MICA: Nanoscopy Oxford (NanO): Novel Super-Resolution Imaging Applied to Biomedical Sciences
Lead Research Organisation:
University of Oxford
Department Name: Biochemistry
Abstract
Over the past decade entirely new technologies have been developed that bypass the limits of light microscopy allowing researchers to visualise, for the first time, intracellular structures, the cell surface and the extracellular space at the nanometre scale in both fixed and living cells. This has created entirely new possibilities to investigate normal cell structure and function. The principal aim of this application is to fully integrate and coordinate multidisciplinary groups (biologists, physicists, engineers and chemists) across the Oxford campus, to develop super-resolution microscopy (SRM) and to make this available to a broad biomedical community (e.g. WIMM, Dunn School, WTCHG, Biochemistry and DPAG) to generate new insights into normal biological processes and how these are perturbed in human diseases. We propose that this new consortium is called Nanoscopy Oxford (NanO).
Over the past few years several biomedical institutes and Departments in Oxford have made commitments to developing imaging as a key infrastructure for supporting their scientific programmes. In addition these departments and institutes have contributed to an overarching strategic vision for imaging in Oxford under the leadership of the Micron initiative. This has enabled the Oxford campus to establish a wide range of conventional imaging and to take the first steps in developing SRM. Recruitment of scientific leaders in this area (e.g. Davis, Eggeling, Schermelleh) and their collaborations with international leaders in this area of research (Hell, Sedat, Jakobs) have placed our consortium in strong position, with further investment, to become a leading UK and international centre for next generation imaging.
Recognising that no single approach is suitable for all applications, we will build upon current imaging facilities and associated management structures in Oxford to establish, extend and optimise the full range of approaches to SRM (STED, RESOLFT, 3DSIM and PALM/STORM). Furthermore, we will adapt each type of microscopy to maximise our ability to perform nanoscale imaging, developing new approaches for multi-colour and three-dimensional imaging. We will improve the quality of imaging in thick specimens by reducing aberrations, improving fluorescent labels for live-cell SRM imaging, and we will speed up the imaging process and develop new methods for analysis of the super-resolved images. By streamlining these techniques we will bring complex technologies, not yet commercialised, within the reach of biomedical researchers with limited experience of SRM.
The consortium has well established programmes in teaching and training biomedical researchers in the use of all forms of microscopy and therefore is well placed to become a training facility for the UK in this area. Realising this vision including technical development, adoption of techniques to analyse key cell biological questions and then applying them to biomedical issues (fully integrating Micron and NanO) will make Oxford an international centre of excellence in the development of next generation microscopy and its application to the analysis of human disease.
Over the past few years several biomedical institutes and Departments in Oxford have made commitments to developing imaging as a key infrastructure for supporting their scientific programmes. In addition these departments and institutes have contributed to an overarching strategic vision for imaging in Oxford under the leadership of the Micron initiative. This has enabled the Oxford campus to establish a wide range of conventional imaging and to take the first steps in developing SRM. Recruitment of scientific leaders in this area (e.g. Davis, Eggeling, Schermelleh) and their collaborations with international leaders in this area of research (Hell, Sedat, Jakobs) have placed our consortium in strong position, with further investment, to become a leading UK and international centre for next generation imaging.
Recognising that no single approach is suitable for all applications, we will build upon current imaging facilities and associated management structures in Oxford to establish, extend and optimise the full range of approaches to SRM (STED, RESOLFT, 3DSIM and PALM/STORM). Furthermore, we will adapt each type of microscopy to maximise our ability to perform nanoscale imaging, developing new approaches for multi-colour and three-dimensional imaging. We will improve the quality of imaging in thick specimens by reducing aberrations, improving fluorescent labels for live-cell SRM imaging, and we will speed up the imaging process and develop new methods for analysis of the super-resolved images. By streamlining these techniques we will bring complex technologies, not yet commercialised, within the reach of biomedical researchers with limited experience of SRM.
The consortium has well established programmes in teaching and training biomedical researchers in the use of all forms of microscopy and therefore is well placed to become a training facility for the UK in this area. Realising this vision including technical development, adoption of techniques to analyse key cell biological questions and then applying them to biomedical issues (fully integrating Micron and NanO) will make Oxford an international centre of excellence in the development of next generation microscopy and its application to the analysis of human disease.
Technical Summary
The past decade has seen a major revolution in optical microscopy, with new methods surmounting the conventional diffraction limit in spatial resolution. Super-resolution microscopy (SRM) techniques such as stimulated emission depletion (STED), REversible Saturable/switchable Optical Linear (Fluorescence) Transition (RESOLFT), (Saturated) Structured Illumination Microscopy ((S)SIM) and (fluorescence) PhotoActivation and Localization and (direct) Stochastic Optical Reconstruction microscopy (PALM/(D)STORM) permit imaging of living cells with increasing resolution and are opening a broad frontier in the study of cellular functionality. Each of these methods has distinct advantages and disadvantages for imaging different types of specimen. The principle aim of this proposal is to make all developments in SRM available to the biomedical community in Oxford to enable unique insights in cellular research. We already have a well-established infrastructure to support advanced optical imaging within the University with the Micron Advanced Bioimaging Unit and planned facilities in the WIMM and at WTCHG. There are two SIM platforms in Micron but we will establish STED and RESOLFT imaging at the WIMM and provide access to a home-built PALM/STORM system in Micron.
SRM techniques have enormous potential, yet their utility is still restricted by a number of inherent limitations. A second aim is to grasp this opportunity to unite biologists with physicists, engineers and chemists to drive further developments in the technology of SRM imaging. We will develop:
1. STED and RESOLFT approaches in Oxford.
2. SSIM with fast image acquisition at a spatial resolution of 50nm for 3D imaging.
3. adaptive optics for the correction of aberrations encountered when performing SRM at depth within tissue.
4. live PALM/STORM and FRET.
5. new image analysis and control algorithms for the super-resolved SRM data.
6. fluorescent labels for live-cell SRM.
SRM techniques have enormous potential, yet their utility is still restricted by a number of inherent limitations. A second aim is to grasp this opportunity to unite biologists with physicists, engineers and chemists to drive further developments in the technology of SRM imaging. We will develop:
1. STED and RESOLFT approaches in Oxford.
2. SSIM with fast image acquisition at a spatial resolution of 50nm for 3D imaging.
3. adaptive optics for the correction of aberrations encountered when performing SRM at depth within tissue.
4. live PALM/STORM and FRET.
5. new image analysis and control algorithms for the super-resolved SRM data.
6. fluorescent labels for live-cell SRM.
Planned Impact
Nanoscopy Oxford (NanO) will be a hub for advanced and innovative imaging nationally and internationally, by fostering not only an interactive and collaborative environment within Oxford University, but also developing much closer links between different research groups in academia and Industry in the UK and abroad. This strategic vision for the future will continue to keep Oxford at the international forefront of this increasingly exciting phase of biomedical basic and translational research.
As explained in the "academic beneficiaries' section, we can be certain that the technological developments and facilities that we plan to establish throughout the next five years will be available to and benefit biomedical researchers worldwide. The following groupings will benefit from the technology development and from specific discoveries that will be made by applying the new technology to leading edge biology.
1) All researchers working at the interdisciplinary interface between physics and biology, developing next generation optical microscopes and methods of super-resolution microscopy (SRM). The progress we envisage will provide insights into future developments and applications.
2) All biological researchers applying advanced imaging methods at the limit of what is currently possible by giving them access to new technology and/or by directing their research with published insights gained within NanO.
3) Chemists and companies working on new fluorescent labels such as organic dyes and fluorescent proteins and labelling protocols, which are optimized for SRM and optical microscopy.
4) Companies developing optical microscopy by improving their basic technology and allowing them to stay highly competitive. For example: Leica Microsystems, Carl Zeiss Microscopy, Nikon Microscopy, Olympus Microscopy, Applied Precision/GE Healthcare, Perkin Elmer, PicoQuant and Abberior Instruments.
5) Companies performing biomedical research and high-throughput-screening based on optical fluorescence microscopy by offering them novel, improved technology platforms. For example: Pharmaceutical and biotechnology companies such as GlaxoSmithKline, Pfizer, Novartis, Lilly, Evotec. Our initiative will contribute to ensuring a high educational level for the future workforce of this important sector of the economy.
6) UK research in general by establishing an internationally competitive platform for next generation optical microscopy and attracting the brightest minds from all parts of the globe.
7) Contribution to public health and public welfare by gaining further insight into the mechanisms underlying normal cell biology and human disease. We anticipate that application of SRM imaging research in crucial areas of experimental medicine (such as immunology, haematology and neuroscience) will lead to greater insights into the mechanisms causing many human diseases hence providing opportunities to identify diagnostics and therapeutics.
8) Enhancing the knowledge-based economy by improving the training of highly skilled researchers in the development and applications of the new technology.
9) Attracting new industrial R&D investment in the UK by enhancing cutting-edge research at UK universities and research institutes.
As explained in the "academic beneficiaries' section, we can be certain that the technological developments and facilities that we plan to establish throughout the next five years will be available to and benefit biomedical researchers worldwide. The following groupings will benefit from the technology development and from specific discoveries that will be made by applying the new technology to leading edge biology.
1) All researchers working at the interdisciplinary interface between physics and biology, developing next generation optical microscopes and methods of super-resolution microscopy (SRM). The progress we envisage will provide insights into future developments and applications.
2) All biological researchers applying advanced imaging methods at the limit of what is currently possible by giving them access to new technology and/or by directing their research with published insights gained within NanO.
3) Chemists and companies working on new fluorescent labels such as organic dyes and fluorescent proteins and labelling protocols, which are optimized for SRM and optical microscopy.
4) Companies developing optical microscopy by improving their basic technology and allowing them to stay highly competitive. For example: Leica Microsystems, Carl Zeiss Microscopy, Nikon Microscopy, Olympus Microscopy, Applied Precision/GE Healthcare, Perkin Elmer, PicoQuant and Abberior Instruments.
5) Companies performing biomedical research and high-throughput-screening based on optical fluorescence microscopy by offering them novel, improved technology platforms. For example: Pharmaceutical and biotechnology companies such as GlaxoSmithKline, Pfizer, Novartis, Lilly, Evotec. Our initiative will contribute to ensuring a high educational level for the future workforce of this important sector of the economy.
6) UK research in general by establishing an internationally competitive platform for next generation optical microscopy and attracting the brightest minds from all parts of the globe.
7) Contribution to public health and public welfare by gaining further insight into the mechanisms underlying normal cell biology and human disease. We anticipate that application of SRM imaging research in crucial areas of experimental medicine (such as immunology, haematology and neuroscience) will lead to greater insights into the mechanisms causing many human diseases hence providing opportunities to identify diagnostics and therapeutics.
8) Enhancing the knowledge-based economy by improving the training of highly skilled researchers in the development and applications of the new technology.
9) Attracting new industrial R&D investment in the UK by enhancing cutting-edge research at UK universities and research institutes.
Organisations
- University of Oxford (Lead Research Organisation)
- Engineering and Physical Sciences Research Council (Co-funder)
- Biotechnology and Biological Sciences Research Council (Co-funder)
- University of Manchester (Collaboration)
- Leica Microsystems GmbH (Collaboration)
- University of California, San Francisco (Collaboration)
- UNIVERSITY OF OXFORD (Collaboration)
- Heriot-Watt University (Collaboration)
- UNIVERSITY OF BIRMINGHAM (Collaboration)
- University of Göttingen (Collaboration)
- Danaher (Germany) (Project Partner)
- University of California, San Francisco (Project Partner)
- Heriot-Watt University (Project Partner)
- Max Planck Institutes (Project Partner)
- Universitätsmedizin Göttingen (Project Partner)
Publications
Abd Hamid M
(2019)
Enriched HLA-E and CD94/NKG2A Interaction Limits Antitumor CD8+ Tumor-Infiltrating T Lymphocyte Responses.
in Cancer immunology research
Abd Hamid M
(2020)
Self-Maintaining CD103+ Cancer-Specific T Cells Are Highly Energetic with Rapid Cytotoxic and Effector Responses.
in Cancer immunology research
Amaro M
(2017)
Laurdan and Di-4-ANEPPDHQ probe different properties of the membrane.
in Journal of physics D: Applied physics
Ando T
(2018)
The 2018 correlative microscopy techniques roadmap.
in Journal of physics D: Applied physics
Andrade DM
(2015)
Cortical actin networks induce spatio-temporal confinement of phospholipids in the plasma membrane--a minimally invasive investigation by STED-FCS.
in Scientific reports
Andreoli D
(2015)
Deterministic control of broadband light through a multiply scattering medium via the multispectral transmission matrix.
in Scientific reports
Azbazdar Y
(2019)
More Favorable Palmitic Acid Over Palmitoleic Acid Modification of Wnt3 Ensures Its Localization and Activity in Plasma Membrane Domains.
in Frontiers in cell and developmental biology
Ball G
(2015)
SIMcheck: a Toolbox for Successful Super-resolution Structured Illumination Microscopy.
in Scientific reports
Description | Member of Wellcome Trust Panel: Strategic Award for Large shared Equipment |
Geographic Reach | National |
Policy Influence Type | Participation in a guidance/advisory committee |
Description | Wellcome Trust strategic review of funding policy for advance microscopy infrastructure |
Geographic Reach | National |
Policy Influence Type | Participation in a guidance/advisory committee |
Impact | Led to the Wellcome Trust funding more microscopy development and infrastructure |
Description | Advancing Image Analysis at the Wolfson Imaging Centre Oxford |
Amount | £45,000 (GBP) |
Organisation | University of Oxford |
Department | E P A Cephalosporin Fund |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 08/2016 |
End | 04/2018 |
Description | BBSRC Research grant |
Amount | £167,308 (GBP) |
Funding ID | BB/L00433X/1 |
Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
Sector | Public |
Country | United Kingdom |
Start | 01/2013 |
End | 01/2017 |
Description | CE - EP Abraham Cephalosporin Trust Fund 2015 entitled: BioISCAT: Biomedical application of novel fast molecular tracking |
Amount | £74,200 (GBP) |
Organisation | University of Oxford |
Department | E P A Cephalosporin Fund |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2015 |
End | 01/2016 |
Description | CE - MRC project grant (MR/L018942/1): The impact of IFTIM3 genetic variation on Influenza virus infection, immune responses and disease outcome |
Amount | £200,000 (GBP) |
Funding ID | MR/L018942/1 |
Organisation | Medical Research Council (MRC) |
Sector | Public |
Country | United Kingdom |
Start | 01/2014 |
End | 01/2017 |
Description | CE - Marie-Curie Career Integration Grant (contribution to group member Jorge Bernardino de la Serna |
Amount | € 100,000 (EUR) |
Organisation | Marie Sklodowska-Curie Actions |
Sector | Charity/Non Profit |
Country | Global |
Start | 01/2013 |
End | 01/2017 |
Description | CE - Wellcome Trust Institutional Strategic Support Fund (WTISSF) entitled: Enhancement of technological capacity in biomedical research: Wolfson Imaging Centre Oxford |
Amount | £101,789 (GBP) |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2015 |
End | 01/2017 |
Description | CE -John Fell OUP Research Fund entitled: Matching funds for external applications for acquisition of a Zeiss 880 upright confocal microscope with novel Airy-scan super-resolution detector |
Amount | £70,000 (GBP) |
Organisation | University of Oxford |
Department | John Fell Fund |
Sector | Academic/University |
Country | United Kingdom |
Start | 01/2015 |
End | 01/2016 |
Description | CE -Nanoscopy Oxford: Super-resolution optical STED microscope facility at the WIMM |
Amount | £62,000 (GBP) |
Organisation | University of Oxford |
Department | E P A Cephalosporin Fund |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2014 |
End | 01/2016 |
Description | CE -Wellcome Trust Institutional Strategic Support Fund (WTISSF) 2013-2014 entitled: Containment level 3 super-resolution STED imaging of live virus host-cell interactions |
Amount | £70,000 (GBP) |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2013 |
End | 01/2014 |
Description | CE -Wellcome Trust Multi-User Equipment Grant (WT104924AIA) entitled: Advanced super-resolution fluorescence STED microscopy of the cellular interior |
Amount | £389,000 (GBP) |
Funding ID | 104924/Z/14/Z |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2014 |
End | 01/2018 |
Description | Dynamics of Peroxisomal Protein Transport National Research Unit FOR1905-PerTrans |
Amount | € 207,800 (EUR) |
Organisation | German Research Foundation |
Sector | Charity/Non Profit |
Country | Germany |
Start | 01/2017 |
End | 12/2019 |
Description | Enabling enhanced optical imaging of whole organs by optimized tissue clearing apparatus at University of Oxford light microscopy imaging facilities |
Amount | £15,000 (GBP) |
Organisation | University of Oxford |
Department | E P A Cephalosporin Fund |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2017 |
End | 01/2018 |
Description | Establishment of force measurements in biomedical research |
Amount | £57,500 (GBP) |
Organisation | University of Oxford |
Department | John Fell Fund |
Sector | Academic/University |
Country | United Kingdom |
Start | 05/2016 |
End | 05/2017 |
Description | ID - MICRON Wellcome Trust Strategic Award entitled: Micron Oxford: super-resolution imaging of cellular dynamics |
Amount | £4,679,473 (GBP) |
Funding ID | 107457/Z/15/Z |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2016 |
End | 01/2021 |
Description | ID - Wellcome Trust Enhancement of Strategic Award (WT 091911) entitled: Advanced Microscopy for Chromosome and RNA dynamics. Co-applicant |
Amount | £178,795 (GBP) |
Funding ID | WT 091911 |
Organisation | Wellcome Trust |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 01/2014 |
End | 01/2016 |
Description | Newton Fund Researcher Links Workshop Grant 2015 |
Amount | £30,000 (GBP) |
Organisation | British Council |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 11/2015 |
End | 05/2016 |
Description | Newton Fund Researcher Links Workshop Grant 2016 |
Amount | £30,000 (GBP) |
Organisation | British Council |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 03/2017 |
End | 12/2017 |
Description | Newton Institutional Links Fund (Turkey/UK): Investigation of Wnt-catenin signalling at the plasma membrane in health and disease |
Amount | £340,000 (GBP) |
Organisation | British Council |
Sector | Charity/Non Profit |
Country | United Kingdom |
Start | 02/2018 |
End | 01/2020 |
Description | Oxford Medical Sciences Internal Bridging Salary Fund Silvia Galiani |
Amount | £7,332 (GBP) |
Organisation | University of Oxford |
Department | Medical Sciences Division |
Sector | Academic/University |
Country | United Kingdom |
Start | 01/2017 |
End | 03/2017 |
Title | Software for advanced analysis of (super-resolved) FCS data |
Description | Software for advanced analysis of (super-resolved) FCS data |
Type Of Material | Technology assay or reagent |
Year Produced | 2015 |
Provided To Others? | Yes |
Impact | (Waithe, D., Clausen, M.P., Sezgin, E., and Eggeling, C. (2015). FoCuS-point: software for STED fluorescence correlation and time-gated single photon counting. Bioinformatics doi: 10.1093/bioinformatics/btv687). Software for advanced analysis of calcium imaging data (Fritzsche, M., Fernandes, R.F., Colin-York, H., Santos, A.M., Lee, S.F., Lagerholm, B.C., Davis, S.J., and Eggeling, C. (2015). CalQuo: single-cell quantification of intracellular Ca 2+ responses. Scientific Reports DOI: 10.1038/srep16487). Spectral Imaging for advanced observation of polarity-sensitive membrane dyes (Sezgin, E., Waithe, D., Bernardino de la Serna, J., and Eggeling, C. (2015). Spectral Imaging to Measure Heterogeneity in Membrane Lipid Packing. Chemphyschem 16, 1387-1394). |
Title | Super-resolution STED microscope in category 3 environment at the WIMM for live-cell observations involving fully infectious viruses. |
Description | Super-resolution STED microscope in category 3 environment at the WIMM for live-cell observations involving fully infectious viruses. |
Type Of Material | Improvements to research infrastructure |
Year Produced | 2015 |
Provided To Others? | Yes |
Impact | STED-FLCS and scanning STED-FCS, advanced tools for investigating molecular dynamics and interactions (Vicidomini, G., Ta, H., Honigmann, A., Mueller, V., Clausen, M.P., Waithe, D., Galiani, S., Sezgin, E., Diaspro, A., Hell, S.W., et al. (2015). STED-FLCS: An Advanced Tool to Reveal Spatiotemporal Heterogeneity of Molecular Membrane Dynamics. Nano Lett 15, 5912-5918; Honigmann, A., Mueller, V., Ta, H., Schoenle, A., Sezgin, E., Hell, S.W., and Eggeling, C. (2014). Scanning STED-FCS reveals spatio-temporal heterogeneity of lipid interaction in the plasma membrane of living cells. Nature Communications 5, 5412). |
Title | CCDC 1812758: Experimental Crystal Structure Determination |
Description | Related Article: Yaoyao Xiong, Andreas Vargas Jentzsch, Johannes W. M. Osterrieth, Erdinc Sezgin, Igor V. Sazanovich, Katharina Reglinski, Silvia Galiani, Anthony W. Parker, Christian Eggeling, Harry L. Anderson|2018|Chemical Science|9|3029|doi:10.1039/C8SC00130H |
Type Of Material | Database/Collection of data |
Year Produced | 2018 |
Provided To Others? | Yes |
URL | http://www.ccdc.cam.ac.uk/services/structure_request?id=doi:10.5517/ccdc.csd.cc1yvb26&sid=DataCite |
Description | Advancing fluorescence microscopy |
Organisation | University of Oxford |
Department | Micron Oxford Advanced Bioimaging Unit |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy development and servicing |
Collaborator Contribution | Complementary fluorescence microscopy development and servicing |
Impact | One publication, three major grants, ongoing technological and infrastructural development, positive evaluation as a Eurobioimaging node |
Start Year | 2013 |
Description | Antigen Presenting Cells |
Organisation | University of Oxford |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy, biophysical techniques, data analysis |
Collaborator Contribution | APC biology |
Impact | DPhil studentship |
Start Year | 2014 |
Description | Bcell membrane antibody interaction |
Organisation | University of Manchester |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy |
Collaborator Contribution | Cells, antibody |
Impact | Ongoing |
Start Year | 2015 |
Description | BioiScat - molecular membrane dynamics |
Organisation | University of Oxford |
Department | Department of Chemistry |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Setup and application of iSCAT setup - study of molecular membrane dynamics |
Collaborator Contribution | Setup of iSCAT setup, data analysis |
Impact | Two publications EPA grant DPhil student |
Start Year | 2014 |
Description | Enhancing tumour specific immune responses for the treatment of ovarian cancer |
Organisation | University of Oxford |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Access to ovarian cancer biology and computational work |
Collaborator Contribution | Immunology expertise and cancer antigene prediction. |
Impact | The Ovarian Cancer Action (OCA) international grand challenge award Publication by Cancer Cell in Feb 2020: " The Repertoire of Serous Ovarian Cancer Non-genetic Heterogeneity Revealed by Single-Cell Sequencing of Normal Fallopian Tube Epithelial Cells" |
Start Year | 2016 |
Description | Epidermal tissue development |
Organisation | University of Oxford |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy, data analysis |
Collaborator Contribution | skin cell biology |
Impact | One publication close to submission |
Start Year | 2013 |
Description | Fluorescent lipid analog development |
Organisation | University of Birmingham |
Department | School of Chemistry |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy |
Collaborator Contribution | Lipid synthesis and delivery |
Impact | One publication in preparation |
Start Year | 2014 |
Description | Lymphatic cell receptor organization |
Organisation | University of Oxford |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy, data analysis |
Collaborator Contribution | Lymphatic Receptor Biology |
Impact | One publication, one DPhil studentship |
Start Year | 2013 |
Description | Microscopy technology development collaborations |
Organisation | Heriot-Watt University |
Department | School of Engineering & Physical Sciences |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications. |
Collaborator Contribution | As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells. |
Impact | Listed in other section |
Start Year | 2013 |
Description | Microscopy technology development collaborations |
Organisation | Leica Microsystems GmbH |
Country | Germany |
Sector | Private |
PI Contribution | The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications. |
Collaborator Contribution | As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells. |
Impact | Listed in other section |
Start Year | 2013 |
Description | Microscopy technology development collaborations |
Organisation | University of California, San Francisco |
Country | United States |
Sector | Academic/University |
PI Contribution | The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications. |
Collaborator Contribution | As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells. |
Impact | Listed in other section |
Start Year | 2013 |
Description | Microscopy technology development collaborations |
Organisation | University of Göttingen |
Department | Medical School |
Country | Germany |
Sector | Academic/University |
PI Contribution | The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications. |
Collaborator Contribution | As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells. |
Impact | Listed in other section |
Start Year | 2013 |
Description | Photoswitchable label development |
Organisation | University of Oxford |
Department | Department of Chemistry |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy |
Collaborator Contribution | Organic chemistry, organic dye synthesis |
Impact | One publication two grants |
Start Year | 2014 |
Description | T-cell activation |
Organisation | University of Oxford |
Country | United Kingdom |
Sector | Academic/University |
PI Contribution | Fluorescence microscopy of T-cell during activation, receptor and actin dynamics - our contribution microscopy and analysis |
Collaborator Contribution | T-cell biology |
Impact | 3 publications, one Wellcome Trust Grant |
Start Year | 2013 |
Title | CalQuo software for advanced analysis of calcium imaging data |
Description | Software license on CalQuo software for advanced analysis of calcium imaging data 2015 (Fritzsche, M., Fernandes, R.F., Colin-York, H., Santos, A.M., Lee, S.F., Lagerholm, B.C., Davis, S.J., and Eggeling, C. (2015). CalQuo: single-cell quantification of intracellular Ca 2+ responses. Scientific Reports DOI: 10.1038/srep16487). |
IP Reference | |
Protection | Copyrighted (e.g. software) |
Year Protection Granted | 2015 |
Licensed | Commercial In Confidence |
Impact | Software license on CalQuo software for advanced analysis of calcium imaging data 2015 (Fritzsche, M., Fernandes, R.F., Colin-York, H., Santos, A.M., Lee, S.F., Lagerholm, B.C., Davis, S.J., and Eggeling, C. (2015). CalQuo: single-cell quantification of intracellular Ca 2+ responses. Scientific Reports DOI: 10.1038/srep16487). |
Description | Articles Written for the Leica Science Lab |
Form Of Engagement Activity | A magazine, newsletter or online publication |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Professional Practitioners |
Results and Impact | Added information to Leica website about nanoscopy. have received queries about further information no notable impact |
Year(s) Of Engagement Activity | 2012,2013,2014,2015,2016 |
URL | http://www.leica-microsystems.com/science-lab/ |
Description | Conference Organizations |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Postgraduate students |
Results and Impact | Conference/workshop Organizer: 4th International Symposium on Physics, Chemistry & Biology with Single Molecules, German Volkswagen foundation, Kloster Banz, Germany (2004); The Physics of Imaging, German Physical Society, Bad Honnef, Germany (2005); Trends in Biological Optical Microscopy, Boehringer Ingelheim foundation, Titisee, Germany (2007); SPIE Photonics West BIOS, Single Molecule Spectroscopy and Superresolution Imaging, USA (2009-); SPIE Nanoimaging and Nanospectroscopy, San Diego (2013-); EOS Frontiers in Optical Imaging, Murten, Switzerland (2013); Leica Super-Resolution User Club Meeting, Oxford, UK (2014); Coherent Bioimaging Workshop, Oxford, UK (2014); Conference on Lasers and Electro-Optics Europe (CLEO/Europe), Munich, Germany (2015); International Conference On Nanoscopy EUROPE (ICON2016), Basel, 2016; EBSA European Biophysical Congress, Madrid, 2019 |
Year(s) Of Engagement Activity | 2012,2013,2014,2015,2016 |
Description | Editorial Board Member |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Media (as a channel to the public) |
Results and Impact | Editorial Board Member in journals: NanoBioimaging, Frontiers in Physiology, Journal of Physics D, Scientific Reports |
Year(s) Of Engagement Activity | 2012,2013,2014,2015,2016 |
Description | High School, undergraduate and graduate placement students in lab |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Schools |
Results and Impact | Visits of high school, undergraduate and graduate students (7 so far) in my lab for up to 6 months, teaching them in our research |
Year(s) Of Engagement Activity | 2013,2014,2015,2016 |
Description | High school children. |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | Yes |
Geographic Reach | Local |
Primary Audience | Schools |
Results and Impact | I gave a presentation to High school children as part of a regular public engagement excercise to help them decide which science they should choose to study at University. High school children across Scotland were aided in their effort to make appropriate choices for University courses and were enriched in their general understanding of Biology. |
Year(s) Of Engagement Activity | 2007 |
Description | High-School visits |
Form Of Engagement Activity | Participation in an open day or visit at my research institution |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Schools |
Results and Impact | Visits of high school students to our institute/laboratory - insights into research activities |
Year(s) Of Engagement Activity | 2017 |
Description | Lectures |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Type Of Presentation | Keynote/Invited Speaker |
Geographic Reach | International |
Primary Audience | Postgraduate students |
Results and Impact | Insights into general and super-resolution fluorescence microscopy and membrane bioactivity Increased enquiry in using our imaging facilities, teach students/researchers |
Year(s) Of Engagement Activity | 2012,2013,2014,2015,2016 |
Description | MIcron microscopy course |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Postgraduate students |
Results and Impact | Bi-annual microscopy course at Micron/WIMM (60-70 researchers from Oxford joining each time, lectures as well as hands-on sessions) |
Year(s) Of Engagement Activity | 2007,2008,2009,2010,2011,2012,2013,2014,2015,2016 |
Description | Microscopy Teaching |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Public/other audiences |
Results and Impact | Teaching on microscopy on international/national fares, workshops, University courses, doctoral and undergraduate training centres |
Year(s) Of Engagement Activity | 2012,2013,2014,2015,2016 |
Description | Microscopy Teaching in High Schools |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Schools |
Results and Impact | Teach basics of microscopy to high school kids including hands-on |
Year(s) Of Engagement Activity | 2015,2016 |
Description | Microscopy Workshop Izmir, Turkey 10.2017 |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Undergraduate students |
Results and Impact | Teaching of basics of optical microscopy to public/scientists in Turkey - funded by the British Council |
Year(s) Of Engagement Activity | 2017 |
Description | Microscopy Workshop Izmir, Turkey 4.2016 and 12.2016 |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Postgraduate students |
Results and Impact | Organization of microscopy course in Izmir, Turkey including hands-on sessions |
Year(s) Of Engagement Activity | 2016 |
Description | Microscopy Workshop Lubljana, 9.2017 |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Undergraduate students |
Results and Impact | Teaching of basics of optical microscopy to public/students |
Year(s) Of Engagement Activity | 2017 |
Description | Microscopy in school |
Form Of Engagement Activity | A formal working group, expert panel or dialogue |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Schools |
Results and Impact | Teaching of microscopy in regional schools |
Year(s) Of Engagement Activity | 2015,2016 |
Description | ONBI |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Postgraduate students |
Results and Impact | New CDT ONBI Bioimaging, started 2014, includes teaching on microscopy |
Year(s) Of Engagement Activity | 2014,2015,2016 |
Description | Organizing of the 6th International Congress of The Molecular Biology Association of Turkey in Izmir, September 2018 |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Postgraduate students |
Results and Impact | Scientific conference for exchanging results and start new collaborations in the field of Molecular Biology. |
Year(s) Of Engagement Activity | 2018 |
Description | Oxford Bioimaging Festival |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Undergraduate students |
Results and Impact | Co-organizer Oxford Bioimaging festival Large increase in enquiries to our group - many people wanting to know if they could obtain copies of the images we had for display in public areas. |
Year(s) Of Engagement Activity | 2012,2013,2014,2015,2016 |
URL | http://www.imaging.ox.ac.uk/activities/annual-festival/imagefest12 |
Description | Oxford curiosity carnival |
Form Of Engagement Activity | Participation in an open day or visit at my research institution |
Part Of Official Scheme? | No |
Geographic Reach | Regional |
Primary Audience | Public/other audiences |
Results and Impact | Presenting general activities of the institute/University to the public at an open event |
Year(s) Of Engagement Activity | 2017 |
Description | Publication of glossy brochure for dissemination |
Form Of Engagement Activity | A magazine, newsletter or online publication |
Part Of Official Scheme? | No |
Geographic Reach | National |
Primary Audience | Public/other audiences |
Results and Impact | Development and publication of a glossy brochure illustrating in lay terms the important work carried out in the unit and dissemination to the general public. |
Year(s) Of Engagement Activity | 2016 |
Description | Science evening at Eynsham Primary School |
Form Of Engagement Activity | Participation in an activity, workshop or similar |
Part Of Official Scheme? | No |
Geographic Reach | Local |
Primary Audience | Schools |
Results and Impact | A hands-on interactive science evening at a local primary school |
Year(s) Of Engagement Activity | 2016 |
Description | Webinar on STED Far-field Nanoscopy |
Form Of Engagement Activity | A talk or presentation |
Part Of Official Scheme? | No |
Geographic Reach | International |
Primary Audience | Media (as a channel to the public) |
Results and Impact | At the request of LEICA, I put together a webinar (online presentation) to discuss my current work. This was advertised to their employees, and made publicly available Closer relationship with LEICA. They have since held a Symposium here at the WIMM to discuss Nanoscopy |
Year(s) Of Engagement Activity | 2013,2014,2015 |
URL | http://view6.workcast.net/?pak=8993948753416174 |