2024 |
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} } |
Rigos, George; Padrós, Francesc; Golomazou, Eleni; Zarza, Carlos Reviews in Aquaculture, pp. raq.12857, 2023, ISSN: 1753-5123, 1753-5131. @article{rigos_antiparasitic_2023, title = {Antiparasitic approaches and strategies in European aquaculture, with emphasis on Mediterranean marine finfish farming: Present scenarios and future visions}, author = {George Rigos and Francesc Padrós and Eleni Golomazou and Carlos Zarza}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Rigos-RevAqua-52.pdf https://onlinelibrary.wiley.com/doi/10.1111/raq.12857}, doi = {10.1111/raq.12857}, issn = {1753-5123, 1753-5131}, year = {2023}, date = {2023-10-04}, urldate = {2023-10-12}, journal = {Reviews in Aquaculture}, pages = {raq.12857}, abstract = {Abstract Parasitic infections can be occasionally severe in the European marine aquaculture industry, including the Mediterranean region, as they can incur considerable financial losses. Due to the lack of commercial vaccines, therapeutic approaches seem the only measure to battle parasitic outbreaks. Integrated strategies and increased resilience of the hosts, may limit to some degree the level of infestation. Ectoparasitic therapy is traditionally based on baths, with few exceptions. Several antiparasitic compounds have been registered in European aquatic medicine to combat mainly salmon sea lice; however, few of them are readily used against Mediterranean fish parasites. Formalin and less commonly hydrogen peroxide baths are applied against ectoparasites in the Mediterranean region. Most of the registered anti‐lice antiparasitics have limited potential perhaps due to their adverse environmental impact. Future therapies against fish parasites will rely mainly on effective substances ensuring consumer, animal, and environmental welfare. Ideally, dietary antiparasitics such as praziquantel exhibiting mild environmental impact and high efficacy against a wide range of pathogens should be adopted. Moreover, combined strategies such as integrated pest management, involving various management practices with limited use of chemicals, should be a priority for specific parasitic outbreaks. The information presented in this review can guide future research and promote effective and prudent parasite control practices for Mediterranean‐farmed fish.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Parasitic infections can be occasionally severe in the European marine aquaculture industry, including the Mediterranean region, as they can incur considerable financial losses. Due to the lack of commercial vaccines, therapeutic approaches seem the only measure to battle parasitic outbreaks. Integrated strategies and increased resilience of the hosts, may limit to some degree the level of infestation. Ectoparasitic therapy is traditionally based on baths, with few exceptions. Several antiparasitic compounds have been registered in European aquatic medicine to combat mainly salmon sea lice; however, few of them are readily used against Mediterranean fish parasites. Formalin and less commonly hydrogen peroxide baths are applied against ectoparasites in the Mediterranean region. Most of the registered anti‐lice antiparasitics have limited potential perhaps due to their adverse environmental impact. Future therapies against fish parasites will rely mainly on effective substances ensuring consumer, animal, and environmental welfare. Ideally, dietary antiparasitics such as praziquantel exhibiting mild environmental impact and high efficacy against a wide range of pathogens should be adopted. Moreover, combined strategies such as integrated pest management, involving various management practices with limited use of chemicals, should be a priority for specific parasitic outbreaks. The information presented in this review can guide future research and promote effective and prudent parasite control practices for Mediterranean‐farmed fish. |
Skliros, Dimitrios; Droubogiannis, Stavros; Kalloniati, Chrysanthi; Katharios, Pantelis; Flemetakis, Emmanouil Perturbation of Quorum Sensing after the Acquisition of Bacteriophage Resistance Could Contribute to Novel Traits in Vibrio alginolyticus Journal Article Microorganisms, 11 (9), pp. 2273, 2023, ISSN: 2076-2607. @article{skliros_perturbation_2023, title = {Perturbation of Quorum Sensing after the Acquisition of Bacteriophage Resistance Could Contribute to Novel Traits in Vibrio alginolyticus}, author = {Dimitrios Skliros and Stavros Droubogiannis and Chrysanthi Kalloniati and Pantelis Katharios and Emmanouil Flemetakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/10/2023-Skliros-MicroO-51.pdf https://www.mdpi.com/2076-2607/11/9/2273}, doi = {10.3390/microorganisms11092273}, issn = {2076-2607}, year = {2023}, date = {2023-10-02}, urldate = {2023-10-04}, journal = {Microorganisms}, volume = {11}, number = {9}, pages = {2273}, abstract = {Bacteria employ a wide range of molecular mechanisms to confer resistance to bacteriophages, and these mechanisms are continuously being discovered and characterized. However, there are instances where certain bacterial species, despite lacking these known mechanisms, can still develop bacteriophage resistance through intricate metabolic adaptation strategies, potentially involving mutations in transcriptional regulators or phage receptors. Vibrio species have been particularly useful for studying the orchestrated metabolic responses of Gram-negative marine bacteria in various challenges. In a previous study, we demonstrated that Vibrio alginolyticus downregulates the expression of specific receptors and transporters in its membrane, which may enable the bacterium to evade infection by lytic bacteriophages. In our current study, our objective was to explore how the development of bacteriophage resistance in Vibrio species disrupts the quorum-sensing cascade, subsequently affecting bacterial physiology and metabolic capacity. Using a real-time quantitative PCR (rt-QPCR) platform, we examined the expression pattern of quorum-sensing genes, auto-inducer biosynthesis genes, and cell density regulatory proteins in phage-resistant strains. Our results revealed that bacteriophage-resistant bacteria downregulate the expression of quorum-sensing regulatory proteins, such as LuxM, LuxN, and LuxP. This downregulation attenuates the normal perception of quorum-sensing peptides and subsequently diminishes the expression of cell density regulatory proteins, including LuxU, aphA, and LuxR. These findings align with the diverse phenotypic traits observed in the phage-resistant strains, such as altered biofilm formation, reduced planktonic growth, and reduced virulence. Moreover, the transcriptional depletion of aphA, the master regulator associated with low cell density, was linked to the downregulation of genes related to virulence. This phenomenon appears to be phage-specific, suggesting a finely tuned metabolic adaptation driven by phage–host interaction. These findings contribute to our understanding of the role of Vibrio species in microbial marine ecology and highlight the complex interplay between phage resistance, quorum sensing, and bacterial physiology.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Bacteria employ a wide range of molecular mechanisms to confer resistance to bacteriophages, and these mechanisms are continuously being discovered and characterized. However, there are instances where certain bacterial species, despite lacking these known mechanisms, can still develop bacteriophage resistance through intricate metabolic adaptation strategies, potentially involving mutations in transcriptional regulators or phage receptors. Vibrio species have been particularly useful for studying the orchestrated metabolic responses of Gram-negative marine bacteria in various challenges. In a previous study, we demonstrated that Vibrio alginolyticus downregulates the expression of specific receptors and transporters in its membrane, which may enable the bacterium to evade infection by lytic bacteriophages. In our current study, our objective was to explore how the development of bacteriophage resistance in Vibrio species disrupts the quorum-sensing cascade, subsequently affecting bacterial physiology and metabolic capacity. Using a real-time quantitative PCR (rt-QPCR) platform, we examined the expression pattern of quorum-sensing genes, auto-inducer biosynthesis genes, and cell density regulatory proteins in phage-resistant strains. Our results revealed that bacteriophage-resistant bacteria downregulate the expression of quorum-sensing regulatory proteins, such as LuxM, LuxN, and LuxP. This downregulation attenuates the normal perception of quorum-sensing peptides and subsequently diminishes the expression of cell density regulatory proteins, including LuxU, aphA, and LuxR. These findings align with the diverse phenotypic traits observed in the phage-resistant strains, such as altered biofilm formation, reduced planktonic growth, and reduced virulence. Moreover, the transcriptional depletion of aphA, the master regulator associated with low cell density, was linked to the downregulation of genes related to virulence. This phenomenon appears to be phage-specific, suggesting a finely tuned metabolic adaptation driven by phage–host interaction. These findings contribute to our understanding of the role of Vibrio species in microbial marine ecology and highlight the complex interplay between phage resistance, quorum sensing, and bacterial physiology. |
Rotter, Ana; Giannakourou, Antonia; García, Jesús Argente E; Quero, Grazia Marina; Auregan, Charlène; Triantaphyllidis, George; Venetsanopoulou, Amalia; Carolis, Roberta De; Efstratiou, Chrysa; Aboal, Marina; Abad, María Ángeles Esteban; Grigalionyte-Bembič, Ernesta; Kotzamanis, Yannis; Kovač, Mate; Čmelar, Maja Ljubić; Luna, Gian Marco; Aguilera, Cristóbal; Fernández, Francisco Gabriel Acién; Pinchetti, Juan Luis Gómez; Manzo, Sonia; Milašinčić, Iva; Nadarmija, Antun; Parrella, Luisa; Pinat, Massimiliano; Roussos, Efstratios; Ruel, Colin; Salvatori, Elisabetta; Vázquez, Francisco Javier Sánchez; García, María Semitiel; Gómez, Antonio Skarmeta F; Ulčar, Jan; Chiavetta, Cristian Identification of Marine Biotechnology Value Chains with High Potential in the Northern Mediterranean Region Journal Article Marine Drugs, 21 (7), pp. 416, 2023, ISSN: 1660-3397. @article{rotter_identification_2023, title = {Identification of Marine Biotechnology Value Chains with High Potential in the Northern Mediterranean Region}, author = {Ana Rotter and Antonia Giannakourou and Jesús E Argente García and Grazia Marina Quero and Charlène Auregan and George Triantaphyllidis and Amalia Venetsanopoulou and Roberta De Carolis and Chrysa Efstratiou and Marina Aboal and María Ángeles Esteban Abad and Ernesta Grigalionyte-Bembič and Yannis Kotzamanis and Mate Kovač and Maja Ljubić Čmelar and Gian Marco Luna and Cristóbal Aguilera and Francisco Gabriel Acién Fernández and Juan Luis Gómez Pinchetti and Sonia Manzo and Iva Milašinčić and Antun Nadarmija and Luisa Parrella and Massimiliano Pinat and Efstratios Roussos and Colin Ruel and Elisabetta Salvatori and Francisco Javier Sánchez Vázquez and María Semitiel García and Antonio F Skarmeta Gómez and Jan Ulčar and Cristian Chiavetta}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Rotter-MarDrugs-50.pdf https://www.mdpi.com/1660-3397/21/7/416}, doi = {10.3390/md21070416}, issn = {1660-3397}, year = {2023}, date = {2023-09-25}, urldate = {2023-09-27}, journal = {Marine Drugs}, volume = {21}, number = {7}, pages = {416}, abstract = {Marine (blue) biotechnology is an emerging field enabling the valorization of new products and processes with massive potential for innovation and economic growth. In the Mediterranean region, this innovation potential is not exploited as well as in other European regions due to a lack of a clear identification of the different value chains and the high fragmentation of business innovation initiatives. As a result, several opportunities to create an innovative society are being missed. To address this problem, eight Northern Mediterranean countries (Croatia, France, Greece, Italy, Montenegro, Portugal, Slovenia and Spain) established five national blue biotechnology hubs to identify and address the bottlenecks that prevent the development of marine biotechnology in the region. Following a three-step approach (1. Analysis: setting the scene; 2. Transfer: identification of promising value chains; 3. Capitalization: community creation), we identified the three value chains that are most promising for the Northern Mediterranean region: algae production for added-value compounds, integrated multi-trophic aquaculture (IMTA) and valorization aquaculture/fisheries/processing by-products, unavoidable/unwanted catches and discards. The potential for the development and the technical and non-technical skills that are necessary to advance in this exciting field were identified through several stakeholder events which provided valuable insight and feedback that should be addressed for marine biotechnology in the Northern Mediterranean region to reach its full potential.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Marine (blue) biotechnology is an emerging field enabling the valorization of new products and processes with massive potential for innovation and economic growth. In the Mediterranean region, this innovation potential is not exploited as well as in other European regions due to a lack of a clear identification of the different value chains and the high fragmentation of business innovation initiatives. As a result, several opportunities to create an innovative society are being missed. To address this problem, eight Northern Mediterranean countries (Croatia, France, Greece, Italy, Montenegro, Portugal, Slovenia and Spain) established five national blue biotechnology hubs to identify and address the bottlenecks that prevent the development of marine biotechnology in the region. Following a three-step approach (1. Analysis: setting the scene; 2. Transfer: identification of promising value chains; 3. Capitalization: community creation), we identified the three value chains that are most promising for the Northern Mediterranean region: algae production for added-value compounds, integrated multi-trophic aquaculture (IMTA) and valorization aquaculture/fisheries/processing by-products, unavoidable/unwanted catches and discards. The potential for the development and the technical and non-technical skills that are necessary to advance in this exciting field were identified through several stakeholder events which provided valuable insight and feedback that should be addressed for marine biotechnology in the Northern Mediterranean region to reach its full potential. |
Meyer, Raïssa; Davies, Neil; Pitz, Kathleen J; Meyer, Chris; Samuel, Robyn; Anderson, Jane; Appeltans, Ward; Barker, Katharine; Chavez, Francisco P; Duffy, Emmett J; Goodwin, Kelly D; Hudson, Maui; Hunter, Margaret E; Karstensen, Johannes; Laney, Christine M; Leinen, Margaret; Mabee, Paula; Macklin, James A; Muller-Karger, Frank; Pade, Nicolas; Pearlman, Jay; Phillips, Lori; Provoost, Pieter; Santi, Ioulia; Schigel, Dmitry; Schriml, Lynn M; Soccodato, Alice; Suominen, Saara; Thibault, Katherine M; Ung, Visotheary; van de Kamp, Jodie; Wallis, Elycia; Walls, Ramona; Buttigieg, Pier Luigi The founding charter of the Omic Biodiversity Observation Network (Omic BON) Journal Article GigaScience, 12 , pp. giad068, 2023, ISSN: 2047-217X. @article{meyer_founding_2022, title = {The founding charter of the Omic Biodiversity Observation Network (Omic BON)}, author = {Raïssa Meyer and Neil Davies and Kathleen J Pitz and Chris Meyer and Robyn Samuel and Jane Anderson and Ward Appeltans and Katharine Barker and Francisco P Chavez and Emmett J Duffy and Kelly D Goodwin and Maui Hudson and Margaret E Hunter and Johannes Karstensen and Christine M Laney and Margaret Leinen and Paula Mabee and James A Macklin and Frank Muller-Karger and Nicolas Pade and Jay Pearlman and Lori Phillips and Pieter Provoost and Ioulia Santi and Dmitry Schigel and Lynn M Schriml and Alice Soccodato and Saara Suominen and Katherine M Thibault and Visotheary Ung and Jodie van de Kamp and Elycia Wallis and Ramona Walls and Pier Luigi Buttigieg}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Meyer-GigaSci-49.pdf https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giad068/7252077}, doi = {10.1093/gigascience/giad068}, issn = {2047-217X}, year = {2023}, date = {2023-09-20}, urldate = {2023-09-20}, journal = {GigaScience}, volume = {12}, pages = {giad068}, abstract = {Abstract Omic BON is a thematic Biodiversity Observation Network under the Group on Earth Observations Biodiversity Observation Network (GEO BON), focused on coordinating the observation of biomolecules in organisms and the environment. Our founding partners include representatives from national, regional, and global observing systems; standards organizations; and data and sample management infrastructures. By coordinating observing strategies, methods, and data flows, Omic BON will facilitate the co-creation of a global omics meta-observatory to generate actionable knowledge. Here, we present key elements of Omic BON's founding charter and first activities.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Omic BON is a thematic Biodiversity Observation Network under the Group on Earth Observations Biodiversity Observation Network (GEO BON), focused on coordinating the observation of biomolecules in organisms and the environment. Our founding partners include representatives from national, regional, and global observing systems; standards organizations; and data and sample management infrastructures. By coordinating observing strategies, methods, and data flows, Omic BON will facilitate the co-creation of a global omics meta-observatory to generate actionable knowledge. Here, we present key elements of Omic BON's founding charter and first activities. |
Lubinevsky, Hadas; Tom, Moshe; Corbera, Jordi; Koulouri, Panayota (Yolanda) Mediterranean Marine Science, 24 (3), pp. 482–490, 2023, ISSN: 1791-6763, 1108-393X. @article{lubinevsky_spatial_2023, title = {Spatial and temporal community composition changes of Cumacea (Crustacea: Malacostraca: Peracarida) from the soft-sediment habitats of the Mediterranean coast of Israel}, author = {Hadas Lubinevsky and Moshe Tom and Jordi Corbera and Panayota (Yolanda) Koulouri}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Lubinevsky-MMS-48.pdf https://ejournals.epublishing.ekt.gr/index.php/hcmr-med-mar-sc/article/view/34247}, doi = {10.12681/mms.34247}, issn = {1791-6763, 1108-393X}, year = {2023}, date = {2023-09-15}, urldate = {2023-09-15}, journal = {Mediterranean Marine Science}, volume = {24}, number = {3}, pages = {482--490}, abstract = {The present study provides a zoogeographic and faunistic update on the cumacean species that inhabit the soft substrate habitats of the Israeli waters of the Mediterranean Sea. Published and new unpublished cumacean records are both used to enable an overview of a 74-year period of species composition and distribution, providing a broad perspective of temporal faunistic changes. As a result, 43 cumacean species have now been recorded from the Mediterranean coast of Israel. Previously unpublished results, starting from 2013, were derived from intensified sampling of the continental shelf and slope as well as the bathyal plain, and revealed eight new species records for the eastern part of the Mediterranean Sea. The cumacean community included species primarily of the Mediterranean zoogeographic province with several Mediterranean-Atlantic examples. Three species, postulated to be of Indo-Pacific origin were also previously recorded on the continental shelf of the area. Finally, species composition and structure of the continental shelf indicated spatial and temporal changes between 2010 – 2021, partly due to different sampling methods as well as anthropogenic activities that took place in the area. The continental slope and the bathyal plain seem to remain as relatively stable environments.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The present study provides a zoogeographic and faunistic update on the cumacean species that inhabit the soft substrate habitats of the Israeli waters of the Mediterranean Sea. Published and new unpublished cumacean records are both used to enable an overview of a 74-year period of species composition and distribution, providing a broad perspective of temporal faunistic changes. As a result, 43 cumacean species have now been recorded from the Mediterranean coast of Israel. Previously unpublished results, starting from 2013, were derived from intensified sampling of the continental shelf and slope as well as the bathyal plain, and revealed eight new species records for the eastern part of the Mediterranean Sea. The cumacean community included species primarily of the Mediterranean zoogeographic province with several Mediterranean-Atlantic examples. Three species, postulated to be of Indo-Pacific origin were also previously recorded on the continental shelf of the area. Finally, species composition and structure of the continental shelf indicated spatial and temporal changes between 2010 – 2021, partly due to different sampling methods as well as anthropogenic activities that took place in the area. The continental slope and the bathyal plain seem to remain as relatively stable environments. |
Amaral, Raquel; Duci, Damiano; Cotta, Francisco C; Bacellar, Felipe L; Oliveira, Soraia; Verret, Frédéric; Asadi, Kamal; Vandamme, Lode K J; Reis, Nuno M; Bryant, Lee D; Tosh, David; Mouget, Jean-Luc; Perkins, Rupert; Rocha, Paulo R F Ion-driven communication and acclimation strategies in microalgae Journal Article Chemical Engineering Journal, 473 , pp. 144985, 2023, ISSN: 13858947. @article{amaral_ion-driven_2023, title = {Ion-driven communication and acclimation strategies in microalgae}, author = {Raquel Amaral and Damiano Duci and Francisco C Cotta and Felipe L Bacellar and Soraia Oliveira and Frédéric Verret and Kamal Asadi and Lode K J Vandamme and Nuno M Reis and Lee D Bryant and David Tosh and Jean-Luc Mouget and Rupert Perkins and Paulo R F Rocha}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Amaral-R-Chem-Engineer-47.pdf https://linkinghub.elsevier.com/retrieve/pii/S1385894723037166}, doi = {10.1016/j.cej.2023.144985}, issn = {13858947}, year = {2023}, date = {2023-09-11}, urldate = {2023-09-14}, journal = {Chemical Engineering Journal}, volume = {473}, pages = {144985}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Rigos, George; Glaropoulos, Alexis; Tzokas, Kostantinos; Gourzioti, Evgenia; Kogiannou, Dimitra; Golomazou, Eleni Journal of Fish Diseases, pp. jfd.13854, 2023, ISSN: 0140-7775, 1365-2761. @article{rigos_field_2023, title = {A field evaluation of orally administered praziquantel against the gill fluke \textit{Sparicotyle chrysophrii} infecting gilthead seabream ( \textit{Sparus aurata} )}, author = {George Rigos and Alexis Glaropoulos and Kostantinos Tzokas and Evgenia Gourzioti and Dimitra Kogiannou and Eleni Golomazou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Rigos-JFD-pre-print-46.pdf https://onlinelibrary.wiley.com/doi/10.1111/jfd.13854}, doi = {10.1111/jfd.13854}, issn = {0140-7775, 1365-2761}, year = {2023}, date = {2023-09-08}, urldate = {2023-09-11}, journal = {Journal of Fish Diseases}, pages = {jfd.13854}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kogiannou, Dimitra; Nikoloudaki, Chrysanthi; Valsamidi, Vasilia; Kotsiri, Mado; Golomazou, Eleni; Rigos, George Pharmacokinetics of praziquantel in gilthead seabream (Sparus aurata) plasma and gills Journal Article Aquaculture, 577 , pp. 739975, 2023, ISSN: 00448486. @article{kogiannou_pharmacokinetics_2023, title = {Pharmacokinetics of praziquantel in gilthead seabream (Sparus aurata) plasma and gills}, author = {Dimitra Kogiannou and Chrysanthi Nikoloudaki and Vasilia Valsamidi and Mado Kotsiri and Eleni Golomazou and George Rigos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Kogiannou-AQUA-pre-print45.pdf https://linkinghub.elsevier.com/retrieve/pii/S0044848623007494}, doi = {10.1016/j.aquaculture.2023.739975}, issn = {00448486}, year = {2023}, date = {2023-09-06}, urldate = {2023-09-07}, journal = {Aquaculture}, volume = {577}, pages = {739975}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Theissinger, Kathrin; Fernandes, Carlos; Formenti, Giulio; Bista, Iliana; Berg, Paul R; Bleidorn, Christoph; Bombarely, Aureliano; Crottini, Angelica; Gallo, Guido R; Godoy, José A; Jentoft, Sissel; Malukiewicz, Joanna; Mouton, Alice; Oomen, Rebekah A; Paez, Sadye; Palsbøll, Per J; Pampoulie, Christophe; Ruiz-López, María J; Secomandi, Simona; Svardal, Hannes; Theofanopoulou, Constantina; Vries, Jan De; Waldvogel, Ann-Marie; Zhang, Guojie; Jarvis, Erich D; Bálint, Miklós; Ciofi, Claudio; Waterhouse, Robert M; Mazzoni, Camila J; Höglund, Jacob; Aghayan, Sargis A; Alioto, Tyler S; Almudi, Isabel; Alvarez, Nadir; Alves, Paulo C; Rosario, Isabel Amorim Do R; Antunes, Agostinho; Arribas, Paula; Baldrian, Petr; Bertorelle, Giorgio; Böhne, Astrid; Bonisoli-Alquati, Andrea; Boštjančić, Ljudevit L; Boussau, Bastien; Breton, Catherine M; Buzan, Elena; Campos, Paula F; Carreras, Carlos; Castro, FIlipe L C; Chueca, Luis J; Čiampor, Fedor; Conti, Elena; Cook-Deegan, Robert; Croll, Daniel; Cunha, Mónica V; Delsuc, Frédéric; Dennis, Alice B; Dimitrov, Dimitar; Faria, Rui; Favre, Adrien; Fedrigo, Olivier D; Fernández, Rosa; Ficetola, Gentile Francesco; Flot, Jean-François; Gabaldón, Toni; Agius, Dolores R; Giani, Alice M; Gilbert, Thomas M P; Grebenc, Tine; Guschanski, Katerina; Guyot, Romain; Hausdorf, Bernhard; Hawlitschek, Oliver; Heintzman, Peter D; Heinze, Berthold; Hiller, Michael; Husemann, Martin; Iannucci, Alessio; Irisarri, Iker; Jakobsen, Kjetill S; Klinga, Peter; Kloch, Agnieszka; Kratochwil, Claudius F; Kusche, Henrik; Layton, Kara K S; Leonard, Jennifer A; Lerat, Emmanuelle; Liti, Gianni; Manousaki, Tereza; Marques-Bonet, Tomas; Matos-Maraví, Pável; Matschiner, Michael; Maumus, Florian; Cartney, Ann Mc M; Meiri, Shai; Melo-Ferreira, José; Mengual, Ximo; Monaghan, Michael T; Montagna, Matteo; Mysłajek, Robert W; Neiber, Marco T; Nicolas, Violaine; Novo, Marta; Ozretić, Petar; Palero, Ferran; Pârvulescu, Lucian; Pascual, Marta; Paulo, Octávio S; Pavlek, Martina; Pegueroles, Cinta; Pellissier, Loïc; Pesole, Graziano; Primmer, Craig R; Riesgo, Ana; Rüber, Lukas; Rubolini, Diego; Salvi, Daniele; Seehausen, Ole; Seidel, Matthias; Studer, Bruno; Theodoridis, Spyros; Thines, Marco; Urban, Lara; Vasemägi, Anti; Vella, Adriana; Vella, Noel; Vernes, Sonja C; Vernesi, Cristiano; Vieites, David R; Wheat, Christopher W; Wörheide, Gert; Wurm, Yannick; Zammit, Gabrielle How genomics can help biodiversity conservation Journal Article Trends in Genetics, 39 (7), pp. 545–559, 2023, ISSN: 01689525. @article{theissinger_how_2023, title = {How genomics can help biodiversity conservation}, author = {Kathrin Theissinger and Carlos Fernandes and Giulio Formenti and Iliana Bista and Paul R Berg and Christoph Bleidorn and Aureliano Bombarely and Angelica Crottini and Guido R Gallo and José A Godoy and Sissel Jentoft and Joanna Malukiewicz and Alice Mouton and Rebekah A Oomen and Sadye Paez and Per J Palsbøll and Christophe Pampoulie and María J Ruiz-López and Simona Secomandi and Hannes Svardal and Constantina Theofanopoulou and Jan De Vries and Ann-Marie Waldvogel and Guojie Zhang and Erich D Jarvis and Miklós Bálint and Claudio Ciofi and Robert M Waterhouse and Camila J Mazzoni and Jacob Höglund and Sargis A Aghayan and Tyler S Alioto and Isabel Almudi and Nadir Alvarez and Paulo C Alves and Isabel R Amorim Do Rosario and Agostinho Antunes and Paula Arribas and Petr Baldrian and Giorgio Bertorelle and Astrid Böhne and Andrea Bonisoli-Alquati and Ljudevit L Boštjančić and Bastien Boussau and Catherine M Breton and Elena Buzan and Paula F Campos and Carlos Carreras and FIlipe L C Castro and Luis J Chueca and Fedor Čiampor and Elena Conti and Robert Cook-Deegan and Daniel Croll and Mónica V Cunha and Frédéric Delsuc and Alice B Dennis and Dimitar Dimitrov and Rui Faria and Adrien Favre and Olivier D Fedrigo and Rosa Fernández and Gentile Francesco Ficetola and Jean-François Flot and Toni Gabaldón and Dolores R Agius and Alice M Giani and Thomas M P Gilbert and Tine Grebenc and Katerina Guschanski and Romain Guyot and Bernhard Hausdorf and Oliver Hawlitschek and Peter D Heintzman and Berthold Heinze and Michael Hiller and Martin Husemann and Alessio Iannucci and Iker Irisarri and Kjetill S Jakobsen and Peter Klinga and Agnieszka Kloch and Claudius F Kratochwil and Henrik Kusche and Kara K S Layton and Jennifer A Leonard and Emmanuelle Lerat and Gianni Liti and Tereza Manousaki and Tomas Marques-Bonet and Pável Matos-Maraví and Michael Matschiner and Florian Maumus and Ann M Mc Cartney and Shai Meiri and José Melo-Ferreira and Ximo Mengual and Michael T Monaghan and Matteo Montagna and Robert W Mysłajek and Marco T Neiber and Violaine Nicolas and Marta Novo and Petar Ozretić and Ferran Palero and Lucian Pârvulescu and Marta Pascual and Octávio S Paulo and Martina Pavlek and Cinta Pegueroles and Loïc Pellissier and Graziano Pesole and Craig R Primmer and Ana Riesgo and Lukas Rüber and Diego Rubolini and Daniele Salvi and Ole Seehausen and Matthias Seidel and Bruno Studer and Spyros Theodoridis and Marco Thines and Lara Urban and Anti Vasemägi and Adriana Vella and Noel Vella and Sonja C Vernes and Cristiano Vernesi and David R Vieites and Christopher W Wheat and Gert Wörheide and Yannick Wurm and Gabrielle Zammit}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/09/2023-Theissinger-Trends-Genetics-44.pdf https://linkinghub.elsevier.com/retrieve/pii/S0168952523000203}, doi = {10.1016/j.tig.2023.01.005}, issn = {01689525}, year = {2023}, date = {2023-08-31}, urldate = {2023-09-01}, journal = {Trends in Genetics}, volume = {39}, number = {7}, pages = {545--559}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kitsoulis, Christos V; Papadogiannis, Vasileios; Kristoffersen, Jon B; Kaitetzidou, Elisavet; Sterioti, Aspasia; Tsigenopoulos, Costas S; Manousaki, Tereza Near-chromosome level genome assembly of devil firefish, Pterois miles Journal Article Peer Community Journal, 3 , pp. e64, 2023, ISSN: 2804-3871. @article{kitsoulis_near-chromosome_2023, title = {Near-chromosome level genome assembly of devil firefish, Pterois miles}, author = {Christos V Kitsoulis and Vasileios Papadogiannis and Jon B Kristoffersen and Elisavet Kaitetzidou and Aspasia Sterioti and Costas S Tsigenopoulos and Tereza Manousaki}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/08/2023-Kitsoulis-PeerCJ-43.pdf https://peercommunityjournal.org/articles/10.24072/pcjournal.295/}, doi = {10.24072/pcjournal.295}, issn = {2804-3871}, year = {2023}, date = {2023-08-29}, urldate = {2023-08-31}, journal = {Peer Community Journal}, volume = {3}, pages = {e64}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Lavecchia, Anna; Manzari, Caterina; Pousis, Chrysovalentinos; Mansi, Luigi; Cox, Sharon N; Mylonas, Constantinos C; Zupa, Rosa; Giudice, Claudio Lo; Virgilio, Caterina De; Picardi, Ernesto; Ventriglia, Gianluca; Pesole, Graziano; Corriero, Aldo Dysregulation of testis mRNA expression levels in hatchery-produced vs wild greater amberjack Seriola dumerili Journal Article Scientific Reports, 13 (1), pp. 13662, 2023, ISSN: 2045-2322. @article{lavecchia_dysregulation_2023, title = {Dysregulation of testis mRNA expression levels in hatchery-produced vs wild greater amberjack Seriola dumerili}, author = {Anna Lavecchia and Caterina Manzari and Chrysovalentinos Pousis and Luigi Mansi and Sharon N Cox and Constantinos C Mylonas and Rosa Zupa and Claudio Lo Giudice and Caterina De Virgilio and Ernesto Picardi and Gianluca Ventriglia and Graziano Pesole and Aldo Corriero}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/08/2023-Lavecchia-SciRep-42.pdf https://www.nature.com/articles/s41598-023-40597-5}, doi = {10.1038/s41598-023-40597-5}, issn = {2045-2322}, year = {2023}, date = {2023-08-28}, urldate = {2023-08-29}, journal = {Scientific Reports}, volume = {13}, number = {1}, pages = {13662}, abstract = {Abstract Reproductive dysfunctions have been recently documented in male greater amberjack Seriola dumerili caught from the wild and reared in captivity. In the present study, we compared testis transcriptome in wild fish (WILD), hatchery-produced fish with apparently normal spermatogenesis (Normal Farmed; NormalF) and hatchery-produced fish with evident reproductive dysfunction (Dysfunctional Farmed; DysF). Gene expression analysis identified 2157, 1985 and 74 differentially expressed genes (DEGs) in DysF vs WILD, NormalF vs DysF and NormalF vs WILD comparisons, respectively. In DysF, a dysregulation of several interconnected biological processes, including cell assembly , steroidogenesis and apoptosis was found. Gene enrichment of progesterone-mediated oocyte maturation , oocyte meiosis and cell cycle pathways were identified in the DysF vs NormalF comparison. Most of the DEGs involved in the enriched pathways were downregulated in DysF. The comparison of NormalF vs WILD showed that most of the DEGs were downregulated in NormalF, including a gene that encodes for a regulatory protein with a protective role in apoptosis regulation ( ptpn 6), indicating that spermatogenesis was dysfunctional also in the apparently “normal” hatchery-produced fish. Hence, rearing of male greater amberjack in captivity, from eggs produced by captive breeders, did not prevent the appearance of reproductive dysfunctions, and these dysfunctions involved several biological processes and metabolic pathways.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Reproductive dysfunctions have been recently documented in male greater amberjack Seriola dumerili caught from the wild and reared in captivity. In the present study, we compared testis transcriptome in wild fish (WILD), hatchery-produced fish with apparently normal spermatogenesis (Normal Farmed; NormalF) and hatchery-produced fish with evident reproductive dysfunction (Dysfunctional Farmed; DysF). Gene expression analysis identified 2157, 1985 and 74 differentially expressed genes (DEGs) in DysF vs WILD, NormalF vs DysF and NormalF vs WILD comparisons, respectively. In DysF, a dysregulation of several interconnected biological processes, including cell assembly , steroidogenesis and apoptosis was found. Gene enrichment of progesterone-mediated oocyte maturation , oocyte meiosis and cell cycle pathways were identified in the DysF vs NormalF comparison. Most of the DEGs involved in the enriched pathways were downregulated in DysF. The comparison of NormalF vs WILD showed that most of the DEGs were downregulated in NormalF, including a gene that encodes for a regulatory protein with a protective role in apoptosis regulation ( ptpn 6), indicating that spermatogenesis was dysfunctional also in the apparently “normal” hatchery-produced fish. Hence, rearing of male greater amberjack in captivity, from eggs produced by captive breeders, did not prevent the appearance of reproductive dysfunctions, and these dysfunctions involved several biological processes and metabolic pathways. |
Alkassar, Mounira; Sanchez-Henao, Andres; Reverté, Jaume; Barreiro, Lourdes; Rambla-Alegre, Maria; Leonardo, Sandra; Mandalakis, Manolis; Peristeraki, Panagiota; Diogène, Jorge; Campàs, Mònica Evaluation of Toxicity Equivalency Factors of Tetrodotoxin Analogues with a Neuro-2a Cell-Based Assay and Application to Puffer Fish from Greece Journal Article Marine Drugs, 21 (8), pp. 432, 2023, ISSN: 1660-3397. @article{alkassar_evaluation_2023, title = {Evaluation of Toxicity Equivalency Factors of Tetrodotoxin Analogues with a Neuro-2a Cell-Based Assay and Application to Puffer Fish from Greece}, author = {Mounira Alkassar and Andres Sanchez-Henao and Jaume Reverté and Lourdes Barreiro and Maria Rambla-Alegre and Sandra Leonardo and Manolis Mandalakis and Panagiota Peristeraki and Jorge Diogène and Mònica Campàs}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/08/2023-Alkassar-marinedrugs-41.pdf https://www.mdpi.com/1660-3397/21/8/432}, doi = {10.3390/md21080432}, issn = {1660-3397}, year = {2023}, date = {2023-08-11}, urldate = {2023-08-17}, journal = {Marine Drugs}, volume = {21}, number = {8}, pages = {432}, abstract = {Tetrodotoxin (TTX) is a potent marine neurotoxin involved in poisoning cases, especially through the consumption of puffer fish. Knowledge of the toxicity equivalency factors (TEFs) of TTX analogues is crucial in monitoring programs to estimate the toxicity of samples analyzed with instrumental analysis methods. In this work, TTX analogues were isolated from the liver of a Lagocephalus sceleratus individual caught on South Crete coasts. A cell-based assay (CBA) for TTXs was optimized and applied to the establishment of the TEFs of 5,11-dideoxyTTX, 11-norTTX-6(S)-ol, 11-deoxyTTX and 5,6,11-trideoxyTTX. Results showed that all TTX analogues were less toxic than the parent TTX, their TEFs being in the range of 0.75–0.011. Then, different tissues of three Lagocephalus sceleratus individuals were analyzed with CBA and liquid chromatography-tandem mass spectrometry (LC-MS/MS). The obtained TEFs were applied to the TTX analogues’ concentrations obtained by LC-MS/MS analysis, providing an indication of the overall toxicity of the sample. Information about the TEFs of TTX analogues is valuable for food safety control, allowing the estimation of the risk of fish products to consumers.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Tetrodotoxin (TTX) is a potent marine neurotoxin involved in poisoning cases, especially through the consumption of puffer fish. Knowledge of the toxicity equivalency factors (TEFs) of TTX analogues is crucial in monitoring programs to estimate the toxicity of samples analyzed with instrumental analysis methods. In this work, TTX analogues were isolated from the liver of a Lagocephalus sceleratus individual caught on South Crete coasts. A cell-based assay (CBA) for TTXs was optimized and applied to the establishment of the TEFs of 5,11-dideoxyTTX, 11-norTTX-6(S)-ol, 11-deoxyTTX and 5,6,11-trideoxyTTX. Results showed that all TTX analogues were less toxic than the parent TTX, their TEFs being in the range of 0.75–0.011. Then, different tissues of three Lagocephalus sceleratus individuals were analyzed with CBA and liquid chromatography-tandem mass spectrometry (LC-MS/MS). The obtained TEFs were applied to the TTX analogues’ concentrations obtained by LC-MS/MS analysis, providing an indication of the overall toxicity of the sample. Information about the TEFs of TTX analogues is valuable for food safety control, allowing the estimation of the risk of fish products to consumers. |
Varamogianni-Mamatsi, Despoina; Anastasiou, Thekla I; Vernadou, Emmanouela; Kouvarakis, Nikos; Kagiampaki, Eirini; Kalogerakis, Nicolas; Dailianis, Thanos; Mandalakis, Manolis Uptake of aquaculture-related dissolved organic pollutants by marine sponges: Kinetics and mechanistic insights from a laboratory study Journal Article Science of The Total Environment, 899 , pp. 165601, 2023, ISSN: 00489697. @article{varamogianni-mamatsi_uptake_2023, title = {Uptake of aquaculture-related dissolved organic pollutants by marine sponges: Kinetics and mechanistic insights from a laboratory study}, author = {Despoina Varamogianni-Mamatsi and Thekla I Anastasiou and Emmanouela Vernadou and Nikos Kouvarakis and Eirini Kagiampaki and Nicolas Kalogerakis and Thanos Dailianis and Manolis Mandalakis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/08/2023-Varamogianni-Mamatsi-STEnv-40-preprint.pdf https://linkinghub.elsevier.com/retrieve/pii/S0048969723042249}, doi = {10.1016/j.scitotenv.2023.165601}, issn = {00489697}, year = {2023}, date = {2023-08-01}, urldate = {2023-08-14}, journal = {Science of The Total Environment}, volume = {899}, pages = {165601}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Kotsiri, Mado; Panara, Anthi; Koupa, Anastasia; Gourzioti, Evgenia; Thomaidis, Nikolaos S; Rigos, George Preliminary measurements of formaldehyde in seawater and edible tissues of farmed gilthead seabream after formalin immersion Journal Article Mediterranean Marine Science, 24 (2), pp. 384–391, 2023, ISSN: 1791-6763, 1108-393X. @article{kotsiri_preliminary_2023, title = {Preliminary measurements of formaldehyde in seawater and edible tissues of farmed gilthead seabream after formalin immersion}, author = {Mado Kotsiri and Anthi Panara and Anastasia Koupa and Evgenia Gourzioti and Nikolaos S Thomaidis and George Rigos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/07/2023-Kotsiri-MMS-39.pdf https://ejournals.epublishing.ekt.gr/index.php/hcmr-med-mar-sc/article/view/33606}, doi = {10.12681/mms.33606}, issn = {1791-6763, 1108-393X}, year = {2023}, date = {2023-07-21}, urldate = {2023-07-21}, journal = {Mediterranean Marine Science}, volume = {24}, number = {2}, pages = {384--391}, abstract = {This study was performed to measure the possible persistence of formaldehyde, the active substance of formalin solution, in seawater and edible gilthead seabream (Sparus aurata) tissues after a formalin bath. The trial was carried out during the summer period as parasitic infestations are of a high frequency. Water samples were taken within or at a short distance from the treatment cages, during and following formalin immersion. Fish fillets were also sampled at the same sampling points. Chromatographic analysis of water and tissue samples was performed with a photodiode array detector (HPLC-PDA). Measured formaldehyde concentrations in gilthead seabream fillets clearly showed no increase due to the immersion or advent of time. Formaldehyde measurements in seawater revealed that after formalin treatments negligible amounts of the substance remain in the aquatic environment and these values seem to be relatively unaffected by depth in the vicinity of the fish cages. Further research is required to investigate the formalin degradation cycle under Mediterranean seawater conditions, including more farm sites and temperature ranges.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This study was performed to measure the possible persistence of formaldehyde, the active substance of formalin solution, in seawater and edible gilthead seabream (Sparus aurata) tissues after a formalin bath. The trial was carried out during the summer period as parasitic infestations are of a high frequency. Water samples were taken within or at a short distance from the treatment cages, during and following formalin immersion. Fish fillets were also sampled at the same sampling points. Chromatographic analysis of water and tissue samples was performed with a photodiode array detector (HPLC-PDA). Measured formaldehyde concentrations in gilthead seabream fillets clearly showed no increase due to the immersion or advent of time. Formaldehyde measurements in seawater revealed that after formalin treatments negligible amounts of the substance remain in the aquatic environment and these values seem to be relatively unaffected by depth in the vicinity of the fish cages. Further research is required to investigate the formalin degradation cycle under Mediterranean seawater conditions, including more farm sites and temperature ranges. |
Piferrer, Francesc; Wang, Han-Ping Epigenetics in aquaculture Book First edition, John Wiley & Sons Ltd, Chichester, West Sussex, UK ; Hoboken, 2023, ISBN: 9781119821939 9781119821922, (Sarropoulou E., Fernández I. 2023. Epigenetic regulation of gene expression by non-coding RNAs. In: Epigenetics in Aquaculture, edited by Piferrer F, Wang, Η., Wiley, 512 pp. ). @book{piferrer_epigenetics_2023, title = {Epigenetics in aquaculture}, author = {Francesc Piferrer and Han-Ping Wang}, url = {https://www.wiley.com/en-us/Epigenetics+in+Aquaculture-p-9781119821915}, isbn = {9781119821939 9781119821922}, year = {2023}, date = {2023-07-19}, publisher = {John Wiley & Sons Ltd}, address = {Chichester, West Sussex, UK ; Hoboken}, edition = {First edition}, abstract = {"Epigenetics, as a discipline, started in the 1940s, but with a meaning different from how it is understood today. Initially, it was essentially related to what today is understood as developmental biology and how the phenotype comes into being. The modern concept of epigenetics (i.e., heritable changes in gene expression that are not related to changes in DNA sequence) arose around the turn of this century. The field has largely benefited from the advancements made after the sequence of the human genome and all emerging technologies to interrogate different aspects of the genome. There are three very important aspects to take into account: 1) Epigenetics integrates genomic and environmental influences to bring about the phenotype; 2) There is a large fraction of the phenotypic variance that cannot be explained solely on genetic variation that now we know can be explained by epigenetic variation; and 3) Epigenetic changes can be inherited and, thus, passed from parents to offspring into the following generations. Combined, this has prompted the implementation of epigenetic research into agriculture and livestock for improved food production. Recently, there has been both a clear interest in marine epigenetics and in the application of epigenetics in aquaculture. One of the main reasons is that aquatic, cold-blooded organisms are quite susceptible to environmental cues (e.g., temperature in a cold-blooded animal strongly influences growth rates). Further, in contrast to mammals, fishes seem to have little reprogramming and erasing of the epigenetic marks after fertilization, thus enabling epigenetic transmission of environmental influences on the next generation. Thus, there is a lot of interest for application of epigenetics in aquaculture. However, there are currently no books on epigenetics in aquaculture"--}, note = {Sarropoulou E., Fernández I. 2023. Epigenetic regulation of gene expression by non-coding RNAs. In: Epigenetics in Aquaculture, edited by Piferrer F, Wang, Η., Wiley, 512 pp. }, keywords = {}, pubstate = {published}, tppubtype = {book} } "Epigenetics, as a discipline, started in the 1940s, but with a meaning different from how it is understood today. Initially, it was essentially related to what today is understood as developmental biology and how the phenotype comes into being. The modern concept of epigenetics (i.e., heritable changes in gene expression that are not related to changes in DNA sequence) arose around the turn of this century. The field has largely benefited from the advancements made after the sequence of the human genome and all emerging technologies to interrogate different aspects of the genome. There are three very important aspects to take into account: 1) Epigenetics integrates genomic and environmental influences to bring about the phenotype; 2) There is a large fraction of the phenotypic variance that cannot be explained solely on genetic variation that now we know can be explained by epigenetic variation; and 3) Epigenetic changes can be inherited and, thus, passed from parents to offspring into the following generations. Combined, this has prompted the implementation of epigenetic research into agriculture and livestock for improved food production. Recently, there has been both a clear interest in marine epigenetics and in the application of epigenetics in aquaculture. One of the main reasons is that aquatic, cold-blooded organisms are quite susceptible to environmental cues (e.g., temperature in a cold-blooded animal strongly influences growth rates). Further, in contrast to mammals, fishes seem to have little reprogramming and erasing of the epigenetic marks after fertilization, thus enabling epigenetic transmission of environmental influences on the next generation. Thus, there is a lot of interest for application of epigenetics in aquaculture. However, there are currently no books on epigenetics in aquaculture"-- |
Luoma, Jouni; Nastou, Katerina; Ohta, Tomoko; Toivonen, Harttu; Pafilis, Evangelos; Jensen, Lars Juhl; Pyysalo, Sampo S1000: a better taxonomic name corpus for biomedical information extraction Journal Article Bioinformatics, 39 (6), pp. btad369, 2023, ISSN: 1367-4811. @article{luoma_s1000_2023, title = {S1000: a better taxonomic name corpus for biomedical information extraction}, author = {Jouni Luoma and Katerina Nastou and Tomoko Ohta and Harttu Toivonen and Evangelos Pafilis and Lars Juhl Jensen and Sampo Pyysalo}, editor = {Zhiyong Lu}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/07/2023-Luoma-et-al.-2023-Luoma-37.pdf https://academic.oup.com/bioinformatics/article/doi/10.1093/bioinformatics/btad369/7192170}, doi = {10.1093/bioinformatics/btad369}, issn = {1367-4811}, year = {2023}, date = {2023-07-14}, urldate = {2023-07-14}, journal = {Bioinformatics}, volume = {39}, number = {6}, pages = {btad369}, abstract = {Abstract Motivation The recognition of mentions of species names in text is a critically important task for biomedical text mining. While deep learning-based methods have made great advances in many named entity recognition tasks, results for species name recognition remain poor. We hypothesize that this is primarily due to the lack of appropriate corpora. Results We introduce the S1000 corpus, a comprehensive manual re-annotation and extension of the S800 corpus. We demonstrate that S1000 makes highly accurate recognition of species names possible (F-score =93.1%), both for deep learning and dictionary-based methods. Availability and implementation All resources introduced in this study are available under open licenses from https://jensenlab.org/resources/s1000/. The webpage contains links to a Zenodo project and three GitHub repositories associated with the study.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Abstract Motivation The recognition of mentions of species names in text is a critically important task for biomedical text mining. While deep learning-based methods have made great advances in many named entity recognition tasks, results for species name recognition remain poor. We hypothesize that this is primarily due to the lack of appropriate corpora. Results We introduce the S1000 corpus, a comprehensive manual re-annotation and extension of the S800 corpus. We demonstrate that S1000 makes highly accurate recognition of species names possible (F-score =93.1%), both for deep learning and dictionary-based methods. Availability and implementation All resources introduced in this study are available under open licenses from https://jensenlab.org/resources/s1000/. The webpage contains links to a Zenodo project and three GitHub repositories associated with the study. |
Panteli, Nikolas; Feidantsis, Konstantinos; Demertzioglou, Maria; Paralika, Vasiliki; Karapanagiotis, Stelios; Mylonas, Constantinos C; Kormas, Konstantinos Ar.; Mente, Eleni; Makridis, Pavlos; Antonopoulou, Efthimia Animals, 13 (13), pp. 2154, 2023, ISSN: 2076-2615. @article{panteli_probiotic_2023, title = {The Probiotic Phaeobacter inhibens Provokes Hypertrophic Growth via Activation of the IGF-1/Akt Pathway during the Process of Metamorphosis of Greater Amberjack (Seriola dumerili, Risso 1810)}, author = {Nikolas Panteli and Konstantinos Feidantsis and Maria Demertzioglou and Vasiliki Paralika and Stelios Karapanagiotis and Constantinos C Mylonas and Konstantinos Ar. Kormas and Eleni Mente and Pavlos Makridis and Efthimia Antonopoulou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/07/2023-Panteli-Animals-36.pdf https://www.mdpi.com/2076-2615/13/13/2154}, doi = {10.3390/ani13132154}, issn = {2076-2615}, year = {2023}, date = {2023-07-07}, urldate = {2023-07-07}, journal = {Animals}, volume = {13}, number = {13}, pages = {2154}, abstract = {Metamorphosis entails hormonally regulated morphological and physiological changes requiring high energy levels. Probiotics as feed supplements generate ameliorative effects on host nutrient digestion and absorption. Thereby, the aim of the present research was to investigate the impact of the probiotic Phaeobacter inhibens as a water additive on cellular signaling pathways in the metamorphosis of greater amberjack (Seriola dumerili). Activation of insulin-like growth factor type 1 receptor (IGF-1R), protein kinase B (Akt), mitogen-activated protein kinases (MAPKs) and AMP-activated protein kinase (AMPK), induction of heat shock proteins (Hsps), and programmed cell death were assessed through SDS-Page/immunoblot analysis, while energy metabolism was determined through enzymatic activities. According to the results, greater amberjack reared in P. inhibens-enriched water entered the metamorphic phase with greater body length, while protein synthesis was triggered to facilitate the hypertrophic growth as indicated by IGF-1/Akt activation and AMPK inhibition. Contrarily, MAPKs levels were reduced, whereas variations in Hsps response were evident in the probiotic treatment. Apoptosis and autophagy were mobilized potentially for the structural remodeling processes. Furthermore, the elevated enzymatic activities of intermediary metabolism highlighted the excess energy demands of metamorphosis. Collectively, the present findings demonstrate that P. inhibens may reinforce nutrient utilization, thus leading greater amberjack to an advanced growth and developmental state.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Metamorphosis entails hormonally regulated morphological and physiological changes requiring high energy levels. Probiotics as feed supplements generate ameliorative effects on host nutrient digestion and absorption. Thereby, the aim of the present research was to investigate the impact of the probiotic Phaeobacter inhibens as a water additive on cellular signaling pathways in the metamorphosis of greater amberjack (Seriola dumerili). Activation of insulin-like growth factor type 1 receptor (IGF-1R), protein kinase B (Akt), mitogen-activated protein kinases (MAPKs) and AMP-activated protein kinase (AMPK), induction of heat shock proteins (Hsps), and programmed cell death were assessed through SDS-Page/immunoblot analysis, while energy metabolism was determined through enzymatic activities. According to the results, greater amberjack reared in P. inhibens-enriched water entered the metamorphic phase with greater body length, while protein synthesis was triggered to facilitate the hypertrophic growth as indicated by IGF-1/Akt activation and AMPK inhibition. Contrarily, MAPKs levels were reduced, whereas variations in Hsps response were evident in the probiotic treatment. Apoptosis and autophagy were mobilized potentially for the structural remodeling processes. Furthermore, the elevated enzymatic activities of intermediary metabolism highlighted the excess energy demands of metamorphosis. Collectively, the present findings demonstrate that P. inhibens may reinforce nutrient utilization, thus leading greater amberjack to an advanced growth and developmental state. |
Polymenakou, Paraskevi N; Nomikou, Paraskevi; Hannington, Mark; Petersen, Sven; Kilias, Stephanos P; Anastasiou, Thekla I; Papadimitriou, Vasiliki; Zaka, Eleutheria; Kristoffersen, Jon Bent; Lampridou, Danai; Wind, Sandra; Heinath, Verena; Lange, Sabine; Magoulas, Antonios Taxonomic diversity of microbial communities in sub-seafloor hydrothermal sediments of the active Santorini-Kolumbo volcanic field Journal Article Frontiers in Microbiology, 14 , pp. 1188544, 2023, ISSN: 1664-302X. @article{polymenakou_taxonomic_2023, title = {Taxonomic diversity of microbial communities in sub-seafloor hydrothermal sediments of the active Santorini-Kolumbo volcanic field}, author = {Paraskevi N Polymenakou and Paraskevi Nomikou and Mark Hannington and Sven Petersen and Stephanos P Kilias and Thekla I Anastasiou and Vasiliki Papadimitriou and Eleutheria Zaka and Jon Bent Kristoffersen and Danai Lampridou and Sandra Wind and Verena Heinath and Sabine Lange and Antonios Magoulas}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/07/2023-Polymenakou-FrontMicro-35.pdf https://www.frontiersin.org/articles/10.3389/fmicb.2023.1188544/full}, doi = {10.3389/fmicb.2023.1188544}, issn = {1664-302X}, year = {2023}, date = {2023-07-06}, urldate = {2023-07-06}, journal = {Frontiers in Microbiology}, volume = {14}, pages = {1188544}, abstract = {Introduction Active hydrothermal vents of volcanic origin provide a remarkable manifestation of life on Earth under extreme conditions, which may have consequences for our understanding of habitability on other terrestrial bodies as well. Methods Here, we performed for the first time Illumina sequencing of bacterial and archaeal communities on sub-seafloor samples collected from the Santorini-Kolumbo volcanic field. A total of 19 (3-m long) gravity corers were collected and processed for microbial community analysis. Results From a total of 6,46,671 produced V4 sequences for all samples, a total of 10,496 different Operational Taxonomic Units (OTUs) were identified that were assigned to 40 bacterial and 9 archaeal phyla and 14 candidate divisions. On average, the most abundant phyla in all samples were Chloroflexi (Chloroflexota) (24.62%), followed by Proteobacteria (Pseudomonadota) (11.29%), Firmicutes (Bacillota) (10.73%), Crenarchaeota (Thermoproteota) (8.55%), and Acidobacteria (Acidobacteriota) (8.07%). At the genus level, a total of 286 known genera and candidate genera were mostly dominated by members of Bacillus, Thermoflexus, Desulfatiglans, Pseudoalteromonas , and Pseudomonas . Discussion In most of the stations, the Chao1 values at the deeper layers were comparable to the surface sediment samples denoting the high diversity in the subsurface of these ecosystems. Heatmap analysis based on the 100 most abundant OTUs, grouped the sampling stations according to their geographical location, placing together the two hottest stations (up to 99°C). This result indicates that this specific area within the active Kolumbo crater create a distinct niche, where microorganisms with adaptation strategies to withstand heat stresses can thrive, such as the endospore-forming Firmicutes.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Introduction Active hydrothermal vents of volcanic origin provide a remarkable manifestation of life on Earth under extreme conditions, which may have consequences for our understanding of habitability on other terrestrial bodies as well. Methods Here, we performed for the first time Illumina sequencing of bacterial and archaeal communities on sub-seafloor samples collected from the Santorini-Kolumbo volcanic field. A total of 19 (3-m long) gravity corers were collected and processed for microbial community analysis. Results From a total of 6,46,671 produced V4 sequences for all samples, a total of 10,496 different Operational Taxonomic Units (OTUs) were identified that were assigned to 40 bacterial and 9 archaeal phyla and 14 candidate divisions. On average, the most abundant phyla in all samples were Chloroflexi (Chloroflexota) (24.62%), followed by Proteobacteria (Pseudomonadota) (11.29%), Firmicutes (Bacillota) (10.73%), Crenarchaeota (Thermoproteota) (8.55%), and Acidobacteria (Acidobacteriota) (8.07%). At the genus level, a total of 286 known genera and candidate genera were mostly dominated by members of Bacillus, Thermoflexus, Desulfatiglans, Pseudoalteromonas , and Pseudomonas . Discussion In most of the stations, the Chao1 values at the deeper layers were comparable to the surface sediment samples denoting the high diversity in the subsurface of these ecosystems. Heatmap analysis based on the 100 most abundant OTUs, grouped the sampling stations according to their geographical location, placing together the two hottest stations (up to 99°C). This result indicates that this specific area within the active Kolumbo crater create a distinct niche, where microorganisms with adaptation strategies to withstand heat stresses can thrive, such as the endospore-forming Firmicutes. |
Publications
2024 |
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. |
Reviews in Aquaculture, pp. raq.12857, 2023, ISSN: 1753-5123, 1753-5131. |
Perturbation of Quorum Sensing after the Acquisition of Bacteriophage Resistance Could Contribute to Novel Traits in Vibrio alginolyticus Journal Article Microorganisms, 11 (9), pp. 2273, 2023, ISSN: 2076-2607. |
Identification of Marine Biotechnology Value Chains with High Potential in the Northern Mediterranean Region Journal Article Marine Drugs, 21 (7), pp. 416, 2023, ISSN: 1660-3397. |
The founding charter of the Omic Biodiversity Observation Network (Omic BON) Journal Article GigaScience, 12 , pp. giad068, 2023, ISSN: 2047-217X. |
Mediterranean Marine Science, 24 (3), pp. 482–490, 2023, ISSN: 1791-6763, 1108-393X. |
Ion-driven communication and acclimation strategies in microalgae Journal Article Chemical Engineering Journal, 473 , pp. 144985, 2023, ISSN: 13858947. |
Journal of Fish Diseases, pp. jfd.13854, 2023, ISSN: 0140-7775, 1365-2761. |
Pharmacokinetics of praziquantel in gilthead seabream (Sparus aurata) plasma and gills Journal Article Aquaculture, 577 , pp. 739975, 2023, ISSN: 00448486. |
How genomics can help biodiversity conservation Journal Article Trends in Genetics, 39 (7), pp. 545–559, 2023, ISSN: 01689525. |
Near-chromosome level genome assembly of devil firefish, Pterois miles Journal Article Peer Community Journal, 3 , pp. e64, 2023, ISSN: 2804-3871. |
Dysregulation of testis mRNA expression levels in hatchery-produced vs wild greater amberjack Seriola dumerili Journal Article Scientific Reports, 13 (1), pp. 13662, 2023, ISSN: 2045-2322. |
Evaluation of Toxicity Equivalency Factors of Tetrodotoxin Analogues with a Neuro-2a Cell-Based Assay and Application to Puffer Fish from Greece Journal Article Marine Drugs, 21 (8), pp. 432, 2023, ISSN: 1660-3397. |
Uptake of aquaculture-related dissolved organic pollutants by marine sponges: Kinetics and mechanistic insights from a laboratory study Journal Article Science of The Total Environment, 899 , pp. 165601, 2023, ISSN: 00489697. |
Preliminary measurements of formaldehyde in seawater and edible tissues of farmed gilthead seabream after formalin immersion Journal Article Mediterranean Marine Science, 24 (2), pp. 384–391, 2023, ISSN: 1791-6763, 1108-393X. |
Epigenetics in aquaculture Book First edition, John Wiley & Sons Ltd, Chichester, West Sussex, UK ; Hoboken, 2023, ISBN: 9781119821939 9781119821922, (Sarropoulou E., Fernández I. 2023. Epigenetic regulation of gene expression by non-coding RNAs. In: Epigenetics in Aquaculture, edited by Piferrer F, Wang, Η., Wiley, 512 pp. ). |
S1000: a better taxonomic name corpus for biomedical information extraction Journal Article Bioinformatics, 39 (6), pp. btad369, 2023, ISSN: 1367-4811. |
Animals, 13 (13), pp. 2154, 2023, ISSN: 2076-2615. |
Taxonomic diversity of microbial communities in sub-seafloor hydrothermal sediments of the active Santorini-Kolumbo volcanic field Journal Article Frontiers in Microbiology, 14 , pp. 1188544, 2023, ISSN: 1664-302X. |