Professor Mathew Upton

August 2018 – Professor of Medical Microbiology

June 2018 – Founder and Chief Scientific Officer at Amprologix Ltd (@amprologix)

May 2013 – Reader in Medical Microbiology, University of Plymouth

April 2014 – Co-founder and Director at Spectromics Ltd (http://www.spectromics.com/)

June 2011 – Senior Lecturer in Medical Microbiology, University of Manchester

Qualifications

BSc (Hons) Microbiology, University of Newcastle

Professional membership

Fellow of the Royal Society of Biology

Member of the Microbiology Society

Member of the Society for Applied Microbiology

Member of the American Society for Microbiology

Member of the European Society for Clinical Microbiology

Member of the British Society for Antimicrobial Chemotherapy

Roles on external bodies

Teaching interests

Areas of teaching interest relate to medical microbiology, bacterial genomics and antibiotic resistance.

Research interests

Discovery and development of first in class antibiotics

The WHO have declared that antibiotic resistance is one of the major threats to human health. England's Chief Medical Officer has often raised this issue nationally and the topic was even highlighted at the G8 summit in June 2013. However, there is still a real need to discover novel antibiotics. Infections caused by drug resistant pathogens are a significant cause of morbidity and mortality and pan-resistant organisms are becoming less rare. The UK Government commissioned O'Neill review suggests that drug resistant infections will kill 10 million people a year by 2050 if we are not able to slow the development and spread of these infections.

I run a programme of natural product screening for discovery of bacteriocins, antimicrobial peptides produced by bacteria. The programme is supported by use of next generation sequencing methods to determine bacterial genome sequences and generate metagenomic datasets that can be interrogated with various software tools for identification of putative bacteriocins. Candidate antimicrobials are screened against clinically relevant pathogens, examined for toxicity and efficacy in vivo (including the Galleria mellonella insect assay). Working with industrial biotechnology leaders, Ingenza, we are developing systems for commercially viable production of bacteriocins, some that will be produced using cognitive computing design approaches, in collaboration with the National Physical Laboratory. Most recently, I have begun to explore the biodiversity and bioactivity of marine sponges in collaboration with members of the University of Plymouth Marine Institute.

Lead compounds are being developed towards clinical use with commercially focused funding from BBSRC, MRC, Department of Health and Social Care, Innovate UK, Society for Applied Microbiology and other sources.

Collaborators in this work are located in Plymouth (Dr Howell, University of Plymouth Marine Institute), Scotland (Dr Ian Fotheringham, Ingenza Ltd), London (Dr Max Ryadnov, National Physical Laboratory) and Denmark (Prof Jenssen, Roskilde University)

The Antibiotic Discovery Accelerator (ABX) Network - https://www.antibioticdiscovery.com/  

We have established the ABX Network to improve antibiotic discovery in the UK. The aims are to - 

• Help identify bottlenecks in the antibiotic discovery process
• Bring together UK researchers active in the field to foster new collaborations
• Support meetings, with a focus on early career researchers, where the issues and development opportunities can be discussed

Funding for the ABX Network has come from the University of Plymouth

Understanding the inner workings of bacterial pathogens

The vast majority of bacteria that live in and on our bodies contribute significantly to our health and well-being. However, sometimes we succumb to bacterial infections and, increasingly, these are becoming harder to treat due to antibiotic resistance. My group focuses on investigation of E. coli strains that cause urinary tract infections, a very common infection that is often mild, but can lead to severe debilitation, or death. The introduction of next generation DNA sequencing technologies has revolutionized the way we examine the mechanisms that pathogenic bacteria use to cause disease or evade the action of antibiotics. By studying their genomes, we aim to understand these bacteria and will be able to develop specific molecular assays for rapid detection and for outbreak investigation.

The above work is carried out in collaboration with colleagues in Plymouth (Dr Peter Jenks, Derriford Hospital) and at University of Queesnland, Brisbane (Drs Scott Beatson and Makrina Totsika and Prof Mark Schembri) and King Abdullah Medical Research Centre, Riyadh, Saudi Arabia (Dr Algohribi).

Scopus author ID - 35593933700

ResearchGate profile - Mathew_Upton

Research degrees awarded to supervised students

I have supervised nearly 30 PhD students and over 70 MSc research projects. These projects have all been in the field of medical microbiology and have involved collaborators at UK universities, Public Health England (formerly HPA) and NHS Trusts.

Grants & contracts

Recent funding

British Antarctic Survey. Metagenomic sequencing for biodiscovery in Antarctic marine samples, July 2021 (Co-I with Prof Melody Clarke, BAS, awarded £62k)

Wolfson Foundation. University of Plymouth Proteomics Core Facility equipment grant July 2021 (Co-I award of £350k matched by £400k from University of Plymouth and small donations of £50k, total award £800k)

Newton Fund/MRC/South African MRC. Harnessing the chemical diversity of natural products to develop new antimicrobial drugs for combating bacterial pathogens - the South Africa UK Antibiotic Accelerator. July 2020-June 2023. (UK PI with Prof Rosie Dorrington as South African PI. International consortium awarded £1.9m) - https://www.plymouth.ac.uk/news/uk-nil-south-africa-research-team-to-establish-hub-for-discovery-of-new-antibiotics

SBRI/InnovateUK/Department of Health and Social Care. AMR in Humans call. Feb 2019-Jan 2021. (PI on behalf of Amprologix Ltd, awarded contract of £1.18m) - https://www.plymouth.ac.uk/news/university-spinout-receives-_12million-to-tackle-antimicrobial-resistance

UKRI GCRF One Ocean Hub. April 2019 - March 2024. (Co-I awarded £100k as part of University of Plymouth work package. Lead organisation, University of Strathclyde. International consortium awarded £19m). 

InnovateUK/Department of Health and Social Care. UK-China AMR call. Development of attenuated bovine herpesvirus-4 as a safe,inexpensive, single dose vaccine to control Streptococcus suis infection indomestic pigs. April 2019-March 2022. (Lead academic awarded £294k, with The Vaccine Group; total project award £700k) - https://www.plymouth.ac.uk/news/university-researchers-to-tackle-drug-resistant-disease-that-jumps-from-pigs-to-humans

Society for Applied Microbiology. Mining deep-sea sponges for novel antimicrobial biologics. Oct 2017-Sept 2020. (PI awarded £65k) 

InnovateUK. Biomedical Catalyst. Developing a pipeline of bacteriocin-based antibiotics. Aug 2017-July 2020. (Lead Academic awarded £299k with Ingenza and National Physical Laboratory; total award £933k)

InnovateUK. Industrial Strategy Challenge Fund. Economic Biosecurity Surveillance Service. Sept 2017-April 2018. (Lead Academic awarded £33k, with Applied Genomics Ltd; Total award £150k)

InnovateUK. Capital Equipment for AMR research. Jan-March 2017.(Lead Academic awarded £85k, with Ingenza Ltd; total award £143k)

Innovate UK/BBSRC Efficient production of first in class antimicrobial therapeutics from an integrated synthetic biology approach.Industrial Biocatalyst award with Ingenza Ltd, Edinburgh - May 2015-APril 2017(Lead Academic, awarded £217,000)

Public Health England. PhD Studentship Co-infection during influenza. October 2014 - September 2017 (Co-I; £90,000)

Healthcare Infection Society. MRSA genome sequence analysis. March 2014 (PI; £9,900)

Plymouth Hospitals NHS Trust Charitable Funds. Investigation of water-borne pathogens in Critical Care Areas using genomic approaches. May2013 (Co-I; £11,850) 

BBSRC, Follow on Fund. Development of epidermicin for nasal decolonisation of MRSA carriage. March 2012 (PI; £132,000)

UMIP, University of Manchester. Development of methods for rapid detection of UTI. August 2012 (Co-PI; £102,000)

UMIP, University of Manchester. Recombinant expression ofantimicrobial peptides. July 2011 (PI; £23,000)

Department of Health, UK National Innovation Centre and UMIP, Universityof Manchester, Development of point of care diagnostics for urinary tract infection.July 2011 (Co-PI; £54,000)

Department of Health, UK National Innovation Centre and UMIP, Universityof Manchester, Development of an in-situ indicator of catheter colonisation. July2011 (Co-PI; £80,000)

Welcome Trust, Understanding UPEC biology. March 2011 (CoI with CWinstanley, Liverpool;£113,500)

BBSRC, Regulatory and market consultancy for a novel antibiotic. September2010 (PI; £15,500)

UMIP, University of Manchester. Antimicrobial peptidesactive against staphylococci. December 2008 (PI; £75,000)

Other academic activities

Patents granted or filed

1. Tagg, JR., K. Dierksen & M. Upton. Salivaricin B, a novelstreptococcal lantibiotic with therapeutic potential. 500261 (NZ, October2000); 09/913,763(USA August 2004).
2. Upton, M., & SK. Sandiford. Novel peptide antibiotic. PCT/GB2010/052106. Filed December 2010.
3. Two additional patents filed in 2014, both now progressed to PCT

I have acted as a consultant for the following external organisations:

Omnia-Chem - 2012

SGS International - 2010

Footprint International Ltd - 2010

TrueReflections – 2009