Dr Ed (Edward) Emmott (PI)
Postdocs: Northeastern University (Slavov lab), University of Cambridge (Goodfellow lab), Imperial College London (Goodfellow lab).
PhD: University of Leeds (2011, Hiscox lab)
BSc: University of Warwick (Medical Microbiology & Virology, 2007)
Research Interests: +ssRNA virus replication, virus-host interactions, viral modification of ribonucleoprotein complexes (e.g. ribosomes), ultrasensitive/single-cell proteomic methods.
For more on Ed, click here.
Ed moved to the University of Liverpool in November 2019 to set up the lab as part of the Centre for Proteome Research, Department of Biochemistry. The labs goal is the use and development of proteomic methods to study virus replication and virus-host interactions.
Previously, he was a Postdoc in Nikolai Slavov’s lab, part of the Department of Bioengineering and the Barnett Institute for Chemical and Biological Analysis at Northeastern University. His postdoctoral research with Nikolai involved the study of ribosome heterogeneity and the immune response, as well as the development and application of single cell proteomic methods (SCoPE-MS/SCoPE2).
Prior to joining Nikolai’s lab, Ed was a postdoc in Ian Goodfellow’s lab in the Department of Pathology at the University of Cambridge and Imperial College London where he studied norovirus replication and virus-host interactions, becoming particularly interested in the role of the viral protease, and polyprotein processing.
His PhD was at the University of Leeds under the supervision of Julian Hiscox with his thesis on ‘High-throughput proteomic analysis of the interactions of avian coronavirus and its nucleocapsid with the host cell’. His Bachelors was from the University of Warwick in Medical Microbiology & Virology where his undergraduate research on Adenovirus interactions with PML bodies was supervised by Keith Leppard.
Join the team!
Funded Positions:MRC DiMeN DTP Studentship: Combining single-cell proteomics and RNA sequencing to track heterogeneity in alphavirus infection. (Click for more details - Deadline 6th Jan)
Arboviruses spread from person to person through an insect vector. They include the alphaviruses (e.g. chikungunya virus –CHIKV, and the more tractable BSL2 model O’Nyong-Nyong virus – ONNV) which are endemic in Africa and cause significant morbidity and potentially life-long complications.
Even in clonal cell lines, virus infection can be highly heterogeneous with cells succumbing to the virus and dying, becoming persistently infected, or resisting infection. Single-cell methods allow us to explore what distinguishes these end-points, and in particular to try and identify at what point the cell’s fate is determined and what are the critical viral and cellular factors involved in this decision.
For RNA viruses such as the alphaviruses, viral replication is controlled by post-translational cleavage of a viral polyprotein. To investigate virus replication we must therefore look at both RNA and protein abundance and cleavage state. Understanding this process and how it varies at single-cell level in both the mammalian and insect host can yield insight on how to disrupt this process to favour clearing the infection.
This studentship covers both ‘wet-lab’ and computational training. This includes mass spectrometry training in single-cell proteomics (SCoPE2), proteomic and transcriptomic data analysis in Matlab or R, including merging datasets, and standard cell culture and virological methods. The student will also be trained in microscopy-based approaches for validation of these data (confocal microscopy), and have the opportunity to apply findings from ONNV to study the BSL3 pathogen CHIKV.
The student will primarily be working with Dr Ed Emmott (Twitter: @edemmott, emmottlab.org) at the Centre for Proteome Research, University of Liverpool. They will also be working with Prof. Alistair Darby (Liverpool, Twitter: @acdarby, https://www.liverpool.ac.uk/integrative-biology/staff/alistair-darby/) on the scRNAseq portions of the project, and with Prof. Mark Harris (Leeds , Twitter: @HarrisLabLeeds , https://biologicalsciences.leeds.ac.uk/molecular-and-cellular-biology/staff/77/professor-mark-harris) to apply findings from ONNV to study CHIKV.
Virology, Biochemistry, Cell Biology/Development, Bioinformatics, Data analysis
- Specht, Emmott, Perlman, Koller & Slavov (2019) High-throughput single-cell proteomics quantifies the emergence of macrophage heterogeneity. bioRxiv. doi: 10.1101/665307
- Emmott, de Rougemont, Hosmillo, Lu, Fitzmaurice, Haas & Goodfellow (2019) Polyprotein processing and intermolecular interactions within the viral replication complex spatially and temporally control norovirus protease activity. J. Biol. Chem. 294:4259-4271
- Gao, Goonawardane, Ward, Tuplin andHarris (2019). Multiple roles of the non-structural protein 3 (nsP3) alphavirus unique domain (AUD) during Chikungunya virus genome replication and transcription. PLOS Pathogens 15(1): e1007239 doi: 10.1371/journal.ppat.1007239
Please email Ed if you have any questions.
If you have access to, or wish to pursue alternate sources of funding for PhD or postdoctoral positions in the lab, please contact Ed with a copy of your CV, and a description of your research interests and how these can fit with research in the lab. Details on the application process for international students with access to funding who wish to pursue PhD study can be found here. A great source of potential fellowship schemes for interested applicants can be found at ECRcentral.