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Katsamenis OL, Basford PJ, Robinson SK, Boardman RP, Konstantinopoulou E, Lackie PM, Page A, Ratnayaka JA, Goggin PM, Thomas GJ, Cox SJ, Sinclair I, Schneider P. A high-throughput 3D X-ray histology facility for biomedical research and preclinical applications. Wellcome Open Res 2023; 8:366. [PMID: 37928208 PMCID: PMC10620852 DOI: 10.12688/wellcomeopenres.19666.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/28/2023] [Indexed: 11/07/2023] Open
Abstract
Background The University of Southampton, in collaboration with the University Hospital Southampton (UHS) NHS Foundation Trust and industrial partners, has been at the forefront of developing three-dimensional (3D) imaging workflows using X-ray microfocus computed tomography (μCT) -based technology. This article presents the outcomes of these endeavours and highlights the distinctive characteristics of a μCT facility tailored explicitly for 3D X-ray Histology, with a primary focus on applications in biomedical research and preclinical and clinical studies. Methods The UHS houses a unique 3D X-ray Histology (XRH) facility, offering a range of services to national and international clients. The facility employs specialised μCT equipment explicitly designed for histology applications, allowing whole-block XRH imaging of formalin-fixed and paraffin-embedded tissue specimens. It also enables correlative imaging by combining μCT imaging with other microscopy techniques, such as immunohistochemistry (IHC) and serial block-face scanning electron microscopy, as well as data visualisation, image quantification, and bespoke analysis. Results Over the past seven years, the XRH facility has successfully completed over 120 projects in collaboration with researchers from 60 affiliations, resulting in numerous published manuscripts and conference proceedings. The facility has streamlined the μCT imaging process, improving productivity and enabling efficient acquisition of 3D datasets. Discussion & Conclusions The 3D X-ray Histology (XRH) facility at UHS is a pioneering platform in the field of histology and biomedical imaging. To the best of our knowledge, it stands out as the world's first dedicated XRH facility, encompassing every aspect of the imaging process, from user support to data generation, analysis, training, archiving, and metadata generation. This article serves as a comprehensive guide for establishing similar XRH facilities, covering key aspects of facility setup and operation. Researchers and institutions interested in developing state-of-the-art histology and imaging facilities can utilise this resource to explore new frontiers in their research and discoveries.
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Affiliation(s)
- Orestis L. Katsamenis
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- Institute for Life Sciences, University of Southampton, Southampton, UK
| | - Philip J. Basford
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- Institute for Life Sciences, University of Southampton, Southampton, UK
- Computational Engineering and Design, Faculty of Engineering and Physical Sciences,, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Stephanie K. Robinson
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Richard P. Boardman
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Elena Konstantinopoulou
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
| | - Peter M. Lackie
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- Biomedical Imaging Unit, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
| | - Anton Page
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
| | - J. Arjuna Ratnayaka
- Institute for Life Sciences, University of Southampton, Southampton, UK
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- Biomedical Imaging Unit, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
| | - Patricia M. Goggin
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- Biomedical Imaging Unit, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
| | - Gareth J. Thomas
- Institute for Life Sciences, University of Southampton, Southampton, UK
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
- School of Cancer Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
| | - Simon J. Cox
- Institute for Life Sciences, University of Southampton, Southampton, UK
- Computational Engineering and Design, Faculty of Engineering and Physical Sciences,, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Ian Sinclair
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- Institute for Life Sciences, University of Southampton, Southampton, UK
| | - Philipp Schneider
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- High-Performance Vision Systems, Center for Vision, Automation & Control, AIT Austrian Institute of Technology, Vienna, Austria
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Katsamenis OL, Basford PJ, Robinson SK, Boardman RP, Konstantinopoulou E, Lackie PM, Page A, Ratnayaka JA, Goggin PM, Thomas GJ, Cox SJ, Sinclair I, Schneider P. A high-throughput 3D X-ray histology facility for biomedical research and preclinical applications. Wellcome Open Res 2023; 8:366. [PMID: 37928208 PMCID: PMC10620852 DOI: 10.12688/wellcomeopenres.19666.2] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/28/2023] [Indexed: 03/29/2025] Open
Abstract
BACKGROUND The University of Southampton, in collaboration with the University Hospital Southampton (UHS) NHS Foundation Trust and industrial partners, has been at the forefront of developing three-dimensional (3D) imaging workflows using X-ray microfocus computed tomography (μCT) -based technology. This article presents the outcomes of these endeavours and highlights the distinctive characteristics of a μCT facility tailored explicitly for 3D X-ray Histology, with a primary focus on applications in biomedical research and preclinical and clinical studies. METHODS The UHS houses a unique 3D X-ray Histology (XRH) facility, offering a range of services to national and international clients. The facility employs specialised μCT equipment explicitly designed for histology applications, allowing whole-block XRH imaging of formalin-fixed and paraffin-embedded tissue specimens. It also enables correlative imaging by combining μCT imaging with other microscopy techniques, such as immunohistochemistry (IHC) and serial block-face scanning electron microscopy, as well as data visualisation, image quantification, and bespoke analysis. RESULTS Over the past seven years, the XRH facility has successfully completed over 120 projects in collaboration with researchers from 60 affiliations, resulting in numerous published manuscripts and conference proceedings. The facility has streamlined the μCT imaging process, improving productivity and enabling efficient acquisition of 3D datasets. DISCUSSION & CONCLUSIONS The 3D X-ray Histology (XRH) facility at UHS is a pioneering platform in the field of histology and biomedical imaging. To the best of our knowledge, it stands out as the world's first dedicated XRH facility, encompassing every aspect of the imaging process, from user support to data generation, analysis, training, archiving, and metadata generation. This article serves as a comprehensive guide for establishing similar XRH facilities, covering key aspects of facility setup and operation. Researchers and institutions interested in developing state-of-the-art histology and imaging facilities can utilise this resource to explore new frontiers in their research and discoveries.
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Affiliation(s)
- Orestis L. Katsamenis
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- Institute for Life Sciences, University of Southampton, Southampton, UK
| | - Philip J. Basford
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- Institute for Life Sciences, University of Southampton, Southampton, UK
- Computational Engineering and Design, Faculty of Engineering and Physical Sciences,, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Stephanie K. Robinson
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Richard P. Boardman
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Elena Konstantinopoulou
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
| | - Peter M. Lackie
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- Biomedical Imaging Unit, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
| | - Anton Page
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
| | - J. Arjuna Ratnayaka
- Institute for Life Sciences, University of Southampton, Southampton, UK
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- Biomedical Imaging Unit, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
| | - Patricia M. Goggin
- Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- Biomedical Imaging Unit, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
| | - Gareth J. Thomas
- Institute for Life Sciences, University of Southampton, Southampton, UK
- University Hospital Southampton NHS Foundation Trust, Southampton, SO16 6YD, UK
- School of Cancer Sciences, Faculty of Medicine, University of Southampton, Southampton, England, SO16 6YD, UK
| | - Simon J. Cox
- Institute for Life Sciences, University of Southampton, Southampton, UK
- Computational Engineering and Design, Faculty of Engineering and Physical Sciences,, University of Southampton, Southampton, England, SO17 1BJ, UK
| | - Ian Sinclair
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- Institute for Life Sciences, University of Southampton, Southampton, UK
| | - Philipp Schneider
- μ-VIS X-ray Imaging Centre, Faculty of Engineering and Physical Sciences, University of Southampton, Southampton, England, SO17 1BJ, UK
- High-Performance Vision Systems, Center for Vision, Automation & Control, AIT Austrian Institute of Technology, Vienna, Austria
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Myrenås E, Näslund J, Persson J, Sundin J. Effects of the invasive swim bladder parasite Anguillicola crassus on health and condition indicators in the European eel. JOURNAL OF FISH DISEASES 2023; 46:1029-1047. [PMID: 37329520 DOI: 10.1111/jfd.13822] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Revised: 05/30/2023] [Accepted: 05/31/2023] [Indexed: 06/19/2023]
Abstract
Parasites negatively affect biological processes within their hosts, which may alter for example health, growth, and reproductive ability. Non-native invasive parasites, in particular, may have large effects on the endemic hosts, given that the hosts lack evolved specific defences against such parasites. The swim bladder nematode Anguillicola crassus, an invasive parasite originating from Asia, is found in the European eel (Anguilla anguilla, L. 1758), since the 1980s. We investigated whether A. crassus affected several indicators related to health of the European eel (spleen- and liver size, body fat content and relative condition). Our results indicate that during the continental residency of the eels, infection by A. crassus had no major negative impacts on the investigated health indicators at the generally low infection intensities present in this study (median 2-3 visible parasites). Given that many of the adult eels were found to have swim bladder damage, concerns about their spawning migration through deeper oceanic environments can still be raised. To allow further investigations, we suggest that quantification of swim bladder damage should be implemented in eel-monitoring programs. Compared to other parasite pressure parameters, swim bladder damage provides additional information about past infections and future problems.
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Affiliation(s)
- Elin Myrenås
- Department of Aquatic Resources, Institute of Freshwater Research, Swedish University of Agricultural Sciences, Drottningholm, Sweden
| | - Joacim Näslund
- Department of Aquatic Resources, Institute of Freshwater Research, Swedish University of Agricultural Sciences, Drottningholm, Sweden
| | - John Persson
- Department of Aquatic Resources, Institute of Freshwater Research, Swedish University of Agricultural Sciences, Drottningholm, Sweden
| | - Josefin Sundin
- Department of Aquatic Resources, Institute of Freshwater Research, Swedish University of Agricultural Sciences, Drottningholm, Sweden
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Britton JR. Contemporary perspectives on the ecological impacts of invasive freshwater fishes. JOURNAL OF FISH BIOLOGY 2023; 103:752-764. [PMID: 36207758 DOI: 10.1111/jfb.15240] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Accepted: 10/05/2022] [Indexed: 06/16/2023]
Abstract
Introductions of non-native freshwater fish continue to increase globally, although only a small proportion of these introductions will result in an invasion. These invasive populations can cause ecological impacts in the receiving ecosystem through processes including increased competition and predation pressure, genetic introgression and the transmission of non-native pathogens. Definitions of ecological impact emphasize that shifts in the strength of these processes are insufficient for characterizing impact alone and, instead, must be associated with a quantifiable decline of biological and/or genetic diversity and lead to a measurable loss of diversity or change in ecosystem functioning. Assessments of ecological impact should thus consider the multiple processes and effects that potentially occur from invasive fish populations where, for example, impacts of invasive common carp Cyprinus carpio populations are through a combination of bottom-up and top-down processes that, in entirety, cause shifts in lake stable states and decreased species richness and/or abundances in the biotic communities. Such far-reaching ecological impacts also align to contemporary definitions of ecosystem collapse, given they involve substantial and persistent declines in biodiversity and ecosystem functions that cannot be recovered unaided. Thus, while not all introduced freshwater fishes will become invasive, those species that do develop invasive populations can cause substantial ecological impacts, where some of the impacts on biodiversity and ecosystem functioning might be sufficiently harmful to be considered as contributing to ecosystem collapse.
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Affiliation(s)
- John Robert Britton
- Department of Life and Environmental Sciences, Faculty of Science and Technology, Bournemouth University, Poole, UK
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Shaw AK, Torstenson M, Craft ME, Binning SA. Gaps in modelling animal migration with evolutionary game theory: infection can favour the loss of migration. Philos Trans R Soc Lond B Biol Sci 2023; 378:20210506. [PMID: 36934748 PMCID: PMC10024995 DOI: 10.1098/rstb.2021.0506] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Accepted: 10/03/2022] [Indexed: 03/21/2023] Open
Abstract
Ongoing environmental changes alter how natural selection shapes animal migration. Understanding how these changes play out theoretically can be done using evolutionary game theoretic (EGT) approaches, such as looking for evolutionarily stable strategies. Here, we first describe historical patterns of how EGT models have explored different drivers of migration. We find that there are substantial gaps in both the taxa (mammals, amphibians, reptiles, insects) and mechanisms (mutualism, interspecific competition) included in past EGT models of migration. Although enemy interactions, including parasites, are increasingly considered in models of animal migration, they remain the least studied of factors for migration considered to date. Furthermore, few papers look at changes in migration in response to perturbations (e.g. climate change, new species interactions). To address this gap, we present a new EGT model to understand how infection with a novel parasite changes host migration. We find three possible outcomes when migrants encounter novel parasites: maintenance of migration (despite the added infection cost), loss of migration (evolutionary shift to residency) or population collapse, depending on the risk and cost of getting infected, and the cost currency. Our work demonstrates how emerging infection can alter animal behaviour such as migration. This article is part of the theme issue 'Half a century of evolutionary games: a synthesis of theory, application and future directions'.
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Affiliation(s)
- Allison K. Shaw
- Department of Ecology, Evolution and Behavior, University of Minnesota, St Paul, MN 55108, USA
| | - Martha Torstenson
- Department of Ecology, Evolution and Behavior, University of Minnesota, St Paul, MN 55108, USA
| | - Meggan E. Craft
- Department of Ecology, Evolution and Behavior, University of Minnesota, St Paul, MN 55108, USA
| | - Sandra A. Binning
- Département de sciences biologiques, Université de Montréal, Montréal, Québec, H3C 3J7, Canada
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Miller M, Sharkh SM, Kemp PS. Response of upstream migrating juvenile European eel (Anguilla anguilla) to electric fields: Application of the marginal gains concept to fish screening. PLoS One 2022; 17:e0270573. [PMID: 35771848 PMCID: PMC9246130 DOI: 10.1371/journal.pone.0270573] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Accepted: 06/14/2022] [Indexed: 11/18/2022] Open
Abstract
The decline in European eel (Anguilla anguilla) recruitment over the past half-century is partly due to river infrastructure that delays or blocks upstream migration to rearing habitat. Stimuli, such as electricity, can be used to modify the behaviour of downstream moving fish and guide them to preferred routes of passage at river infrastructure; but research on upstream migrating juvenile eel remains limited. The response of upstream migrating juvenile eel exposed to pulsed direct current (PDC) electric fields was investigated using a recirculatory flume. Eel were presented a choice of two routes upstream under either: (1) a treatment condition, in which the selection of one route resulted in exposure to High Electric Field (HEF) strength that was between 1.5–2 times stronger than the Low Electric Field (LEF) strength encountered in the alternative route; or (2) a control in which the electric field was absent in both routes. Under the treatment, five different mean HEF strengths (0.53, 0.77, 1.22, 2.17 and 3.74 Vcm-1) were tested at one of two frequencies (2 and 10 Hz). Route choice, distance downstream of the first set of electrodes at which an initial response was observed and avoidance behaviours (acceleration, retraction, switching and rejection) were compared among treatments. For the 1.22, 2.17 and 3.74 Vcm-1 and under 2 Hz, eel preferred to pass the LEF route. Avoidance was greater in the HEF route and positively related to field strength. The distance of the initial response did not differ between routes, field strengths or frequency. Upstream migrating eel avoided electric fields indicating potential to develop this approach for fish guidance. Further work is needed to test prototypes in field settings, particularly in combination with traditional physical screens to water intakes as part of a process of applying the concept of marginal gains to advance environmental impact mitigation technology.
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Affiliation(s)
- Mhairi Miller
- International Centre for Ecohydraulics Research, Faculty of Engineering and Physical Science, University of Southampton, Southampton, United Kingdom
- * E-mail:
| | - Suleiman M. Sharkh
- International Centre for Ecohydraulics Research, Faculty of Engineering and Physical Science, University of Southampton, Southampton, United Kingdom
| | - Paul S. Kemp
- International Centre for Ecohydraulics Research, Faculty of Engineering and Physical Science, University of Southampton, Southampton, United Kingdom
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Binning SA, Craft ME, Zuk M, Shaw AK. How to study parasites and host migration: a roadmap for empiricists. Biol Rev Camb Philos Soc 2022; 97:1161-1178. [DOI: 10.1111/brv.12835] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Revised: 01/15/2022] [Accepted: 01/17/2022] [Indexed: 12/15/2022]
Affiliation(s)
- Sandra A. Binning
- Département de sciences biologiques Université de Montréal 1375 Ave. Thérèse‐Lavoie‐Roux Montréal QC H2V 0B3 Canada
| | - Meggan E. Craft
- Department of Ecology, Evolution, and Behavior University of Minnesota 1479 Gortner Ave St. Paul MN 55108 U.S.A
| | - Marlene Zuk
- Department of Ecology, Evolution, and Behavior University of Minnesota 1479 Gortner Ave St. Paul MN 55108 U.S.A
| | - Allison K. Shaw
- Department of Ecology, Evolution, and Behavior University of Minnesota 1479 Gortner Ave St. Paul MN 55108 U.S.A
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