Professor Mathew Upton
Profiles

Professor Mathew Upton

Associate Head of School (Research)

School of Biomedical Sciences (Faculty of Health)

Professor Mathew Upton can be contacted through arrangement with our Press Office, to speak to the media on these areas of expertise.
  • Microbiology
  • Molecular biology
  • Disinfection
  • Aquatic biofilms
  • Novel antimicrobials
  • Antibiotic resistance
  • Bacteria
  • Pathogens
  • Laboratory methods
  • Medical/pathological research
Biography

Biography

August 2018 – Professor of Medical Microbiology, University of PlymouthJune 2018 – Founder and Chief Scientific Officer at Amprologix Ltd (@amprologix)
April 2014 – July 2022 Co-founder and Director at Spectromics Ltd (http://www.spectromics.com/)
May 2013 – Reader in Medical Microbiology, University of Plymouth
June 2011 – Senior Lecturer in Medical Microbiology, University of Manchester
June 2001 – Lecturer in Medical Microbiology, University of Manchester
Following BSc and PhD studies in Newcastle, I completed a number of postdoc projects in Aberdeen, Antarctica, Bristol, Liverpool and New Zealand, before taking up a lectureship in Manchester.
Lead for Antibiotic Resistant Pathogens Research Group
Current lab members:
  • Dr Grant January (PDRA) – Newton Fund/MRC/SAMRC – South Africa-UK Antibiotic Accelerator
  • Dr Katie Muddiman - Senior Technician in AMR
  • Jack Kay (Royal Commission of 1851 candidate)
  • Neil Powell (NIHR Fellowship PhD candidate)
  • Sean Kelly (PhD candidate)
  • Jazmin Conway (, GCRF PhD candidate – co-supervisor with Professor Kerry Howell)
  • Kudzai Hwengwere ( PhD candidate - co-supervisor with Professor Kerry Howell and Prof Mel Clark, BAS)
  • Braith Grey (PhD candidate - co-supervisor with Dr Tina Joshi)
  • Matthew McKracken (PhD candidate - co-supervision with Dr Tina Joshi)
  • Darshana Srivastava (PhD candidate - co-supervision with Dr Phil Warburton)

Qualifications

BSc (Hons) Microbiology, University of NewcastlePhD Microbial Ecology, University of Newcastle

Professional membership

Fellow of the Royal Society of BiologyMember of the Microbiology Society
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

WHO Technical Advisory Group on Vaccines for AMR - Observer, 2022-2023
Guest Associate Editor
Frontiers in Microbiology, 2022 –

Key publications

Halliwell S, Warn P, Sattar A, Derrick JP & Upton M (2016) 'A single dose of epidermicin NI01 is sufficient to eradicate MRSA from the nares of cotton rats' Journal of Antimicrobial Chemotherapy dkw457-dkw457 ,
Alghoribi MF, Gibreel TM, Farnham G, Al Johani SM, Balkhy HH & Upton M (2015) 'Antibiotic-resistant ST38, ST131 and ST405 strains are the leading uropathogenic Escherichia coli clones in Riyadh, Saudi Arabia' J Antimicrob Chemother 70, (10) 2757-2762 ,
Petty NK, Ben Zakour NL, Stanton-Cook M, Skippington E, Totsika M, Forde BM, Phan M-D, Gomes Moriel D, Peters KM & Davies M (2014) 'Global dissemination of a multidrug resistant Escherichia coli clone' Proc Natl Acad Sci U S A 111, (15) 5694-5699 ,
Alghoribi MF, Gibreel TM, Dodgson AR, Beatson SA & Upton M (2014) 'Galleria mellonella infection model demonstrates high lethality of ST69 and ST127 uropathogenic E. coli' PLoS One 9, (7) ,
Phan MD, Peters KM, Sarkar S, Lukowski SW, Allsopp LP, Moriel D, Achard ME, Totsika M, Marshall VM & Upton M (2013) 'The Serum Resistome of a Globally Disseminated Multidrug Resistant Uropathogenic <italic>Escherichia coli</italic> Clone' PLoS Genet 9, e1003834-e1003834 ,
Gibreel TM & Upton M (2013) 'Synthetic epidermicin NI01 can protect Galleria mellonella larvae from infection with Staphylococcus aureus' Journal of Antimicrobial Chemotherapy ,
View all publications
Teaching

Teaching

Teaching interests

Areas of teaching interest relate to medical microbiology, bacterial genomics and antibiotic resistance.
MSc Biomedical Sciences
Contributing to modules BIOM5003 (Contemporary Aspects of Infection and Immunity), BIOM5005 (Project Design and Development), BIOM5006 (Research Project), BIOM5008 (Clinical Microbiology), BIOM5010 (Personalised Medicine).
BSc Biomedical Sciences.
Contributing to Modules BIOM3001, BIOM3003, BIOM3015, BIOM3016.
Research

Research

Research interests

Research overview
I am a microbiologist with over 20 years of research experience in topics related to human infections. My expertise also includes commercialisation of my research findings, most recently through the formation of in 2018, a University of Plymouth spin-out company. My main focus is on working to address the global health threat of antimicrobial resistance (AMR). The WHO have that AMR is one of the major threats to human health. The topic has gained national and international attention at the highest levels, with sessions at the 2021 and discussions at the World Economic Forum in addition to AMR being included in the in 2016 (with a repeat planned in 2024). The UK Government commissioned 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.
It is clear that AMR is a highly complex issue that will only be addressed by taking a '' approach - this means we need to work in human, animal and environmental systems collectively to solve the threat effectively. My research is conducted in all three settings.
Lead for Antibiotic Resistant Pathogens Research Group
Major current projects in antibiotic discovery and vaccine development are listed here
Discovery and development of first in class antibiotics - responding to AMR, the 'silent pandemic'
There is a real need for novel antibiotics; in 2021 the WHO looked at all antibiotics in development and that there are not enough to meet current or future clinical needs. Infections caused by drug resistant pathogens are a significant cause of morbidity and mortality and pan-resistant organisms are becoming less rare. In 2022, it was that AMR infections killed 1.27 million people globally in 2019.
I run a programme of natural product screening for discovery of antibiotics and 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. I gave a on this topic in 2018.
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 -
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 & the

Vaccines to combat AMR


can be a highly effective way to address AMR by reducing infections in humans, but also in animals. Although significant progress has been made in recent years, we still need to reduce the amount of antimicrobials used in farming and agriculture as these are major drivers of increasing AMR. One approach is to vaccinate animals so that they do not develop infections that require use of antibiotics. In much of this work, I collaborate with experts at , a recent University of Plymouth spin-out company. We are developing vaccines for use in pigs and cattle to address some of the biggest causes of infection and antibiotic use in animals. This includes a major programme with collaborators in China, where a new commercial vaccine candidate is now being trialled. In line with the 'One Health' approach mentioned above, we are now developing vaccines for use in humans; clearly this will also reduce infections and the need for antibiotics.
We are using cutting edge bioinformatic tools to identify novel vaccine antigens in bacterial genomes and cloning the genes encoding the antigens into novel vectors. The approaches are more effective than many previous methods for identifying vaccine antigens and the vectors bring additional benefits, like opportunities for single dose activity and the ability to vaccinate with antigens for more than one target pathogen at the same time. This is an exciting and growing area of research with excellent future opportunities; we're probably now much more aware how important vaccines are for preventing infections.

Scopus author ID -

ResearchGate profile -

Research groups

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, UKHSA (formerly Public Health England & HPA) and NHS Trusts.
Current PhD students (Director of studies)
Neil Powell (2020-2024) - Penicillin allergy patient classification
Jack Kay (2020-2023) - Discovery and design of of novel antimicrobial peptides
Sean Kelly (2021-2025) - Emerging human respiratory pathogens
Current PhD students (Co-supervisor)
Jazmin Conway (2021-2024) - Marine biodiscovery for AMR
Kudzai Hwengwere (2021-2025) - Antarctic marine microbial ecology and natural product discovery
Braith Grey (2021-2024) - Toward a low-cost, rapid point-of-care biosensor for detection of Antibiotic Resistant Urinary Tract Infections
Matthew McKracken (2022-2025) - Biocide resistance in human pathogens
Darshana Srivastava (2023-2027) - Novel antimicrobials from flowering plants


Current ReM students (co-supervisor)
Alistair White (2022-2024) - Novel molecular diagnostics for AMR
Recent PhD Graduates (Director of studies)
Matthew Koch (2017-2021) - SfAM PhD Studentship Discovery of novel antimicrobials from deep sea sponges
Abdu Aldarhami (2015-2019) - Novel antimicrobials for therapy of Gram positive infections
Nizar Saeedi (2014-2018) - Pathogenenesis of ST127 uropathogenic E coli
Rob O'Hara (2015-2018) - Epidemiology of ST127 uropathogenic E coli
Recent PhD Graduates (co-supervisor)
James Butler (2018-2022) - Novel antimicrobial surfaces to reduce healthcare associated infections
Poppy Best (2017-2021) - Bioactivity and ecology of bacteria from deep sea sponges
Sam Gould (2015-2018) - 3D models to study oral infections
Connor Wood (2015-2018) - Superinfection of influenza virus
Barbara Durante (2015-2018) - Immunological effects of antimicrobial peptides

Grants & contracts

Recent funding
Enterprise solutions, University of Plymouth; R&D solutions fund. Studies in oral microbiology with Modus Labs Ltd, Plymouth Science Park June 2022 (PI awarded £18k, with Dr Tina Joshi)
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)
NERC/ARIES DTP. University of Plymouth PhD Studentship as part of ARIES DTP with British Antarctic Survey, March 2021. Co-I with Prof Mel Clarke (PI), Prof Lloyd Peck - BAS; and Prof Kerry Howell - UoP. Award value £75k
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) - /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) - /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) - /news/university-researchers-to-tackle-drug-resistant-disease-that-jumps-from-pigs-to-humans
BactiVac Network/MRC. Development of novel vaccines for prevention of mastitis in cattle. Sept 2018 - Aug 2019 (Co-I. Total project awarded £50k)
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 StudentshipCo-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)
Publications

Publications

Key publications

Halliwell S, Warn P, Sattar A, Derrick JP & Upton M (2016) 'A single dose of epidermicin NI01 is sufficient to eradicate MRSA from the nares of cotton rats' Journal of Antimicrobial Chemotherapy dkw457-dkw457 ,
Alghoribi MF, Gibreel TM, Farnham G, Al Johani SM, Balkhy HH & Upton M (2015) 'Antibiotic-resistant ST38, ST131 and ST405 strains are the leading uropathogenic Escherichia coli clones in Riyadh, Saudi Arabia' J Antimicrob Chemother 70, (10) 2757-2762 ,
Petty NK, Ben Zakour NL, Stanton-Cook M, Skippington E, Totsika M, Forde BM, Phan M-D, Gomes Moriel D, Peters KM & Davies M (2014) 'Global dissemination of a multidrug resistant Escherichia coli clone' Proc Natl Acad Sci U S A 111, (15) 5694-5699 ,
Alghoribi MF, Gibreel TM, Dodgson AR, Beatson SA & Upton M (2014) 'Galleria mellonella infection model demonstrates high lethality of ST69 and ST127 uropathogenic E. coli' PLoS One 9, (7) ,
Phan MD, Peters KM, Sarkar S, Lukowski SW, Allsopp LP, Moriel D, Achard ME, Totsika M, Marshall VM & Upton M (2013) 'The Serum Resistome of a Globally Disseminated Multidrug Resistant Uropathogenic <italic>Escherichia coli</italic> Clone' PLoS Genet 9, e1003834-e1003834 ,
Gibreel TM & Upton M (2013) 'Synthetic epidermicin NI01 can protect Galleria mellonella larvae from infection with Staphylococcus aureus' Journal of Antimicrobial Chemotherapy ,

Key publications are highlighted

Journals
Articles
Fina E, Kiernan M, Whatmough B, Clark NJ, Conway J, Wieczorek IW, Carey L, Matyjaszkiewicz Z, Warburton PJ & Upton M (2024) 'Physicochemical and metagenomic analysis of samples from the Roman Baths (Bath, UK) reveals high bacterial and archaeal diversity and a potential for antimicrobial discovery' The Microbe 3, 100075-100075 ,
Yan Z, Pan R, Zhang J, Sun J, Ma X, Dong N, Yao X, Wei J, Liu K & Qiu Y (2024) 'Immunogenicity and Protective Capacity of Sugar ABC Transporter Substrate-Binding Protein against Streptococcus suis Serotype 2, 7 and 9 Infection in Mice' Vaccines 12, (5) 544-544 ,
Powell N, Upton M, Kent B, Sandoe J & Tonkin-Crine S (2023) 'Non-allergist healthcare workers views on delivering a penicillin allergy de-labelling inpatient pathway: identifying the barriers and enablers' JAC-Antimicrobial Resistance 6, (1) ,
Powell N, Upton M, Kent B, Sandoe J & Tonkin-Crine S (2023) 'Experiences of an inpatient penicillin allergy de-labelling pathway: capturing the patient voice' JAC-Antimicrobial Resistance 6, (1) ,
Grey B, Upton M & Joshi LT (2023) 'Urinary tract infections: a review of the current diagnostics landscape' Journal of Medical Microbiology 72, (11) ,
Dong N, Nichols H, Sun Q, Chen X, Zheng J, Guan Z, Zhang H, Davison A, Wezel Y & Li Z (2023) 'Bovine Herpesvirus-4 Based Vaccine Provides Protective Immunity against Streptococcus suis Disease in a Rabbit Model' Vaccines 11, (5) ,
Butler J & Upton M (2023) 'What’s really down the hospital plughole?' Journal of Hospital Infection ,
Butler J, Handy RD, Upton M & Besinis A (2023) 'Review of Antimicrobial Nanocoatings in Medicine and Dentistry: Mechanisms of Action, Biocompatibility Performance, Safety, and Benefits Compared to Antibiotics' ACS Nano ,
Hesketh-Best PJ, January GG, Koch MJ, Warburton PJ, Howell KL & Upton M (2023) 'Whole genomes of deep-sea sponge-associated bacteria exhibit high novel natural product potential' FEMS Microbes ,
Powell N, Upton M, Kent B, Tonkin-Crine S & Sandoe J (2023) 'Is penicillin allergy de-labelling about to find its place in UK antimicrobial stewardship strategy?' Clinical Medicine clinmed.2022-0518 ,
Yan Z, Yao X, Pan R, Zhang J, Ma X, Dong N, Wei J, Liu K, Qiu Y & Sealey K (2023) 'Subunit Vaccine Targeting Phosphate ABC Transporter ATP-Binding Protein, PstB, Provides Cross-Protection against Streptococcus suis Serotype 2, 7, and 9 in Mice' Veterinary Sciences 10, (1) 48-48 ,
Powell N, Upton M, Kent B, Tonkin-Crine S & Sandoe J (2023) 'Is penicillin allergy de-labelling about to find its place in UK antimicrobial stewardship strategy?' Clin Med (Lond) 23, (1) 76-77 ,
Powell N, Stephens J, Kohl D, Owens R, Ahmed S, Musicha C, Upton M, Kent B, Tonkin-Crine S & Sandoe J (2022) 'The effectiveness of interventions that support penicillin allergy assessment and de-labelling of adult and paediatric patients by non-allergy specialists: A systematic review and meta-analysis' International Journal of Infectious Diseases ,
Butler J, Kelly SD, Muddiman KJ, Besinis A & Upton M (2022) 'Hospital sink traps as a potential source of the emerging multidrug-resistant pathogen Cupriavidus pauculus: characterization and draft genome sequence of strain MF1' Journal of Medical Microbiology 71, (2) ,
Koch MJ, Hesketh-Best PJ, Smerdon G, Warburton PJ, Howell K & Upton M (2021) 'Impact of growth media and pressure on the diversity and antimicrobial activity of isolates from two species of hexactinellid sponge' Microbiology 167, (12) ,
Powell N, Kohl D, Ahmed S, Kent B, Sandoe J, Tonkin-Crine S, Owens R, Stephens J & Upton M (2021) 'Effectiveness of interventions that support penicillin allergy assessment and de-labeling of patients by non-allergy specialists: a systematic review protocol' JBI Evidence Synthesis 20, (2) 624-632 ,
Mathur H, Field D, Upton M & Cotter PD (2021) 'Editorial: Bacteriocins and Other Ribosomally Synthesised and Post-translationally Modified Peptides (RiPPs) as Alternatives to Antibiotics' Frontiers in Microbiology 12, ,
Liu Y, Tong Z, Shi J, Li R, Upton M & Wang Z (2021) 'Drug repurposing for next-generation combination therapies against multidrug-resistant bacteria' Theranostics 11, (10) 4910-4928 ,
Hesketh-Best PJ, Mouritzen MV, Shandley-Edwards K, Billington RA & Upton M (2021) 'Galleria mellonella larvae exhibit a weight-dependent lethal median dose when infected with methicillin-resistant Staphylococcus aureus' Pathogens and Disease 79, (2) ,
Ksiazczyk M, Dudek B, Kuczkowski M, O’Hara R, Korzekwa K, Wzorek A, Korzeniowska-Kowal A, Upton M, Junka A & Wieliczko A (2021) 'The Phylogenetic Structure of Reptile, Avian and Uropathogenic Escherichia coli with Particular Reference to Extraintestinal Pathotypes' International Journal of Molecular Sciences 22, (3) 1192-1192 ,
Comber SDW, Upton M, Lewin S, Powell N & Hutchinson TH (2020) 'COVID-19, antibiotics and One Health: a UK environmental risk assessment' Journal of Antimicrobial Chemotherapy ,
Hammond K, Lewis H, Halliwell S, Desriac F, Nardone B, Ravi J, Hoogenboom BW, Upton M, Derrick JP & Ryadnov MG (2020) 'Flowering poration – a synergistic multi-mode antibacterial mechanism by a bacteriocin fold' iScience 101423-101423 ,
Aldarhami A, Felek A, Sharma V & Upton M (2020) 'Purification and characterization of nisin P produced by a strain of Streptococcus gallolyticus' Journal of Medical Microbiology ,
Alghoribi MF, Doumith M, Upton M, Al Johani SM, Alzayer M, Woodford N, Ellington MJ & Balkhy HH (2019) 'Complete Genome Sequence of a Colistin-Resistant Uropathogenic Escherichia coli Sequence Type 131 fimH22 Strain Harboring mcr-1 on an IncHI2 Plasmid, Isolated in Riyadh, Saudi Arabia' Microbiology Resource Announcements 8, (18) ,
O'Hara RW, Jenks PJ, Emery M & Upton M (2018) 'Rapid detection of extra-intestinal pathogenic Escherichia coli multi-locus sequence type 127 using a specific PCR assay' Journal of Medical Microbiology ,
Mahrous MA, Burnie J, Tagg J & Upton M (2017) 'Purification and Characterization of 221, the Cationic Peptide that InhibitsStaphylococcus aureus' Journal of Microbiology & Experimentation 5, (3) ,
Castelino M, Eyre S, Moat J, Fox G, Martin P, Ho P, Upton M & Barton A (2017) 'Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform' BMC Microbiology 17, (1) ,
Halliwell S, Warn P, Sattar A, Derrick JP & Upton M (2016) 'A single dose of epidermicin NI01 is sufficient to eradicate MRSA from the nares of cotton rats' Journal of Antimicrobial Chemotherapy dkw457-dkw457 ,
Sarkar S, Roberts LW, Phan M-D, Tan L, Lo AW, Peters KM, Paterson DL, Upton M, Ulett GC & Beatson SA (2016) 'Comprehensive analysis of type 1 fimbriae regulation in fimB -null strains from the multidrug resistant Escherichia coli ST131 clone' Molecular Microbiology ,
Moat J, Rizoulis A, Fox G & Upton M (2016) 'Domestic shower hose biofilms contain fungal species capable of causing opportunistic infection' Journal of Water and Health ,
Forde BM, Phan M-D, Gawthorne JA, Ashcroft MM, Stanton-Cook M, Sarkar S, Peters KM, Chan K-G, Chong TM & Yin W-F (2015) 'Lineage-Specific Methyltransferases Define the Methylome of the Globally Disseminated Escherichia coli ST131 Clone' mBio 6, (6) ,
Alghoribi MF, Gibreel TM, Farnham G, Al Johani SM, Balkhy HH & Upton M (2015) 'Antibiotic-resistant ST38, ST131 and ST405 strains are the leading uropathogenic Escherichia coli clones in Riyadh, Saudi Arabia' J Antimicrob Chemother 70, (10) 2757-2762 ,
Morra R, Shankar J, Robinson CJ, Halliwell S, Butler L, Upton M, Hay S, Micklefield J & Dixon N (2015) 'Dual transcriptional-translational cascade permits cellular level tuneable expression control' Nucleic Acids Research 44, (3) e21-e21 ,
Phan M-D, Peters KM, Sarkar S, Forde BM, Lo AW, Stanton-Cook M, Roberts LW, Upton M, Beatson SA & Schembri MA (2015) 'Third-generation cephalosporin resistance conferred by a chromosomally encoded blaCMY-23 gene in the Escherichia coli ST131 reference strain EC958' J Antimicrob Chemother 70, (7) 1969-1972 ,
Phan MD, Forde BM, Peters KM, Sarkar S, Hancock S, Stanton-Cook M, Ben Zakour NL, Upton M, Beatson SA & Schembri MA (2015) 'Molecular characterization of a multidrug resistance IncF plasmid from the globally disseminated Escherichia coli ST131 clone' PLoS One 10, (4) ,
AlRabiah H, Xu Y, Rattray NJW, Vaughan AA, Gibreel T, Sayqal A, Upton M, Allwood JW & Goodacre R (2014) 'Multiple metabolomics of uropathogenic E. coli reveal different information content in terms of metabolic potential compared to virulence factors' Analyst 139, (17) 4193-4199 ,
Dawson SE, Gibreel T, Nicolaou N, AlRabiah H, Xu Y, Goodacre R & Upton M (2014) 'Implementation of Fourier transform infrared spectroscopy for the rapid typing of uropathogenic Escherichia coli' Eur J Clin Microbiol Infect Dis 33, (6) 983-988 ,
Castelino M, Eyre S, Upton M, Ho P & Barton A (2014) 'The bacterial skin microbiome in psoriatic arthritis, an unexplored link in pathogenesis: challenges and opportunities offered by recent technological advances' Rheumatology (Oxford) 53, (5) 777-784 ,
Petty NK, Ben Zakour NL, Stanton-Cook M, Skippington E, Totsika M, Forde BM, Phan M-D, Gomes Moriel D, Peters KM & Davies M (2014) 'Global dissemination of a multidrug resistant Escherichia coli clone' Proc Natl Acad Sci U S A 111, (15) 5694-5699 ,
Allwood JW, AlRabiah H, Correa E, Vaughan A, Xu Y, Upton M & Goodacre R (2014) 'A workflow for bacterial metabolic fingerprinting and lipid profiling: application to Ciprofloxacin challenged Escherichia coli' Metabolomics 1-16 ,
Alghoribi MF, Gibreel TM, Dodgson AR, Beatson SA & Upton M (2014) 'Galleria mellonella infection model demonstrates high lethality of ST69 and ST127 uropathogenic E. coli' PLoS One 9, (7) ,
Forde BM, Ben Zakour NL, Stanton-Cook M, Phan M-D, Totsika M, Peters KM, Chan KG, Schembri MA, Upton M & Beatson SA (2014) 'The complete genome sequence of Escherichia coli EC958: a high quality reference sequence for the globally disseminated multidrug resistant E. coli O25b:H4-ST131 clone' PLoS One 9, (8) ,
Voets GM, Leverstein-van Hall MA, Kolbe-Busch S, van der Zanden A, Church D, Kaase M, Grisold A, Upton M, Cloutman-Green E & Cantón R (2013) 'International multicenter evaluation of the DiversiLab bacterial typing system for Escherichia coli and Klebsiella spp' J Clin Microbiol 51, (12) 3944-3949 ,
Phan MD, Peters KM, Sarkar S, Lukowski SW, Allsopp LP, Moriel D, Achard ME, Totsika M, Marshall VM & Upton M (2013) 'The Serum Resistome of a Globally Disseminated Multidrug Resistant Uropathogenic <italic>Escherichia coli</italic> Clone' PLoS Genet 9, e1003834-e1003834 ,
Totsika M, Kostakioti M, Hannan TJ, Upton M, Beatson SA, Janetka JW, Hultgren SJ & Schembri MA (2013) 'A FimH inhibitor prevents acute bladder infection and treats chronic cystitis caused by multidrug-resistant uropathogenic Escherichia coli ST131' J Infect Dis 208, (6) 921-928 ,
Gibreel TM & Upton M (2013) 'Synthetic epidermicin NI01 can protect Galleria mellonella larvae from infection with Staphylococcus aureus' Journal of Antimicrobial Chemotherapy ,
Handley KM, Upton M, Beatson SA, Héry M & Lloyd JR (2013) 'Genome Sequence of Hydrothermal Arsenic-Respiring Bacterium Marinobacter santoriniensis NKSG1T' Genome Announc 1, (3) ,
Govindji N, Wills P, Upton M, Tirelli N, Yeates S & Webb M (2013) 'The antibiofilm effects of Byotrol™ G32' J Appl Microbiol 114, (5) 1285-1293 ,
AlRabiah H, Correa E, Upton M & Goodacre R (2013) 'High-throughput phenotyping of uropathogenic E. coli isolates with Fourier transform infrared spectroscopy' Analyst 138, (5) 1363-1369 ,
Floyd RV, Upton M, Hultgren SJ, Wray S, Burdyga TV & Winstanley C (2012) 'Escherichia coli-mediated impairment of ureteric contractility is uropathogenic E. coli specific' J Infect Dis 206, (10) 1589-1596 ,
Gibreel TM, Dodgson AR, Cheesbrough J, Bolton FJ, Fox AJ & Upton M (2012) 'High metabolic potential may contribute to the success of ST131 uropathogenic Escherichia coli' J Clin Microbiol 50, (10) 3202-3207 ,
Sandiford S & Upton M (2012) 'Identification, characterization, and recombinant expression of epidermicin NI01, a novel unmodified bacteriocin produced by Staphylococcus epidermidis that displays potent activity against Staphylococci' Antimicrob Agents Chemother 56, (3) 1539-1547 ,
Gibreel TM, Dodgson AR, Cheesbrough J, Fox AJ, Bolton FJ & Upton M (2012) 'Population structure, virulence potential and antibiotic susceptibility of uropathogenic Escherichia coli from Northwest England' J Antimicrob Chemother 67, (2) 346-356 ,
Upton M, Cotter P & Tagg J (2012) 'Antimicrobial peptides as therapeutic agents' Int J Microbiol 2012, ,
Al-Hamad A, Burnie J & Upton M (2011) 'Enhancement of antibiotic susceptibility of Stenotrophomonas maltophilia using a polyclonal antibody developed against an ABC multidrug efflux pump' Can J Microbiol 57, (10) 820-828 ,
Al-Mahrous MM, Jack RW, Sandiford SK, Tagg JR, Beatson SA & Upton M (2011) 'Identification of a haemolysin-like peptide with antibacterial activity using the draft genome sequence of Staphylococcus epidermidis strain A487' FEMS Immunol Med Microbiol 62, (3) 273-282 ,
Wescombe PA, Upton M, Renault P, Wirawan RE, Power D, Burton JP, Chilcott CN & Tagg JR (2011) 'Salivaricin 9, a new lantibiotic produced by Streptococcus salivarius' Microbiology (Reading) 157, (Pt 5) 1290-1299 ,
Al-Mahrous MM & Upton M (2011) 'Discovery and development of lantibiotics; antimicrobial agents that have significant potential for medical application' Expert Opin Drug Discov 6, (2) 155-170 ,
Totsika M, Beatson SA, Sarkar S, Minh-Duy P, Petty NK, Bachmann N, Szubert M, Sidjabat HE, Paterson DL & Upton M (2011) 'Insights into a Multidrug Resistant <i>Escherichia coli</i> Pathogen of the Globally Disseminated ST131 Lineage: Genome Analysis and Virulence Mechanisms' PLOS ONE 6, (10) ,
Al-Mahrous M, Sandiford SK, Tagg JR & Upton M (2010) 'Purification and characterization of a novel delta-lysin variant that inhibits Staphylococcus aureus and has limited hemolytic activity' Peptides 31, (9) 1661-1668 ,
Ben-Darif E, De Pinna E, Threlfall EJ, Bolton FJ, Upton M & Fox AJ (2010) 'Comparison of a semi-automated rep-PCR system and multilocus sequence typing for differentiation of Salmonella enterica isolates' J Microbiol Methods 81, (1) 11-16 ,
Ben-Darif E, Jury F, De Pinna E, Threlfall EJ, Bolton FJ, Fox AJ & Upton M (2010) 'Development of a multiplex primer extension assay for rapid detection of Salmonella isolates of diverse serotypes' J Clin Microbiol 48, (4) 1055-1060 ,
Lau SH, Cheesborough J, Kaufmann ME, Woodford N, Dodgson AR, Dodgson KJ, Bolton EJ, Fox AJ & Upton M (2010) 'Rapid identification of uropathogenic Escherichia coli of the O25:H4-ST131 clonal lineage using the DiversiLab repetitive sequence-based PCR system' Clin Microbiol Infect 16, (3) 232-237 ,
Daly KM, Upton M, Sandiford SK, Draper LA, Wescombe PA, Jack RW, O'Connor PM, Rossney A, Goetz F & Hill C (2010) 'Production of the Bsa Lantibiotic by Community-Acquired <i>Staphylococcus aureus</i> Strains' JOURNAL OF BACTERIOLOGY 192, (4) 1131-1142 ,
Cargill JS & Upton M (2009) 'Low concentrations of vancomycin stimulate biofilm formation in some clinical isolates of Staphylococcus epidermidis' J Clin Pathol 62, (12) 1112-1116 ,
Macintosh RL, Brittan JL, Bhattacharya R, Jenkinson HF, Derrick J, Upton M & Handley PS (2009) 'The terminal A domain of the fibrillar accumulation-associated protein (Aap) of Staphylococcus epidermidis mediates adhesion to human corneocytes' J Bacteriol 191, (22) 7007-7016 ,
Al-Hamad A, Upton M & Burnie J (2009) 'Molecular cloning and characterization of SmrA, a novel ABC multidrug efflux pump from Stenotrophomonas maltophilia' J Antimicrob Chemother 64, (4) 731-734 ,
Moat J, Cargill J, Shone J & Upton M (2009) 'Application of a novel decontamination process using gaseous ozone' Can J Microbiol 55, (8) 928-933 ,
Clermont O, Dhanji H, Upton M, Gibreel T, Fox A, Boyd D, Mulvey MR, Nordmann P, Ruppe E & Sarthou JL (2009) 'Rapid detection of the O25b-ST131 clone of <i>Escherichia coli</i> encompassing the CTX-M-15-producing strains' JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY 64, (2) 274-277 ,
Lau SH, Kaufmann ME, Livermore DM, Woodford N, Willshaw GA, Cheasty T, Stamper K, Reddy S, Cheesbrough J & Bolton FJ (2008) 'UK epidemic Escherichia coli strains A-E, with CTX-M-15 beta-lactamase, all belong to the international O25:H4-ST131 clone' J Antimicrob Chemother 62, (6) 1241-1244 ,
Kwan PSL, Barrigas M, Bolton FJ, French NP, Gowland P, Kemp R, Leatherbarrow H, Upton M & Fox AJ (2008) 'Molecular epidemiology of Campylobacter jejuni populations in dairy cattle, wildlife, and the environment in a farmland area' Appl Environ Microbiol 74, (16) 5130-5138 ,
Kwan PSL, Birtles A, Bolton FJ, French NP, Robinson SE, Newbold LS, Upton M & Fox AJ (2008) 'Longitudinal study of the molecular epidemiology of Campylobacter jejuni in cattle on dairy farms' Appl Environ Microbiol 74, (12) 3626-3633 ,
Lau SH, Reddy S, Cheesbrough J, Bolton FJ, Willshaw G, Cheasty T, Fox AJ & Upton M (2008) 'Major uropathogenic Escherichia coli strain isolated in the northwest of England identified by multilocus sequence typing' J Clin Microbiol 46, (3) 1076-1080 ,
Jones GL, Warren RE, Skidmore SJ, Davies VA, Gibreel T & Upton M (2008) 'Prevalence and distribution of plasmid-mediated quinolone resistance genes in clinical isolates of <i>Escherichia coli</i> lacking extended-spectrum β-lactamases' JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY 62, (6) 1245-1251 ,
Banner MA, Cunniffe JG, Macintosh RL, Foster TJ, Rohde H, Mack D, Hoyes E, Derrick J, Upton M & Handley PS (2007) 'Localized tufts of fibrils on Staphylococcus epidermidis NCTC 11047 are comprised of the accumulation-associated protein' J Bacteriol 189, (7) 2793-2804 ,
Jury F, Bueid A, Ollier W, Fox A & Upton M (2007) 'P1413 Analysis of mixed microbial species in clinically relevant biofilms using denaturing HPLC' International Journal of Antimicrobial Agents 29, S394-S394 ,
Bueid A, Barhameen A, Jones J & Upton M (2007) 'P1414 Use of FTA paper and PCR for detection of bacterial DNA in clinical swabs' International Journal of Antimicrobial Agents 29, S394-S394 ,
Hyink O, Wescombe PA, Upton M, Ragland N, Burton JP & Tagg JR (2007) 'Salivaricin A2 and the novel lantibiotic salivaricin B are encoded at adjacent loci on a 190-kilobase transmissible megaplasmid in the oral probiotic strain Streptococcus salivarius K12' Appl Environ Microbiol 73, (4) 1107-1113 ,
Kwan PSL, Bolton FJ, Upton M & Fox AJ (2007) 'A lack of polymorphic tandem repeats in <i>Campylobacter jejuni</i> genome limits the development of multiple-locus variable number of tandem repeat analysis typing schemes' ZOONOSES AND PUBLIC HEALTH 54, 40-40
Kwan PSL, Barrigas M, Bolton FJ, Gowland P, Kemp R, Leatherbarrow H, French NP, Upton M & Fox AJ (2007) 'The molecular epidemiology of <i>Campylobacter jejuni</i> populations in a farmland environment' ZOONOSES AND PUBLIC HEALTH 54, 137-138
Jury F, Al-Mahrous M, Apostolou M, Sandiford S, Fox A, Ollier W & Upton M (2006) 'Rapid cost-effective subtyping of meticillin-resistant Staphylococcus aureus by denaturing HPLC' J Med Microbiol 55, (Pt 8) 1053-1060 ,
Fox A, Thomhill C, Bolton F, Smith G, Cheesbrough J, Armstrong M, Upton M, Reddy S & Lau SH (2006) 'WITHDRAWN: An uropathogenic multi-resistant/ESBL escherichia coli identified in the north west of england by multilocus sequence typing' Journal of Infection ,
Wescombe PA, Upton M, Dierksen KP, Ragland NL, Sivabalan S, Wirawan RE, Inglis MA, Moore CJ, Walker GV & Chilcott CN (2006) 'Production of the lantibiotic salivaricin A and its variants by oral streptococci and use of a specific induction assay to detect their presence in human saliva' Appl Environ Microbiol 72, (2) 1459-1466 ,
Upton M, Tagg JR, Wescombe P & Jenkinson HF (2001) 'Intra- and interspecies signaling between <i>Streptococcus salivarius</i> and <i>Streptococcus pyogenes</i> mediated by SalA and SalA1 lantibiotic peptides' JOURNAL OF BACTERIOLOGY 183, (13) 3931-3938 ,
Upton M (2000) 'Combined molecular ecological and confocal laser scanning microscopic analysis of peat bog methanogen populations' FEMS Microbiology Letters 193, (2) 275-281 ,
Upton M, Hill B, Edwards C, Saunders JR, Ritchie DA & Lloyd D (2000) 'Combined molecular ecological and confocal laser scanning microscopic analysis of peat bog methanogen populations' FEMS Microbiol Lett 193, (2) 275-281 ,
Nercessian D (1999) 'Phylogenetic analysis of peat bog methanogen populations' FEMS Microbiology Letters 173, (2) 425-429 ,
Upton M & Upton C (1999) 'Novel nitrated derivatives of 5,8-diazabenzo[<i>c</i>] phenanthrene and 9,14-diazadibenz[<i>a</i>,<i>e</i>] acephenanthrylene:: new classes of potent mutagenic compounds' MUTAGENESIS 14, (6) 587-593 ,
McDonald IR, Upton M, Hall G, Pickup RW, Edwards C, Saunders JR, Ritchie DA & Murrell JC (1999) 'Molecular ecological analysis of methanogens and methanotrophs in blanket bog peat' MICROBIAL ECOLOGY 38, (3) 225-233 ,
Nercessian D, Upton M, Lloyd D & Edwards C (1999) 'Phylogenetic analysis of peat bog methanogen populations' FEMS MICROBIOLOGY LETTERS 173, (2) 425-429 ,
Lloyd D (1998) 'Micro-ecology of peat: minimally invasive analysis using confocal laser scanning microscopy, membrane inlet mass spectrometry and PCR amplification of methanogen-specific gene sequences' FEMS Microbiology Ecology 25, (2) 179-188 ,
Edwards C, Hales BA, Hall GH, McDonald IR, Murrell JC, Pickup R, Ritchie DA, Saunders JR, Simon BM & Upton M (1998) 'Microbiological processes in the terrestrial carbon cycle: Methane cycling in peat' ATMOSPHERIC ENVIRONMENT 32, (19) 3247-3255 ,
Upton M, Jaeda MI & Upton C (1998) 'Novel 5,8-diazabenzo[<i>c</i>]phenanthrenes:: Synthesis and mutagenicity' JOURNAL OF PHARMACY AND PHARMACOLOGY 50, (5) 475-482 ,
Lloyd D, Thomas KL, Hayes A, Hill B, Hales BA, Edwards C, Saunders JR, Ritchie DA & Upton M (1998) 'Micro-ecology of peat: minimally invasive analysis using confocal laser scanning microscopy, membrane inlet mass spectrometry and PCR amplification of methanogen-specific gene sequences' FEMS MICROBIOLOGY ECOLOGY 25, (2) 179-188 ,
Upton M, Pennington TH, Haston W & Forbes KJ (1997) 'Detection of human commensals in the area around an Antarctic research station' ANTARCTIC SCIENCE 9, (2) 156-161 ,
Upton M, Carter PE, Orange G & Pennington TH (1996) 'Genetic heterogeneity of M type 3 group A streptococci causing severe infections in Tayside, Scotland' J Clin Microbiol 34, (1) 196-198 ,
Upton M, Carter PE, Morgan M, Edwards GF & Pennington TH (1995) 'Clonal structure of invasive Streptococcus pyogenes in Northern Scotland' Epidemiol Infect 115, (2) 231-241 ,
Chapters
Upton M (1999) 'Analysis of DNA Sequences' Environmental Monitoring of Bacteria Humana Press 119-126 ,
Upton M (1999) 'Automated Sequencing of DNA Retrieved from Environmental Samples' Environmental Monitoring of Bacteria Humana Press 109-118 ,
Conference Papers
Castelino M, Tutino M, Moat J, Ijaz UZ, Parslew R, Al-Sharqi A, Warren RB, Quince C, Ho P & Upton M (2017) 'AB0115 Comparison of the bacterial stool microbiota in established psoriatic arthritis (PSA) and psoriasis (PSC) - exploratory analysis of pilot data' Annual European Congress of Rheumatology, 14–17 June, 2017 BMJ Publishing Group Ltd and European League Against Rheumatism ,
Castelino M, Eyre S, Moat J, Fox G, Martin P, Ijaz U, Quince C, Ho P, Upton M & Barton A (2015) 'The skin microbiome in psoriatic arthritis: methodology development and pilot data' Elsevier BV S27-S27 ,
Castelino M, Eyre S, Tutino M, Moat J, Martin P, Ijaz U, Quince C, Ho P, Upton M & Barton A (2015) 'Bacterial Skin Microbiome in Psoriatic Arthritis (A)over-tildec(a)over-cap, (a)over-cap(sic)oe Pilot Data from Psoriatic Plaques on Dry Skin Sites from Patients with Psoriasis (PsC) and Psoriatic Arthritis (PsA)'
Abdellatif E, Upton M & Freemont AJ (2012) 'Synovial Fluid (SF) Antibacterial Effect and the Possibility of Using this Feature as a Diagnostic Test for Septic Arthritis (SA)' S32-S32
Efstratiou A, George RC, Tanna A, Hookey JV, Caugant D, Holm SE, Kriz P, Martin D, Upton M & Cartwright KAV (1997) 'Characterisation of Group A Streptococci from Necrotising Fasciitis Cases in Gloucestershire, United Kingdom' Springer US 91-93 ,
Reports
Fotheringham I & Upton M (2016) MICROBIAL PRODUCTION - Cutting-edge inABLE® technology: The key to cost-effective production of a novel antimicrobial peptide with potential for the treatment of MRSA.
Presentations and posters
Aldarhami A, Felek A, Farnham G, Desriac F, Howell K & Upton M Aldarhami A, Felek A, Farnham G, Desriac F, Howell K & Upton M 'A novel deep-sea sponge bacterium producing two promising antimicrobial candidates' ,
Hesketh Best P, Howell K, Upton M, Bishop A, Warburton P, Foster N & Koch M Hesketh Best P, Howell K, Upton M, Bishop A, Warburton P, Foster N & Koch M 'Assessing and optimising culturing methods for the associated-bacteria of two species of deep-sea sponges (class Hexactinellida) for antimicrobial bioprospecting' ,
Koch M, Best P, Farnham G, Kiernan M, Bishop A, Warburton P, Howell K & Upton M Koch M, Best P, Farnham G, Kiernan M, Bishop A, Warburton P, Howell K & Upton M 'Characterisation of the microbiome for two hexactinellid sponges and purification of associated antimicrobial agents from their resident microbes' ,
Butler J, Besinis A & Upton M Butler J, Besinis A & Upton M 'Development of a novel antibiofilm silver nanocoating to reduce nosocomial infections'
Bennett V, Koch M, Aldarhami A & Upton M Bennett V, Koch M, Aldarhami A & Upton M 'Purification and characterisation of antimicrobial agents isolated from a member of the Paenibacillus genus' ,
Saeedi N, Sharma V, Jackson S & Upton M Saeedi N, Sharma V, Jackson S & Upton M 'Understanding the pathogenic process of uropathogenic Escherichia coli ST127 using proteomics on uroepithelial co-culture samples' ,
Other Publications
Koch M, Upton M & Howell K (2019) Are sea sponges a key part of the complex solution to antimicrobial resistance?.
Personal

Personal

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).
  1. Upton, M., & SK. Sandiford. Novel peptide antibiotic. PCT/GB2010/052106. Filed December 2010.
  1. 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