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Wright GD, Thompson KA, Reis Y, Bischof J, Hockberger PE, Itano MS, Yen L, Adelodun ST, Bialy N, Brown CM, Chaabane L, Chew TL, Chitty AI, Cordelières FP, De Niz M, Ellenberg J, Engelbrecht L, Fabian-Morales E, Fazeli E, Fernandez-Rodriguez J, Ferrando-May E, Fletcher G, Galloway GJ, Guerrero A, Guimarães JM, Jacobs CA, Jayasinghe S, Kable E, Kitten GT, Komoto S, Ma X, Marques JA, Millis BA, Miranda K, JohnO'Toole P, Olatunji SY, Paina F, Pollak CN, Prats C, Pylvänäinen JW, Rahmoon MA, Reiche MA, Riches JD, Rossi AH, Salamero J, Thiriet C, Terjung S, Vasconcelos ADS, Keppler A. Recognising the importance and impact of Imaging Scientists: Global guidelines for establishing career paths within core facilities. J Microsc 2024. [PMID: 38691400 DOI: 10.1111/jmi.13307] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2024] [Revised: 04/10/2024] [Accepted: 04/14/2024] [Indexed: 05/03/2024]
Abstract
In the dynamic landscape of scientific research, imaging core facilities are vital hubs propelling collaboration and innovation at the technology development and dissemination frontier. Here, we present a collaborative effort led by Global BioImaging (GBI), introducing international recommendations geared towards elevating the careers of Imaging Scientists in core facilities. Despite the critical role of Imaging Scientists in modern research ecosystems, challenges persist in recognising their value, aligning performance metrics and providing avenues for career progression and job security. The challenges encompass a mismatch between classic academic career paths and service-oriented roles, resulting in a lack of understanding regarding the value and impact of Imaging Scientists and core facilities and how to evaluate them properly. They further include challenges around sustainability, dedicated training opportunities and the recruitment and retention of talent. Structured across these interrelated sections, the recommendations within this publication aim to propose globally applicable solutions to navigate these challenges. These recommendations apply equally to colleagues working in other core facilities and research institutions through which access to technologies is facilitated and supported. This publication emphasises the pivotal role of Imaging Scientists in advancing research programs and presents a blueprint for fostering their career progression within institutions all around the world.
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Affiliation(s)
- Graham D Wright
- Research Support Centre, Agency for Science, Technology & Research (A*STAR), Singapore, Singapore
| | - Kerry A Thompson
- Anatomy Imaging and Microscopy Facility, School of Medicine, College of Medicine, Nursing and Health Science, University of Galway, Galway, Ireland
| | - Yara Reis
- Global BioImaging, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
| | - Johanna Bischof
- Euro-BioImaging Bio-Hub, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
| | | | - Michelle S Itano
- Neuroscience Center, Department of Cell Biology & Physiology, Carolina Institute of Developmental Disabilities, University of North Carolina at Chapel Hill, Chapel Hill, USA
| | - Lisa Yen
- Microscopy Australia, The University of Sydney, Sydney, Australia
| | - Stephen Taiye Adelodun
- Department of Anatomy, Ben Carson College of Health and Medical Sciences, Babcock University, Ilisan Remo, Ogun State, Nigeria
| | - Nikki Bialy
- BioImaging North America, Morgridge Institute of Research, Madison, USA
| | - Claire M Brown
- Advanced BioImaging Facility, Department of Physiology, McGill University, Montreal, Canada
| | - Linda Chaabane
- Euro-BioImaging Med-Hub, IBB-CNR, Italian Council of Research (CNR), Turin, Italy
| | - Teng-Leong Chew
- Advanced Imaging Center, Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, USA
| | - Andrew I Chitty
- OHSU University Shared Resources, Oregon Health and Science University, Portland, USA
| | - Fabrice P Cordelières
- France BioImaging INBS, Bordeaux Imaging Center (UAR3420), Centre National de la Recherche Scientifique (CNRS), Bordeaux, France
| | - Mariana De Niz
- Department of Cell and Developmental Biology, Center for Advanced Microscopy, Feinberg School of Medicine, Northwestern University, Chicago, USA
| | - Jan Ellenberg
- Cell Biology and Biophysics Unit, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
| | - Lize Engelbrecht
- Central Analytical Facilities Microscopy Unit, Stellenbosch University, Stellenbosch, South Africa
| | - Eunice Fabian-Morales
- Genetics Department, Harvard Medical School, Boston, USA
- Unidad de Aplicaciones Avanzadas en Microscopía (ADMiRA), Instituto Nacional de Cancerología, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - Elnaz Fazeli
- Biomedicum Imaging Unit, Faculty of Medicine and HiLIFE, University of Helsinki, Helsinki, Finland
| | | | - Elisa Ferrando-May
- Department of Enabling Technology, German Cancer Research Center, Heidelberg, Germany
| | | | - Graham John Galloway
- Herston Imaging Research Facility, The University of Queensland, Queensland, Australia
| | - Adan Guerrero
- Laboratorio Nacional de Microscopía Avanzada, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
| | - Jander Matos Guimarães
- Multi-user Center for Analysis of Biomedical Phenomena, State University of Amazonas (CMABio-UEA), Manaus, Brazil
| | - Caron A Jacobs
- Department of Pathology, University of Cape Town, Cape Town, South Africa
| | - Sachintha Jayasinghe
- Office of the Pro Vice-Chancellor (Research Infrastructure), The University of Queensland, Brisbane, Australia
- Office of the Pro Vice-Chancellor (Research Infrastructure), Queensland University of Technology, Brisbane, Australia
| | - Eleanor Kable
- Sydney Microscopy and Microanalysis, Microscopy Australia, University of Sydney, Sydney, Australia
| | - Gregory T Kitten
- Center of Microscopy, Federal University of Minas Gerais, Belo Horizonte, Brazil
| | - Shinya Komoto
- Imaging Core Facility, Okinawa Institute of Science and Technology (OIST), Okinawa, Japan
- Optics and Imaging Facility, National Institute for Basic Biology (NIBB), Okazaki, Japan
| | - Xiaoxiao Ma
- Research Support Centre, Agency for Science, Technology & Research (A*STAR), Singapore, Singapore
| | - Jéssica Araújo Marques
- Multi-user Center for Analysis of Biomedical Phenomena, State University of Amazonas (CMABio-UEA), Manaus, Brazil
| | - Bryan A Millis
- Department of Biomedical Engineering, Vanderbilt Biophotonics Center, Vanderbilt University, Nashville, Tennessee, USA
| | - Kildare Miranda
- National Center for Structural Biology and Bioimaging and Biophysics Institute, Federal University of Rio de Janeiro, Rio de Janeiro, Brazil
| | | | - Sunday Yinka Olatunji
- Department of Anatomy, Adventist School of Medicine of East Central Africa, Adventist University of Central Africa, Kigali, Rwanda
| | - Federica Paina
- Government Relations, LyondellBasell Industries N.V., Brussels, Belgium
| | - Cora Noemi Pollak
- Instituto de Investigación en Biomedicina de Buenos Aires - CONICET, Ciudad Autonoma de Buenos Aires, Buenos Aires, Argentina
| | - Clara Prats
- Department of Biomedical Sciences, University of Copenhagen, Copenhagen, Denmark
| | | | - Mai Atef Rahmoon
- Advanced Imaging Center, Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, USA
| | - Michael A Reiche
- Department of Pathology, University of Cape Town, Cape Town, South Africa
| | - James Douglas Riches
- Central Analytical Research Facility, Queensland University of Technology, Brisbane, Australia
| | - Andres Hugo Rossi
- Servicio de Microscopía y Bioimagenes, Fundación Instituto Leloir - CONICET, Buenos Aires, Argentina
| | - Jean Salamero
- CNRS-Institut Curie, France BioImaging INBS, Paris, France
| | - Caroline Thiriet
- France BioImaging INBS, Bordeaux Imaging Center (UAR3420), Centre National de la Recherche Scientifique (CNRS), Bordeaux, France
| | - Stefan Terjung
- Advanced Light Microscopy Facility, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
| | | | - Antje Keppler
- Global BioImaging, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
- Euro-BioImaging Bio-Hub, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
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Bateman IJ, Keeler B, Olmstead SM, Whitehead J. Perspectives on valuing water quality improvements using stated preference methods. Proc Natl Acad Sci U S A 2023; 120:e2217456120. [PMID: 37094166 PMCID: PMC10160984 DOI: 10.1073/pnas.2217456120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2023] Open
Abstract
Improvements to the quality of freshwater rivers and lakes can generate a wide array of benefits, from "use values" such as recreational boating, fishing, and swimming to "nonuse values" such as improved outcomes for aquatic biodiversity. Bringing these nonmarket values into decision-making is crucial to determining appropriate levels of investment in water quality improvements. However, progress in the economic valuation of water quality benefits has lagged similar efforts to value air quality benefits, with implications for water policy. New data sources, modeling techniques, and innovation in stated preference survey methods offer notable improvements to estimates of use and nonuse benefits of improved water quality. Here, we provide a perspective on how recent applications of stated preference techniques to the valuation of the nonmarket benefits of water quality improvements have advanced the field of environmental valuation. This overview is structured around four key questions: i) What is it about water quality that we seek to value? ii) How should we design and implement the surveys which elicit individuals' stated preferences? iii) How do we assess the validity of the findings provided by such studies? and iv) What are the contributions of these valuation exercises to public policy? In answering these questions, we make reference to the contributions provided by the papers in this Symposium.
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Affiliation(s)
- Ian J Bateman
- Land, Environment, Economics and Policy Institute, Department of Economics, University of Exeter Business School, Exeter, EX4 4PU, United Kingdom
| | - Bonnie Keeler
- Center for Science, Technology and Environmental Policy, Hubert H. Humphrey School of Public Affairs, University of Minnesota, Minneapolis, MN 55455
| | - Sheila M Olmstead
- Lyndon B. Johnson School of Public Affairs, The University of Texas at Austin, Austin, TX 78713-8925
| | - John Whitehead
- Department of Economics, Appalachian State University, Boone, NC 28608
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Mallaby J, Mwangi W, Ng J, Stewart A, Dorey-Robinson D, Kipling D, Hershberg U, Fraternali F, Nair V, Dunn-Walters D. Diversification of immunoglobulin genes by gene conversion in the domestic chicken ( Gallus gallus domesticus). Discov Immunol 2023; 2:kyad002. [PMID: 38567069 PMCID: PMC10917233 DOI: 10.1093/discim/kyad002] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Revised: 12/29/2022] [Accepted: 01/18/2023] [Indexed: 04/04/2024]
Abstract
Sustainable modern poultry production depends on effective protection against infectious diseases and a diverse range of antibodies is key for an effective immune response. In the domestic chicken, somatic gene conversion is the dominant process in which the antibody immunoglobulin genes are diversified. Affinity maturation by somatic hypermutation (SHM) also occurs, but the relative contribution of gene conversion versus somatic hypermutation to immunoglobulin (Ig) gene diversity is poorly understood. In this study, we use high throughput long-read sequencing to study immunoglobulin diversity in multiple immune-associated tissues in Rhode Island Red chickens. To better understand the impact of genetic diversification in the chicken, a novel gene conversion identification software was developed (BrepConvert). In this study, BrepConvert enabled the identification of over 1 million gene conversion events. Mapping the occurrence of putative somatic gene conversion (SGC) events throughout the variable gene region revealed repetitive and highly restricted patterns of genetic insertions in both the antibody heavy and light chains. These patterns coincided with the locations of genetic variability in available pseudogenes and align with antigen binding sites, predominately the complementary determining regions (CDRs). We found biased usage of pseudogenes during gene conversion, as well as immunoglobulin heavy chain diversity gene (IGHD) preferences during V(D)J gene rearrangement, suggesting that antibody diversification in chickens is more focused than the genetic potential for diversity would suggest.
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Affiliation(s)
- Jessica Mallaby
- Department of Bioscience and Medicine, University of Surrey, Guildford, UK
- Pirbright Institute, Woking, UK
| | | | - Joseph Ng
- Randall Centre for Cell and Molecular Biophysics, King’s College London, London, UK
| | - Alexander Stewart
- Department of Bioscience and Medicine, University of Surrey, Guildford, UK
| | | | - David Kipling
- Department of Bioscience and Medicine, University of Surrey, Guildford, UK
| | - Uri Hershberg
- Department of Human Biology, University of Haifa, Haifa, Israel
| | - Franca Fraternali
- Randall Centre for Cell and Molecular Biophysics, King’s College London, London, UK
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Moore B, Carvajal-López P, Chauke PA, Cristancho M, Dominguez Del Angel V, Fernandez-Valverde SL, Ghouila A, Gopalasingam P, Guerfali FZ, Matimba A, Morgan SL, Oliveira G, Ras V, Reyes A, De Las Rivas J, Mulder N. Ten simple rules for organizing a bioinformatics training course in low- and middle-income countries. PLoS Comput Biol 2021; 17:e1009218. [PMID: 34411091 PMCID: PMC8375989 DOI: 10.1371/journal.pcbi.1009218] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/02/2022] Open
Affiliation(s)
- Benjamin Moore
- European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom
- * E-mail: (BM); (NM)
| | - Patricia Carvajal-López
- European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom
| | - Paballo Abel Chauke
- Computational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, CIDRI Africa Wellcome Trust Centre, Faculty of Health Sciences, University of Cape Town, Cape Town, South Africa
| | - Marco Cristancho
- Vicerrectoria de Investigación y Creación, Universidad de los Andes, Bogotá, Colombia
| | | | - Selene L. Fernandez-Valverde
- Unidad de Genómica Avanzada (Langebio), Centro de Investigación y de Estudios Avanzados del IPN, Guanajuato, Mexico
| | - Amel Ghouila
- Computational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, CIDRI Africa Wellcome Trust Centre, Faculty of Health Sciences, University of Cape Town, Cape Town, South Africa
| | - Piraveen Gopalasingam
- European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom
| | - Fatma Zahra Guerfali
- Institut Pasteur de Tunis, Laboratory of Transmission, Control and Immunobiology of Infections, Tunis-Belvédère, Tunisia
| | - Alice Matimba
- Wellcome Connecting Science, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom
| | - Sarah L. Morgan
- European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom
| | | | - Verena Ras
- Computational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, CIDRI Africa Wellcome Trust Centre, Faculty of Health Sciences, University of Cape Town, Cape Town, South Africa
| | - Alejandro Reyes
- Universidad de los Andes, Max Planck Tandem Group in Computational Biology, Department of Biological Sciences, Universidad de los Andes, Bogotá, Colombia
| | - Javier De Las Rivas
- Cancer Research Center, Consejo Superior de Investigaciones Científicas and University of Salamanca, Campus Miguel de Unamuno, Salamanca, Spain
| | - Nicola Mulder
- Computational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Disease and Molecular Medicine, CIDRI Africa Wellcome Trust Centre, Faculty of Health Sciences, University of Cape Town, Cape Town, South Africa
- * E-mail: (BM); (NM)
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Provart NJ, Brady SM, Parry G, Schmitz RJ, Queitsch C, Bonetta D, Waese J, Schneeberger K, Loraine AE. Anno genominis XX: 20 years of Arabidopsis genomics. Plant Cell 2021; 33:832-845. [PMID: 33793861 PMCID: PMC8226293 DOI: 10.1093/plcell/koaa038] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Accepted: 12/09/2020] [Indexed: 05/04/2023]
Abstract
Twenty years ago, the Arabidopsis thaliana genome sequence was published. This was an important moment as it was the first sequenced plant genome and explicitly brought plant science into the genomics era. At the time, this was not only an outstanding technological achievement, but it was characterized by a superb global collaboration. The Arabidopsis genome was the seed for plant genomic research. Here, we review the development of numerous resources based on the genome that have enabled discoveries across plant species, which has enhanced our understanding of how plants function and interact with their environments.
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Affiliation(s)
- Nicholas J Provart
- Department of Cell & Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, Ontario, M5S 3B2, Canada
| | - Siobhan M Brady
- Department of Plant Biology and Genome Center, University of California, Davis, California, 95616, USA
| | - Geraint Parry
- GARNet, School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - Robert J Schmitz
- Department of Genetics, University of Georgia, Georgia, 30602, USA
| | - Christine Queitsch
- Department of Genome Sciences, School of Medicine, University of Washington, Seattle, Washington, 98195, USA
- Brotman Baty Institute for Precision Medicine, Seattle, Washington, 98195, USA
| | - Dario Bonetta
- Faculty of Science, Ontario Tech University, Oshawa, Ontario, L1G 0C5, Canada
| | - Jamie Waese
- Department of Cell & Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, Ontario, M5S 3B2, Canada
| | - Korbinian Schneeberger
- Department of Chromosome Biology, Max Planck Institute for Plant Breeding Research, D-50829, Cologne, Germany
- Faculty of Biology, LMU Munich, 82152 Munich, Germany
| | - Ann E Loraine
- Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC, 28223, USA
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