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Multi-user Transmission Electron Microscope

Lead Research Organisation: UNIVERSITY OF EXETER
Department Name: Biosciences

Abstract

Transmission electron microscopy (TEM) is a transformative imaging method that has been blazing the trail of biological discovery research since its inception in the first half of the 20th century. Unparalleled by any other analytical technique, TEM allows researchers to delve into the sub-cellular realm and examine tissues, cells, organelles, viruses, and macromolecular structures in exquisite detail. As such, TEM has been, and continues to be, essential to gaining ground-breaking and scale-spanning insights into the fundamental mechanisms that govern life.

At the University of Exeter (UoE), the life science community's demand for TEM is rapidly increasing, surpassing the capabilities of our current equipment. Recent technological strides in TEM have significantly enhanced microscope stability, versatility, throughput, and resolution—attributes where our existing equipment now falls short. Our two outdated TEMs are also incompatible with the latest advancements in software and automation, preventing us from harnessing the full potential of emerging techniques such as correlative light and electron microscopy (CLEM).

We are applying for a new cryo-capable TEM in line with BBSRC's Transformative Technologies priority. A state-of-the-art microscope with enhanced capabilities is both a significant technological advance and an imperative investment, to drive forwards our research capabilities and to remain competitive at the cutting edge of life science research. This new equipment will allow us to tackle complex biological questions in a broader range of systems, facilitating impactful research outputs and cross-disciplinary collaborations, high-level training, and support of a diverse and highly skilled scientific community in Exeter and beyond.

As our understanding of cellular and molecular processes continues to evolve at pace, the demand for advanced TEM capabilities has become increasingly critical. We have the following 3 objectives:

To expand our TEM infrastructure significantly and develop capability to meet the growing community demand.
To modernise our ageing TEM infrastructure and generate a more efficient and sustainable workflow.
To foster scientific collaboration within Exeter, the GW4 university alliance, internationally and with industrial partners, facilitating research advances across key BBSRC priority areas.
To meet these objectives, and with the full and enthusiastic support from the University of Exeter and our GW4 partners, the lead PI has assembled a diverse team of individuals at different career stages with strong track records in their respective disciplines. Each team member contributes a unique skillset and expertise, fostering a collaborative and supportive environment with the potential to drive significant innovation and research advances. We also propose more efficient and sustainable ways to support local and national infrastructure and outline detailed training plans for ECRs and technical professionals who stand to benefit significantly from this strategic investment.

People

ORCID iD

Vicki Gold (Principal Investigator) orcid http://orcid.org/0000-0002-6908-0745
Mark Young (Co-Investigator) orcid http://orcid.org/0000-0002-9615-9002
Jody Mason (Co-Investigator) orcid http://orcid.org/0000-0002-4118-1958
Corin Liddle (Co-Investigator) orcid http://orcid.org/0009-0001-8059-1730
Elaine Bignell (Co-Investigator) orcid http://orcid.org/0000-0001-7748-1920
Gordon Brown (Co-Investigator)
Edze Rients Westra (Co-Investigator) orcid http://orcid.org/0000-0003-4396-0354
Lenka Koptasikova (Co-Investigator) orcid http://orcid.org/0000-0003-1251-0393
Stineke Van Houte (Co-Investigator) orcid http://orcid.org/0000-0001-7047-1308
Neil Andrew Robert Gow (Co-Investigator)
Steffen Scholpp (Co-Investigator) orcid http://orcid.org/0000-0002-4903-9657
Michael Schrader (Co-Investigator) orcid http://orcid.org/0000-0003-2146-0535
Christiane Berger-Schaffitzel (Co-Investigator) orcid http://orcid.org/0000-0002-1516-9760
Nicholas Smirnoff (Co-Investigator)
Christian Hacker (Co-Investigator) orcid http://orcid.org/0000-0003-4920-9289
Ben Temperton (Co-Investigator)
Jonathan Ball (Co-Investigator) orcid http://orcid.org/0000-0002-3046-3829
Bertram Daum (Co-Investigator)
Nicholas Harmer (Co-Investigator)
Austin Smith (Co-Investigator) orcid http://orcid.org/0000-0002-3029-4682
James Wakefield (Co-Investigator)
Chloe Rackham (Co-Investigator) orcid http://orcid.org/0000-0003-4314-6109
Elizabeth Ballou (Co-Investigator) orcid http://orcid.org/0000-0001-8051-2302
Mathew McLaren (Co-Investigator) orcid http://orcid.org/0000-0002-6636-7409
Adam Monier (Co-Investigator) orcid http://orcid.org/0000-0002-6018-5153

Publications

10 25 50
 
Title Structures of 3 novel filaments from Thermus strain HB8 
Description Single-particle cryoEM data set for strain of HB8 Thermus, used for structural determination of 3 novel filaments 
Type Of Material Database/Collection of data 
Year Produced 2025 
Provided To Others? No  
Impact Publication in preparation 
 
Description Characterisation of phages from the Citizen Phage Library 
Organisation University of Exeter
Country United Kingdom 
Sector Academic/University 
PI Contribution We analyse samples of phage and determine their structures to reveal mechanistic insight
Collaborator Contribution Provision of samples and knowledge of the biological sample. Complementary microbiological assays performed.
Impact 2 manuscripts in preparation
Start Year 2024
 
Description Characterisation of phages infecting bacterial plant pathogens 
Organisation University of Exeter
Country United Kingdom 
Sector Academic/University 
PI Contribution We analyse samples of phage and determine their structures to reveal mechanistic insight
Collaborator Contribution Provision of samples and knowledge of the biological system
Impact Application for PhD studentship under review
Start Year 2026
 
Description Development of new software for automated picking of filaments 
Organisation Alan Turing Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution I am the lead PI on an application written with my Bristol collaborator, for which we received internal University of Exeter funding and a 0.5FTE Postdoctoral Research Assistant for 6 months. My team provide electron microscopy data of filaments (collected through the BBSRC award) and work together within a Bristol-Exeter multidisciplinary team to develop computer software for automated picking. My team have also invested time in training and testing the software as it is developed.
Collaborator Contribution My partner at the University of Bristol is a Turing Fellow. She and her colleagues had initiated this project before we joined forces, and had already developed code and software. They also provide data for training the software, and now provide support for a Research Assistant to continue the project.
Impact Multi-disciplinary: cryo-electron microscopy imaging, software development, coding, artificial intelligence Outputs: We were successful in our application for a University of Exeter Institute for Data Science and Artificial Intelligence Pilot Research Grant. This provided a Research Fellow at 0.5 FTE for 6 months to work on the project. Funds from my collaborator at the University of Bristol have now provided support for a Research Assistant for a further 6 months. A manuscript is currently in preparation.
Start Year 2021
 
Description Development of new software for automated picking of filaments 
Organisation University of Bristol
Country United Kingdom 
Sector Academic/University 
PI Contribution I am the lead PI on an application written with my Bristol collaborator, for which we received internal University of Exeter funding and a 0.5FTE Postdoctoral Research Assistant for 6 months. My team provide electron microscopy data of filaments (collected through the BBSRC award) and work together within a Bristol-Exeter multidisciplinary team to develop computer software for automated picking. My team have also invested time in training and testing the software as it is developed.
Collaborator Contribution My partner at the University of Bristol is a Turing Fellow. She and her colleagues had initiated this project before we joined forces, and had already developed code and software. They also provide data for training the software, and now provide support for a Research Assistant to continue the project.
Impact Multi-disciplinary: cryo-electron microscopy imaging, software development, coding, artificial intelligence Outputs: We were successful in our application for a University of Exeter Institute for Data Science and Artificial Intelligence Pilot Research Grant. This provided a Research Fellow at 0.5 FTE for 6 months to work on the project. Funds from my collaborator at the University of Bristol have now provided support for a Research Assistant for a further 6 months. A manuscript is currently in preparation.
Start Year 2021
 
Description Glycoprofiling of filaments 
Organisation University of Manchester
Country United Kingdom 
Sector Academic/University 
PI Contribution We are working to prepare samples of purified pili and bacterial membrane lipids to determine the glycosylation composition
Collaborator Contribution Analysis not yet started
Impact Multi-disciplinary: Glycoprofiling, cryoEM, NMR
Start Year 2020
 
Description Microbiology of Thermus 
Organisation Goethe University Frankfurt
Country Germany 
Sector Academic/University 
PI Contribution Our lab provides skills in biochemistry, electron cryo-microscopy, image processing, and structural modelling.
Collaborator Contribution Our collaborator provides skills in microbiology and genetics. Whilst we started to work together before this grant, our relationship has now reached a higher level of collaboration. Our collaborators have generated structure-guided mutants identified through our work, and transferred specific metholodology to members of my team through training.
Impact Outputs: 1 Nature Communications publication (doi.org/10.1038/s41467-020-15650-w) and 1 Nature Microbiology blog post, numerous press releases (local and international), invitations to conferences and meetings (local and international). A further publication is in preparation. Our findings have been highlighted in Faculty Opinions as "special significance in the field". Multidisciplinary: cryoEM, biochemistry, microbiology, fluorescence microscopy, genetics
Start Year 2014
 
Description Molecular dynamics simulations of filaments 
Organisation University of Exeter
Department College of Engineering, Mathematics & Physical Sciences
Country United Kingdom 
Sector Academic/University 
PI Contribution Through this BBSRC award, we have worked to determine structures of two T4P filaments that have been used for coarse-grain modelling and molecular dynamics simulations. I was co-PI on a successful funding application for internal University of Exeter Seed Corn Funding for this project.
Collaborator Contribution My collaborators provide expertise in coarse grain modelling, molecular dynamics simulations and associated analysis. This is helping us to investigate the properties of the two different T4P filaments and how this relates to their function.
Impact Multi-disciplinary: CryoEM imaging, computational modelling, molecular dynamics simulations, data analysis. Outputs: ISSF seed corn funding for a secondee to work on the project. Publication and full grant application in planning stages.
Start Year 2018
 
Description Structure-function studies of Thermus filaments from the HB8 strain 
Organisation ETH Zurich
Country Switzerland 
Sector Academic/University 
PI Contribution We collect and process cryoEM data from samples provided by the group
Collaborator Contribution Provision of samples, data and expertise for a collaborative project
Impact Multiple data sets have been obtained A publication is in preparation
Start Year 2024
 
Description Structure-function studies of Thermus filaments from the HB8 strain 
Organisation University of Electro-Communications
Country Japan 
Sector Academic/University 
PI Contribution We collect and process cryoEM data from samples provided by the group
Collaborator Contribution Provision of samples, data and expertise for a collaborative project
Impact Multiple data sets have been obtained A publication is in preparation
Start Year 2024
 
Description Structure-function studies of Thermus filaments from the HB8 strain 
Organisation University of Exeter
Department College of Life and Environmental Sciences
Country United Kingdom 
Sector Academic/University 
PI Contribution We collect and process cryoEM data from samples provided by the group
Collaborator Contribution Provision of samples, data and expertise for a collaborative project
Impact Multiple data sets have been obtained A publication is in preparation
Start Year 2024