Role
Senior Lecturer in Microbiology
Career overview
2023-Present - Senior Lecturer in Microbiology at Nottingham Trent University
2021-2023 - Lecturer in Microbiology at Nottingham Trent University
2017-2021 - Postdoctoral Research Associate at Liverpool School of Tropical Medicine
2016-2017 - Research Assistant at University of Oxford
2015-2016 - Postdoctoral Scientist at Micropathology Ltd
2010-2015 - PhD at St George's, University of London
2009-2010 - Scientist, Biological Identification at Defence Science and Technology Laboratory
2008-2009 - Healthcare Practitioner at Health Protection Agency
2007-2008 - Senior Technician at Health Protection Agency
2004-2007 - BSc(Hons) in Microbiology from University of Leeds
Research areas
Main research interests are focused on antimicrobial resistance and experimental evolution. Specifically, improving the translation of studies on the evolution of antimicrobial resistance (AMR) to clinical practice and understanding the mismatch between phenotypic resistance and the genetic determinants of resistance to improve tools to predict AMR.
Current projects:
Studying evolution of AMR in physiologically relevant environments - Beth James and Alasdair Hubbard
Our primary research focus is to use organoids which represent parts of the human body to study the evolution of antimicrobial resistance to clinically relevant antibiotics in pathogens isolated from clinical samples. Here, we aim to produce robust data on how AMR develops during antimicrobial therapy and use this to guide the use of antibiotics to limit AMR.
Novel mutations leading to beta-lactam/beta-lactamase inhibitor resistance - Hawa Ahmed and Maxwell Jackson
Using multiple approaches, we aim to identify novel mutations which may arise in beta-lactamases which confer resistance to beta-lactam/beta-lactamase inhibitors and characterise the phenotypic properties. This will improve AMR prediction by identifying possible mutations before they arise in clinic.
Silencing and reactivation of AMR genes - Milli Wilde
Silencing of AMR genes can complicate AMR prediction as the gene is present in genotypic data but phenotypically the isolate will be susceptible to the antibiotic. Understanding the silencing and reactivation of AMR genes will give us an important insight into what may occur during antimicrobial therapy.
Relationship between mutational selection windows and collateral susceptibility - Beth James and Sidra Kashif
Mutational selection windows (MSW) can be used to predict the antibiotic concentrations which can select for AMR mutations, while some AMR mutations can result in increased/decreased susceptibility to other unrelated antibiotics. In this project, we aim to determine whether MSWs to one antibiotic is affects the MSW to a second antibiotic and whether this can predict collateral susceptibility networks.
Part of the Antimicrobial Resistance, Omics and Microbiota research group at NTU within the Centre for Systems Health and integrated Metabolic Research
External activity
Professional memberships:
Microbiology Society
Applied Microbiology International
British Society for Antimicrobial Chemotherapy
Healthcare Infection Society
Peer Review:
Editorial board member for npj Antimicrobials and Resistance
Other:
Mentor for the Social Mobility Foundation.
Sponsors and collaborators
Current and Past Funders:
Microbiology Society
The Royal Society
The Urology Foundation
Publications
2023
Matlock, W., Lipworth, S., Chau, K.K., AbuOun, M., Barker, L., Kavanagh, J., Andersson, M., Oakley, S., Morgan, M., Crook, D.W., Read, D.S., Anjum, M., Shaw, L.P., Stoesser, N. and REHAB Consortium (member of consortium). (2023). Enterobacterales plasmid sharing amongst human bloodstream infections, livestock, wastewater, and waterway niches in Oxfordshire, UK. eLife. 12:e85302. 10.7554/eLife.85302
2022
Edwards, T., Heinz, E., Van Aartsen, J., Howard, A., Roberts, P., Corless, C., Fraser, A. J., Williams, C. T., Bulgasim, I., Cuevas, L. E., Parry, C. M., Roberts, A. P., Adams, E. R., Mason, J. & Hubbard, A. T. M*. (2022). Piperacillin/tazobactam resistant, cephalosporin susceptible Escherichia coli bloodstream infections driven by multiple resistance mechanisms across diverse sequence types. Microbial Genomics. 8(4). 10.1099/mgen.0.000789
Manyahi, J., Moyo, S.J., Kibwana, U., Goodman, R.N., Allman, E., Hubbard, A.T.M., Blomberg, B., Langeland, N., & Roberts, A.P. (2022). First Identification of blaNDM-5 Producing Escherichia coli from Neonates and a HIV Infected Adult in Tanzania. Journal of Medical Microbiology. 71(2). 10.1099/jmm.0.001513
2021
Moyo, S. J., Manyahi, J., Hubbard, A. T. M., Byrne, R. L., Masoud, N. S., Aboud, S., Manji, K., Blomberg, B., Langeland, N. & Roberts, A. P. (2021). Molecular characterisation of the first New Delhi metallo-β-lactamase 1-producing Acinetobacter baumannii from Tanzania. Transactions of the Royal Society of Tropical Medicine and Hygiene 115(9):1080-1085. 10.1093/trstmh/traa173.
Shaw, L. P., Chau, K. K., Kavanagh, J., Abuoun, M., Stubberfield, E., Gweon, H. S., Barker, L., Rodger, G., Bowes, M. J., Hubbard, A. T. M., Pickford, H., Swann, J., Gilson, D., Smith, R. P., Hoosdally, S. J., Sebra, R., Brett, H., Peto, T. E. A., Bailey, M. J., Crook, D. W., Read, D. S., Anjum, M. F., Walker, A. S., Stoesser, N. & Consortium, R. (2021). Niche and local geography shape the pangenome of wastewater-and livestock-associated Enterobacteriaceae. Science Advances 10.1126/sciadv.abe3868.
Hubbard, A. T. M., Bulgasim, I. & Roberts, A. P. (2021). A novel hemA mutation is responsible for a small-colony-variant phenotype in Escherichia coli. Microbiology (Society for General Microbiology) 167(3). 10.1099/mic.0.000962.
Matlock, W., Chau, K.K., AbuOun, M., Stubberfield, E., Barker, L., Kavanagh, J., Pickford, H., Gilson, D., Smith, R.P., Soon Gweon, H., Hoosdally, S.J., Swann, J., Sebra, R., Bailey, M.J., Peto, T.E.A., Crook, D.W., Anjum, M.F., Read, D.S., Walker, A.S., Stoesser, N., Shaw, L.P., and REHAB Consortium (member of consortium). (2021). Genomic network analysis of environmental and livestock F-type plasmid populations. The ISME Journal. 15:2322-2335. 10.1038/s41396-021-00926-w
AbuOun, M., Jones, H., Stubberfield, E., Gilson, D., Shaw, L.P., Hubbard, A.T.M., Chau, K.K., Sebra, R., Peto, T.E.A., Crook, D.W., Read, D.S., Soon Gweon, H., Walker, A.S., Stoesser, N., Smith, R.P., Anjum., M.F. and REHAB Consortium. (2021). A genomic epidemiological study shows that prevalence of antimicrobial resistance in Enteerobacterales is associated with the livestock host, as well as antimicrobial usage. Microbial Genomics. 7:000630. 10.1099/mgen.0.000630
2020
Nikolaou, E., Hubbard, A. T. M., Botelho, J., Marschall, T. A. M., Ferreira, D. M. & Roberts, A. P. (2020). Antibiotic Resistance Is Associated with Integrative and Conjugative Elements and Genomic Islands in Naturally Circulating Streptococcus pneumoniae Isolates from Adults in Liverpool, UK. Genes 11(6). 10.3390/genes11060625.
Hubbard, A. T. M., Newire, E., Botelho, J., Reiné, J., Wright, E., Murphy, E. A., Hutton, W. & Roberts, A. P. (2020). Isolation of an antimicrobial‐resistant, biofilm‐forming, Klebsiella grimontii isolate from a reusable water bottle. MicrobiologyOpen 9(6). 10.1002/mbo3.1023.
Hubbard, A. T. M*., Mason, J., Roberts, P., Parry, C. M., Corless, C., van Aartsen, J., Howard, A., Bulgasim, I., Fraser, A. J., Adams, E. R., Roberts, A. P. & Edwards, T. (2020). Piperacillin/tazobactam resistance in a clinical isolate of Escherichia coli due to IS26-mediated amplification of blaTEM-1B. Nature communications 11(1). 10.1038/s41467-020-18668-2.
2019
Hong, W. D., Benayoud, F., Nixon, G. L., Ford, L., Johnston, K. L., Clare, R. H., Cassidy, A., Cook, D. A. N., Siu, A., Shiotani, M., Webborn, P. J. H., Kavanagh, S., Aljayyoussi, G., Murphy, E., Steven, A., Archer, J., Struever, D., Frohberger, S. J., Ehrens, A., Hübner, M. P., Hoerauf, A., Roberts, A. P., Hubbard, A. T. M., Tate, E. W., Serwa, R. A., Leung, S. C., Qie, L., Berry, N. G., Gusovsky, F., Hemingway, J., Turner, J. D., Taylor, M. J., Ward, S. A. & O’neill, P. M. (2019). AWZ1066S, a highly specific anti-Wolbachia drug candidate for a short-course treatment of filariasis. Proceedings of the National Academy of Sciences 116(4). 10.1073/pnas.1816585116.
De Maio, N., Shaw, L. P., Hubbard, A. T. M., George, S., Sanderson, N. D., Swann, J., Wick, R., Abuoun, M., Stubberfield, E., Hoosdally, S. J., Crook, D. W., Peto, T. E. A., Sheppard, A. E., Bailey, M. J., Read, D. S., Anjum, M. F., Walker, A. S. & Stoesser, N. (2019). Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes. Microbial Genomics 5(9). 10.1099/mgen.0.000294.
Rooney, C. M., Sheppard, A. E., Clark, E., Davies, K., Hubbard, A. T. M., Sebra, R., Crook, D. W., Walker, A. S., Wilcox, M. H. & Chilton, C. H. (2019). Dissemination of multiple carbapenem resistance genes in an in vitro gut model simulating the human colon. Journal of antimicrobial chemotherapy 74(7):1876-1883. 10.1093/jac/dkz106.
Hubbard, A. T. M., Jafari, N. V., Feasey, N., Rohn, J. L. & Roberts, A. P. (2019). Effect of Environment on the Evolutionary Trajectories and Growth Characteristics of Antibiotic-Resistant Escherichia coli Mutants. Frontiers in Microbiology 10. 10.3389/fmicb.2019.02001.
Gweon, H. S., Shaw, L. P., Swann, J., De Maio, N., Abuoun, M., Niehus, R., Hubbard, A. T. M., Bowes, M. J., Bailey, M. J., Peto, T. E. A., Hoosdally, S. J., Walker, A. S., Sebra, R. P., Crook, D. W., Anjum, M. F., Read, D. S. & Stoesser, N. (2019). The impact of sequencing depth on the inferred taxonomic composition and AMR gene content of metagenomic samples. Environmental Microbiome 14(1). 10.1186/s40793-019-0347-1.
Reynolds, M. E., Phan, H. T. T., George, S., Hubbard, A. T. M., Stoesser, N., Maciuca, I. E., Crook, D. W. & Timofte, D. (2019). Occurrence and characterization of Escherichia coli ST410 co-harbouring blaNDM-5, blaCMY-42 and blaTEM-190 in a dog from the UK. Journal of Antimicrobial Chemotherapy 74(5). 10.1093/jac/dkz017.
Rehal, R., Gaffney, P. R. J., Hubbard, A. T. M., Barker, R. D. & Harvey, R. D. (2019). The pH-dependence of lipid-mediated antimicrobial peptide resistance in a model staphylococcal plasma membrane: A two-for-one mechanism of epithelial defence circumvention. European journal of pharmaceutical sciences 128:43-53. 10.1016/j.ejps.2018.11.017.
2018
Hubbard, A. T. M., Davies, S. E. W., Baxter, L., Thompson, S., Collery, M. M., Hand, D. C., Thomas, D. J. I. & Fink, C. G. (2018). Comparison of the first whole genome sequence of ‘Haemophilus quentini’ with two new strains of ‘Haemophilus quentini’ and other species of Haemophilus. Genome 61(5):379-385. 10.1139/gen-2017-0195.
Phan, H. T. T., Stoesser, N., Maciuca, I. E., Toma, F., Szekely, E., Flonta, M., Hubbard, A. T. M., Pankhurst, L., Do, T., Peto, T. E. A., Walker, A. S., Crook, D. W. & Timofte, D. (2018). Illumina short-read and MinION long-read WGS to characterize the molecular epidemiology of an NDM-1 Serratia marcescens outbreak in Romania. Journal of Antimicrobial Chemotherapy 73(3). 10.1093/jac/dkx456.
2017
Hubbard, A. T. M., Coates, A. R. & Harvey, R. D. (2017). Comparing the action of HT61 and chlorhexidine on natural and model Staphylococcus aureus membranes. Journal of antibiotics 70(10):1020-1025 10.1038/ja.2017.90.
Phillips, D. J., Harrison, J., Richards, S., Mitchell, D. E., Tichauer, E., Hubbard, A. T. M., Guy, C., Hands-Portman, I., Fullam, E. & Gibson, M. I. (2017). Evaluation of the Antimicrobial Activity of Cationic Polymers against Mycobacteria: Toward Antitubercular Macromolecules. Biomacromolecules 18(5):1592-1599 10.1021/acs.biomac.7b00210.
Rehal, R. P., Marbach, H., Hubbard, A. T. M., Sacranie, A. A., Sebastiani, F., Fragneto, G. & Harvey, R. D. (2017). The influence of mild acidity on lysyl-phosphatidylglycerol biosynthesis and lipid membrane physico-chemical properties in methicillin-resistant Staphylococcus aureus. Chemistry and physics of lipids 206:60-70. 10.1016/j.chemphyslip.2017.06.007.
Hubbard, A. T. M., Barker, R., Rehal, R., Vandera, K. A. A., Harvey, R. D. & Coates, A. R. M. (2017). Mechanism of Action of a Membrane-Active Quinoline-Based Antimicrobial on Natural and Model Bacterial Membranes. Biochemistry 56(8). 10.1021/acs.biochem.6b01135.
George, S., Pankhurst, L., Hubbard, A. T. M., Votintseva, A., Stoesser, N., Sheppard, A. E., Mathers, A., Norris, R., Navickaite, I., Eaton, C., Iqbal, Z., Crook, D. W. & Phan, H. T. T. (2017). Resolving plasmid structures in Enterobacteriaceae using the MinION nanopore sequencer: assessment of MinION and MinION/Illumina hybrid data assembly approaches. Microbial genomics 3(8):e000118. 10.1099/mgen.0.000118.
2016
Hubbard, A. T. M., Davies, S. E. W., Baxter, L., Thompson, S., Collery, M. M., Hand, D. C., Fink, C. G. & Thomas, D. J. I. (2016). Draft Whole-Genome Sequence of a Haemophilus quentini Strain Isolated from an Infant in the United Kingdom. Genome announcements (Washington, DC) 4(5) 10.1128/genomeA.01075-16.
*corresponding author