2023 |
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 |
Vogiatzi, Angeliki; Keklikoglou, Kleoniki; Makris, Konstantinos; Argyrou, Dionysia Stamatia; Zacharopoulos, Athanasios; Sotiropoulou, Varvara; Parthenios, Nikolaos; Gkikas, Angelos; Kokkori, Maria; Richardson, Melodie S W; Fenwick, Aimée L; Archontidi, Sofia; Arvanitidis, Christos; Robertson, Jeremy; Parthenios, John; Zacharakis, Giannis; Twigg, Stephen R F; Wilkie, Andrew O M; Mavrothalassitis, George Development of Erf-Mediated Craniosynostosis and Pharmacological Amelioration Journal Article International Journal of Molecular Sciences, 24 (9), pp. 7961, 2023, ISSN: 1422-0067. @article{vogiatzi_development_2023, title = {Development of Erf-Mediated Craniosynostosis and Pharmacological Amelioration}, author = {Angeliki Vogiatzi and Kleoniki Keklikoglou and Konstantinos Makris and Dionysia Stamatia Argyrou and Athanasios Zacharopoulos and Varvara Sotiropoulou and Nikolaos Parthenios and Angelos Gkikas and Maria Kokkori and Melodie S W Richardson and Aimée L Fenwick and Sofia Archontidi and Christos Arvanitidis and Jeremy Robertson and John Parthenios and Giannis Zacharakis and Stephen R F Twigg and Andrew O M Wilkie and George Mavrothalassitis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2023/05/2023-Vogiatzi-2023-IJMSci-17.pdf https://www.mdpi.com/1422-0067/24/9/7961}, doi = {10.3390/ijms24097961}, issn = {1422-0067}, year = {2023}, date = {2023-05-02}, urldate = {2023-05-02}, journal = {International Journal of Molecular Sciences}, volume = {24}, number = {9}, pages = {7961}, abstract = {ETS2 repressor factor (ERF) insufficiency causes craniosynostosis (CRS4) in humans and mice. ERF is an ETS domain transcriptional repressor regulated by Erk1/2 phosphorylation via nucleo-cytoplasmic shuttling. Here, we analyze the onset and development of the craniosynostosis phenotype in an Erf-insufficient mouse model and evaluate the potential of the residual Erf activity augmented by pharmacological compounds to ameliorate the disease. Erf insufficiency appears to cause an initially compromised frontal bone formation and subsequent multisuture synostosis, reflecting distinct roles of Erf on the cells that give rise to skull and facial bones. We treated animals with Mek1/2 and nuclear export inhibitors, U0126 and KPT-330, respectively, to increase Erf activity by two independent pathways. We implemented both a low dosage locally over the calvaria and a systemic drug administration scheme to evaluate the possible indirect effects from other systems and minimize toxicity. The treatment of mice with either the inhibitors or the administration scheme alleviated the synostosis phenotype with minimal adverse effects. Our data suggest that the ERF level is an important regulator of cranial bone development and that pharmacological modulation of its activity may represent a valid intervention approach both in CRS4 and in other syndromic forms of craniosynostosis mediated by the FGFR-RAS-ERK-ERF pathway.}, keywords = {}, pubstate = {published}, tppubtype = {article} } ETS2 repressor factor (ERF) insufficiency causes craniosynostosis (CRS4) in humans and mice. ERF is an ETS domain transcriptional repressor regulated by Erk1/2 phosphorylation via nucleo-cytoplasmic shuttling. Here, we analyze the onset and development of the craniosynostosis phenotype in an Erf-insufficient mouse model and evaluate the potential of the residual Erf activity augmented by pharmacological compounds to ameliorate the disease. Erf insufficiency appears to cause an initially compromised frontal bone formation and subsequent multisuture synostosis, reflecting distinct roles of Erf on the cells that give rise to skull and facial bones. We treated animals with Mek1/2 and nuclear export inhibitors, U0126 and KPT-330, respectively, to increase Erf activity by two independent pathways. We implemented both a low dosage locally over the calvaria and a systemic drug administration scheme to evaluate the possible indirect effects from other systems and minimize toxicity. The treatment of mice with either the inhibitors or the administration scheme alleviated the synostosis phenotype with minimal adverse effects. Our data suggest that the ERF level is an important regulator of cranial bone development and that pharmacological modulation of its activity may represent a valid intervention approach both in CRS4 and in other syndromic forms of craniosynostosis mediated by the FGFR-RAS-ERK-ERF pathway. |
2022 |
Papanagnou, Eleni‐Dimitra; Gumeni, Sentiljana; Sklirou, Aimilia D; Rafeletou, Alexandra; Terpos, Evangelos; Keklikoglou, Kleoniki; Kastritis, Efstathios; Stamatelopoulos, Kimon; Sykiotis, Gerasimos P; Dimopoulos, Meletios A; Trougakos, Ioannis P Autophagy activation can partially rescue proteasome dysfunction‐mediated cardiac toxicity Journal Article Aging Cell, 2022, ISSN: 1474-9718, 1474-9726. @article{papanagnou_autophagy_2022, title = {Autophagy activation can partially rescue proteasome dysfunction‐mediated cardiac toxicity}, author = {Eleni‐Dimitra Papanagnou and Sentiljana Gumeni and Aimilia D Sklirou and Alexandra Rafeletou and Evangelos Terpos and Kleoniki Keklikoglou and Efstathios Kastritis and Kimon Stamatelopoulos and Gerasimos P Sykiotis and Meletios A Dimopoulos and Ioannis P Trougakos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/11/2022-Papanagnou-Keklikoglou-74.pdf https://onlinelibrary.wiley.com/doi/10.1111/acel.13715}, doi = {10.1111/acel.13715}, issn = {1474-9718, 1474-9726}, year = {2022}, date = {2022-11-07}, urldate = {2022-11-07}, journal = {Aging Cell}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Cascarano, Maria Chiara; Ruetten, Maja; Vaughan, Lloyd; Tsertou, Maria Ioanna; Georgopoulou, Dimitra; Keklikoglou, Kleoniki; Papandroulakis, Nikos; Katharios, Pantelis Epitheliocystis in Greater Amberjack: Evidence of a Novel Causative Agent, Pathology, Immune Response and Epidemiological Findings Journal Article Microorganisms, 10 (3), pp. 627, 2022, ISSN: 2076-2607. @article{cascarano_epitheliocystis_2022, title = {Epitheliocystis in Greater Amberjack: Evidence of a Novel Causative Agent, Pathology, Immune Response and Epidemiological Findings}, author = {Maria Chiara Cascarano and Maja Ruetten and Lloyd Vaughan and Maria Ioanna Tsertou and Dimitra Georgopoulou and Kleoniki Keklikoglou and Nikos Papandroulakis and Pantelis Katharios}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/05/2022-Cascarano-Microorganisms-20.pdf https://www.mdpi.com/2076-2607/10/3/627}, doi = {10.3390/microorganisms10030627}, issn = {2076-2607}, year = {2022}, date = {2022-03-01}, urldate = {2022-05-09}, journal = {Microorganisms}, volume = {10}, number = {3}, pages = {627}, abstract = {Epitheliocystis is a fish gill disease caused by a broad range of intracellular bacteria infecting freshwater and marine fish worldwide. Here we report the occurrence and progression of epitheliocystis in greater amberjack reared in Crete (Greece). The disease appears to be caused mainly by a novel Betaproteobacteria belonging to the Candidatus Ichthyocystis genus with a second agent genetically similar to Ca. Parilichlamydia carangidicola coinfecting the gills in some cases. After a first detection of the disease in 2017, we investigated epitheliocystis in the following year’s cohort of greater amberjack juveniles (cohort 2018) transferred from inland tanks to the same cage farm in the open sea where the first outbreak was detected. This cohort was monitored for over a year together with stocks of gilthead seabream and meagre co-farmed in the same area. Our observations showed that epitheliocystis could be detected in greater amberjack gills as early as a month following the transfer to sea cages, with ionocytes at the base of the gill lamellae being initially infected. Cyst formation appears to trigger a proliferative response, leading to the fusion of lamellae, impairment of gill functions and subsequently to mortality. Lesions are characterized by infiltration of immune cells, indicating activation of the innate immune response. At later stages of the outbreak, cysts were no longer found in ionocytes but were observed in mucocytes at the trailing edge of the filament. Whole cysts appeared finally to be expelled from infected mucocytes directly into the water, which might constitute a novel means of dispersion of the infectious agents. Molecular screening indicates that meagre is not affected by this disease and confirms the presence of previously described epitheliocystis agents, Ca. Ichthyocystis sparus, Ca. Ichthyocystis hellenicum and Ca. Similichlamydia spp., in gilthead seabream. Prevalence data show that the bacteria persist in both gilthead seabream and greater amberjack cohorts after first infection.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Epitheliocystis is a fish gill disease caused by a broad range of intracellular bacteria infecting freshwater and marine fish worldwide. Here we report the occurrence and progression of epitheliocystis in greater amberjack reared in Crete (Greece). The disease appears to be caused mainly by a novel Betaproteobacteria belonging to the Candidatus Ichthyocystis genus with a second agent genetically similar to Ca. Parilichlamydia carangidicola coinfecting the gills in some cases. After a first detection of the disease in 2017, we investigated epitheliocystis in the following year’s cohort of greater amberjack juveniles (cohort 2018) transferred from inland tanks to the same cage farm in the open sea where the first outbreak was detected. This cohort was monitored for over a year together with stocks of gilthead seabream and meagre co-farmed in the same area. Our observations showed that epitheliocystis could be detected in greater amberjack gills as early as a month following the transfer to sea cages, with ionocytes at the base of the gill lamellae being initially infected. Cyst formation appears to trigger a proliferative response, leading to the fusion of lamellae, impairment of gill functions and subsequently to mortality. Lesions are characterized by infiltration of immune cells, indicating activation of the innate immune response. At later stages of the outbreak, cysts were no longer found in ionocytes but were observed in mucocytes at the trailing edge of the filament. Whole cysts appeared finally to be expelled from infected mucocytes directly into the water, which might constitute a novel means of dispersion of the infectious agents. Molecular screening indicates that meagre is not affected by this disease and confirms the presence of previously described epitheliocystis agents, Ca. Ichthyocystis sparus, Ca. Ichthyocystis hellenicum and Ca. Similichlamydia spp., in gilthead seabream. Prevalence data show that the bacteria persist in both gilthead seabream and greater amberjack cohorts after first infection. |
Tsertou, M I; Papandroulakis, N; Keklikoglou, K; Kalantzi, I; Tsapakis, M; Tsalafouta, A; Pavlidis, M; Antonopoulou, E; Katharios, P Comparative study of Chronic Ulcerative Dermatopathy in cultured meagre, Argyrosomus regius Journal Article Aquaculture, 556 , pp. 738301, 2022, ISSN: 00448486. @article{tsertou_comparative_2022, title = {Comparative study of Chronic Ulcerative Dermatopathy in cultured meagre, Argyrosomus regius}, author = {M I Tsertou and N Papandroulakis and K Keklikoglou and I Kalantzi and M Tsapakis and A Tsalafouta and M Pavlidis and E Antonopoulou and P Katharios}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/05/2022-Tsertou-AQUA-pre-print-34.pdf https://linkinghub.elsevier.com/retrieve/pii/S0044848622004173}, doi = {10.1016/j.aquaculture.2022.738301}, issn = {00448486}, year = {2022}, date = {2022-01-01}, urldate = {2022-05-09}, journal = {Aquaculture}, volume = {556}, pages = {738301}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Charisi, C; Kodonas, K; Keklikoglou, K; Arhakis, A; Arapostathis, K A; Kotsanos, N Morphological, histological, and chemical analysis of first permanent molars with molar incisor malformation Journal Article European Archives of Paediatric Dentistry, 2022, ISSN: 1818-6300, 1996-9805. @article{charisi_morphological_2022, title = {Morphological, histological, and chemical analysis of first permanent molars with molar incisor malformation}, author = {C Charisi and K Kodonas and K Keklikoglou and A Arhakis and K A Arapostathis and N Kotsanos}, url = {https://link.springer.com/10.1007/s40368-022-00723-9https://imbbc.hcmr.gr/wp-content/uploads/2022/07/2022-Charisi-EAPD-50-pre-print.pdf https://link.springer.com/10.1007/s40368-022-00723-9}, doi = {10.1007/s40368-022-00723-9}, issn = {1818-6300, 1996-9805}, year = {2022}, date = {2022-01-01}, urldate = {2022-07-29}, journal = {European Archives of Paediatric Dentistry}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2021 |
Chatzinikolaou, Eva; Keklikoglou, Kleoniki; Grigoriou, Panagiotis; Arvanitidis, Christos Micro-CT image gallery visually presenting the effects of ocean warming and acidification on marine gastropod shells Journal Article Biodiversity Data Journal, 9 , pp. e75358, 2021, ISSN: 1314-2828, 1314-2836, (BIODIV). @article{chatzinikolaou_micro-ct_2021c, title = {Micro-CT image gallery visually presenting the effects of ocean warming and acidification on marine gastropod shells}, author = {Eva Chatzinikolaou and Kleoniki Keklikoglou and Panagiotis Grigoriou and Christos Arvanitidis}, url = {https://bdj.pensoft.net/article/75358/}, doi = {10.3897/BDJ.9.e75358}, issn = {1314-2828, 1314-2836}, year = {2021}, date = {2021-12-01}, urldate = {2022-01-17}, journal = {Biodiversity Data Journal}, volume = {9}, pages = {e75358}, abstract = {Digitisation of specimens (e.g. zoological, botanical) can provide access to advanced morphological and anatomical information and promote new research opportunities. The micro-CT technology may support the development of "virtual museums" or "virtual laboratories" where digital 3D imaging data are shared widely and freely. There is currently a lack of universal standards concerning the publication and curation of micro-CT datasets. The aim of the current project was to create a virtual gallery with micro-CT scans of individuals of the marine gastropod Hexaplex trunculus , which were maintained under a combination of increased temperature and low pH conditions, thus simulating future climate change scenarios. The 3D volume-rendering models created were used to visualise the structure properties of the gastropods shells. Finally, the 3D analysis performed on the micro-CT scans was used to investigate potential changes in the shell properties of the gastropods. The derived micro-CT 3D images were annotated with detailed metadata and can be interactively displayed and manipulated using online tools through the micro-CT virtual laboratory, which was developed under the LifeWatchGreece Research Infrastructure for the dissemination of virtual image galleries collection supporting the principles of FAIR data.}, note = {BIODIV}, keywords = {}, pubstate = {published}, tppubtype = {article} } Digitisation of specimens (e.g. zoological, botanical) can provide access to advanced morphological and anatomical information and promote new research opportunities. The micro-CT technology may support the development of "virtual museums" or "virtual laboratories" where digital 3D imaging data are shared widely and freely. There is currently a lack of universal standards concerning the publication and curation of micro-CT datasets. The aim of the current project was to create a virtual gallery with micro-CT scans of individuals of the marine gastropod Hexaplex trunculus , which were maintained under a combination of increased temperature and low pH conditions, thus simulating future climate change scenarios. The 3D volume-rendering models created were used to visualise the structure properties of the gastropods shells. Finally, the 3D analysis performed on the micro-CT scans was used to investigate potential changes in the shell properties of the gastropods. The derived micro-CT 3D images were annotated with detailed metadata and can be interactively displayed and manipulated using online tools through the micro-CT virtual laboratory, which was developed under the LifeWatchGreece Research Infrastructure for the dissemination of virtual image galleries collection supporting the principles of FAIR data. |
Chatzinikolaou, Eva; Keklikoglou, Kleoniki Micro-CT protocols for scanning and 3D analysis of Hexaplex trunculus during its different life stages Journal Article 9 , pp. e71542, 2021, ISSN: 1314-2828. @article{chatzinikolaou_micro-ct_2021, title = {Micro-CT protocols for scanning and 3D analysis of Hexaplex trunculus during its different life stages}, author = {Eva Chatzinikolaou and Kleoniki Keklikoglou}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/09/2021-Chatzinikolaou-and-Keklikoglou-BDJournal-70.pdf https://bdj.pensoft.net/article/71542/}, doi = {10.3897/BDJ.9.e71542}, issn = {1314-2828}, year = {2021}, date = {2021-09-15}, urldate = {2021-09-22}, volume = {9}, pages = {e71542}, abstract = {Micro-computed tomography (micro-CT) is a high-resolution 3D-imaging technique which is now increasingly applied in biological studies focusing on taxonomy and functional morphology. The creation of virtual representations of specimens can increase availability of otherwise underexploited and inaccessible samples. The 3D model dataset can be also further processed through volume rendering and morphometric analysis. The success of micro-CT as a visualisation technique depends on several methodological manipulations, including the use of contrast enhancing staining agents, filters, scanning mediums, containers, exposure time and frame averaging. The aim of this study was to standardise a series of micro-CT scanning and 3D analysis protocols for a marine gastropod species, Hexaplex trunculus. The analytical protocols have followed all the developmental stages of this gastropod, from egg capsules and embryos to juveniles and adults.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Micro-computed tomography (micro-CT) is a high-resolution 3D-imaging technique which is now increasingly applied in biological studies focusing on taxonomy and functional morphology. The creation of virtual representations of specimens can increase availability of otherwise underexploited and inaccessible samples. The 3D model dataset can be also further processed through volume rendering and morphometric analysis. The success of micro-CT as a visualisation technique depends on several methodological manipulations, including the use of contrast enhancing staining agents, filters, scanning mediums, containers, exposure time and frame averaging. The aim of this study was to standardise a series of micro-CT scanning and 3D analysis protocols for a marine gastropod species, Hexaplex trunculus. The analytical protocols have followed all the developmental stages of this gastropod, from egg capsules and embryos to juveniles and adults. |
Keklikoglou, Kleoniki; Arvanitidis, Christos; Chatzigeorgiou, Georgios; Chatzinikolaou, Eva; Karagiannidis, Efstratios; Koletsa, Triantafyllia; Magoulas, Antonios; Makris, Konstantinos; Mavrothalassitis, George; Papanagnou, Eleni-Dimitra; Papazoglou, Andreas S; Pavloudi, Christina; Trougakos, Ioannis P; Vasileiadou, Katerina; Vogiatzi, Angeliki Micro-CT for Biological and Biomedical Studies: A Comparison of Imaging Techniques Journal Article 7 (9), pp. 172, 2021, ISSN: 2313-433X. @article{keklikoglou_micro-ct_2021, title = {Micro-CT for Biological and Biomedical Studies: A Comparison of Imaging Techniques}, author = {Kleoniki Keklikoglou and Christos Arvanitidis and Georgios Chatzigeorgiou and Eva Chatzinikolaou and Efstratios Karagiannidis and Triantafyllia Koletsa and Antonios Magoulas and Konstantinos Makris and George Mavrothalassitis and Eleni-Dimitra Papanagnou and Andreas S Papazoglou and Christina Pavloudi and Ioannis P Trougakos and Katerina Vasileiadou and Angeliki Vogiatzi}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/09/2021-Keklikoglou-jimaging-66-1.pdf https://www.mdpi.com/2313-433X/7/9/172}, doi = {10.3390/jimaging7090172}, issn = {2313-433X}, year = {2021}, date = {2021-09-01}, urldate = {2021-09-22}, volume = {7}, number = {9}, pages = {172}, abstract = {Several imaging techniques are used in biological and biomedical studies. Micro-computed tomography (micro-CT) is a non-destructive imaging technique that allows the rapid digitisation of internal and external structures of a sample in three dimensions and with great resolution. In this review, the strengths and weaknesses of some common imaging techniques applied in biological and biomedical fields, such as optical microscopy, confocal laser scanning microscopy, and scanning electron microscopy, are presented and compared with the micro-CT technique through five use cases. Finally, the ability of micro-CT to create non-destructively 3D anatomical and morphological data in sub-micron resolution and the necessity to develop complementary methods with other imaging techniques, in order to overcome limitations caused by each technique, is emphasised.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Several imaging techniques are used in biological and biomedical studies. Micro-computed tomography (micro-CT) is a non-destructive imaging technique that allows the rapid digitisation of internal and external structures of a sample in three dimensions and with great resolution. In this review, the strengths and weaknesses of some common imaging techniques applied in biological and biomedical fields, such as optical microscopy, confocal laser scanning microscopy, and scanning electron microscopy, are presented and compared with the micro-CT technique through five use cases. Finally, the ability of micro-CT to create non-destructively 3D anatomical and morphological data in sub-micron resolution and the necessity to develop complementary methods with other imaging techniques, in order to overcome limitations caused by each technique, is emphasised. |
Chatzinikolaou, Eva; Damianidis, Panagiotis; Pavloudi, Christina; Vasileiadou, Aikaterini; Faulwetter, Sarah; Keklikoglou, Kleoniki; Plaitis, Wanda; Mavraki, Dimitra; Nikolopoulou, Stamatina; Arvanitidis, Christos Benthic communities in three Mediterranean touristic ports: MAPMED project Journal Article Biodiversity Data Journal, 9 , pp. e66420, 2021, ISSN: 1314-2828. @article{chatzinikolaou_benthic_2021, title = {Benthic communities in three Mediterranean touristic ports: MAPMED project}, author = {Eva Chatzinikolaou and Panagiotis Damianidis and Christina Pavloudi and Aikaterini Vasileiadou and Sarah Faulwetter and Kleoniki Keklikoglou and Wanda Plaitis and Dimitra Mavraki and Stamatina Nikolopoulou and Christos Arvanitidis}, url = {https://bdj.pensoft.net/article/66420/ https://imbbc.hcmr.gr/wp-content/uploads/2021/05/2021-Chatzinikolaou-DioDiv-Data-J-32.pdf}, doi = {10.3897/BDJ.9.e66420}, issn = {1314-2828}, year = {2021}, date = {2021-04-01}, urldate = {2021-04-27}, journal = {Biodiversity Data Journal}, volume = {9}, pages = {e66420}, abstract = {Mediterranean ports are sources of significant economic activity and at the same time they act as recipients of considerable anthropogenic disturbance and pollution. Macrobenthic communities are an important component of the port biota and have been used as environmental quality indicators.Macrobenthic assemblages were recorded in three Mediterranean touristic ports under the framework of the ENPI CBC MED project MAPMED. Samples were collected from Cagliari (Sardinia, Italy), Heraklion (Crete, Greece) and El Kantaoui (Tunisia) ports during February, May and September 2012. The sampling stations were selected according to the different sectors within each port (i.e. leisure, fishing, passenger/cargo vessels, shipyard). A total number of 277 taxa belonging to 12 phyla were found, of which the 96 taxa were found in all three ports. El Kantaoui port hosted the highest number of macrobenthic taxa. Mollusca were the most abundant group (34%) in all ports. The highest percentage of opportunistic taxa per station was found before the touristic period in the shipyard of Heraklion port (89.3%).}, keywords = {}, pubstate = {published}, tppubtype = {article} } Mediterranean ports are sources of significant economic activity and at the same time they act as recipients of considerable anthropogenic disturbance and pollution. Macrobenthic communities are an important component of the port biota and have been used as environmental quality indicators.Macrobenthic assemblages were recorded in three Mediterranean touristic ports under the framework of the ENPI CBC MED project MAPMED. Samples were collected from Cagliari (Sardinia, Italy), Heraklion (Crete, Greece) and El Kantaoui (Tunisia) ports during February, May and September 2012. The sampling stations were selected according to the different sectors within each port (i.e. leisure, fishing, passenger/cargo vessels, shipyard). A total number of 277 taxa belonging to 12 phyla were found, of which the 96 taxa were found in all three ports. El Kantaoui port hosted the highest number of macrobenthic taxa. Mollusca were the most abundant group (34%) in all ports. The highest percentage of opportunistic taxa per station was found before the touristic period in the shipyard of Heraklion port (89.3%). |
Karagiannidis, Efstratios; Papazoglou, Andreas S; Stalikas, Nikolaos; Deda, Olga; Panteris, Eleftherios; Begou, Olga; Sofidis, Georgios; Moysidis, Dimitrios V; Kartas, Anastasios; Chatzinikolaou, Evangelia; Keklikoglou, Kleoniki; Bompoti, Andreana; Gika, Helen; Theodoridis, Georgios; Sianos, Georgios Serum Ceramides as Prognostic Biomarkers of Large Thrombus Burden in Patients with STEMI: A Micro-Computed Tomography Study Journal Article Journal of Personalized Medicine, 11 (2), pp. 89, 2021. @article{karagiannidis_serum_2021, title = {Serum Ceramides as Prognostic Biomarkers of Large Thrombus Burden in Patients with STEMI: A Micro-Computed Tomography Study}, author = {Efstratios Karagiannidis and Andreas S Papazoglou and Nikolaos Stalikas and Olga Deda and Eleftherios Panteris and Olga Begou and Georgios Sofidis and Dimitrios V Moysidis and Anastasios Kartas and Evangelia Chatzinikolaou and Kleoniki Keklikoglou and Andreana Bompoti and Helen Gika and Georgios Theodoridis and Georgios Sianos}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2021/02/2021-Karagiannidis-Chatzinikolaou-Keklikoglou-JPMed-9.pdf https://www.mdpi.com/2075-4426/11/2/89}, doi = {10.3390/jpm11020089}, year = {2021}, date = {2021-01-01}, urldate = {2021-02-05}, journal = {Journal of Personalized Medicine}, volume = {11}, number = {2}, pages = {89}, abstract = {ST-elevation myocardial infarction (STEMI) remains one of the leading causes of mortality worldwide. The identification of novel metabolic and imaging biomarkers could unveil key pathophysiological mechanisms at the molecular level and promote personalized care in patients with acute coronary syndromes. We studied 38 patients with STEMI who underwent primary percutaneous coronary intervention and thrombus aspiration. We sought to correlate serum ceramide levels with micro-CT quantified aspirated thrombus volume and relevant angiographic outcomes, including modified TIMI thrombus grade and pre- or post-procedural TIMI flow. Higher ceramide C16:0 levels were significantly but weakly correlated with larger aspirated thrombus volume (Spearman r = 0.326}, keywords = {}, pubstate = {published}, tppubtype = {article} } ST-elevation myocardial infarction (STEMI) remains one of the leading causes of mortality worldwide. The identification of novel metabolic and imaging biomarkers could unveil key pathophysiological mechanisms at the molecular level and promote personalized care in patients with acute coronary syndromes. We studied 38 patients with STEMI who underwent primary percutaneous coronary intervention and thrombus aspiration. We sought to correlate serum ceramide levels with micro-CT quantified aspirated thrombus volume and relevant angiographic outcomes, including modified TIMI thrombus grade and pre- or post-procedural TIMI flow. Higher ceramide C16:0 levels were significantly but weakly correlated with larger aspirated thrombus volume (Spearman r = 0.326 |
Chatzinikolaou, Eva; Keklikoglou, Kleoniki; Grigoriou, Panos Morphological Properties of Gastropod Shells in a Warmer and More Acidic Future Ocean Using 3D Micro-Computed Tomography Journal Article Frontiers in Marine Science, 8 , 2021, ISSN: 2296-7745. @article{chatzinikolaou_morphological_2021, title = {Morphological Properties of Gastropod Shells in a Warmer and More Acidic Future Ocean Using 3D Micro-Computed Tomography}, author = {Eva Chatzinikolaou and Kleoniki Keklikoglou and Panos Grigoriou}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2021.645660/full https://imbbc.hcmr.gr/wp-content/uploads/2021/05/2021-Chatzinikolaou-Frontiers-34.pdf}, doi = {10.3389/fmars.2021.645660}, issn = {2296-7745}, year = {2021}, date = {2021-01-01}, urldate = {2021-05-10}, journal = {Frontiers in Marine Science}, volume = {8}, abstract = {The increased absorption of atmospheric CO2 by the ocean reduces pH and affects the carbonate chemistry of seawater, thus interfering with the shell formation processes of marine calcifiers. The present study aims to examine the effects of ocean acidification and warming on the shell morphological properties of two intertidal gastropod species, Nassarius nitidus and Columbella rustica. The experimental treatments lasted for 3 months and combined a temperature increase of 3 °C and a pH reduction of 0.3 units. The selected treatments reflected the high emissions (RCP 8.5) “business as usual” scenario of the Intergovernmental Panel on Climate Change models for eastern Mediterranean. The morphological and architectural properties of the shell, such as density, thickness and porosity were examined using 3D micro-computed tomography, which is a technique giving the advantage of calculating values for the total shell (not only at specific points) and at the same time leaving the shells intact. Nassarius nitidus had a lower shell density and thickness and a higher porosity when the pH was reduced at ambient temperature, but the combination of reduced pH and increased temperature did not have a noticeable effect in comparison to the control. The shell of Columbella rustica was less dense, thinner and more porous under acidic and warm conditions, but when the temperature was increased under ambient pH the shells were thicker and denser than the control. Under low pH and ambient temperature, shells showed no differences compared to the control. The vulnerability of calcareous shells to ocean acidification and warming appears to be variable among species. Plasticity of shell building organisms as an acclimation action towards a continuously changing marine environment needs to be further investigated focusing on species or shell region specific adaptation mechanisms.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The increased absorption of atmospheric CO2 by the ocean reduces pH and affects the carbonate chemistry of seawater, thus interfering with the shell formation processes of marine calcifiers. The present study aims to examine the effects of ocean acidification and warming on the shell morphological properties of two intertidal gastropod species, Nassarius nitidus and Columbella rustica. The experimental treatments lasted for 3 months and combined a temperature increase of 3 °C and a pH reduction of 0.3 units. The selected treatments reflected the high emissions (RCP 8.5) “business as usual” scenario of the Intergovernmental Panel on Climate Change models for eastern Mediterranean. The morphological and architectural properties of the shell, such as density, thickness and porosity were examined using 3D micro-computed tomography, which is a technique giving the advantage of calculating values for the total shell (not only at specific points) and at the same time leaving the shells intact. Nassarius nitidus had a lower shell density and thickness and a higher porosity when the pH was reduced at ambient temperature, but the combination of reduced pH and increased temperature did not have a noticeable effect in comparison to the control. The shell of Columbella rustica was less dense, thinner and more porous under acidic and warm conditions, but when the temperature was increased under ambient pH the shells were thicker and denser than the control. Under low pH and ambient temperature, shells showed no differences compared to the control. The vulnerability of calcareous shells to ocean acidification and warming appears to be variable among species. Plasticity of shell building organisms as an acclimation action towards a continuously changing marine environment needs to be further investigated focusing on species or shell region specific adaptation mechanisms. |
Chatzinikolaou, Eva; Keklikoglou, Kleoniki; Grigoriou, Panagiotis; Arvanitidis, Christos Micro-CT image gallery visually presenting the effects of ocean warming and acidification on marine gastropod shells Journal Article Biodiversity Data Journal, 9 , pp. e75358, 2021, ISSN: 1314-2828. @article{chatzinikolaou_micro-ct_2021b, title = {Micro-CT image gallery visually presenting the effects of ocean warming and acidification on marine gastropod shells}, author = {Eva Chatzinikolaou and Kleoniki Keklikoglou and Panagiotis Grigoriou and Christos Arvanitidis}, url = {https://imbbc.hcmr.gr/wp-content/uploads/2022/01/2021-Chatzinikolaou-BDJ-81.pdf https://bdj.pensoft.net/article/75358/}, doi = {10.3897/BDJ.9.e75358}, issn = {1314-2828}, year = {2021}, date = {2021-01-01}, urldate = {2022-01-12}, journal = {Biodiversity Data Journal}, volume = {9}, pages = {e75358}, abstract = {Digitisation of specimens (e.g. zoological, botanical) can provide access to advanced morphological and anatomical information and promote new research opportunities. The micro-CT technology may support the development of "virtual museums" or "virtual laboratories" where digital 3D imaging data are shared widely and freely. There is currently a lack of universal standards concerning the publication and curation of micro-CT datasets.The aim of the current project was to create a virtual gallery with micro-CT scans of individuals of the marine gastropod Hexaplex trunculus, which were maintained under a combination of increased temperature and low pH conditions, thus simulating future climate change scenarios. The 3D volume-rendering models created were used to visualise the structure properties of the gastropods shells. Finally, the 3D analysis performed on the micro-CT scans was used to investigate potential changes in the shell properties of the gastropods. The derived micro-CT 3D images were annotated with detailed metadata and can be interactively displayed and manipulated using online tools through the micro-CT virtual laboratory, which was developed under the LifeWatchGreece Research Infrastructure for the dissemination of virtual image galleries collection supporting the principles of FAIR data.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Digitisation of specimens (e.g. zoological, botanical) can provide access to advanced morphological and anatomical information and promote new research opportunities. The micro-CT technology may support the development of "virtual museums" or "virtual laboratories" where digital 3D imaging data are shared widely and freely. There is currently a lack of universal standards concerning the publication and curation of micro-CT datasets.The aim of the current project was to create a virtual gallery with micro-CT scans of individuals of the marine gastropod Hexaplex trunculus, which were maintained under a combination of increased temperature and low pH conditions, thus simulating future climate change scenarios. The 3D volume-rendering models created were used to visualise the structure properties of the gastropods shells. Finally, the 3D analysis performed on the micro-CT scans was used to investigate potential changes in the shell properties of the gastropods. The derived micro-CT 3D images were annotated with detailed metadata and can be interactively displayed and manipulated using online tools through the micro-CT virtual laboratory, which was developed under the LifeWatchGreece Research Infrastructure for the dissemination of virtual image galleries collection supporting the principles of FAIR data. |
Printzi, Alice; Fragkoulis, Stefanos; Dimitriadi, Anastasia; Keklikoglou, Kleoniki; Arvanitidis, Christos; Witten, Eckhard P; Koumoundouros, George Exercise-induced lordosis in zebrafish Danio rerio (Hamilton, 1822) Journal Article Journal of Fish Biology, 98 (4), pp. 987–994, 2021, ISSN: 0022-1112, 1095-8649, (BIODIV). @article{printzi_exercise-induced_2021, title = {Exercise-induced lordosis in zebrafish Danio rerio (Hamilton, 1822)}, author = {Alice Printzi and Stefanos Fragkoulis and Anastasia Dimitriadi and Kleoniki Keklikoglou and Christos Arvanitidis and Eckhard P Witten and George Koumoundouros}, url = {https://onlinelibrary.wiley.com/doi/10.1111/jfb.14240}, doi = {10.1111/jfb.14240}, issn = {0022-1112, 1095-8649}, year = {2021}, date = {2021-01-01}, urldate = {2022-01-17}, journal = {Journal of Fish Biology}, volume = {98}, number = {4}, pages = {987--994}, note = {BIODIV}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2020 |
Emmanouilidis, Alexandros; Unkel, Ingmar; Seguin, Joana; Keklikoglou, Kleoniki; Gianni, Eleni; Avramidis, Pavlos Application of Non-Destructive Techniques on a Varve Sediment Record from Vouliagmeni Coastal Lake, Eastern Gulf of Corinth, Greece Journal Article Applied Sciences, 10 (22), pp. 8273, 2020, ISSN: 2076-3417. @article{emmanouilidis_application_2020, title = {Application of Non-Destructive Techniques on a Varve Sediment Record from Vouliagmeni Coastal Lake, Eastern Gulf of Corinth, Greece}, author = {Alexandros Emmanouilidis and Ingmar Unkel and Joana Seguin and Kleoniki Keklikoglou and Eleni Gianni and Pavlos Avramidis}, url = {https://www.mdpi.com/2076-3417/10/22/8273}, doi = {10.3390/app10228273}, issn = {2076-3417}, year = {2020}, date = {2020-11-01}, urldate = {2020-11-23}, journal = {Applied Sciences}, volume = {10}, number = {22}, pages = {8273}, abstract = {During the last few decades, X-ray attenuation systems have been established as standard techniques in geosciences and as excellent scientific tools for the analysis of sedimentary facies and structures. In the present study, we use two non-destructive and high-resolution systems (computed tomography, X-ray fluorescence) to address all sedimentological facies and structural characteristics on a 6 m long, partly laminated sediment record, from Vouliagmeni lake, located at the eastern part of the Corinth Gulf, Greece. Vouliagmeni lake is the deepest coastal lake in Greece, and its location is of great importance since it is located in one of the most tectonically active regions in the world. The chronological framework of the retrieved sediment sequence spans the last 12,000 years, with alternations of laminated and non-laminated sections. The annual accumulation of the laminated sequences was determined through the radionuclide concentration of 14 samples. Scanning tomography was performed with a medical CT scanner and a μCT scanner, aiming to compare the potentials and variations of both methods. Lamination boundaries, event layers (turbidites) and sediment deformations were distinguished through processing the extracted 3D rendered volumes, after applying ranges depending on Hounsfield (HU) values. Microscopic analysis revealed three main layer types in the varve sequences that were examined, attributing to summer/spring, autumn and winter deposits. Statistical analysis of the elemental composition, magnetic susceptibility (MS) measurements and HU values revealed three clusters/facies, reflecting climatic and in-lake hydrological changes. Cluster A emulates sedimentation during arid conditions, while Cluster B reflects humid conditions with increased precipitation and erosion. Cluster C represents sequences with homogenous Ca-rich sediment. Our proposed workflow highlights the possible correlation between the non-destructive variables that were measured, but also the variations and applications of each method and software used during this study.}, keywords = {}, pubstate = {published}, tppubtype = {article} } During the last few decades, X-ray attenuation systems have been established as standard techniques in geosciences and as excellent scientific tools for the analysis of sedimentary facies and structures. In the present study, we use two non-destructive and high-resolution systems (computed tomography, X-ray fluorescence) to address all sedimentological facies and structural characteristics on a 6 m long, partly laminated sediment record, from Vouliagmeni lake, located at the eastern part of the Corinth Gulf, Greece. Vouliagmeni lake is the deepest coastal lake in Greece, and its location is of great importance since it is located in one of the most tectonically active regions in the world. The chronological framework of the retrieved sediment sequence spans the last 12,000 years, with alternations of laminated and non-laminated sections. The annual accumulation of the laminated sequences was determined through the radionuclide concentration of 14 samples. Scanning tomography was performed with a medical CT scanner and a μCT scanner, aiming to compare the potentials and variations of both methods. Lamination boundaries, event layers (turbidites) and sediment deformations were distinguished through processing the extracted 3D rendered volumes, after applying ranges depending on Hounsfield (HU) values. Microscopic analysis revealed three main layer types in the varve sequences that were examined, attributing to summer/spring, autumn and winter deposits. Statistical analysis of the elemental composition, magnetic susceptibility (MS) measurements and HU values revealed three clusters/facies, reflecting climatic and in-lake hydrological changes. Cluster A emulates sedimentation during arid conditions, while Cluster B reflects humid conditions with increased precipitation and erosion. Cluster C represents sequences with homogenous Ca-rich sediment. Our proposed workflow highlights the possible correlation between the non-destructive variables that were measured, but also the variations and applications of each method and software used during this study. |
Obst, Matthias; Exter, Katrina; Allcock, Louise A; Arvanitidis, Christos; Axberg, Alizz; Bustamante, Maria; Cancio, Ibon; Carreira-Flores, Diego; Chatzinikolaou, Eva; Chatzigeorgiou, Giorgos; Chrismas, Nathan; Clark, Melody S; Comtet, Thierry; Dailianis, Thanos; Davies, Neil; Deneudt, Klaas; de Cerio, Oihane Diaz; Fortič, Ana; Gerovasileiou, Vasilis; Hablützel, Pascal I; Keklikoglou, Kleoniki; Kotoulas, Georgios; Lasota, Rafal; Leite, Barbara R; Loisel, Stéphane; Lévêque, Laurent; Levy, Liraz; Malachowicz, Magdalena; Mavrič, Borut; Meyer, Christopher; Mortelmans, Jonas; Norkko, Joanna; Pade, Nicolas; Power, Anne Marie; Ramšak, Andreja; Reiss, Henning; Solbakken, Jostein; Staehr, Peter A; Sundberg, Per; Thyrring, Jakob; Troncoso, Jesus S; Viard, Frédérique; Wenne, Roman; Yperifanou, Eleni Ioanna; Zbawicka, Malgorzata; Pavloudi, Christina A Marine Biodiversity Observation Network for Genetic Monitoring of Hard-Bottom Communities (ARMS-MBON) Journal Article Frontiers in Marine Science, 7 , pp. 572680, 2020, ISSN: 2296-7745. @article{obst_marine_2020, title = {A Marine Biodiversity Observation Network for Genetic Monitoring of Hard-Bottom Communities (ARMS-MBON)}, author = {Matthias Obst and Katrina Exter and Louise A Allcock and Christos Arvanitidis and Alizz Axberg and Maria Bustamante and Ibon Cancio and Diego Carreira-Flores and Eva Chatzinikolaou and Giorgos Chatzigeorgiou and Nathan Chrismas and Melody S Clark and Thierry Comtet and Thanos Dailianis and Neil Davies and Klaas Deneudt and Oihane Diaz de Cerio and Ana Fortič and Vasilis Gerovasileiou and Pascal I Hablützel and Kleoniki Keklikoglou and Georgios Kotoulas and Rafal Lasota and Barbara R Leite and Stéphane Loisel and Laurent Lévêque and Liraz Levy and Magdalena Malachowicz and Borut Mavrič and Christopher Meyer and Jonas Mortelmans and Joanna Norkko and Nicolas Pade and Anne Marie Power and Andreja Ramšak and Henning Reiss and Jostein Solbakken and Peter A Staehr and Per Sundberg and Jakob Thyrring and Jesus S Troncoso and Frédérique Viard and Roman Wenne and Eleni Ioanna Yperifanou and Malgorzata Zbawicka and Christina Pavloudi}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2020.572680/full}, doi = {10.3389/fmars.2020.572680}, issn = {2296-7745}, year = {2020}, date = {2020-11-01}, urldate = {2020-12-08}, journal = {Frontiers in Marine Science}, volume = {7}, pages = {572680}, abstract = {Marine hard-bottom communities are undergoing severe change under the influence of multiple drivers, notably climate change, extraction of natural resources, pollution and eutrophication, habitat degradation, and invasive species. Monitoring marine biodiversity in such habitats is, however, challenging as it typically involves expensive, non-standardized, and often destructive sampling methods that limit its scalability. Differences in monitoring approaches furthermore hinders inter-comparison among monitoring programs. Here, we announce a Marine Biodiversity Observation Network (MBON) consisting of Autonomous Reef Monitoring Structures (ARMS) with the aim to assess the status and changes in benthic fauna with genomic-based methods, notably DNA metabarcoding, in combination with image-based identifications. This article presents the results of a 30-month pilot phase in which we established an operational and geographically expansive ARMS-MBON. The network currently consists of 20 observatories distributed across European coastal waters and the polar regions, in which 134 ARMS have been deployed to date. Sampling takes place annually, either as short-term deployments during the summer or as long-term deployments starting in spring. The pilot phase was used to establish a common set of standards for field sampling, genetic analysis, data management, and legal compliance, which are presented here. We also tested the potential of ARMS for combining genetic and image-based identification methods in comparative studies of benthic diversity, as well as for detecting non-indigenous species. Results show that ARMS are suitable for monitoring hard-bottom environments as they provide genetic data that can be continuously enriched, re-analyzed, and integrated with conventional data to document benthic community composition and detect non-indigenous species. Finally, we provide guidelines to expand the network and present a sustainability plan as part of the European Marine Biological Resource Centre ( www.embrc.eu ).}, keywords = {}, pubstate = {published}, tppubtype = {article} } Marine hard-bottom communities are undergoing severe change under the influence of multiple drivers, notably climate change, extraction of natural resources, pollution and eutrophication, habitat degradation, and invasive species. Monitoring marine biodiversity in such habitats is, however, challenging as it typically involves expensive, non-standardized, and often destructive sampling methods that limit its scalability. Differences in monitoring approaches furthermore hinders inter-comparison among monitoring programs. Here, we announce a Marine Biodiversity Observation Network (MBON) consisting of Autonomous Reef Monitoring Structures (ARMS) with the aim to assess the status and changes in benthic fauna with genomic-based methods, notably DNA metabarcoding, in combination with image-based identifications. This article presents the results of a 30-month pilot phase in which we established an operational and geographically expansive ARMS-MBON. The network currently consists of 20 observatories distributed across European coastal waters and the polar regions, in which 134 ARMS have been deployed to date. Sampling takes place annually, either as short-term deployments during the summer or as long-term deployments starting in spring. The pilot phase was used to establish a common set of standards for field sampling, genetic analysis, data management, and legal compliance, which are presented here. We also tested the potential of ARMS for combining genetic and image-based identification methods in comparative studies of benthic diversity, as well as for detecting non-indigenous species. Results show that ARMS are suitable for monitoring hard-bottom environments as they provide genetic data that can be continuously enriched, re-analyzed, and integrated with conventional data to document benthic community composition and detect non-indigenous species. Finally, we provide guidelines to expand the network and present a sustainability plan as part of the European Marine Biological Resource Centre ( www.embrc.eu ). |
Theodoridis, Konstantinos; Aggelidou, Eleni; Manthou, Maria-Eleni; Keklikoglou, Kleoniki; Tsimponis, Antonios; Demiri, Efterpi; Bakopoulou, Athina; Mihailidis, Athanasios; Kritis, Aristeidis Materials Science and Engineering: C, 114 , pp. 111060, 2020, ISSN: 0928-4931. @article{theodoridis_effective_2020, title = {An effective device and method for enhanced cell growth in 3D scaffolds: Investigation of cell seeding and proliferation under static and dynamic conditions}, author = {Konstantinos Theodoridis and Eleni Aggelidou and Maria-Eleni Manthou and Kleoniki Keklikoglou and Antonios Tsimponis and Efterpi Demiri and Athina Bakopoulou and Athanasios Mihailidis and Aristeidis Kritis}, url = {http://www.sciencedirect.com/science/article/pii/S0928493120310882}, doi = {https://doi.org/10.1016/j.msec.2020.111060}, issn = {0928-4931}, year = {2020}, date = {2020-01-01}, journal = {Materials Science and Engineering: C}, volume = {114}, pages = {111060}, abstract = {Cell adhesion on 3D-scaffolds is a challenging task to succeed high cell densities and even cell distribution. We aimed to design a 3D-cell Culture Device (3D-CD) for static seeding and cultivation, to be used with any kind of scaffold, limiting cell loss and facilitating nutrient supply. 3D printing technology was used for both scaffold and device fabrication. Apart from testing the device, the purpose of this study was to assess and compare static and dynamic seeding and cultivation methods, of wet and dry scaffolds, under normoxic and hypoxic conditions and their effects on parameters such as cell seeding efficiency, cell distribution and cell proliferation. Human adipose tissue was harvested and cultured in 3D-printed poly(epsilon-caprolactone) scaffolds. Micro-CT scans were performed and projection images were reconstructed into cross section images. We created 3D images to visualize cell distribution and orientation inside the scaffolds. The group of prewetted scaffolds was the most favorable to cell attachment. The 3D-cell Culture Device (3D-CD) enhanced cell seeding efficiency with almost no cell loss. We suggest that the most favorable outcome can be produced with static seeding in the device for 24 h, followed either by static cultivation in the same device or by dynamic cultivation.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Cell adhesion on 3D-scaffolds is a challenging task to succeed high cell densities and even cell distribution. We aimed to design a 3D-cell Culture Device (3D-CD) for static seeding and cultivation, to be used with any kind of scaffold, limiting cell loss and facilitating nutrient supply. 3D printing technology was used for both scaffold and device fabrication. Apart from testing the device, the purpose of this study was to assess and compare static and dynamic seeding and cultivation methods, of wet and dry scaffolds, under normoxic and hypoxic conditions and their effects on parameters such as cell seeding efficiency, cell distribution and cell proliferation. Human adipose tissue was harvested and cultured in 3D-printed poly(epsilon-caprolactone) scaffolds. Micro-CT scans were performed and projection images were reconstructed into cross section images. We created 3D images to visualize cell distribution and orientation inside the scaffolds. The group of prewetted scaffolds was the most favorable to cell attachment. The 3D-cell Culture Device (3D-CD) enhanced cell seeding efficiency with almost no cell loss. We suggest that the most favorable outcome can be produced with static seeding in the device for 24 h, followed either by static cultivation in the same device or by dynamic cultivation. |
Mladineo, Ivona; Hrabar, Jerko; Vidjak, Olja; Bočina, Ivana; Čolak, Slavica; Katharios, Pantelis; Cascarano, Maria Chiara; Keklikoglou, Kleoniki; Volpatti, Donatella; Beraldo, Paola Host-parasite interaction between parasitic cy-mothoid ceratothoa oestroides and its host, farmed european sea bass (Dicentrarchus labrax) Journal Article Pathogens, 9 (3), pp. 1–19, 2020, ISSN: 20760817. @article{mladineo_host-parasite_2020, title = {Host-parasite interaction between parasitic cy-mothoid ceratothoa oestroides and its host, farmed european sea bass (Dicentrarchus labrax)}, author = {Ivona Mladineo and Jerko Hrabar and Olja Vidjak and Ivana Bočina and Slavica Čolak and Pantelis Katharios and Maria Chiara Cascarano and Kleoniki Keklikoglou and Donatella Volpatti and Paola Beraldo}, doi = {10.3390/pathogens9030230}, issn = {20760817}, year = {2020}, date = {2020-01-01}, journal = {Pathogens}, volume = {9}, number = {3}, pages = {1--19}, abstract = {Parasitic isopod Ceratothoa oestroides (Cymothoidea, Isopoda) is a common and generalist buccal cavity-dweller in marine fish, recognised for its detrimental effect in fingerling and juvenile farmed European sea bass (Dicentrarchus labrax). Although distributed throughout the Mediterra-nean, the isopod provokes acute outbreaks mainly limited to particular endemic areas in Croatia (Adriatic Sea) and Greece (Aegean Sea). While numerous studies have previously evidenced its gross effect on farmed fish (i.e. decreased condition index, slower growth rate, lethargy and mortal-ity), details on the host-parasite interaction are still lacking. Therefore, using a multimethodological approach, we closely examined the structure and appearance of isopod body parts acting in the attachment and feeding (stereomicroscopy, scanning and transmission electron microscopy), and the extent of host tissues damage (histology, immunohistochemistry, micro-computational tomog-raphy) induced by parasitation. Interestingly, while hematophagous nature of the parasite has been previously postulated we found no unambiguous data to support this; we observed host tissues fragmentation and extensive hyperplasia at the parasitation site, and no structures indicative of heme detoxifying mechanisms in the parasite gut, or other traces of a blood meal. The bacterial biofilm covering C. oestroides mouthparts and pereopods suggests that the isopod may play a role in conveying secondary pathogens to the infected host, or alternatively, it serves the parasite in normal interaction with its environment.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Parasitic isopod Ceratothoa oestroides (Cymothoidea, Isopoda) is a common and generalist buccal cavity-dweller in marine fish, recognised for its detrimental effect in fingerling and juvenile farmed European sea bass (Dicentrarchus labrax). Although distributed throughout the Mediterra-nean, the isopod provokes acute outbreaks mainly limited to particular endemic areas in Croatia (Adriatic Sea) and Greece (Aegean Sea). While numerous studies have previously evidenced its gross effect on farmed fish (i.e. decreased condition index, slower growth rate, lethargy and mortal-ity), details on the host-parasite interaction are still lacking. Therefore, using a multimethodological approach, we closely examined the structure and appearance of isopod body parts acting in the attachment and feeding (stereomicroscopy, scanning and transmission electron microscopy), and the extent of host tissues damage (histology, immunohistochemistry, micro-computational tomog-raphy) induced by parasitation. Interestingly, while hematophagous nature of the parasite has been previously postulated we found no unambiguous data to support this; we observed host tissues fragmentation and extensive hyperplasia at the parasitation site, and no structures indicative of heme detoxifying mechanisms in the parasite gut, or other traces of a blood meal. The bacterial biofilm covering C. oestroides mouthparts and pereopods suggests that the isopod may play a role in conveying secondary pathogens to the infected host, or alternatively, it serves the parasite in normal interaction with its environment. |
Katharios, Pantelis; Varvarigos, Panos; Keklikoglou, Kleoniki; Ruetten, Maja; Sojan, Jerry; Akter, Morgina; Cascarano, Maria Chiara; Tsertou, Maria Ioanna; Kokkari, Constantina Parasites & Vectors, 13 (1), pp. 27, 2020, ISSN: 17563305, (ISBN: 1307102038887 Publisher: BioMed Central). @article{katharios_native_2020, title = {Native parasite affecting an introduced host in aquaculture: cardiac henneguyosis in the red seabream Pagrus major Temminck & Schlegel (Perciformes: Sparidae) caused by Henneguya aegea n. sp. (Myxosporea: Myxobolidae)}, author = {Pantelis Katharios and Panos Varvarigos and Kleoniki Keklikoglou and Maja Ruetten and Jerry Sojan and Morgina Akter and Maria Chiara Cascarano and Maria Ioanna Tsertou and Constantina Kokkari}, url = {https://doi.org/10.1186/s13071-020-3888-7}, doi = {10.1186/s13071-020-3888-7}, issn = {17563305}, year = {2020}, date = {2020-01-01}, journal = {Parasites & Vectors}, volume = {13}, number = {1}, pages = {27}, abstract = {BACKGROUND: Henneguya Thélohan, 1892 (Myxobolidae) is one of the most species-rich genera of myxosporean parasites infecting fish. Although common in nature, there are few reports of these parasites causing important disease in aquaculture. In this paper, we describe a new species of Henneguya infecting Pagrus major (Temminck & Schlegel), a fish host introduced to the Mediterranean Sea from Japan in the late 1980s. RESULTS: Large plasmodia of the parasite were found in the bulbus arteriosus and in the ventricle of the infected fish. Spores were found mainly in the kidney and heart and were accompanied by melanized macrophages or vascular intimal proliferation mixed with a mild non-suppurative response, respectively. Comparisons of morphometric data for spore and polar capsule length and width, suggest a unique combination of features in the newly described species. Molecular analysis, based on 18S rDNA sequence of the parasite, followed by phylogenetic analysis, indicated that the parasite described here is a novel species of Henneguya, clustered with the marine congeneric species. CONCLUSIONS: Henneguya aegea n. sp. infects in aquaculture P. major, a host introduced as eggs to the Mediterranean from Japan. Despite the high host specificity of the myxobolid parasites, H. aegea n. sp. seems to be able to use P. major as a host and propagate successfully, causing morbidity and mortality. This could result in spillback of the new species from high density cultured non-native P. major to native fish hosts.}, note = {ISBN: 1307102038887 Publisher: BioMed Central}, keywords = {}, pubstate = {published}, tppubtype = {article} } BACKGROUND: Henneguya Thélohan, 1892 (Myxobolidae) is one of the most species-rich genera of myxosporean parasites infecting fish. Although common in nature, there are few reports of these parasites causing important disease in aquaculture. In this paper, we describe a new species of Henneguya infecting Pagrus major (Temminck & Schlegel), a fish host introduced to the Mediterranean Sea from Japan in the late 1980s. RESULTS: Large plasmodia of the parasite were found in the bulbus arteriosus and in the ventricle of the infected fish. Spores were found mainly in the kidney and heart and were accompanied by melanized macrophages or vascular intimal proliferation mixed with a mild non-suppurative response, respectively. Comparisons of morphometric data for spore and polar capsule length and width, suggest a unique combination of features in the newly described species. Molecular analysis, based on 18S rDNA sequence of the parasite, followed by phylogenetic analysis, indicated that the parasite described here is a novel species of Henneguya, clustered with the marine congeneric species. CONCLUSIONS: Henneguya aegea n. sp. infects in aquaculture P. major, a host introduced as eggs to the Mediterranean from Japan. Despite the high host specificity of the myxobolid parasites, H. aegea n. sp. seems to be able to use P. major as a host and propagate successfully, causing morbidity and mortality. This could result in spillback of the new species from high density cultured non-native P. major to native fish hosts. |
2019 |
Keklikoglou, Kleoniki; Faulwetter, Sarah; Chatzinikolaou, Eva; Wils, Patricia; Brecko, Jonathan; Kvaček, Jiří; Metscher, Brian; Arvanitidis, Christos Micro-computed tomography for natural history specimens: a handbook of best practice protocols Journal Article European Journal of Taxonomy, 0 (522), 2019, ISSN: 2118-9773. @article{keklikoglou_micro-computed_2019, title = {Micro-computed tomography for natural history specimens: a handbook of best practice protocols}, author = {Kleoniki Keklikoglou and Sarah Faulwetter and Eva Chatzinikolaou and Patricia Wils and Jonathan Brecko and Jiří Kvaček and Brian Metscher and Christos Arvanitidis}, url = {https://europeanjournaloftaxonomy.eu/index.php/ejt/article/view/693}, doi = {10.5852/ejt.2019.522}, issn = {2118-9773}, year = {2019}, date = {2019-04-01}, journal = {European Journal of Taxonomy}, volume = {0}, number = {522}, abstract = {Micro-computed tomography (micro-CT or microtomography) is a non-destructive imaging technique using X-rays which allows the digitisation of an object in three dimensions. The ability of micro-CT imaging to visualise both internal and external features of an object, without destroying the specimen, makes the technique ideal for the digitisation of valuable natural history collections. This handbook serves as a comprehensive guide to laboratory micro-CT imaging of different types of natural history specimens, including zoological, botanical, palaeontological and geological samples. The basic principles of the micro-CT technology are presented, as well as protocols, tips and tricks and use cases for each type of natural history specimen. Finally, data management protocols and a comprehensive list of institutions with micro-CT facilities, micro-CT manufacturers and relative software are included.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Micro-computed tomography (micro-CT or microtomography) is a non-destructive imaging technique using X-rays which allows the digitisation of an object in three dimensions. The ability of micro-CT imaging to visualise both internal and external features of an object, without destroying the specimen, makes the technique ideal for the digitisation of valuable natural history collections. This handbook serves as a comprehensive guide to laboratory micro-CT imaging of different types of natural history specimens, including zoological, botanical, palaeontological and geological samples. The basic principles of the micro-CT technology are presented, as well as protocols, tips and tricks and use cases for each type of natural history specimen. Finally, data management protocols and a comprehensive list of institutions with micro-CT facilities, micro-CT manufacturers and relative software are included. |
2018 |
Keklikoglou, K; Chatzigeorgiou, G; Faulwetter, S; Kalogeropoulou, V; Plaiti, W; Maidanou, M; Dounas, C; Lampadariou, N; Arvanitidis, C 'Simple' can be good, too: Testing three hard bottom sampling methods on macrobenthic and meiobenthic assemblages Journal Article Journal of the Marine Biological Association of the United Kingdom, 2018, ISSN: 00253154, (Publisher: Cambridge University Press). @article{keklikoglou_simple_2018, title = {'Simple' can be good, too: Testing three hard bottom sampling methods on macrobenthic and meiobenthic assemblages}, author = {K Keklikoglou and G Chatzigeorgiou and S Faulwetter and V Kalogeropoulou and W Plaiti and M Maidanou and C Dounas and N Lampadariou and C Arvanitidis}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85055515853&doi=10.1017%2fS0025315418000863&partnerID=40&md5=3cb71874d9e2fbcb00720d2b0f17d0a1}, doi = {10.1017/S0025315418000863}, issn = {00253154}, year = {2018}, date = {2018-01-01}, journal = {Journal of the Marine Biological Association of the United Kingdom}, abstract = {Subtidal hard bottoms are of particular scientific and economic value as they are highly productive systems. They are less well studied compared with soft bottoms, as they often require manual sample collection via scuba diving. Although a multitude of sampling devices is available for soft bottoms, only a few are suitable for hard substrates, and their performance is largely unstudied. In the present study, three hard bottom sampling methods were compared, regarding their sampling efficiency and the damage they may cause to macrobenthic and meiobenthic organisms. Two of the sampling methods examined are typically employed for the study of hard bottom substrates (manual collection, airlift device), while the third involves a newly constructed sampler (MANOSS - Manual Operated Suction Sampler). All three sampling methods were tested at 12 m depth on a hard bottom substrate with algal coverage dominated by Cystoseira spp. No overall significant differences were observed between the sampling efficiency and the damage caused by the three sampling methods regarding the macrofaunal assemblages, with the exception of the MANOSS method which collected more species than the manual method. In addition, significant differences were observed in the collecting performance for the meiobenthic assemblages, presenting significantly higher densities of meiofauna sampled by the MANOSS compared with the manual collection method, while the airlift device presented an intermediate efficiency. However, taking into account other factors such as cost, ease of use and the scope of each study, none of the methods clearly outperforms the others. Copyright © Marine Biological Association of the United Kingdom 2018.}, note = {Publisher: Cambridge University Press}, keywords = {}, pubstate = {published}, tppubtype = {article} } Subtidal hard bottoms are of particular scientific and economic value as they are highly productive systems. They are less well studied compared with soft bottoms, as they often require manual sample collection via scuba diving. Although a multitude of sampling devices is available for soft bottoms, only a few are suitable for hard substrates, and their performance is largely unstudied. In the present study, three hard bottom sampling methods were compared, regarding their sampling efficiency and the damage they may cause to macrobenthic and meiobenthic organisms. Two of the sampling methods examined are typically employed for the study of hard bottom substrates (manual collection, airlift device), while the third involves a newly constructed sampler (MANOSS - Manual Operated Suction Sampler). All three sampling methods were tested at 12 m depth on a hard bottom substrate with algal coverage dominated by Cystoseira spp. No overall significant differences were observed between the sampling efficiency and the damage caused by the three sampling methods regarding the macrofaunal assemblages, with the exception of the MANOSS method which collected more species than the manual method. In addition, significant differences were observed in the collecting performance for the meiobenthic assemblages, presenting significantly higher densities of meiofauna sampled by the MANOSS compared with the manual collection method, while the airlift device presented an intermediate efficiency. However, taking into account other factors such as cost, ease of use and the scope of each study, none of the methods clearly outperforms the others. Copyright © Marine Biological Association of the United Kingdom 2018. |
2017 |
Chatzigeorgiou, G; Keklikoglou, K; Faulwetter, S; Badalamenti, F; Kitsos, M -S; Arvanitidis, C Marine Ecology, 38 (1), 2017, ISSN: 01739565, (Publisher: Blackwell Publishing Ltd). @article{chatzigeorgiou_midlittoral_2017, title = {Midlittoral polychaete communities in the Eastern Mediterranean Sea: new information from the implementation of the Natural Geography in Shore Areas (NaGISA) protocol and comparisons at local and regional scales}, author = {G Chatzigeorgiou and K Keklikoglou and S Faulwetter and F Badalamenti and M -S Kitsos and C Arvanitidis}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85012193815&doi=10.1111%2fmaec.12339&partnerID=40&md5=3478bb4cfa991f54c0693917b733dc30}, doi = {10.1111/maec.12339}, issn = {01739565}, year = {2017}, date = {2017-01-01}, journal = {Marine Ecology}, volume = {38}, number = {1}, abstract = {The aim of this study was to attempt to fill current knowledge gaps on midlittoral Mediterranean biodiversity at local and regional scales, by using benthic polychaetes as a model taxon. Two different data sets were analysed: (i) a quantitative data set from the two Natural Geography in Shore Areas (NaGISA) study sites in Crete and (ii) a qualitative data set from multiple sites across the Mediterranean. At the local scale, the results provide evidence that (i) discrete species communities are formed in midlittoral Mediterranean habitats, which vary by geographical location and year, depending on the scale of observation; (ii) macrophyte coverage and Chl-a are the only environmental variables associated, albeit weakly, with the above pattern; (iii) although naturally disturbed, the Cretan NaGISA sites do not seem to experience any anthropogenic stress; (iv) environmental heterogeneity and history seem to be much less important in shaping the polychaete communities than inter-specific interactions; however, it is not possible to specify at this stage whether local or regional processes or even their interactions may shape the polychaete communities. At the regional scale, the results indicate that (i) the only factor that seems to be involved in the regional pattern is the identity of the study providing the data sets, which implies variability and bias in how research projects are carried out, from the sampling design through to data collection and analysis; (ii) the Cretan NaGISA sites may be considered as representative of the habitat in the Mediterranean, under certain conditions. © 2017 Blackwell Verlag GmbH}, note = {Publisher: Blackwell Publishing Ltd}, keywords = {}, pubstate = {published}, tppubtype = {article} } The aim of this study was to attempt to fill current knowledge gaps on midlittoral Mediterranean biodiversity at local and regional scales, by using benthic polychaetes as a model taxon. Two different data sets were analysed: (i) a quantitative data set from the two Natural Geography in Shore Areas (NaGISA) study sites in Crete and (ii) a qualitative data set from multiple sites across the Mediterranean. At the local scale, the results provide evidence that (i) discrete species communities are formed in midlittoral Mediterranean habitats, which vary by geographical location and year, depending on the scale of observation; (ii) macrophyte coverage and Chl-a are the only environmental variables associated, albeit weakly, with the above pattern; (iii) although naturally disturbed, the Cretan NaGISA sites do not seem to experience any anthropogenic stress; (iv) environmental heterogeneity and history seem to be much less important in shaping the polychaete communities than inter-specific interactions; however, it is not possible to specify at this stage whether local or regional processes or even their interactions may shape the polychaete communities. At the regional scale, the results indicate that (i) the only factor that seems to be involved in the regional pattern is the identity of the study providing the data sets, which implies variability and bias in how research projects are carried out, from the sampling design through to data collection and analysis; (ii) the Cretan NaGISA sites may be considered as representative of the habitat in the Mediterranean, under certain conditions. © 2017 Blackwell Verlag GmbH |
Cascarano, M C; Keklikoglou, K; Arvanitidis, C; Katharios, P Zootaxa, 4337 (1), pp. 91–108, 2017, ISSN: 11755326, (Publisher: Magnolia Press). @article{cascarano_contribution_2017, title = {Contribution to the morphological description of the marine leech, Ozobranchus margoi (Apáthy) (Rhynchobdellida: Ozobranchidae)by using combined histology, micro-CT and SEM}, author = {M C Cascarano and K Keklikoglou and C Arvanitidis and P Katharios}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85031712662&doi=10.11646%2fzootaxa.4337.1.4&partnerID=40&md5=2af1dcba738b14946bfe874ad9b1eb88}, doi = {10.11646/zootaxa.4337.1.4}, issn = {11755326}, year = {2017}, date = {2017-01-01}, journal = {Zootaxa}, volume = {4337}, number = {1}, pages = {91--108}, abstract = {The ozobranchid leech, Ozobranchus margoi (Apáthy, 1890), parasite of the loggerhead turtle, Caretta caretta (Linnaeus), was described through a multilevel approach including three different techniques: scanning electronic microscopy, histology and micro-CT. New insights are provided concerning the structure of the sensilla on the body, the eyes with emphasis on the structure of photoreceptors, the digestive system and the reproductive organs. Copyright © 2017 Magnolia Press.}, note = {Publisher: Magnolia Press}, keywords = {}, pubstate = {published}, tppubtype = {article} } The ozobranchid leech, Ozobranchus margoi (Apáthy, 1890), parasite of the loggerhead turtle, Caretta caretta (Linnaeus), was described through a multilevel approach including three different techniques: scanning electronic microscopy, histology and micro-CT. New insights are provided concerning the structure of the sensilla on the body, the eyes with emphasis on the structure of photoreceptors, the digestive system and the reproductive organs. Copyright © 2017 Magnolia Press. |
Chatzinikolaou, E; Grigoriou, P; Keklikoglou, K; Faulwetter, S; Papageorgiou, N The combined effects of reduced pH and elevated temperature on the shell density of two gastropod species measured using micro-CT imaging Journal Article ICES Journal of Marine Science, 74 (4), pp. 1135–1149, 2017, ISSN: 10543139, (Publisher: Oxford University Press). @article{chatzinikolaou_combined_2017, title = {The combined effects of reduced pH and elevated temperature on the shell density of two gastropod species measured using micro-CT imaging}, author = {E Chatzinikolaou and P Grigoriou and K Keklikoglou and S Faulwetter and N Papageorgiou}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85028694685&doi=10.1093%2ficesjms%2ffsw219&partnerID=40&md5=cf6590e0597069849206bf3da507e986}, doi = {10.1093/icesjms/fsw219}, issn = {10543139}, year = {2017}, date = {2017-01-01}, journal = {ICES Journal of Marine Science}, volume = {74}, number = {4}, pages = {1135--1149}, abstract = {The increased absorption of atmospheric CO2 by the ocean affects carbonate chemistry and calcification rates of marine organisms. The impacts of low pH and seawater warming were investigated for the intertidal gastropods Nassarius nitidus and Columbella rustica. The combined effect of reduced pH (7.6) and increased temperature (25 °C) was studied at intermediate time intervals for a total period of 3 months in order to investigate variability and fluctuations of the shell structure and density over time. The pH and temperature conditions used for the experiment were selected according to the predictions of the Intergovernmental Panel on Climate Change. Deterioration of the external surface structure and reduction of shell density of the gastropods were confirmed using an innovative imaging and analysis method based on microcomputed tomography. The effect of low pH at ambient temperature was detrimental for N. nitidus with a 38.1% reduction of density in the shell lip and a 47.7% decrease in the apex, which is the oldest shell region. C. rustica was also affected, although to a much lesser degree (the maximum reduction observed was 8% at the apex). The negative effects of reduced pH were further reinforced for C. rustica when the temperature was increased, while N. nitidus was not affected significantly by the combination of the two factors. Increased temperature at ambient pH had an inhibitory effect on the shell density of N. nitidus causing a reduction of about 40%, whereas the shell density of the widest and lip regions of the C. rustica were increased under the same conditions. Different species are characterised by different vulnerability and tolerance responses regarding ocean acidification and warming, and this variability may affect ecological interactions and marine biodiversity. © International Council for the Exploration of the Sea 2016.}, note = {Publisher: Oxford University Press}, keywords = {}, pubstate = {published}, tppubtype = {article} } The increased absorption of atmospheric CO2 by the ocean affects carbonate chemistry and calcification rates of marine organisms. The impacts of low pH and seawater warming were investigated for the intertidal gastropods Nassarius nitidus and Columbella rustica. The combined effect of reduced pH (7.6) and increased temperature (25 °C) was studied at intermediate time intervals for a total period of 3 months in order to investigate variability and fluctuations of the shell structure and density over time. The pH and temperature conditions used for the experiment were selected according to the predictions of the Intergovernmental Panel on Climate Change. Deterioration of the external surface structure and reduction of shell density of the gastropods were confirmed using an innovative imaging and analysis method based on microcomputed tomography. The effect of low pH at ambient temperature was detrimental for N. nitidus with a 38.1% reduction of density in the shell lip and a 47.7% decrease in the apex, which is the oldest shell region. C. rustica was also affected, although to a much lesser degree (the maximum reduction observed was 8% at the apex). The negative effects of reduced pH were further reinforced for C. rustica when the temperature was increased, while N. nitidus was not affected significantly by the combination of the two factors. Increased temperature at ambient pH had an inhibitory effect on the shell density of N. nitidus causing a reduction of about 40%, whereas the shell density of the widest and lip regions of the C. rustica were increased under the same conditions. Different species are characterised by different vulnerability and tolerance responses regarding ocean acidification and warming, and this variability may affect ecological interactions and marine biodiversity. © International Council for the Exploration of the Sea 2016. |
Rühl, S; Calosi, P; Faulwetter, S; Keklikoglou, K; Widdicombe, S; Queirós, A M Long-term exposure to elevated pCO2 more than warming modifies early-life shell growth in a temperate gastropod Journal Article ICES Journal of Marine Science, 74 (4), pp. 1113–1124, 2017, ISSN: 10543139, (Publisher: Oxford University Press). @article{ruhl_long-term_2017, title = {Long-term exposure to elevated pCO2 more than warming modifies early-life shell growth in a temperate gastropod}, author = {S Rühl and P Calosi and S Faulwetter and K Keklikoglou and S Widdicombe and A M Queirós}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85041528110&doi=10.1093%2ficesjms%2ffsw242&partnerID=40&md5=35b96c7f447a84f5a75aa1086ef4e83a}, doi = {10.1093/icesjms/fsw242}, issn = {10543139}, year = {2017}, date = {2017-01-01}, journal = {ICES Journal of Marine Science}, volume = {74}, number = {4}, pages = {1113--1124}, abstract = {Co-occurring global change drivers, such as ocean warming and acidification, can have large impacts on the behaviour, physiology, and health of marine organisms. However, whilst early-life stages are thought to be most sensitive to these impacts, little is known about the individual level processes by which such impacts take place. Here, using mesocosm experiments simulating ocean warming (OW) and ocean acidification (OA) conditions expected for the NE Atlantic region by 2100 using a variety of treatments of elevated pCO2 and temperature. We investigated their impacts on bio-mineralization, microstructure, and ontogeny of Nucella lapillus (L.) juveniles, a common gastropod predator that exerts important top-down controls on biodiversity patterns in temperate rocky shores. The shell of juveniles hatched in mesocosms during a 14 month long experiment were analysed using micro-CT scanning, 3D geometric morphometrics, and scanning-electron microscopy. Elevated temperature and age determined shell density, length, width, thickness, elemental chemistry, shape, and shell surface damages. However, co-occurring elevated pCO2 modified the impacts of elevated temperature, in line with expected changes in carbonate chemistry driven by temperature. Young N. lapillus from acidified treatments had weaker shells and were therefore expected to be more vulnerable to predation and environmental pressures such as wave action. However, in some instances, the effects of both higher CO2 content and elevated temperature appeared to have reversed as the individuals aged. This study suggests that compensatory development may therefore occur, and that expected increases in juvenile mortality under OA and OW may be counteracted, to some degree, by high plasticity in shell formation in this species. This feature may prove advantageous for N. lapillus community dynamics in near-future conditions. © International Council for the Exploration of the Sea 2017. All rights reserved.}, note = {Publisher: Oxford University Press}, keywords = {}, pubstate = {published}, tppubtype = {article} } Co-occurring global change drivers, such as ocean warming and acidification, can have large impacts on the behaviour, physiology, and health of marine organisms. However, whilst early-life stages are thought to be most sensitive to these impacts, little is known about the individual level processes by which such impacts take place. Here, using mesocosm experiments simulating ocean warming (OW) and ocean acidification (OA) conditions expected for the NE Atlantic region by 2100 using a variety of treatments of elevated pCO2 and temperature. We investigated their impacts on bio-mineralization, microstructure, and ontogeny of Nucella lapillus (L.) juveniles, a common gastropod predator that exerts important top-down controls on biodiversity patterns in temperate rocky shores. The shell of juveniles hatched in mesocosms during a 14 month long experiment were analysed using micro-CT scanning, 3D geometric morphometrics, and scanning-electron microscopy. Elevated temperature and age determined shell density, length, width, thickness, elemental chemistry, shape, and shell surface damages. However, co-occurring elevated pCO2 modified the impacts of elevated temperature, in line with expected changes in carbonate chemistry driven by temperature. Young N. lapillus from acidified treatments had weaker shells and were therefore expected to be more vulnerable to predation and environmental pressures such as wave action. However, in some instances, the effects of both higher CO2 content and elevated temperature appeared to have reversed as the individuals aged. This study suggests that compensatory development may therefore occur, and that expected increases in juvenile mortality under OA and OW may be counteracted, to some degree, by high plasticity in shell formation in this species. This feature may prove advantageous for N. lapillus community dynamics in near-future conditions. © International Council for the Exploration of the Sea 2017. All rights reserved. |
2016 |
Keklikoglou, K; Faulwetter, S; Chatzinikolaou, E; Michalakis, N; Filiopoulou, I; Minadakis, N; Panteri, E; Perantinos, G; Gougousis, A; Arvanitidis, C Micro-CTvlab: A web based virtual gallery of biological specimens using X-ray microtomography (micro-CT) Journal Article Biodiversity Data Journal, 4 (1), 2016, ISSN: 13142828, (Publisher: Pensoft Publishers). @article{keklikoglou_micro-ctvlab_2016, title = {Micro-CTvlab: A web based virtual gallery of biological specimens using X-ray microtomography (micro-CT)}, author = {K Keklikoglou and S Faulwetter and E Chatzinikolaou and N Michalakis and I Filiopoulou and N Minadakis and E Panteri and G Perantinos and A Gougousis and C Arvanitidis}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85018643360&doi=10.3897%2fBDJ.4.e8740&partnerID=40&md5=450c2ceab515e072b612c9c046e0c7bc}, doi = {10.3897/BDJ.4.e8740}, issn = {13142828}, year = {2016}, date = {2016-01-01}, journal = {Biodiversity Data Journal}, volume = {4}, number = {1}, abstract = {Background During recent years, X-ray microtomography (micro-CT) has seen an increasing use in biological research areas, such as functional morphology, taxonomy, evolutionary biology and developmental research. Micro-CT is a technology which uses X-rays to create submicron resolution images of external and internal features of specimens. These images can then be rendered in a three-dimensional space and used for qualitative and quantitative 3D analyses. However, the online exploration and dissemination of micro-CT datasets are rarely made available to the public due to their large size and a lack of dedicated online platforms for the interactive manipulation of 3D data. Here, the development of a virtual micro-CT laboratory (Micro-CTvlab ) is described, which can be used by everyone who is interested in digitisation methods and biological collections and aims at making the micro- CT data exploration of natural history specimens freely available over the internet. New information The Micro-CTvlab offers to the user virtual image galleries of various taxa which can be displayed and downloaded through a web application. With a few clicks, accurate, detailed and three-dimensional models of species can be studied and virtually dissected without destroying the actual specimen. The data and functions of the Micro-CTvlab can be accessed either on a normal computer or through a dedicated version for mobile devices. © Keklikoglou K et al.}, note = {Publisher: Pensoft Publishers}, keywords = {}, pubstate = {published}, tppubtype = {article} } Background During recent years, X-ray microtomography (micro-CT) has seen an increasing use in biological research areas, such as functional morphology, taxonomy, evolutionary biology and developmental research. Micro-CT is a technology which uses X-rays to create submicron resolution images of external and internal features of specimens. These images can then be rendered in a three-dimensional space and used for qualitative and quantitative 3D analyses. However, the online exploration and dissemination of micro-CT datasets are rarely made available to the public due to their large size and a lack of dedicated online platforms for the interactive manipulation of 3D data. Here, the development of a virtual micro-CT laboratory (Micro-CTvlab ) is described, which can be used by everyone who is interested in digitisation methods and biological collections and aims at making the micro- CT data exploration of natural history specimens freely available over the internet. New information The Micro-CTvlab offers to the user virtual image galleries of various taxa which can be displayed and downloaded through a web application. With a few clicks, accurate, detailed and three-dimensional models of species can be studied and virtually dissected without destroying the actual specimen. The data and functions of the Micro-CTvlab can be accessed either on a normal computer or through a dedicated version for mobile devices. © Keklikoglou K et al. |
2015 |
Faulwetter, S; Papageorgiou, N; Koulouri, P; Fanini, L; Chatzinikolaou, E; Markantonatou, V; Pavloudi, C; Chatzigeorgiou, G; Keklikoglou, K; Vasileiadou, K; Basset, A; Pinna, M; Rosati, I; Reizopoulou, S; Nicolaidou, A; Arvanitidis, C Resistance of polychaete species and trait patterns to simulated species loss in coastal lagoons Journal Article Journal of Sea Research, 98 , pp. 73–82, 2015, ISSN: 13851101, (Publisher: Elsevier). @article{faulwetter_resistance_2015, title = {Resistance of polychaete species and trait patterns to simulated species loss in coastal lagoons}, author = {S Faulwetter and N Papageorgiou and P Koulouri and L Fanini and E Chatzinikolaou and V Markantonatou and C Pavloudi and G Chatzigeorgiou and K Keklikoglou and K Vasileiadou and A Basset and M Pinna and I Rosati and S Reizopoulou and A Nicolaidou and C Arvanitidis}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84930278022&doi=10.1016%2fj.seares.2014.09.003&partnerID=40&md5=4f1ebcb9d504ea078f66a78cf0199509}, doi = {10.1016/j.seares.2014.09.003}, issn = {13851101}, year = {2015}, date = {2015-01-01}, journal = {Journal of Sea Research}, volume = {98}, pages = {73--82}, abstract = {The loss of species is known to have negative impacts on the integrity of ecosystems, but the details of this relationship are still far from being fully understood. This study investigates how the distribution patterns of polychaete species and their associated biological trait patterns in six Mediterranean coastal lagoons change under computationally simulated scenarios of random species loss. Species were progressively removed from the full polychaete assemblage and the similarity between the full assemblage and the reduced matrices of both species and trait patterns was calculated. The results indicate the magnitude of changes that might follow species loss in the real world, and allow consideration of the resistance of the system's functional capacity to loss of species, expressed through the species' biological traits as an approximation to functioning. Comparisons were made between the changes in the distribution of species and of traits, as well as between the six different lagoons. While the change of species and trait patterns was strongly correlated within most lagoons, different lagoons showed distinctly different patterns. In disturbed lagoons, the dominance of one or few species was the major driver for the observed patterns and the loss of these species caused extreme changes. Less disturbed lagoons were less susceptible to extreme changes and had a greater resistance towards species loss. Species richness appears to be less important for the ability of the lagoons to buffer changes, instead the initial composition of the assemblage and the identity of the lost species determine the response of the system and our ability to predict changes of the assemblage's functional potential. © 2014 Elsevier B.V.}, note = {Publisher: Elsevier}, keywords = {}, pubstate = {published}, tppubtype = {article} } The loss of species is known to have negative impacts on the integrity of ecosystems, but the details of this relationship are still far from being fully understood. This study investigates how the distribution patterns of polychaete species and their associated biological trait patterns in six Mediterranean coastal lagoons change under computationally simulated scenarios of random species loss. Species were progressively removed from the full polychaete assemblage and the similarity between the full assemblage and the reduced matrices of both species and trait patterns was calculated. The results indicate the magnitude of changes that might follow species loss in the real world, and allow consideration of the resistance of the system's functional capacity to loss of species, expressed through the species' biological traits as an approximation to functioning. Comparisons were made between the changes in the distribution of species and of traits, as well as between the six different lagoons. While the change of species and trait patterns was strongly correlated within most lagoons, different lagoons showed distinctly different patterns. In disturbed lagoons, the dominance of one or few species was the major driver for the observed patterns and the loss of these species caused extreme changes. Less disturbed lagoons were less susceptible to extreme changes and had a greater resistance towards species loss. Species richness appears to be less important for the ability of the lagoons to buffer changes, instead the initial composition of the assemblage and the identity of the lost species determine the response of the system and our ability to predict changes of the assemblage's functional potential. © 2014 Elsevier B.V. |
Kalogeropoulou, V; Keklikoglou, K; Lampadariou, N Functional diversity patterns of abyssal nematodes in the Eastern Mediterranean: A comparison between cold seeps and typical deep sea sediments Journal Article Journal of Sea Research, 98 , pp. 57–72, 2015, ISSN: 13851101, (Publisher: Elsevier). @article{kalogeropoulou_functional_2015, title = {Functional diversity patterns of abyssal nematodes in the Eastern Mediterranean: A comparison between cold seeps and typical deep sea sediments}, author = {V Kalogeropoulou and K Keklikoglou and N Lampadariou}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84930277933&doi=10.1016%2fj.seares.2014.11.003&partnerID=40&md5=30d79b5bcaf0dea2f013af749d83c0b2}, doi = {10.1016/j.seares.2014.11.003}, issn = {13851101}, year = {2015}, date = {2015-01-01}, journal = {Journal of Sea Research}, volume = {98}, pages = {57--72}, abstract = {Spatial patterns in deep sea nematode biological trait composition and functional diversity were investigated between chemosynthetic and typical deep sea ecosystems as well as between different microhabitats within the chemosynthetic ecosystems, in the Eastern Mediterranean. The chemosynthetic ecosystems chosen were two mud volcanoes, Napoli at 1950. m depth and Amsterdam at 2040. m depth which are cold seeps characterized by high chemosynthetic activity and spatial heterogeneity. Typical deep sea ecosystems consisted of fine-grained silt-clay sediments which were collected from three areas located in the south Ionian Sea at 2765 to 2840. m depth, the southern Cretan margin at 1089 to 1998. m depth and the Levantine Sea at 3055 to 3870. m depth. A range of biological traits (9 traits; 31 categories) related to buccal morphology, tail shape, body size, body shape, life history strategy, sediment position, cuticle morphology, amphid shape and presence of somatic setae were combined to identify patterns in the functional composition of nematode assemblages between the two habitats, the two mud volcanoes (macroscale) and between the microhabitats within the mud volcanoes (microscale). Data on trait correspondence was provided by biological information on species and genera. A total of 170 nematode species were allocated in 67 different trait combinations, i.e. functional groups, based on taxonomic, morphological and behavioral characteristics. The Biological Trait Analysis (BTA) revealed significant differences between the mud volcanoes and the typical deep sea sediments indicating the presence of different biological functions in ecologically very different environments. Moreover, chemosynthetic activity and habitat heterogeneity within mud volcanoes enhance the presence of different biological and ecological functions in nematode assemblages of different microhabitats. Functional diversity and species richness patterns varied significantly across the different environmental gradients prevailing in the study areas. Biological trait analysis, with the addition of newly introduced trait categories, and functional diversity outcomes provided greater explanatory power of ecosystem functioning than species richness and taxonomic diversity. © 2014 Elsevier B.V.}, note = {Publisher: Elsevier}, keywords = {}, pubstate = {published}, tppubtype = {article} } Spatial patterns in deep sea nematode biological trait composition and functional diversity were investigated between chemosynthetic and typical deep sea ecosystems as well as between different microhabitats within the chemosynthetic ecosystems, in the Eastern Mediterranean. The chemosynthetic ecosystems chosen were two mud volcanoes, Napoli at 1950. m depth and Amsterdam at 2040. m depth which are cold seeps characterized by high chemosynthetic activity and spatial heterogeneity. Typical deep sea ecosystems consisted of fine-grained silt-clay sediments which were collected from three areas located in the south Ionian Sea at 2765 to 2840. m depth, the southern Cretan margin at 1089 to 1998. m depth and the Levantine Sea at 3055 to 3870. m depth. A range of biological traits (9 traits; 31 categories) related to buccal morphology, tail shape, body size, body shape, life history strategy, sediment position, cuticle morphology, amphid shape and presence of somatic setae were combined to identify patterns in the functional composition of nematode assemblages between the two habitats, the two mud volcanoes (macroscale) and between the microhabitats within the mud volcanoes (microscale). Data on trait correspondence was provided by biological information on species and genera. A total of 170 nematode species were allocated in 67 different trait combinations, i.e. functional groups, based on taxonomic, morphological and behavioral characteristics. The Biological Trait Analysis (BTA) revealed significant differences between the mud volcanoes and the typical deep sea sediments indicating the presence of different biological functions in ecologically very different environments. Moreover, chemosynthetic activity and habitat heterogeneity within mud volcanoes enhance the presence of different biological and ecological functions in nematode assemblages of different microhabitats. Functional diversity and species richness patterns varied significantly across the different environmental gradients prevailing in the study areas. Biological trait analysis, with the addition of newly introduced trait categories, and functional diversity outcomes provided greater explanatory power of ecosystem functioning than species richness and taxonomic diversity. © 2014 Elsevier B.V. |
Faulwetter, Sarah; Minadakis, N; Keklikoglou, Kleoniki; Doerr, M; Arvanitidis, Christos First steps towards the development of an integrated metadata management system for biodiversity-related micro-CT Inproceedings pp. 149–159, Brugge, Belgium, 2015, (Publication Title: Bruker MicroCT user meeting 2015 Type: Conference Paper). @inproceedings{faulwetter_first_2015, title = {First steps towards the development of an integrated metadata management system for biodiversity-related micro-CT}, author = {Sarah Faulwetter and N Minadakis and Kleoniki Keklikoglou and M Doerr and Christos Arvanitidis}, year = {2015}, date = {2015-01-01}, pages = {149--159}, address = {Brugge, Belgium}, note = {Publication Title: Bruker MicroCT user meeting 2015 Type: Conference Paper}, keywords = {}, pubstate = {published}, tppubtype = {inproceedings} } |
Schmidbaur, Hannah; Keklikoglou, Kleoniki; Faulwetter, Sarah; Metscher, BD Exploring methods to remove iodine and phosphotungstic acid stains from zoological specimens Inproceedings pp. 116–123, Brugge, Belgium, 2015, (Publication Title: Bruker MicroCT user meeting 2015 Type: Conference paper). @inproceedings{schmidbaur_exploring_2015, title = {Exploring methods to remove iodine and phosphotungstic acid stains from zoological specimens}, author = {Hannah Schmidbaur and Kleoniki Keklikoglou and Sarah Faulwetter and BD Metscher}, year = {2015}, date = {2015-01-01}, pages = {116--123}, address = {Brugge, Belgium}, note = {Publication Title: Bruker MicroCT user meeting 2015 Type: Conference paper}, keywords = {}, pubstate = {published}, tppubtype = {inproceedings} } |
Keklikoglou, K; Chatzinikolaou, E; Faulwetter, S; Grigoriou, P; Papageorgiou, N; Queirós, A; Rühl, S; Schmidbaur, H Revealing effects of ocean acidification on the calcified structures of marine invertebrates through micro-computed tomography (micro-CT) Inproceedings Bruker microCT 2015 user meeting, Belgium, pp. 21–31, 2015. @inproceedings{keklikoglou_revealing_2015, title = {Revealing effects of ocean acidification on the calcified structures of marine invertebrates through micro-computed tomography (micro-CT)}, author = {K Keklikoglou and E Chatzinikolaou and S Faulwetter and P Grigoriou and N Papageorgiou and A Queirós and S Rühl and H Schmidbaur}, year = {2015}, date = {2015-01-01}, booktitle = {Bruker microCT 2015 user meeting, Belgium}, pages = {21--31}, keywords = {}, pubstate = {published}, tppubtype = {inproceedings} } |
2014 |
Faulwetter, S; Markantonatou, V; Pavloudi, C; Papageorgiou, N; Keklikoglou, K; Chatzinikolaou, E; Pafilis, E; Chatzigeorgiou, G; Vasileiadou, K; Dailianis, T; Fanini, L; Koulouri, P; Arvanitidis, C Polytraits: A database on biological traits of marine polychaetes Journal Article Biodiversity Data Journal, 2 (1), 2014, ISSN: 13142828, (Publisher: Pensoft Publishers). @article{faulwetter_polytraits_2014, title = {Polytraits: A database on biological traits of marine polychaetes}, author = {S Faulwetter and V Markantonatou and C Pavloudi and N Papageorgiou and K Keklikoglou and E Chatzinikolaou and E Pafilis and G Chatzigeorgiou and K Vasileiadou and T Dailianis and L Fanini and P Koulouri and C Arvanitidis}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85018193846&doi=10.3897%2fBDJ.2.e1024&partnerID=40&md5=621b076567d09921bf9b5146a7f8844e}, doi = {10.3897/BDJ.2.e1024}, issn = {13142828}, year = {2014}, date = {2014-01-01}, journal = {Biodiversity Data Journal}, volume = {2}, number = {1}, abstract = {The study of ecosystem functioning - the role which organisms play in an ecosystem - is becoming increasingly important in marine ecological research. The functional structure of a community can be represented by a set of functional traits assigned to behavioural, reproductive and morphological characteristics. The collection of these traits from the literature is however a laborious and time-consuming process, and gaps of knowledge and restricted availability of literature are a common problem. Trait data are not yet readily being shared by research communities, and even if they are, a lack of trait data repositories and standards for data formats leads to the publication of trait information in forms which cannot be processed by computers. This paper describes Polytraits (http:// polytraits.lifewatchgreece.eu), a database on biological traits of marine polychaetes (bristle worms, Polychaeta: Annelida). At present, the database contains almost 20,000 records on morphological, behavioural and reproductive characteristics of more than 1,000 marine polychaete species, all referenced by literature sources. All data can be freely accessed through the project website in different ways and formats, both human-readable and machine-readable, and have been submitted to the Encyclopedia of Life for archival and integration with trait information from other sources. © Faulwetter S et al.}, note = {Publisher: Pensoft Publishers}, keywords = {}, pubstate = {published}, tppubtype = {article} } The study of ecosystem functioning - the role which organisms play in an ecosystem - is becoming increasingly important in marine ecological research. The functional structure of a community can be represented by a set of functional traits assigned to behavioural, reproductive and morphological characteristics. The collection of these traits from the literature is however a laborious and time-consuming process, and gaps of knowledge and restricted availability of literature are a common problem. Trait data are not yet readily being shared by research communities, and even if they are, a lack of trait data repositories and standards for data formats leads to the publication of trait information in forms which cannot be processed by computers. This paper describes Polytraits (http:// polytraits.lifewatchgreece.eu), a database on biological traits of marine polychaetes (bristle worms, Polychaeta: Annelida). At present, the database contains almost 20,000 records on morphological, behavioural and reproductive characteristics of more than 1,000 marine polychaete species, all referenced by literature sources. All data can be freely accessed through the project website in different ways and formats, both human-readable and machine-readable, and have been submitted to the Encyclopedia of Life for archival and integration with trait information from other sources. © Faulwetter S et al. |
2013 |
Keklikoglou, K; Faulwetter, S; Chatzigeorgiou, G; Badalamenti, F; Spyridon, M; Arvanitidis, C MidMedPol: Polychaetes from midlittoral rocky shores in Greece and Italy (Mediterranean Sea) Journal Article Biodiversity Data Journal, 1 (1), 2013, ISSN: 13142828, (Publisher: Pensoft Publishers). @article{keklikoglou_midmedpol_2013, title = {MidMedPol: Polychaetes from midlittoral rocky shores in Greece and Italy (Mediterranean Sea)}, author = {K Keklikoglou and S Faulwetter and G Chatzigeorgiou and F Badalamenti and M Spyridon and C Arvanitidis}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85018193598&doi=10.3897%2fBDJ.1.e961&partnerID=40&md5=92b1136dee2d3ca04e5b69cf49c763c3}, doi = {10.3897/BDJ.1.e961}, issn = {13142828}, year = {2013}, date = {2013-01-01}, journal = {Biodiversity Data Journal}, volume = {1}, number = {1}, abstract = {This paper describes a dataset of polychaetes (Annelida) from 14 midlittoral rocky shore sampling sites in Greece and Italy (Mediterranean Sea). The dataset combines the outcome of four different projects studying the hard substrate midlittoral zone in the Mediterranean between 1984 and 2009. Samples were collected by scraping and collecting the organisms from a framed area. The maximal sampling depth was 1.5 m. In total, 123 polychaete species were recorded, five of which are new records for the respective biogeographic sectors of the Mediterranean. The dataset contains 788 occurrence records, fully annotated with all required metadata. These data contribute to the knowledge of a previously very understudied regional habitat, since at present, comprehensive lists of the midlittoral communities in the Mediterranean are provided through only a few, paper-based, studies. This dataset is one of the first electronic data compilations of the Mediterranean midlittoral zone communities and certainly the most comprehensive of its kind, contributing to the ongoing efforts of the Ocean Biogeographic Information System (OBIS) which aims at filling the gaps in our current knowledge of the world's oceans. It is accessible at http://ipt.vliz.be/resource.do? r=mediterraneanpolychaetaintertidal. © Keklikoglou K et al.}, note = {Publisher: Pensoft Publishers}, keywords = {}, pubstate = {published}, tppubtype = {article} } This paper describes a dataset of polychaetes (Annelida) from 14 midlittoral rocky shore sampling sites in Greece and Italy (Mediterranean Sea). The dataset combines the outcome of four different projects studying the hard substrate midlittoral zone in the Mediterranean between 1984 and 2009. Samples were collected by scraping and collecting the organisms from a framed area. The maximal sampling depth was 1.5 m. In total, 123 polychaete species were recorded, five of which are new records for the respective biogeographic sectors of the Mediterranean. The dataset contains 788 occurrence records, fully annotated with all required metadata. These data contribute to the knowledge of a previously very understudied regional habitat, since at present, comprehensive lists of the midlittoral communities in the Mediterranean are provided through only a few, paper-based, studies. This dataset is one of the first electronic data compilations of the Mediterranean midlittoral zone communities and certainly the most comprehensive of its kind, contributing to the ongoing efforts of the Ocean Biogeographic Information System (OBIS) which aims at filling the gaps in our current knowledge of the world's oceans. It is accessible at http://ipt.vliz.be/resource.do? r=mediterraneanpolychaetaintertidal. © Keklikoglou K et al. |
Lampadariou, N; Kalogeropoulou, V; Sevastou, K; Keklikoglou, K; Sarrazin, J Influence of chemosynthetic ecosystems on nematode community structure and biomass in the deep eastern Mediterranean Sea Journal Article Biogeosciences, 10 (8), pp. 5381–5398, 2013, ISSN: 17264170. @article{lampadariou_influence_2013, title = {Influence of chemosynthetic ecosystems on nematode community structure and biomass in the deep eastern Mediterranean Sea}, author = {N Lampadariou and V Kalogeropoulou and K Sevastou and K Keklikoglou and J Sarrazin}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84882355046&doi=10.5194%2fbg-10-5381-2013&partnerID=40&md5=8aa9e3b189fe80bd2fa26673aa20e8cc}, doi = {10.5194/bg-10-5381-2013}, issn = {17264170}, year = {2013}, date = {2013-01-01}, journal = {Biogeosciences}, volume = {10}, number = {8}, pages = {5381--5398}, abstract = {Mud volcanoes are a∼special type of cold seeps where life is based on chemoautotrophic processes. They are considered to be extreme environments and are characterized by unique megafaunal and macrofaunal communities. However, very few studies on mud volcanoes taking into account the smaller meiobenthic communities have been carried out. Two mud volcanoes were explored during the MEDECO (MEditerranean Deep-sea ECOsystems) cruise (2007) with the remotely operated vehicle (ROV) Victor-6000: Amsterdam, located south of Turkey between 1700 and 2000 m depth (Anaximander mud field); and Napoli, south of Crete, located along the Mediterranean Ridge at about 2000 m depth (Olimpi mud field). The major aim of this study was to describe distributional patterns of meiofaunal communities and nematode assemblages from different seep microhabitats. Meiofaunal taxa and nematode assemblages at both mud volcanoes differed significantly from other Mediterranean sites in terms of standing stocks, dominance and species diversity. Density and biomass values were significantly higher at the seep sites, particularly at Amsterdam. Patterns of nematode diversity, the dominant meiofaunal taxon, varied, displaying both very high or very low species richness and dominance, depending on the microhabitat studied. The periphery of the Lamellibrachia and bivalve shell microhabitats of Napoli exhibited the highest species richness, while the reduced sediments of Amsterdam yielded a species-poor nematode community dominated by two successful species, one belonging to the genus Aponema and the other to the genus Sabatieria. Analysis of β-diversity showed that microhabitat heterogeneity of mud volcanoes contributed substantially to the total nematode species richness in the eastern Mediterranean Sea. These observations indicate a strong influence of mud volcanoes and cold-seep ecosystems on the meiofaunal communities and nematode assemblages. © 2013 Author(s).}, keywords = {}, pubstate = {published}, tppubtype = {article} } Mud volcanoes are a∼special type of cold seeps where life is based on chemoautotrophic processes. They are considered to be extreme environments and are characterized by unique megafaunal and macrofaunal communities. However, very few studies on mud volcanoes taking into account the smaller meiobenthic communities have been carried out. Two mud volcanoes were explored during the MEDECO (MEditerranean Deep-sea ECOsystems) cruise (2007) with the remotely operated vehicle (ROV) Victor-6000: Amsterdam, located south of Turkey between 1700 and 2000 m depth (Anaximander mud field); and Napoli, south of Crete, located along the Mediterranean Ridge at about 2000 m depth (Olimpi mud field). The major aim of this study was to describe distributional patterns of meiofaunal communities and nematode assemblages from different seep microhabitats. Meiofaunal taxa and nematode assemblages at both mud volcanoes differed significantly from other Mediterranean sites in terms of standing stocks, dominance and species diversity. Density and biomass values were significantly higher at the seep sites, particularly at Amsterdam. Patterns of nematode diversity, the dominant meiofaunal taxon, varied, displaying both very high or very low species richness and dominance, depending on the microhabitat studied. The periphery of the Lamellibrachia and bivalve shell microhabitats of Napoli exhibited the highest species richness, while the reduced sediments of Amsterdam yielded a species-poor nematode community dominated by two successful species, one belonging to the genus Aponema and the other to the genus Sabatieria. Analysis of β-diversity showed that microhabitat heterogeneity of mud volcanoes contributed substantially to the total nematode species richness in the eastern Mediterranean Sea. These observations indicate a strong influence of mud volcanoes and cold-seep ecosystems on the meiofaunal communities and nematode assemblages. © 2013 Author(s). |