presented a compromised recovery post nitrogen starvation suggesting a role for P. tricornutum DCR in the acclimation to nutrient stress. Our study characterized the molecular function of the single DCR homolog of P. tricornutum suggesting an association between RNAi and heterochromatin maintenance in this model diatom species.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Summary Diatoms are eukaryotic microalgae responsible for nearly half of the marine productivity. RNA interference (RNAi) is a mechanism of regulation of gene expression mediated by small RNAs (sRNAs) processed by the endoribonuclease Dicer (DCR). To date, the mechanism and physiological role of RNAi in diatoms are unknown. We mined diatom genomes and transcriptomes for key RNAi effectors and retraced their phylogenetic history. We generated DCR knockout lines in the model diatom species Phaeodactylum tricornutum and analyzed their mRNA and sRNA populations, repression‐associated histone marks, and acclimatory response to nitrogen starvation. Diatoms presented a diversification of key RNAi effectors whose distribution across species suggests the presence of distinct RNAi pathways. P. tricornutum DCR was found to process 26–31‐nt‐long double‐stranded sRNAs originating mostly from transposons covered by repression‐associated epigenetic marks. In parallel, P. tricornutum DCR was necessary for the maintenance of the repression‐associated histone marks H3K9me2/3 and H3K27me3. Finally, PtDCR‐KO lines presented a compromised recovery post nitrogen starvation suggesting a role for P. tricornutum DCR in the acclimation to nutrient stress. Our study characterized the molecular function of the single DCR homolog of P. tricornutum suggesting an association between RNAi and heterochromatin maintenance in this model diatom species. |
Varamogianni-Mamatsi, Despoina; Nunes, Maria João; Marques, Vanda; Anastasiou, Thekla I; Kagiampaki, Eirini; Vernadou, Emmanouela; Dailianis, Thanos; Kalogerakis, Nicolas; Branco, Luís C; Rodrigues, Cecília M P; Sobral, Rita G; Gaudêncio, Susana P; Mandalakis, Manolis Marine Drugs, 21 (12), pp. 612, 2023, ISSN: 1660-3397. @article{varamogianni-mamatsi_comparative_2023, title = {Comparative Chemical Profiling and Antimicrobial/Anticancer Evaluation of Extracts from Farmed versus Wild Agelas oroides and Sarcotragus foetidus Sponges}, author = {Despoina Varamogianni-Mamatsi and Maria João Nunes and Vanda Marques and Thekla I Anastasiou and Eirini Kagiampaki and Emmanouela Vernadou and Thanos Dailianis and Nicolas Kalogerakis and Luís C Branco and Cecília M P Rodrigues and Rita G Sobral and Susana P Gaudêncio and Manolis Mandalakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/12/2023-Varamogianni-Mamatsi-marinedrugs-62.pdf https://www.mdpi.com/1660-3397/21/12/612}, doi = {10.3390/md21120612}, issn = {1660-3397}, year = {2023}, date = {2023-12-04}, urldate = {2023-12-05}, journal = {Marine Drugs}, volume = {21}, number = {12}, pages = {612}, abstract = {Marine sponges are highly efficient in removing organic pollutants and their cultivation, adjacent to fish farms, is increasingly considered as a strategy for improving seawater quality. Moreover, these invertebrates produce a plethora of bioactive metabolites, which could translate into an extra profit for the aquaculture sector. Here, we investigated the chemical profile and bioactivity of two Mediterranean species (i.e., Agelas oroides and Sarcotragus foetidus) and we assessed whether cultivated sponges differed substantially from their wild counterparts. Metabolomic analysis of crude sponge extracts revealed species-specific chemical patterns, with A. oroides and S. foetidus dominated by alkaloids and lipids, respectively. More importantly, farmed and wild explants of each species demonstrated similar chemical fingerprints, with the majority of the metabolites showing modest differences on a sponge mass-normalized basis. Furthermore, farmed sponge extracts presented similar or slightly lower antibacterial activity against methicillin-resistant Staphylococcus aureus, compared to the extracts resulting from wild sponges. Anticancer assays against human colorectal carcinoma cells (HCT-116) revealed marginally active extracts from both wild and farmed S. foetidus populations. Our study highlights that, besides mitigating organic pollution in fish aquaculture, sponge farming can serve as a valuable resource of biomolecules, with promising potential in pharmaceutical and biomedical applications.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Marine sponges are highly efficient in removing organic pollutants and their cultivation, adjacent to fish farms, is increasingly considered as a strategy for improving seawater quality. Moreover, these invertebrates produce a plethora of bioactive metabolites, which could translate into an extra profit for the aquaculture sector. Here, we investigated the chemical profile and bioactivity of two Mediterranean species (i.e., Agelas oroides and Sarcotragus foetidus) and we assessed whether cultivated sponges differed substantially from their wild counterparts. Metabolomic analysis of crude sponge extracts revealed species-specific chemical patterns, with A. oroides and S. foetidus dominated by alkaloids and lipids, respectively. More importantly, farmed and wild explants of each species demonstrated similar chemical fingerprints, with the majority of the metabolites showing modest differences on a sponge mass-normalized basis. Furthermore, farmed sponge extracts presented similar or slightly lower antibacterial activity against methicillin-resistant Staphylococcus aureus, compared to the extracts resulting from wild sponges. Anticancer assays against human colorectal carcinoma cells (HCT-116) revealed marginally active extracts from both wild and farmed S. foetidus populations. Our study highlights that, besides mitigating organic pollution in fish aquaculture, sponge farming can serve as a valuable resource of biomolecules, with promising potential in pharmaceutical and biomedical applications. |
Sarafidou, Georgia; Tsaparis, Dimitris; Issaris, Yiannis; Chatzigeorgiou, Giorgos; Grigoriou, Panos; Chatzinikolaou, Eva; Pavloudi, Christina Insights on Pinna nobilis population genetic structure in the Aegean and Ionian Sea Journal Article PeerJ, 11 , pp. e16491, 2023, ISSN: 2167-8359. @article{sarafidou_insights_2023, title = {Insights on \textit{Pinna nobilis} population genetic structure in the Aegean and Ionian Sea}, author = {Georgia Sarafidou and Dimitris Tsaparis and Yiannis Issaris and Giorgos Chatzigeorgiou and Panos Grigoriou and Eva Chatzinikolaou and Christina Pavloudi}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/12/2023-Sarafidou-peerj-61.pdf https://peerj.com/articles/16491}, doi = {10.7717/peerj.16491}, issn = {2167-8359}, year = {2023}, date = {2023-12-01}, urldate = {2023-12-01}, journal = {PeerJ}, volume = {11}, pages = {e16491}, abstract = {The fan mussel Pinna nobilis Linnaeus, 1758 is an endemic species of the Mediterranean Sea, protected by international agreements. It is one of the largest bivalves in the world, playing an important role in the benthic communities; yet it has been recently characterized as Critically Endangered by the IUCN, due to mass mortality events. In this context, the assessment of the genetic variation of the remaining P. nobilis populations and the evaluation of connectivity among them are crucial elements for the conservation of the species. For this purpose, samples were collected from six regions of the Eastern Mediterranean Sea; the Islands of Karpathos, Lesvos and Crete; the Chalkidiki and Attica Peninsulas; and the Amvrakikos Gulf. Sampling was performed either by collecting tissue from the individuals or by using a non-invasive method, i.e. , by scraping the inside of their shells aiming to collect their mucus and thus avoid stress induction to them. Conventional molecular techniques with the use of the COI and 16S rRNA mitochondrial markers were selected for the depiction of the intra-population genetic variability. The analyses included 104 samples from the present study and publicly available sequences of individuals across the whole Mediterranean Sea. The results of this work (a) suggest the use of eDNA as an efficient sampling method for protected bivalves and (b) shed light to the genetic structure of P. nobilis population in the Eastern Mediterranean; this latter knowledge might prove to be fundamental for the species conservation and hence the ecosystem resilience. The haplotype analyses reinforced the evidence that there is a certain degree of connectivity among the distinct regions of the Mediterranean; yet there is evidence of population distinction within the basin, namely between the Western and the Eastern basins. The combination of both genetic markers in the same analysis along with the inclusion of a large number of individuals produced more robust results, revealing a group of haplotypes being present only in the Eastern Mediterranean and providing insights for the species’ most suitable conservation management.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The fan mussel Pinna nobilis Linnaeus, 1758 is an endemic species of the Mediterranean Sea, protected by international agreements. It is one of the largest bivalves in the world, playing an important role in the benthic communities; yet it has been recently characterized as Critically Endangered by the IUCN, due to mass mortality events. In this context, the assessment of the genetic variation of the remaining P. nobilis populations and the evaluation of connectivity among them are crucial elements for the conservation of the species. For this purpose, samples were collected from six regions of the Eastern Mediterranean Sea; the Islands of Karpathos, Lesvos and Crete; the Chalkidiki and Attica Peninsulas; and the Amvrakikos Gulf. Sampling was performed either by collecting tissue from the individuals or by using a non-invasive method, i.e. , by scraping the inside of their shells aiming to collect their mucus and thus avoid stress induction to them. Conventional molecular techniques with the use of the COI and 16S rRNA mitochondrial markers were selected for the depiction of the intra-population genetic variability. The analyses included 104 samples from the present study and publicly available sequences of individuals across the whole Mediterranean Sea. The results of this work (a) suggest the use of eDNA as an efficient sampling method for protected bivalves and (b) shed light to the genetic structure of P. nobilis population in the Eastern Mediterranean; this latter knowledge might prove to be fundamental for the species conservation and hence the ecosystem resilience. The haplotype analyses reinforced the evidence that there is a certain degree of connectivity among the distinct regions of the Mediterranean; yet there is evidence of population distinction within the basin, namely between the Western and the Eastern basins. The combination of both genetic markers in the same analysis along with the inclusion of a large number of individuals produced more robust results, revealing a group of haplotypes being present only in the Eastern Mediterranean and providing insights for the species’ most suitable conservation management. |
Navarro-Barranco, Carlos; Martínez, Alejandro; Sempere-Valverde, Juan; Chebaane, Sahar; Digenis, Markos; Plaitis, Wanda; Voultsiadou, Eleni; Gerovasileiou, Vasilis Amphipods in Mediterranean Marine and Anchialine Caves: New Data and Overview of Existing Knowledge Journal Article Diversity, 15 (12), pp. 1180, 2023, ISSN: 1424-2818. @article{navarro-barranco_amphipods_2023, title = {Amphipods in Mediterranean Marine and Anchialine Caves: New Data and Overview of Existing Knowledge}, author = {Carlos Navarro-Barranco and Alejandro Martínez and Juan Sempere-Valverde and Sahar Chebaane and Markos Digenis and Wanda Plaitis and Eleni Voultsiadou and Vasilis Gerovasileiou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/11/2023-Navarro-Barranco-Diversity-60.pdf https://www.mdpi.com/1424-2818/15/12/1180}, doi = {10.3390/d15121180}, issn = {1424-2818}, year = {2023}, date = {2023-11-29}, urldate = {2023-11-29}, journal = {Diversity}, volume = {15}, number = {12}, pages = {1180}, abstract = {Marine and anchialine caves host specialized faunal communities with a variable degree of endemism and functional specialization. However, biodiversity assessments on this habitat are scarce, particularly in relation to small-sized cryptic fauna (such as amphipods), which often play a key role in benthic ecosystems. The present article compiles all records of marine and brackish-water amphipods inhabiting marine and anchialine caves along the Mediterranean basin, combining information extracted from a literature review with newly acquired records. A total of 106 amphipod species has been reported (representing approximately 20% of the Mediterranean amphipod species), mostly from the North-Western Mediterranean. Examination of new material from marine caves in Greece has yielded 14 new records from the East Ionian and Aegean Sea. Most of the reported species display wide ecological amplitude in terms of habitat and substrate preferences, feeding habits as well as bathymetric and geographical distribution. In contrast, only 17 amphipod species have been reported from marine-brackish waters in anchialine caves, predominantly represented by cave specialists with a narrow spatial distribution and distinct morphological traits. Our overall knowledge on amphipods inhabiting Mediterranean caves is far from complete so that new and valuable findings are expected to occur as new caves are explored.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Marine and anchialine caves host specialized faunal communities with a variable degree of endemism and functional specialization. However, biodiversity assessments on this habitat are scarce, particularly in relation to small-sized cryptic fauna (such as amphipods), which often play a key role in benthic ecosystems. The present article compiles all records of marine and brackish-water amphipods inhabiting marine and anchialine caves along the Mediterranean basin, combining information extracted from a literature review with newly acquired records. A total of 106 amphipod species has been reported (representing approximately 20% of the Mediterranean amphipod species), mostly from the North-Western Mediterranean. Examination of new material from marine caves in Greece has yielded 14 new records from the East Ionian and Aegean Sea. Most of the reported species display wide ecological amplitude in terms of habitat and substrate preferences, feeding habits as well as bathymetric and geographical distribution. In contrast, only 17 amphipod species have been reported from marine-brackish waters in anchialine caves, predominantly represented by cave specialists with a narrow spatial distribution and distinct morphological traits. Our overall knowledge on amphipods inhabiting Mediterranean caves is far from complete so that new and valuable findings are expected to occur as new caves are explored. |
Stamouli, Caterina; Gerovasileiou, Vasilis; Voultsiadou, Eleni Sponge Community Patterns in Mesophotic and Deep-Sea Habitats in the Aegean and Ionian Seas Journal Article Journal of Marine Science and Engineering, 11 (11), pp. 2204, 2023, ISSN: 2077-1312. @article{stamouli_sponge_2023, title = {Sponge Community Patterns in Mesophotic and Deep-Sea Habitats in the Aegean and Ionian Seas}, author = {Caterina Stamouli and Vasilis Gerovasileiou and Eleni Voultsiadou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/11/2023-Stamouli-JMSE-59.pdf https://www.mdpi.com/2077-1312/11/11/2204}, doi = {10.3390/jmse11112204}, issn = {2077-1312}, year = {2023}, date = {2023-11-22}, urldate = {2023-11-22}, journal = {Journal of Marine Science and Engineering}, volume = {11}, number = {11}, pages = {2204}, abstract = {Sponge assemblages play a significant role in the functioning of the Mediterranean benthic ecosystem. The main goal of this study was to investigate the diversity and distribution of poorly known sponge communities in the mesophotic and deep-sea substrates of the eastern Mediterranean Sea. More than 1500 sponge specimens belonging to 87 taxa were collected from 156 stations during experimental and commercial bottom trawling in the Aegean Sea and the eastern part of the Ionian ecoregion, at depths of between 10 and 800 m. A total of 79 sponge species were found in the Aegean and 40 species in the Ionian Sea. Eight of these species are included in lists of endangered and threatened species, two were newly recorded in the Aegean and six were first recorded in the east Ionian Sea. Both community structure and diversity differed between the two ecoregions. Species richness, biomass, abundance and diversity decreased with increasing depth, while different species dominated, in terms of biomass, abundance and frequency of appearance, in the two ecoregions and the separate depth zones. In contrast with previous investigations, which mostly examined shallow-water sponges, no clear resemblance patterns were observed among the north and south Aegean subareas, probably due to the homogeneity of the deep-sea habitats under investigation. This study, using sampling material from fish stock monitoring programs for the first time, contributed to our knowledge of the largely unknown eastern Mediterranean mesophotic and deep-sea sponge populations, which are subjected to intensive trawling activities.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Sponge assemblages play a significant role in the functioning of the Mediterranean benthic ecosystem. The main goal of this study was to investigate the diversity and distribution of poorly known sponge communities in the mesophotic and deep-sea substrates of the eastern Mediterranean Sea. More than 1500 sponge specimens belonging to 87 taxa were collected from 156 stations during experimental and commercial bottom trawling in the Aegean Sea and the eastern part of the Ionian ecoregion, at depths of between 10 and 800 m. A total of 79 sponge species were found in the Aegean and 40 species in the Ionian Sea. Eight of these species are included in lists of endangered and threatened species, two were newly recorded in the Aegean and six were first recorded in the east Ionian Sea. Both community structure and diversity differed between the two ecoregions. Species richness, biomass, abundance and diversity decreased with increasing depth, while different species dominated, in terms of biomass, abundance and frequency of appearance, in the two ecoregions and the separate depth zones. In contrast with previous investigations, which mostly examined shallow-water sponges, no clear resemblance patterns were observed among the north and south Aegean subareas, probably due to the homogeneity of the deep-sea habitats under investigation. This study, using sampling material from fish stock monitoring programs for the first time, contributed to our knowledge of the largely unknown eastern Mediterranean mesophotic and deep-sea sponge populations, which are subjected to intensive trawling activities. |
Villa, Yanelys Cantillo; Triga, Adriana; Katharios, Pantelis Polyinfection in Fish Aeromoniasis: A Study of Co-Isolated Aeromonas Species in Aeromonas veronii Outbreaks Journal Article Pathogens, 12 (11), pp. 1337, 2023, ISSN: 2076-0817. @article{cantillo_villa_polyinfection_2023, title = {Polyinfection in Fish Aeromoniasis: A Study of Co-Isolated Aeromonas Species in Aeromonas veronii Outbreaks}, author = {Yanelys Cantillo Villa and Adriana Triga and Pantelis Katharios}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/11/2023-Cantillo-Villa-pathogens-58.pdf https://www.mdpi.com/2076-0817/12/11/1337}, doi = {10.3390/pathogens12111337}, issn = {2076-0817}, year = {2023}, date = {2023-11-13}, urldate = {2023-11-14}, journal = {Pathogens}, volume = {12}, number = {11}, pages = {1337}, abstract = {We studied the phenotypic and genomic characteristics related to the virulence and antibiotic resistance of two Aeromonas strains, which were co-isolated before an outbreak of Aeromonas veronii among diseased seabass on Agathonisi Island, Greece, in April 2015. The first strain, AG2.13.2, is a potentially pathogenic mesophilic variant of Aeromonas salmonicida, and the second, AG2.13.5, corresponds to an Aeromonas rivipollensis related to A. rivipollensis KN-Mc-11N1 with an ANI value of 97.32%. AG2.13.2 lacks the type III secretion system just like other mesophilic strains of A. salmonicida. This characteristic has been associated with lower virulence. However, the genome of AG2.13.2 contains other important virulence factors such as type II and type VI secretion systems, and toxins such as rtxA, aerolysin aer/act, and different types of hemolysins. The strain also carries several genes associated with antibiotic resistance such as the tetE efflux pump, and exhibits resistance to tetracycline, ampicillin, and oxolinic acid. In an in vivo challenge test with gilthead seabream larvae, the A. veronii bv sobria strain AG5.28.6 exhibited the highest virulence among all tested strains. Conversely, both A. salmonicida and A. rivipollensis showed minimal virulence when administered alone. Interestingly, when A. veronii bv sobria AG5.28.6 was co-administered with A. rivipollensis, the larvae survival probability increased compared to those exposed to A. veronii bv sobria AG5.28.6 alone. This finding indicates an antagonistic interaction between A. veronii bv sobria AG5.28.6 and A. rivipollensis AG2.13.5. The co-administration of A. veronii bv sobria AG5.28.6 with Aeromonas salmonicida did not yield distinct survival probabilities. Our results validate that the primary pathogen responsible for European seabass aeromoniasis is Aeromonas veronii bv sobria.}, keywords = {}, pubstate = {published}, tppubtype = {article} } We studied the phenotypic and genomic characteristics related to the virulence and antibiotic resistance of two Aeromonas strains, which were co-isolated before an outbreak of Aeromonas veronii among diseased seabass on Agathonisi Island, Greece, in April 2015. The first strain, AG2.13.2, is a potentially pathogenic mesophilic variant of Aeromonas salmonicida, and the second, AG2.13.5, corresponds to an Aeromonas rivipollensis related to A. rivipollensis KN-Mc-11N1 with an ANI value of 97.32%. AG2.13.2 lacks the type III secretion system just like other mesophilic strains of A. salmonicida. This characteristic has been associated with lower virulence. However, the genome of AG2.13.2 contains other important virulence factors such as type II and type VI secretion systems, and toxins such as rtxA, aerolysin aer/act, and different types of hemolysins. The strain also carries several genes associated with antibiotic resistance such as the tetE efflux pump, and exhibits resistance to tetracycline, ampicillin, and oxolinic acid. In an in vivo challenge test with gilthead seabream larvae, the A. veronii bv sobria strain AG5.28.6 exhibited the highest virulence among all tested strains. Conversely, both A. salmonicida and A. rivipollensis showed minimal virulence when administered alone. Interestingly, when A. veronii bv sobria AG5.28.6 was co-administered with A. rivipollensis, the larvae survival probability increased compared to those exposed to A. veronii bv sobria AG5.28.6 alone. This finding indicates an antagonistic interaction between A. veronii bv sobria AG5.28.6 and A. rivipollensis AG2.13.5. The co-administration of A. veronii bv sobria AG5.28.6 with Aeromonas salmonicida did not yield distinct survival probabilities. Our results validate that the primary pathogen responsible for European seabass aeromoniasis is Aeromonas veronii bv sobria. |
Zafeiropoulos, Haris; Beracochea, Martin; Ninidakis, Stelios; Exter, Katrina; Potirakis, Antonis; De Moro, Gianluca; Richardson, Lorna; Corre, Erwan; Machado, João; Pafilis, Evangelos; Kotoulas, Georgios; Santi, Ioulia; Finn, Robert D; Cox, Cymon J; Pavloudi, Christina metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data Journal Article GigaScience, 12 , pp. giad078, 2023, ISSN: 2047-217X. @article{zafeiropoulos_metagoflow_2022, title = {metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data}, author = {Haris Zafeiropoulos and Martin Beracochea and Stelios Ninidakis and Katrina Exter and Antonis Potirakis and Gianluca De Moro and Lorna Richardson and Erwan Corre and João Machado and Evangelos Pafilis and Georgios Kotoulas and Ioulia Santi and Robert D Finn and Cymon J Cox and Christina Pavloudi}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Zafeiropoulos-GiGa-57.pdf https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giad078/7321054}, doi = {10.1093/gigascience/giad078}, issn = {2047-217X}, year = {2023}, date = {2023-10-19}, urldate = {2023-10-23}, journal = {GigaScience}, volume = {12}, pages = {giad078}, abstract = {Abstract Background Genomic Observatories (GOs) are sites of long-term scientific study that undertake regular assessments of the genomic biodiversity. The European Marine Omics Biodiversity Observation Network (EMO BON) is a network of GOs that conduct regular biological community samplings to generate environmental and metagenomic data of microbial communities from designated marine stations around Europe. The development of an effective workflow is essential for the analysis of the EMO BON metagenomic data in a timely and reproducible manner. Findings Based on the established MGnify resource, we developed metaGOflow. metaGOflow supports the fast inference of taxonomic profiles from GO-derived data based on ribosomal RNA genes and their functional annotation using the raw reads. Thanks to the Research Object Crate packaging, relevant metadata about the sample under study, and the details of the bioinformatics analysis it has been subjected to, are inherited to the data product while its modular implementation allows running the workflow partially. The analysis of 2 EMO BON samples and 1 Tara Oceans sample was performed as a use case. Conclusions metaGOflow is an efficient and robust workflow that scales to the needs of projects producing big metagenomic data such as EMO BON. It highlights how containerization technologies along with modern workflow languages and metadata package approaches can support the needs of researchers when dealing with ever-increasing volumes of biological data. Despite being initially oriented to address the needs of EMO BON, metaGOflow is a flexible and easy-to-use workflow that can be broadly used for one-sample-at-a-time analysis of shotgun metagenomics data.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Background Genomic Observatories (GOs) are sites of long-term scientific study that undertake regular assessments of the genomic biodiversity. The European Marine Omics Biodiversity Observation Network (EMO BON) is a network of GOs that conduct regular biological community samplings to generate environmental and metagenomic data of microbial communities from designated marine stations around Europe. The development of an effective workflow is essential for the analysis of the EMO BON metagenomic data in a timely and reproducible manner. Findings Based on the established MGnify resource, we developed metaGOflow. metaGOflow supports the fast inference of taxonomic profiles from GO-derived data based on ribosomal RNA genes and their functional annotation using the raw reads. Thanks to the Research Object Crate packaging, relevant metadata about the sample under study, and the details of the bioinformatics analysis it has been subjected to, are inherited to the data product while its modular implementation allows running the workflow partially. The analysis of 2 EMO BON samples and 1 Tara Oceans sample was performed as a use case. Conclusions metaGOflow is an efficient and robust workflow that scales to the needs of projects producing big metagenomic data such as EMO BON. It highlights how containerization technologies along with modern workflow languages and metadata package approaches can support the needs of researchers when dealing with ever-increasing volumes of biological data. Despite being initially oriented to address the needs of EMO BON, metaGOflow is a flexible and easy-to-use workflow that can be broadly used for one-sample-at-a-time analysis of shotgun metagenomics data. |
Chen, I-Hao; Georgopoulou, Dimitra G; Ebbesson, Lars O E; Voskakis, Dimitris; Lal, Pradeep; Papandroulakis, Nikos Food anticipatory behaviour on European seabass in sea cages: activity-, positioning-, and density-based approaches Journal Article Frontiers in Marine Science, 10 , pp. 1168953, 2023, ISSN: 2296-7745. @article{chen_food_2023, title = {Food anticipatory behaviour on European seabass in sea cages: activity-, positioning-, and density-based approaches}, author = {I-Hao Chen and Dimitra G Georgopoulou and Lars O E Ebbesson and Dimitris Voskakis and Pradeep Lal and Nikos Papandroulakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Chen-fmars-56.pdf https://www.frontiersin.org/articles/10.3389/fmars.2023.1168953/full}, doi = {10.3389/fmars.2023.1168953}, issn = {2296-7745}, year = {2023}, date = {2023-10-13}, urldate = {2023-10-19}, journal = {Frontiers in Marine Science}, volume = {10}, pages = {1168953}, abstract = {Introduction Farmed fish like European seabass ( Dicentrarchus labrax ) anticipate meals if these are provided at one or multiple fixed times during the day. The increase in locomotor activity is typically known as food anticipatory activity (FAA) and can be observed several hours prior to feeding. Measuring FAA is often done by demand feeders or external sensors such as cameras or light curtains. However, purely locomotor-activity-based FAA may provide an incomplete view of feeding and prefeeding behaviour. Methods Here, we show that FAA can be measured through passive acoustic telemetry utilising three different approaches and suggest that adding more means to food anticipation detection is beneficial. We compared the diving behaviour, acceleration activity, and temperature of 22 tagged individuals over the period of 12 days and observed FAA through locomotor activity, depth position, and density-based unsupervised clustering (i.e., DBSCAN). Results Our results demonstrate that the position- and density-based methods also provide expressions of anticipatory behaviour that can be interchangeable with locomotor-driven FAA or precede it. Discussion We, therefore, support a unified framework for food anticipation: FAA should only describe locomotor-driven FAA. Food anticipatory positioning (FAP) should be a term for position-based (P-FAP) and density-based (D-FAP) methods for food anticipation. Lastly, FAP, together with the newly defined FAA, should become part of an umbrella term that is already in use: food anticipatory behaviour (FAB). Our work provides data-driven approaches to each FAB category and compares them with each other. Furthermore, accurate FAB windows through FAA and FAP can help increase fish welfare in the aquaculture industry, and the more approaches available, the more flexible and more robust the usage of FAB for a holistic view can be achieved.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Introduction Farmed fish like European seabass ( Dicentrarchus labrax ) anticipate meals if these are provided at one or multiple fixed times during the day. The increase in locomotor activity is typically known as food anticipatory activity (FAA) and can be observed several hours prior to feeding. Measuring FAA is often done by demand feeders or external sensors such as cameras or light curtains. However, purely locomotor-activity-based FAA may provide an incomplete view of feeding and prefeeding behaviour. Methods Here, we show that FAA can be measured through passive acoustic telemetry utilising three different approaches and suggest that adding more means to food anticipation detection is beneficial. We compared the diving behaviour, acceleration activity, and temperature of 22 tagged individuals over the period of 12 days and observed FAA through locomotor activity, depth position, and density-based unsupervised clustering (i.e., DBSCAN). Results Our results demonstrate that the position- and density-based methods also provide expressions of anticipatory behaviour that can be interchangeable with locomotor-driven FAA or precede it. Discussion We, therefore, support a unified framework for food anticipation: FAA should only describe locomotor-driven FAA. Food anticipatory positioning (FAP) should be a term for position-based (P-FAP) and density-based (D-FAP) methods for food anticipation. Lastly, FAP, together with the newly defined FAA, should become part of an umbrella term that is already in use: food anticipatory behaviour (FAB). Our work provides data-driven approaches to each FAB category and compares them with each other. Furthermore, accurate FAB windows through FAA and FAP can help increase fish welfare in the aquaculture industry, and the more approaches available, the more flexible and more robust the usage of FAB for a holistic view can be achieved. |
Anastasiou, Thekla I; Kagiampaki, Eirini; Kondylatos, Gerasimos; Tselepides, Anastasios; Peristeraki, Panagiota; Mandalakis, Manolis Marine Drugs, 21 (10), pp. 520, 2023, ISSN: 1660-3397. @article{anastasiou_assessing_2023, title = {Assessing the Toxicity of Lagocephalus sceleratus Pufferfish from the Southeastern Aegean Sea and the Relationship of Tetrodotoxin with Gonadal Hormones}, author = {Thekla I Anastasiou and Eirini Kagiampaki and Gerasimos Kondylatos and Anastasios Tselepides and Panagiota Peristeraki and Manolis Mandalakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Anastasiou-Mardrugs-55.pdf https://www.mdpi.com/1660-3397/21/10/520}, doi = {10.3390/md21100520}, issn = {1660-3397}, year = {2023}, date = {2023-10-11}, urldate = {2023-10-17}, journal = {Marine Drugs}, volume = {21}, number = {10}, pages = {520}, abstract = {Given the dramatic increase in the L. sceleratus population in the southeastern Aegean Sea, there is growing interest in assessing the toxicity of this pufferfish and the factors controlling its tetrodotoxin (TTX) content. In the present study, liver, gonads, muscle and skin of 37 L. sceleratus specimens collected during May and June 2021 from the island of Rhodes, Greece, were subjected to multi-analyte profiling using liquid chromatography-tandem mass spectrometry (LC-MS/MS) in order to quantitate TTX and evaluate whether this biotoxin interrelates with hormones. TTX and its analogues 4-epiTTX, 11-deoxyTTX, 11-norTTX-6-ol, 4,9-anhydroTTX and 5,11/6,11-dideoxyTTX were detected in all tissue types. Liver and gonads were the most toxic tissues, with the highest TTX concentrations being observed in the ovaries of female specimens. Only 22% of the analyzed muscle samples were non-toxic according to the Japanese toxicity threshold (2.2 μg TTX eq g−1), confirming the high poisoning risk from the inadvertent consumption of this species. Four steroid hormones (i.e., cortisol, testosterone, androstenedione and β-estradiol) and the gonadotropin-releasing hormone (GnRH) were detected in the gonads. Androstenedione dominated in female specimens, while GnRH was more abundant in males. A positive correlation of TTX and its analogues with β-estradiol was observed. However, a model incorporating sex rather than β-estradiol as the independent variable proven to be more efficient in predicting TTX concentration, implying that other sex-related characteristics are more important than specific hormone-regulated processes.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Given the dramatic increase in the L. sceleratus population in the southeastern Aegean Sea, there is growing interest in assessing the toxicity of this pufferfish and the factors controlling its tetrodotoxin (TTX) content. In the present study, liver, gonads, muscle and skin of 37 L. sceleratus specimens collected during May and June 2021 from the island of Rhodes, Greece, were subjected to multi-analyte profiling using liquid chromatography-tandem mass spectrometry (LC-MS/MS) in order to quantitate TTX and evaluate whether this biotoxin interrelates with hormones. TTX and its analogues 4-epiTTX, 11-deoxyTTX, 11-norTTX-6-ol, 4,9-anhydroTTX and 5,11/6,11-dideoxyTTX were detected in all tissue types. Liver and gonads were the most toxic tissues, with the highest TTX concentrations being observed in the ovaries of female specimens. Only 22% of the analyzed muscle samples were non-toxic according to the Japanese toxicity threshold (2.2 μg TTX eq g−1), confirming the high poisoning risk from the inadvertent consumption of this species. Four steroid hormones (i.e., cortisol, testosterone, androstenedione and β-estradiol) and the gonadotropin-releasing hormone (GnRH) were detected in the gonads. Androstenedione dominated in female specimens, while GnRH was more abundant in males. A positive correlation of TTX and its analogues with β-estradiol was observed. However, a model incorporating sex rather than β-estradiol as the independent variable proven to be more efficient in predicting TTX concentration, implying that other sex-related characteristics are more important than specific hormone-regulated processes. |
Bousnaki, Maria; Bakopoulou, Athina; Grivas, Ioannis; Bekiari, Chrysa; Pich, Andreas; Rizk, Marta; Keklikoglou, Kleoniki; Papachristou, Eleni; Papadopoulos, Georgios C; Kritis, Aristeidis; Mikos, Antonios G; Koidis, Petros Managing Temporomandibular Joint Osteoarthritis by Dental Stem Cell Secretome Journal Article Stem Cell Reviews and Reports, 2023, ISSN: 2629-3269, 2629-3277. @article{bousnaki_managing_2023, title = {Managing Temporomandibular Joint Osteoarthritis by Dental Stem Cell Secretome}, author = {Maria Bousnaki and Athina Bakopoulou and Ioannis Grivas and Chrysa Bekiari and Andreas Pich and Marta Rizk and Kleoniki Keklikoglou and Eleni Papachristou and Georgios C Papadopoulos and Aristeidis Kritis and Antonios G Mikos and Petros Koidis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Bousnaki.-54.pdf https://link.springer.com/10.1007/s12015-023-10628-9}, doi = {10.1007/s12015-023-10628-9}, issn = {2629-3269, 2629-3277}, year = {2023}, date = {2023-10-09}, urldate = {2023-10-16}, journal = {Stem Cell Reviews and Reports}, abstract = {Abstract The potential therapeutic role of the Dental Pulp Stem Cells Secretome (SECR) in a rat model of experimentally induced Temporomandibular Joint (TMJ) Osteoarthritis (OA) was evaluated. Proteomic profiling of the human SECR under specific oxygen tension (5% O2) and stimulation with Tumor Necrosis Factor-alpha (TNF-α) was performed. SECR and respective cell lysates (CL) samples were collected and subjected to SDS-PAGE, followed by LC-MS/MS analysis. The identified proteins were analyzed with Bioinformatic tools. The anti-inflammatory properties of SECR were assessed via an in vitro murine macrophages model, and were further validated in vivo, in a rat model of chemically-induced TMJ-OA by weekly recording of the head withdrawal threshold, the food intake, and the weight change, and radiographically and histologically at 4- and 8-weeks post-treatment. SECR analysis revealed the presence of 50 proteins that were enriched and/or statistically significantly upregulated compared to CL, while many of those proteins were involved in pathways related to “extracellular matrix organization” and “immune system”. SECR application in vitro led to a significant downregulation on the expression of pro-inflammatory genes (MMP-13, MMP-9, MMP-3 and MCP-1), while maintaining an increased expression of IL-10 and IL-6. SECR application in vivo had a significant positive effect on all the clinical parameters, resulting in improved food intake, weight, and pain suppression. Radiographically, SECR application had a significant positive effect on trabecular bone thickness and bone density compared to the saline-treated group. Histological analysis indicated that SECR administration reduced inflammation, enhanced ECM and subchondral bone repair and regeneration, thus alleviating TMJ degeneration. Graphical Abstract}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract The potential therapeutic role of the Dental Pulp Stem Cells Secretome (SECR) in a rat model of experimentally induced Temporomandibular Joint (TMJ) Osteoarthritis (OA) was evaluated. Proteomic profiling of the human SECR under specific oxygen tension (5% O2) and stimulation with Tumor Necrosis Factor-alpha (TNF-α) was performed. SECR and respective cell lysates (CL) samples were collected and subjected to SDS-PAGE, followed by LC-MS/MS analysis. The identified proteins were analyzed with Bioinformatic tools. The anti-inflammatory properties of SECR were assessed via an in vitro murine macrophages model, and were further validated in vivo, in a rat model of chemically-induced TMJ-OA by weekly recording of the head withdrawal threshold, the food intake, and the weight change, and radiographically and histologically at 4- and 8-weeks post-treatment. SECR analysis revealed the presence of 50 proteins that were enriched and/or statistically significantly upregulated compared to CL, while many of those proteins were involved in pathways related to “extracellular matrix organization” and “immune system”. SECR application in vitro led to a significant downregulation on the expression of pro-inflammatory genes (MMP-13, MMP-9, MMP-3 and MCP-1), while maintaining an increased expression of IL-10 and IL-6. SECR application in vivo had a significant positive effect on all the clinical parameters, resulting in improved food intake, weight, and pain suppression. Radiographically, SECR application had a significant positive effect on trabecular bone thickness and bone density compared to the saline-treated group. Histological analysis indicated that SECR administration reduced inflammation, enhanced ECM and subchondral bone repair and regeneration, thus alleviating TMJ degeneration. Graphical Abstract |
Bilbao, Jone; Pavloudi, Christina; Blanco-Rayón, Esther; Franco, Javier; Madariaga, Iosu; Seoane, Sergio Marine Environmental Research, 191 , pp. 106175, 2023, ISSN: 01411136. @article{bilbao_phytoplankton_2023, title = {Phytoplankton community composition in relation to environmental variability in the Urdaibai estuary (SE Bay of Biscay): Microscopy and eDNA metabarcoding}, author = {Jone Bilbao and Christina Pavloudi and Esther Blanco-Rayón and Javier Franco and Iosu Madariaga and Sergio Seoane}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Bilbao-MERes-53.pdf https://linkinghub.elsevier.com/retrieve/pii/S0141113623003033}, doi = {10.1016/j.marenvres.2023.106175}, issn = {01411136}, year = {2023}, date = {2023-10-06}, urldate = {2023-10-13}, journal = {Marine Environmental Research}, volume = {191}, pages = {106175}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Publications
2024 |
The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity Journal Article F1000Research, 12 , pp. 499, 2024, ISSN: 2046-1402. |
Aquaculture Nutrition, 2024 , pp. 1–15, 2024, ISSN: 1365-2095, 1353-5773. |
Frontiers in Marine Science, 11 , pp. 1358793, 2024, ISSN: 2296-7745. |
Fishes in Marine Caves Journal Article Fishes, 9 (6), pp. 243, 2024, ISSN: 2410-3888. |
Aquaculture, 592 , pp. 741214, 2024, ISSN: 00448486. |
The conservation status of the Cretan endemic Arthropods under Natura 2000 network Journal Article Biodiversity and Conservation, 2024, ISSN: 0960-3115, 1572-9710. |
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. |
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. |
The bioinformatics landscape in environmental omics: Lessons from a national ELIXIR survey Journal Article iScience, 27 (6), pp. 110062, 2024, ISSN: 25890042. |
Visualizing metagenomic and metatranscriptomic data: A comprehensive review Journal Article Computational and Structural Biotechnology Journal, 23 , pp. 2011–2033, 2024, ISSN: 20010370. |
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. |
Extensive Loss and Gain of Conserved Noncoding Elements During Early Teleost Evolution Journal Article Genome Biology and Evolution, 16 (4), pp. evae061, 2024, ISSN: 1759-6653. |
Virulence and pangenome analysis of Vibrio harveyi strains from Greek and Red Sea marine aquaculture Journal Article Aquaculture, 587 , pp. 740839, 2024, ISSN: 00448486. |
New records of rarely reported species in the Mediterranean Sea (March 2024) Journal Article Mediterranean Marine Science, 25 (1), pp. 84–115, 2024, ISSN: 1791-6763, 1108-393X. |
Hazardous explosive eruptions of a recharging multi-cyclic island arc caldera Journal Article Nature Geoscience, 2024, ISSN: 1752-0894, 1752-0908. |
The lifeblood of LifeWatch ERIC: national in-kind contributions Journal Article Research Ideas and Outcomes, 10 , pp. e121887, 2024, ISSN: 2367-7163. |
Towards invasion ecology for subterranean ecosystems Journal Article Biodiversity and Conservation, 33 (4), pp. 1561–1569, 2024, ISSN: 0960-3115, 1572-9710. |
The Devil Firefish Pterois miles (Bennett, 1828): Life History Traits of a Potential Fishing Resource in Rhodes (Eastern Mediterranean) Journal Article Hydrobiology, 3 (1), pp. 31–50, 2024, ISSN: 2673-9917. |
Aquaculture, 582 , pp. 740569, 2024, ISSN: 00448486. |
MnO2 nanoparticles trigger hepatic lipotoxicity and mitophagy via mtROS-dependent Hsf1Ser326 phosphorylation Journal Article Free Radical Biology and Medicine, 210 , pp. 390–405, 2024, ISSN: 08915849. |
Frontiers in Fish Science, 2 , pp. 1356313, 2024, ISSN: 2813-9097. |
Swimming behavior as a potential metric to detect satiation levels of European seabass in marine cages Journal Article Frontiers in Marine Science, 11 , pp. 1350385, 2024, ISSN: 2296-7745. |
Gonadotropin expression, pituitary and plasma levels in the reproductive cycle of wild and captive-reared greater amberjack (Seriola dumerili) Journal Article General and Comparative Endocrinology, 350 , pp. 114465, 2024, ISSN: 00166480. |
Fishes, 9 (2), pp. 69, 2024, ISSN: 2410-3888. |
Digital Twins in intensive aquaculture — Challenges, opportunities and future prospects Journal Article Computers and Electronics in Agriculture, 218 , pp. 108676, 2024, ISSN: 01681699. |
A guide to the use of bioassays in exploration of natural resources Journal Article Biotechnology Advances, 71 , pp. 108307, 2024, ISSN: 07349750. |
Advancing fish breeding in aquaculture through genome functional annotation Journal Article Aquaculture, 583 , pp. 740589, 2024, ISSN: 00448486. |
Effects of different hormonal treatments on spermatogenesis advancement in hatchery-produced greater amberjack Seriola dumerili (Risso 1810) Journal Article 348 , pp. 114447, 2024, ISSN: 00166480. |
Microbial diversity in four Mediterranean irciniid sponges Journal Article Biodiversity Data Journal, 12 , pp. e114809, 2024, ISSN: 1314-2828, 1314-2836. |
Giant offshore pumice deposit records a shallow submarine explosive eruption of ancestral Santorini Journal Article Communications Earth & Environment, 5 (1), pp. 24, 2024, ISSN: 2662-4435. |
Editorial: Marine biodiversity hotspots – challenges and resilience Journal Article Frontiers in Marine Science, 11 , pp. 1338242, 2024, ISSN: 2296-7745. |
Population genomics unveils the century-old invasion of the Seagrass Halophila stipulacea in the Mediterranean Sea Journal Article Marine Biology, 171 (2), pp. 40, 2024, ISSN: 0025-3162, 1432-1793. |
Timing of puberty in F1-generation hatchery-produced greater amberjack (Seriola dumerili) Journal Article General and Comparative Endocrinology, 347 , pp. 114414, 2024, ISSN: 00166480. |
2023 |
Detection of Mycotoxins in Aquaculture Feed Ingredients Using a Rapid FT-NIR Method Journal Article Journal of Aquaculture Research & Development, 14 (12), pp. 1–7, 2023, ISSN: 2155-9546. |
Scientific Reports, 13 (1), pp. 21269, 2023, ISSN: 2045-2322. |
Whole‐genome SNP genotyping unveils ancestral and recent introgression in wild and domestic goats Journal Article Molecular Ecology, 33 (1), pp. e17190, 2023, ISSN: 0962-1083, 1365-294X. |
Unravelling the genetic pattern of seagrass (Posidonia oceanica) meadows in the Eastern Mediterranean Sea Journal Article Biodiversity and Conservation, 2023, ISSN: 0960-3115, 1572-9710. |
Quick spreading of the exotic amphipod Laticorophium baconi (Shoemaker, 1934): another small stowaway overlooked? Journal Article Mediterranean Marine Science, 24 (3), pp. 644–655, 2023, ISSN: 1791-6763, 1108-393X. |
Groundwater is a hidden global keystone ecosystem Journal Article Global Change Biology, 30 (1), pp. e17066, 2023, ISSN: 1354-1013, 1365-2486. |
Dicer‐dependent heterochromatic small textlessspan style= Journal Article New Phytologist, pp. nph.19429, 2023, ISSN: 0028-646X, 1469-8137. |
Marine Drugs, 21 (12), pp. 612, 2023, ISSN: 1660-3397. |
Insights on Pinna nobilis population genetic structure in the Aegean and Ionian Sea Journal Article PeerJ, 11 , pp. e16491, 2023, ISSN: 2167-8359. |
Amphipods in Mediterranean Marine and Anchialine Caves: New Data and Overview of Existing Knowledge Journal Article Diversity, 15 (12), pp. 1180, 2023, ISSN: 1424-2818. |
Sponge Community Patterns in Mesophotic and Deep-Sea Habitats in the Aegean and Ionian Seas Journal Article Journal of Marine Science and Engineering, 11 (11), pp. 2204, 2023, ISSN: 2077-1312. |
Polyinfection in Fish Aeromoniasis: A Study of Co-Isolated Aeromonas Species in Aeromonas veronii Outbreaks Journal Article Pathogens, 12 (11), pp. 1337, 2023, ISSN: 2076-0817. |
metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data Journal Article GigaScience, 12 , pp. giad078, 2023, ISSN: 2047-217X. |
Food anticipatory behaviour on European seabass in sea cages: activity-, positioning-, and density-based approaches Journal Article Frontiers in Marine Science, 10 , pp. 1168953, 2023, ISSN: 2296-7745. |
Marine Drugs, 21 (10), pp. 520, 2023, ISSN: 1660-3397. |
Managing Temporomandibular Joint Osteoarthritis by Dental Stem Cell Secretome Journal Article Stem Cell Reviews and Reports, 2023, ISSN: 2629-3269, 2629-3277. |
Marine Environmental Research, 191 , pp. 106175, 2023, ISSN: 01411136. |