Staff Profiles

Dr Matthew Dorman

BA mod, PhD

Contact Details

Lecturer Above The Bar
Clinical Bioinformatics
Mathematical & Statistical Sciences
University of Galway
E: matthew.dorman@universityofgalway.ie

Biography

Matt is a Lecturer in Clinical Bioinformatics, with a particular focus on microbial genomics and Gram-negative human pathogens. Matt is an experienced wet-lab bacterial molecular geneticist, who moved into genomic science and bioinformatics, and now combines his experimental expertise with computational genomics to understand microbial physiology and pathogenesis in species, rather than just in reference or model strains.

Before coming to Galway, Matt spent seven years at the Wellcome Sanger Institute and Churchill College (University of Cambridge), where he made use of both experimental and bioinformatic approaches to complete a PhD in Vibrio cholerae genomics (2020). In early 2020, Matt was part of the team at Sanger which handled SARS-CoV-2-positive samples in the Institute's high-containment laboratories, part of the Institute's contribution to the COG-UK consortium (and is a consortium member co-author on several COG-UK outputs). Matt then took up a Junior Research Fellowship at Churchill to work between the College and Sanger, focusing on the biology and genomics of non-pandemic V. cholerae, eventually transitioning to a highly-varied Staff Scientist role at Sanger which was held in conjunction with a teaching Fellowship and lectureship at Churchill. Matt was appointed to the post of College Dean (head of student discipline) for 2022-2023.

Joining the School of Mathematical and Statistical Sciences in 2023, Matt is excited to work with mathematically- and computationally-minded scientists on problems of relevance to global health and infectious disease. In parallel, Matt is especially keen to support and encourage students to become familiar with genome data and its manipulation, and to support undergraduates who are keen to obtain "real-world" research experience. Matt encourages prospective students interested in any aspect of microbial genomics to get in touch.

Research Interests

My research interests focus primarily on microbial genomics, and particularly on Gram-negative human pathogens. Areas of interest and of previous research include:

using genomic data to place our understanding of experimental microbiology into the context of bacterial species and their population structures;
studying gene regulation and regulatory networks in single pathogens and across species (using data from ChIP-seq, RNA-seq, TraDIS etc);
pathogen epidemiology, including in lower-middle income settings;
long-read sequencing and the production of high-quality microbial genome assemblies.

Microbial genomics and bioinformatics are rapidly-evolving research areas, and I try to maintain flexibility to address new and interesting problems - or to look at new organisms.

I consider research and teaching to be complementary and linked activities, and I am committed to research-informed teaching. I believe firmly in providing high-quality training opportunities and mentorship to students and early-career scientists. I use my wet-lab training and experience (including having worked in high-containment labs with high-risk pathogens) to design rational genomic projects. As an experimental bacterial geneticist who moved into genomic science and bioinformatics, I am especially keen to support and encourage students to become familiar with genome data and its manipulation, and to support undergraduates who are keen to obtain "real-world" research experience.

Research Projects

	Project	Start Date	End Date
	VibriowatchNet: a network for training, data standards and data sharing for the next generation of cholera genomicists	01-DEC-23	30-NOV-26
	VARIACHITIN: POPULATION-SCALE VARIATION OF CHITIN METABOLISM IN DIVERSE BACTERIA	22-JUL-24	01-AUG-26

Peer Reviewed Journals

	Year	Publication
	(2023)	'Genomic epidemiology reveals multidrug resistant plasmid spread between Vibrio cholerae lineages in Yemen' Lassalle F; Al-Shalali S; Al-Hakimi M; Njamkepo E; Bashir IM; Dorman MJ; Rauzier J; Blackwell GA; Taylor-Brown A; Beale MA; Cazares A; Al-Somainy AA; Al-Mahbashi A; Almoayed K; Aldawla M; Al-Harazi A; Quilici ML; Weill FX; Dhabaan G; Thomson NR (2023) 'Genomic epidemiology reveals multidrug resistant plasmid spread between Vibrio cholerae lineages in Yemen'. Nature Microbiology, 8 (10):1787-1798 [DOI] [Details]
	(2023)	'Vibrio cholerae O37: one of the exceptions that prove the rule' Dorman, M.J. and Thomson, N.R. (2023) 'Vibrio cholerae O37: one of the exceptions that prove the rule'. Microbial genomics, 9 (4) [DOI] [Details]
	(2023)	'Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes' Cotton, S. and McHugh, M.P. and Dewar, R. and Haas, J.G. and Templeton, K. and Robson, S.C. and Connor, T.R. and Loman, N.J. and Golubchik, T. and Martinez Nunez, R.T. and Bonsall, D. and Rambaut, A. and Snell, L.B. and Livett, R. and Ludden, C. and Corden, S. and Nastouli, E. and Nebbia, G. and Johnston, I. and Prieto, J.A. and Saeed, K. and Jackson, D.K. and Houlihan, C. and Frampton, D. and Hamilton, W.L. and Witney, A.A. and Bucca, G. and Pope, C.F. and Moore, C. and Thomson, E.C. and Cutino-Moguel, T. and Harrison, E.M. and Smith, C.P. and Rogan, F. and Beckwith, S.M. and Murray, A. and Singleton, D. and Eastick, K. and Sheridan, L.A. and Randell, P. and Jackson, L.M. and Ariani, C.V. and GonÃ§alves, S. and Fairley, D.J. and Loose, M.W. and Watkins, J. and Moses, S. and Nicholls, S. a (2023) 'Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes'. Journal of Hospital Infection, 135 :28-36 [DOI] [Details]
	(2022)	'Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study' Twohig, K.A. and Nyberg, T. and Zaidi, A. and Thelwall, S. and Sinnathamby, M.A. and Aliabadi, S. and Seaman, S.R. and Harris, R.J. and Hope, R. and Lopez-Bernal, J. and Gallagher, E. and Charlett, A. and De Angelis, D. and Presanis, A.M. and Dabrera, G. and Koshy, C. and Ash, A. and Wise, E. and Moore, N. and Mori, M. and Cortes, N. and Lynch, J. and Kidd, S. and Fairley, D. and Curran, T. and McKenna, J. and Adams, H. and Fraser, C. and Golubchik, T. and Bonsall, D. and Hassan-Ibrahim, M. and Malone, C. and Cogger, B. and Wantoch, M. and Reynolds, N. and Warne, B. and Maksimovic, J. and Spellman, K. and McCluggage, K. and John, M. and Beer, R. and Afifi, S. and Morgan, S. and Marchbank, A. and Price, A. and Kitchen, C. and Gulliver, H. and Merrick, I. and Southgate, J. and Guest, M. and (2022) 'Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study'. The Lancet Infectious Diseases, 22 (1):35-42 [DOI] [Details]
	(2022)	'Isolation and Characterisation of Bacteriophage Selective for Key Acinetobacter baumannii Capsule Chemotypes' Soontarach, R. and Srimanote, P. and Enright, M.C. and Blundell-Hunter, G. and Dorman, M.J. and Thomson, N.R. and Taylor, P.W. and Voravuthikunchai, S.P. (2022) 'Isolation and Characterisation of Bacteriophage Selective for Key Acinetobacter baumannii Capsule Chemotypes'. Pharmaceuticals, 15 (4) [DOI] [Details]
	(2022)	'Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission' Aggarwal, D. and Page, A.J. and Schaefer, U. and Savva, G.M. and Myers, R. and Volz, E. and Ellaby, N. and Platt, S. and Groves, N. and Gallagher, E. and Tumelty, N.M. and Le Viet, T. and Hughes, G.J. and Chen, C. and Turner, C. and Logan, S. and Harrison, A. and Koshy, C. and Ash, A. and Wise, E. and Moore, N. and Mori, M. and Cortes, N. and Lynch, J. and Kidd, S. and Fairley, D.J. and Curran, T. and McKenna, J.P. and Adams, H. and Fraser, C. and Golubchik, T. and Bonsall, D. and Hassan-Ibrahim, M.O. and Malone, C.S. and Cogger, B.J. and Wantoch, M. and Reynolds, N. and Warne, B. and Maksimovic, J. and Spellman, K. and McCluggage, K. and John, M. and Beer, R. and Afifi, S. and Morgan, S. and Marchbank, A. and Price, A. and Kitchen, C. and Gulliver, H. and Merrick, I. and Southgate, J. and (2022) 'Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission'. Nature Communications, 13 (1) [DOI] [Details]
	(2022)	'SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2' Eales, O. and Page, A.J. and de Oliveira Martins, L. and Wang, H. and Bodinier, B. and Haw, D. and Jonnerby, J. and Atchison, C. and Robson, S.C. and Connor, T.R. and Loman, N.J. and Golubchik, T. and Nunez, R.T.M. and Bonsall, D. and Rambaut, A. and Snell, L.B. and Livett, R. and Ludden, C. and Corden, S. and Nastouli, E. and Nebbia, G. and Johnston, I. and Lythgoe, K. and Torok, M.E. and Goodfellow, I.G. and Prieto, J.A. and Saeed, K. and Jackson, D.K. and Houlihan, C. and Frampton, D. and Hamilton, W.L. and Witney, A.A. and Bucca, G. and Pope, C.F. and Moore, C. and Thomson, E.C. and Harrison, E.M. and Smith, C.P. and Rogan, F. and Beckwith, S.M. and Murray, A. and Singleton, D. and Eastick, K. and Sheridan, L.A. and Randell, P. and Jackson, L.M. and Ariani, C.V. and GonÃ§alves, S. and (2022) 'SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2'. BMC Infectious Diseases, 22 (1) [DOI] [Details]
	(2022)	'Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning' Nickbakhsh, S. and Hughes, J. and Christofidis, N. and Griffiths, E. and Shaaban, S. and Enright, J. and Smollett, K. and Nomikou, K. and Palmalux, N. and Tong, L. and Carmichael, S. and Sreenu, V.B. and Orton, R.J. and Goldstein, E.J. and Tomb, R.M. and Robson, S.C. and Connor, T.R. and Loman, N.J. and Golubchik, T. and Nunez, R.T.M. and Bonsall, D. and Rambaut, A. and Snell, L.B. and Livett, R. and Ludden, C. and Corden, S. and Nastouli, E. and Nebbia, G. and Johnston, I. and Lythgoe, K. and Torok, M.E. and Goodfellow, I.G. and Prieto, J.A. and Saeed, K. and Jackson, D.K. and Houlihan, C. and Frampton, D. and Hamilton, W.L. and Witney, A.A. and Bucca, G. and Pope, C.F. and Moore, C. and Thomson, E.C. and Harrison, E.M. and Smith, C.P. and Rogan, F. and Beckwith, S.M. and Murray, A. and S (2022) 'Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning'. Scientific Reports, 12 (1) [DOI] [Details]
	(2022)	'Recurrent SARS-CoV-2 mutations in immunodeficient patients' Wilkinson, S.A.J. and Sparks, N. and Kele, B. and Peacock, T.P. and Robson, S.C. and Connor, T.R. and Loman, N.J. and Golubchik, T. and Martinez Nunez, R.T. and Bonsall, D. and Rambaut, A. and Snell, L.B. and Livett, R. and Ludden, C. and Corden, S. and Nastouli, E. and Nebbia, G. and Johnston, I. and Lythgoe, K. and Estee Torok, M. and Goodfellow, I.G. and Prieto, J.A. and Saeed, K. and Jackson, D.K. and Houlihan, C. and Frampton, D. and Hamilton, W.L. and Witney, A.A. and Bucca, G. and Pope, C.F. and Moore, C. and Thomson, E.C. and Harrison, E.M. and Smith, C.P. and Rogan, F. and Beckwith, S.M. and Murray, A. and Singleton, D. and Eastick, K. and Sheridan, L.A. and Randell, P. and Jackson, L.M. and Ariani, C.V. and GonÃ§alves, S. and Fairley, D.J. and Loose, M.W. and Watkins, J. and Mose (2022) 'Recurrent SARS-CoV-2 mutations in immunodeficient patients'. Virus Evolution, 8 (2) [DOI] [Details]
	(2022)	'SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway' Willett, B.J. and Grove, J. and MacLean, O.A. and Wilkie, C. and De Lorenzo, G. and Furnon, W. and Cantoni, D. and Scott, S. and Logan, N. and Ashraf, S. and Manali, M. and Szemiel, A. and Cowton, V. and Vink, E. and Harvey, W.T. and Davis, C. and Asamaphan, P. and Smollett, K. and Tong, L. and Orton, R.J. and Hughes, J. and Holland, P. and Silva, V. and Pascall, D.J. and Puxty, K. and da Silva Filipe, A. and Yebra, G. and Shaaban, S. and Holden, M.T.G. and Pinto, R.M. and Gunson, R. and Templeton, K. and Murcia, P.R. and Patel, A.H. and Klenerman, P. and Dunachie, S. and Klenerman, P. and Barnes, E. and Brown, A. and Adele, S. and Kronsteiner, B. and Murray, S.M. and Abraham, P. and Deeks, A. and Ansari, M.A. and de Silva, T. and Turtle, L. and Moore, S. and Austin, J. and Richter, A. and (2022) 'SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway'. Nature Microbiology, 7 (8):1161-1179 [DOI] [Details]
	(2022)	'Physiological Robustness of Model Gram-Negative Bacteria in Response to Genome Rewiring' Dorman, C.J. and Dorman, M.J. (2022) 'Physiological Robustness of Model Gram-Negative Bacteria in Response to Genome Rewiring'. Microbial Physiology, 32 (5-6):158-176 [DOI] [Details]
	(2022)	'Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway (Nature Microbiology, (2022), 7, 8, (1161-1179), 10.1038/s41564-022-01143-7)' Willett, B.J. and Grove, J. and MacLean, O.A. and Wilkie, C. and De Lorenzo, G. and Furnon, W. and Cantoni, D. and Scott, S. and Logan, N. and Ashraf, S. and Manali, M. and Szemiel, A. and Cowton, V. and Vink, E. and Harvey, W.T. and Davis, C. and Asamaphan, P. and Smollett, K. and Tong, L. and Orton, R.J. and Hughes, J. and Holland, P. and Silva, V. and Pascall, D.J. and Puxty, K. and da Silva Filipe, A. and Yebra, G. and Shaaban, S. and Holden, M.T.G. and Pinto, R.M. and Gunson, R. and Templeton, K. and Murcia, P.R. and Patel, A.H. and Klenerman, P. and Dunachie, S. and Klenerman, P. and Barnes, E. and Brown, A. and Adele, S. and Kronsteiner, B. and Murray, S.M. and Abraham, P. and Deeks, A. and Ansari, M.A. and de Silva, T. and Turtle, L. and Moore, S. and Austin, J. and Richter, A. and (2022) 'Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway (Nature Microbiology, (2022), 7, 8, (1161-1179), 10.1038/s41564-022-01143-7)'. Nature Microbiology, 7 (10) [DOI] [Details]
	(2022)	'Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission' Aggarwal, D. and Warne, B. and Jahun, A.S. and Hamilton, W.L. and Fieldman, T. and du Plessis, L. and Hill, V. and Blane, B. and Watkins, E. and Wright, E. and Hall, G. and Ludden, C. and Myers, R. and Hosmillo, M. and Chaudhry, Y. and Pinckert, M.L. and Georgana, I. and Izuagbe, R. and Leek, D. and Nsonwu, O. and Hughes, G.J. and Packer, S. and Page, A.J. and Metaxaki, M. and Fuller, S. and Weale, G. and Holgate, J. and Brown, C.A. and Orton, A. and Douthwaite, J. and Rees, S. and Brown, C. and Clark, R. and Jones, D.R. and Kuenzi, F. and Rankin, J. and Waddell, I. and Maxwell, P. and Matheson, N. and Abell, C. and Braithwaite, V. and Brierley, C. and Crowcroft, J. and Dahal, A. and Faulkner, K. and Glover, M. and Greatorex, J. and James, L. and Lehner, P. and Leslie, I. and Liddell, K. a (2022) 'Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission'. Nature Communications, 13 (1) [DOI] [Details]
	(2022)	'COVID-19 due to the B.1.617.2 (Delta) variant compared to B.1.1.7 (Alpha) variant of SARS-CoV-2: a prospective observational cohort study' KlÃ¤ser, K. and Molteni, E. and Graham, M. and Canas, L.S. and Ã–sterdahl, M.F. and Antonelli, M. and Chen, L. and Deng, J. and Murray, B. and Kerfoot, E. and Wolf, J. and May, A. and Fox, B. and Capdevila, J. and Aanensen, D.M. and Abudahab, K. and Adams, H. and Adams, A. and Afifi, S. and Aggarwal, D. and Ahmad, S.S.Y. and Aigrain, L. and Alcolea-Medina, A. and Alikhan, N.-F. and Allara, E. and Amato, R. and Angyal, A. and Annett, T. and Aplin, S. and Ariani, C.V. and Asad, H. and Ash, A. and Ashfield, P. and Ashford, F. and Atkinson, L. and Attwood, S.W. and Auckland, C. and Aydin, A. and Baker, D.J. and Baker, P. and Balcazar, C.E. and Ball, J. and Barrett, J.C. and Barrow, M. and Barton, E. and Bashton, M. and Bassett, A.R. and Batra, R. and Baxter, C. and Bayzid, N. and Beaver, C. an (2022) 'COVID-19 due to the B.1.617.2 (Delta) variant compared to B.1.1.7 (Alpha) variant of SARS-CoV-2: a prospective observational cohort study'. Scientific Reports, 12 (1) [DOI] [Details]
	(2021)	'Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity' Volz, E. and Hill, V. and McCrone, J.T. and Price, A. and Jorgensen, D. and O'Toole, Ã. and Southgate, J. and Johnson, R. and Jackson, B. and Nascimento, F.F. and Rey, S.M. and Nicholls, S.M. and Colquhoun, R.M. and da Silva Filipe, A. and Shepherd, J. and Pascall, D.J. and Shah, R. and Jesudason, N. and Li, K. and Jarrett, R. and Pacchiarini, N. and Bull, M. and Geidelberg, L. and Siveroni, I. and Koshy, C. and Wise, E. and Cortes, N. and Lynch, J. and Kidd, S. and Mori, M. and Fairley, D.J. and Curran, T. and McKenna, J.P. and Adams, H. and Fraser, C. and Golubchik, T. and Bonsall, D. and Moore, C. and Caddy, S.L. and Khokhar, F.A. and Wantoch, M. and Reynolds, N. and Warne, B. and Maksimovic, J. and Spellman, K. and McCluggage, K. and John, M. and Beer, R. and Afifi, S. and Morgan, S. (2021) 'Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity'. Cell, 184 (1):64-75.e11 [DOI] [Details]
	(2021)	'gbpA and chiA genes are not uniformly distributed amongst diverse Vibrio cholerae' Fennell, T.G. and Blackwell, G.A. and Thomson, N.R. and Dorman, M.J. (2021) 'gbpA and chiA genes are not uniformly distributed amongst diverse Vibrio cholerae'. Microbial Genomics, 7 (6) [DOI] [Details]
	(2021)	'Characterisation of Bacteriophage-Encoded Depolymerases Selective for Key Klebsiella pneumoniae Capsular Exopolysaccharides' Blundell-Hunter, G. and Enright, M.C. and Negus, D. and Dorman, M.J. and Beecham, G.E. and Pickard, D.J. and Wintachai, P. and Voravuthikunchai, S.P. and Thomson, N.R. and Taylor, P.W. (2021) 'Characterisation of Bacteriophage-Encoded Depolymerases Selective for Key Klebsiella pneumoniae Capsular Exopolysaccharides'. Frontiers in Cellular and Infection Microbiology, 11 [DOI] [Details]
	(2021)	'Getting ahead of the competition' Kane, L. and Dorman, M.J. (2021) 'Getting ahead of the competition'. Nature Reviews Microbiology, 19 (9) [DOI] [Details]
	(2021)	'Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England' Volz, E. and Mishra, S. and Chand, M. and Barrett, J.C. and Johnson, R. and Geidelberg, L. and Hinsley, W.R. and Laydon, D.J. and Dabrera, G. and Oâ€™Toole, Ã. and Amato, R. and Ragonnet-Cronin, M. and Harrison, I. and Jackson, B. and Ariani, C.V. and Boyd, O. and Loman, N.J. and McCrone, J.T. and GonÃ§alves, S. and Jorgensen, D. and Myers, R. and Hill, V. and Jackson, D.K. and Gaythorpe, K. and Groves, N. and Sillitoe, J. and Kwiatkowski, D.P. and Koshy, C. and Ash, A. and Wise, E. and Moore, N. and Mori, M. and Cortes, N. and Lynch, J. and Kidd, S. and Fairley, D.J. and Curran, T. and McKenna, J.P. and Adams, H. and Fraser, C. and Golubchik, T. and Bonsall, D. and Hassan-Ibrahim, M.O. and Malone, C.S. and Cogger, B.J. and Wantoch, M. and Reynolds, N. and Warne, B. and Maksimovic, J. and (2021) 'Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England'. Nature, 593 (7858):266-269 [DOI] [Details]
	(2021)	'The impact of viral mutations on recognition by SARS-CoV-2 specific T cells' de Silva, T.I. and Liu, G. and Lindsey, B.B. and Dong, D. and Moore, S.C. and Hsu, N.S. and Shah, D. and Wellington, D. and Mentzer, A.J. and Angyal, A. and Brown, R. and Parker, M.D. and Ying, Z. and Yao, X. and Turtle, L. and Dunachie, S. and Aanensen, D.M. and Abudahab, K. and Adams, H. and Adams, A. and Afifi, S. and Aggarwal, D. and Ahmad, S.S.Y. and Aigrain, L. and Alcolea-Medina, A. and Alikhan, N.-F. and Allara, E. and Amato, R. and Annett, T. and Aplin, S. and Ariani, C.V. and Asad, H. and Ash, A. and Ashfield, P. and Ashford, F. and Atkinson, L. and Attwood, S.W. and Auckland, C. and Aydin, A. and Baker, D.J. and Baker, P. and Balcazar, C.E. and Ball, J. and Barrett, J.C. and Barrow, M. and Barton, E. and Bashton, M. and Bassett, A.R. and Batra, R. and Baxter, C. and Bayzid, N. a (2021) 'The impact of viral mutations on recognition by SARS-CoV-2 specific T cells'. iScience, 24 (11) [DOI] [Details]
	(2021)	'Genomic reconstruction of the SARS-CoV-2 epidemic in England' VÃ¶hringer, H.S. and Sanderson, T. and Sinnott, M. and De Maio, N. and Nguyen, T. and Goater, R. and Schwach, F. and Harrison, I. and Hellewell, J. and Ariani, C.V. and GonÃ§alves, S. and Jackson, D.K. and Johnston, I. and Jung, A.W. and Saint, C. and Sillitoe, J. and Suciu, M. and Goldman, N. and Panovska-Griffiths, J. and Abnizova, I. and Aigrain, L. and Alderton, A. and Ali, M. and Allen, L. and Amato, R. and Anderson, R. and Ariani, C. and Austin-Guest, S. and Bala, S. and Barrett, J. and Bassett, A. and Battleday, K. and Beal, J. and Beale, M. and Beaver, C. and Bellany, S. and Bellerby, T. and Bellis, K. and Berger, D. and Berriman, M. and Betteridge, E. and Bevan, P. and Binley, S. and Bishop, J. and Blackburn, K. and Bonfield, J. and Boughton, N. and Bowker, S. and Brendler-Spaeth, (2021) 'Genomic reconstruction of the SARS-CoV-2 epidemic in England'. Nature, 600 (7889):506-511 [DOI] [Details]
	(2021)	'Genomic contextualisation of ancient DNA molecular data from an Argentinian fifth pandemic Vibrio cholerae infection' Dorman, M.J. and Thomson, N.R. and Campos, J. (2021) 'Genomic contextualisation of ancient DNA molecular data from an Argentinian fifth pandemic Vibrio cholerae infection'. Microbial Genomics, 7 (6) [DOI] [Details]
	(2021)	'Sensitivity of SARS-CoV-2 B.1.1.7 to mRNA vaccine-elicited antibodies' Collier, D.A. and De Marco, A. and Ferreira, I.A.T.M. and Meng, B. and Datir, R.P. and Walls, A.C. and Kemp, S.A. and Bassi, J. and Pinto, D. and Silacci-Fregni, C. and Bianchi, S. and Tortorici, M.A. and Bowen, J. and Culap, K. and Jaconi, S. and Cameroni, E. and Snell, G. and Pizzuto, M.S. and Pellanda, A.F. and Garzoni, C. and Riva, A. and Baker, S. and Dougan, G. and Hess, C. and Kingston, N. and Lehner, P.J. and Lyons, P.A. and Matheson, N.J. and Owehand, W.H. and Saunders, C. and Summers, C. and Thaventhiran, J.E.D. and Toshner, M. and Weekes, M.P. and Bucke, A. and Calder, J. and Canna, L. and Domingo, J. and Elmer, A. and Fuller, S. and Harris, J. and Hewitt, S. and Kennet, J. and Jose, S. and Kourampa, J. and Meadows, A. and Oâ€™Brien, C. and Price, J. and Publico, C. and Rastall, (2021) 'Sensitivity of SARS-CoV-2 B.1.1.7 to mRNA vaccine-elicited antibodies'. Nature, 593 (7857):136-141 [DOI] [Details]
	(2021)	'SARS-CoV-2 evolution during treatment of chronic infection' Kemp, S.A. and Collier, D.A. and Datir, R.P. and Ferreira, I.A.T.M. and Gayed, S. and Jahun, A. and Hosmillo, M. and Rees-Spear, C. and Mlcochova, P. and Lumb, I.U. and Roberts, D.J. and Chandra, A. and Temperton, N. and Baker, S. and Dougan, G. and Hess, C. and Kingston, N. and Lehner, P.J. and Lyons, P.A. and Matheson, N.J. and Owehand, W.H. and Saunders, C. and Summers, C. and Thaventhiran, J.E.D. and Toshner, M. and Weekes, M.P. and Bucke, A. and Calder, J. and Canna, L. and Domingo, J. and Elmer, A. and Fuller, S. and Harris, J. and Hewitt, S. and Kennet, J. and Jose, S. and Kourampa, J. and Meadows, A. and Oâ€™Brien, C. and Price, J. and Publico, C. and Rastall, R. and Ribeiro, C. and Rowlands, J. and Ruffolo, V. and Tordesillas, H. and Bullman, B. and Dunmore, B.J. and Fawke, S. and (2021) 'SARS-CoV-2 evolution during treatment of chronic infection'. Nature, 592 (7853):277-282 [DOI] [Details]
	(2021)	'Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7' Meng, B. and Kemp, S.A. and Papa, G. and Datir, R. and Ferreira, I.A.T.M. and Marelli, S. and Harvey, W.T. and Lytras, S. and Mohamed, A. and Gallo, G. and Thakur, N. and Collier, D.A. and Mlcochova, P. and Robson, S.C. and Loman, N.J. and Connor, T.R. and Golubchik, T. and Martinez Nunez, R.T. and Ludden, C. and Corden, S. and Johnston, I. and Bonsall, D. and Smith, C.P. and Awan, A.R. and Bucca, G. and Torok, M.E. and Saeed, K. and Prieto, J.A. and Jackson, D.K. and Hamilton, W.L. and Snell, L.B. and Moore, C. and Harrison, E.M. and Goncalves, S. and Fairley, D.J. and Loose, M.W. and Watkins, J. and Livett, R. and Moses, S. and Amato, R. and Nicholls, S. and Bull, M. and Smith, D.L. and Barrett, J. and Aanensen, D.M. and Curran, M.D. and Parmar, S. and Aggarwal, D. and Shepherd, J.G. and (2021) 'Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7'. Cell Reports, 35 (13) [DOI] [Details]
	(2020)	'Type II and type IV toxinâ€“antitoxin systems show different evolutionary patterns in the global Klebsiella pneumoniae population' Horesh, G. and Fino, C. and Harms, A. and Dorman, M.J. and Parts, L. and Gerdes, K. and Heinz, E. and Thomson, N.R. (2020) 'Type II and type IV toxinâ€“antitoxin systems show different evolutionary patterns in the global Klebsiella pneumoniae population'. Nucleic Acids Research, 48 (8):4357-4370 [DOI] [Details]
	(2020)	'Genomics of the Argentinian cholera epidemic elucidate the contrasting dynamics of epidemic and endemic Vibrio cholerae' Dorman, M.J. and Domman, D. and Poklepovich, T. and Tolley, C. and Zolezzi, G. and Kane, L. and ViÃ±as, M.R. and PanagÃ³pulo, M. and Moroni, M. and Binsztein, N. and Caffer, M.I. and Clare, S. and Dougan, G. and Salmond, G.P.C. and Parkhill, J. and Campos, J. and Thomson, N.R. (2020) 'Genomics of the Argentinian cholera epidemic elucidate the contrasting dynamics of epidemic and endemic Vibrio cholerae'. Nature Communications, 11 (1) [DOI] [Details]
	(2020)	'â€˜Community evolutionâ€™ â€“ laboratory strains and pedigrees in the age of genomics' Dorman, M.J. and Thomson, N.R. (2020) 'â€˜Community evolutionâ€™ â€“ laboratory strains and pedigrees in the age of genomics'. Microbiology (United Kingdom), 166 (3):233-238 [DOI] [Details]
	(2019)	'High quality reference genomes for toxigenic and non-toxigenic Vibrio cholerae serogroup O139' Dorman, M.J. and Domman, D. and Uddin, M.I. and Sharmin, S. and Afrad, M.H. and Begum, Y.A. and Qadri, F. and Thomson, N.R. (2019) 'High quality reference genomes for toxigenic and non-toxigenic Vibrio cholerae serogroup O139'. Scientific Reports, 9 (1) [DOI] [Details]
	(2019)	'Contrasting patterns of longitudinal population dynamics and antimicrobial resistance mechanisms in two priority bacterial pathogens over 7 years in a single center' Ellington, M.J. and Heinz, E. and Wailan, A.M. and Dorman, M.J. and De Goffau, M. and Cain, A.K. and Henson, S.P. and Gleadall, N. and Boinett, C.J. and Dougan, G. and Brown, N.M. and Woodford, N. and Parkhill, J. and TÃ¶rÃ¶k, M.E. and Peacock, S.J. and Thomson, N.R. (2019) 'Contrasting patterns of longitudinal population dynamics and antimicrobial resistance mechanisms in two priority bacterial pathogens over 7 years in a single center'. Genome Biology, 20 (1) [DOI] [Details]
	(2019)	'Loss of RNA chaperone Hfq unveils a toxic pathway in Pseudomonas aeruginosa' Hill, I.T. and Tallo, T. and Dorman, M.J. and Dove, S.L. (2019) 'Loss of RNA chaperone Hfq unveils a toxic pathway in Pseudomonas aeruginosa'. Journal of Bacteriology, 201 (20) [DOI] [Details]
	(2019)	'Separating bacteria by capsule amount using a discontinuous density gradient' Feltwell, T. and Dorman, M.J. and Goulding, D.A. and Parkhill, J. and Short, F.L. (2019) 'Separating bacteria by capsule amount using a discontinuous density gradient'. Journal of Visualized Experiments, 2019 (143) [DOI] [Details]
	(2019)	'The history, genome and biology of NCTC 30: A non-pandemic Vibrio cholerae isolate from World War One' Dorman, M.J. and Kane, L. and Domman, D. and Turnbull, J.D. and Cormie, C. and Fazal, M.-A. and Goulding, D.A. and Russell, J.E. and Alexander, S. and Thomson, N.R. (2019) 'The history, genome and biology of NCTC 30: A non-pandemic Vibrio cholerae isolate from World War One'. Proceedings of the Royal Society B: Biological Sciences, 286 (1900) [DOI] [Details]
	(2018)	'The capsule regulatory network of klebsiella pneumoniae defined by density-traDISort' Dorman, M.J. and Feltwell, T. and Goulding, D.A. and Parkhill, J. and Short, F.L. (2018) 'The capsule regulatory network of klebsiella pneumoniae defined by density-traDISort'. mBio, 9 (6) [DOI] [Details]
	(2018)	'Regulatory hierarchies controlling virulence gene expression in shigella flexneriand vibrio cholera' Dorman, M.J. and Dorman, C.J. (2018) 'Regulatory hierarchies controlling virulence gene expression in shigella flexneriand vibrio cholera'. Frontiers in Microbiology, 9 (NOV) [DOI] [Details]
	(2018)	'Defining endemic cholera at three levels of spatiotemporal resolution within Bangladesh' Domman, D. and Chowdhury, F. and Khan, A.I. and Dorman, M.J. and Mutreja, A. and Uddin, M.I. and Paul, A. and Begum, Y.A. and Charles, R.C. and Calderwood, S.B. and Bhuiyan, T.R. and Harris, J.B. and Larocque, R.C. and Ryan, E.T. and Qadri, F. and Thomson, N.R. (2018) 'Defining endemic cholera at three levels of spatiotemporal resolution within Bangladesh'. Nature Genetics, 50 (7):951-955 [DOI] [Details]
	(2017)	'Integrated view of Vibrio cholerae in the Americas' Domman, D. and Quilici, M.-L. and Dorman, M.J. and Njamkepo, E. and Mutreja, A. and Mather, A.E. and Delgado, G. and Morales-Espinosa, R. and Grimont, P.A.D. and LizÃ¡rraga-Partida, M.L. and Bouchier, C. and Aanensen, D.M. and Kuri-Morales, P. and Tarr, C.L. and Dougan, G. and Parkhill, J. and Campos, J. and Cravioto, A. and Weill, F.-X. and Thomson, N.R. (2017) 'Integrated view of Vibrio cholerae in the Americas'. Science, 358 (6364):789-793 [DOI] [Details]
	(2017)	'Control of virulence gene transcription by indirect readout in Vibrio cholerae and Salmonella enterica serovar Typhimurium' Dorman, C.J. and Dorman, M.J. (2017) 'Control of virulence gene transcription by indirect readout in Vibrio cholerae and Salmonella enterica serovar Typhimurium'. Environmental Microbiology, 19 (10):3834-3845 [DOI] [Details]
	(2017)	'Genome watch: Klebsiella pneumoniae: When a colonizer turns bad' Dorman, M.J. and Short, F.L. (2017) 'Genome watch: Klebsiella pneumoniae: When a colonizer turns bad'. Nature Reviews Microbiology, 15 (7) [DOI] [Details]
	(2016)	'DNA supercoiling is a fundamental regulatory principle in the control of bacterial gene expression' Dorman, C.J. and Dorman, M.J. (2016) 'DNA supercoiling is a fundamental regulatory principle in the control of bacterial gene expression'. Biophysical Reviews, 8 :89-100 [DOI] [Details]
	(2016)	'Bacterial pathogen gene regulation: A DNA-structure-centred view of a protein-dominated domain' Dorman, C.J. and Colgan, A. and Dorman, M.J. (2016) 'Bacterial pathogen gene regulation: A DNA-structure-centred view of a protein-dominated domain'. Clinical Science, 130 (14):1165-1177 [DOI] [Details]
	(2016)	'DNA supercoiling is a fundamental regulatory principle in the control of bacterial gene expression' Dorman, C.J. and Dorman, M.J. (2016) 'DNA supercoiling is a fundamental regulatory principle in the control of bacterial gene expression'. Biophysical Reviews, 8 (3):209-220 [DOI] [Details]

Education

	Year	Institution	Qualification	Subject
	2020	University of Cambridge, Churchill College	PhD	Exploring the genomic and phenotypic diversity of the Vibrio cholerae species
	2016	University of Dublin, Trinity College	BA (mod)	Science (mod.: Genetics)

Employment

Employer	Position	From / To
University of Galway	Lecturer Above the Bar in Clinical Bioinformatics	02-OCT-23 /
Churchill College, University of Cambridge	Dean (head of student discipline)	01-OCT-22 / 30-SEP-23
Churchill College, University of Cambridge	College Lecturer and Official Fellow (Title A)	02-DEC-21 / 30-SEP-23
Wellcome Sanger Institute	Staff Scientist	02-DEC-21 / 29-SEP-23
Churchill College, University of Cambridge	Junior Research Fellow (Title B)	01-OCT-20 / 01-DEC-21
Wellcome Sanger Institute	Research Associate (part-time)	01-OCT-20 / 01-DEC-21
Wellcome Sanger Institute	PhD Student (stipendiary)	01-OCT-16 / 30-SEP-20
Boston Children's Hospital	Summer Intern (Infectious Diseases)	20-JUN-16 / 12-AUG-16

Professional Associations

Association	Function	From / To
Microbiology Society	Member	/
Royal Society of Biology	Member	/
American Society for Microbiology	Member	/

Committees

	Committee	Function	From / To
	Prokaryotic Division, Microbiology Society	Division Member	01-JAN-22 / 31-DEC-24

Community Engagement

Title	Type	From / To
Teaching (e.g. Service learning / comunity based learning)	Instructor; Genomics & Epidemiological Surveillance of Bacterial Pathogens - Latin America and the Caribbean. University of Costa Rica / Wellcome Connecting Science	21-JUL-24 / 27-JUL-24
Teaching (e.g. Service learning / comunity based learning)	Guest Lecturer; Undergraduate Certificate in Infectious Diseases, Institute of Continuing Education, University of Cambridge	24-FEB-24 / 24-FEB-24
Outreach	Invited external seminar speaker, University of Galway Microbiology Society	21-FEB-24 / 21-FEB-24

Reviews

	Journal	Role
	Proceedings Of The National Academy Of Sciences Usa	Reviewer
	Plos Pathogens	Reviewer
	Microbial Genomics	Reviewer

Modules Taught

Term/Year	Module Title	Module Code
2024/2025	Pathogen Genomic Epidemiology and Surveillance	MA5122
2024/2025	Genomics Research Methods	MA5117
2024/2025	Medical Genomics I	MA5106
2023/2024	Genomics Research Methods	MA5117
2023/2024	Medical Genomics I	MA5106