Prof Matthew Holden

Professor

Researcher profile

Phone

+44 (0)1334 463504

Email

mtgh@st-andrews.ac.uk

Research areas

Since the first bacterial genome was sequenced in 1995, whole genome sequencing (WGS) has provided unprecedented insights into the genetics and evolution of microbial pathogens. Having worked at the Sanger Institute 13 years on a broad range of bacterial genomes, I recently moved to the School of Medicine establishing a pathogenomics group. Research in my group is directed at two main areas: translational genomics, the application of WGS in clinical microbiology; and experimental genomics, using data WGS to investigate the relationship between pathogens? genotypes and phenotypes.

The research areas that the group are focused on include: developing rapid WGS to combat hospital-associated infections, the molecular basis of antibiotic resistance and virulence, and epidemiology and evolution of methicillin resistant S. aureus (MRSA).

PhD supervision

• Martin McHugh
• Rebecca Mekler
• Daniel Guerendiain Regalado
• Joanna Rivas

Selected publications

• A highly conserved complete accessory Escherichia coli type III secretion system 2 is widespread in bloodstream isolates of the ST69 lineage

  Fox, S., Goswami, C., Holden, M., Connolly, J. P. R., Mordue, J., O?Boyle, N., Roe, A., Connor, M., Leanord, A. & Evans, T. J., 5 Mar 2020, In : Scientific Reports. 10, 11 p., 4135.

  Research output: Contribution to journal ? Article

• Draft genome sequences of the type strains of Actinobacillus indolicus (46K2C) and Actinobacillus porcinus (NM319), two NAD-dependent bacterial species found in the respiratory tract of pigs

  Bossé, J. T., Li, Y., Fernandez Crespo, R., Angen, Ø., Holden, M. T. G., Weinert, L. A., Maskell, D. J., Tucker, A. W., Wren, B. W., Rycroft, A. N., Langford, P. R. & BRaDP1T Consortium, 2 Jan 2020, In : Microbiology Resource Announcements. 9, 3 p., e00716-19.

  Research output: Contribution to journal ? Article

• Integrating whole-genome sequencing within the National Antimicrobial Resistance Surveillance Program in the Philippines

  Argimón, S., Masim, M. A. L., Gayeta, J. M., Lagrada, M. L., Macaranas, P. K. V., Cohen, V., Limas, M. T., Espiritu, H. O., Palarca, J. C., Chilam, J., Jamoralin, M. C., Villamin, A. S., Borlasa, J. B., Olorosa, A. M., Hernandez, L. F. T., Boehme, K. D., Jeffrey, B., Abudahab, K., Hufano, C. M., Sia, S. B., Stelling, J., Holden, M. T. G., Aanensen, D. M. & Carlos, C. C., 1 Jun 2020, In : Nature Communications. 11, 15 p., 2719.

  Research output: Contribution to journal ? Article

• Origin, maintenance and spread of antibiotic resistance genes within plasmids and chromosomes of bloodstream isolates of Escherichia coli

  Goswami, C., Fox, S., Holden, M. T. G., Connor, M., Leanord, A. & Evans, T. J., Apr 2020, In : Microbial Genomics. 6, 4, 17 p., 000353.

  Research output: Contribution to journal ? Article

• Antimicrobial resistance in atopic dermatitis: need for an urgent rethink

  Harkins, C. P., Holden, M. T. G. & Irvine, A. D., Mar 2019, In : Annals of Allergy Asthma & Immunology. 122, 3, p. 236-240 5 p.

  Research output: Contribution to journal ? Article

• Atlas of group A streptococcal vaccine candidates compiled using large-scale comparative genomics

  Davies, M. R., McIntyre, L., Mutreja, A., Lacey, J. A., Lees, J. A., Towers, R. J., Duchêne, S., Smeesters, P. R., Frost, H. R., Price, D. J., Holden, M. T. G., David, S., Giffard, P. M., Worthing, K. A., Seale, A. C., Berkley, J. A., Harris, S. R., Rivera-Hernandez, T., Berking, O., Cork, A. J., Torres, R. S. L. A., Lithgow, T., Strugnell, R. A., Bergmann, R., Nitsche-Schmitz, P., Chhatwal, G. S., Bentley, S. D., Fraser, J. D., Moreland, N. J., Carapetis, J. R., Steer, A. C., Parkhill, J., Saul, A., Williamson, D. A., Currie, B. J., Tong, S. Y. C., Dougan, G. & Walker, M. J., Jun 2019, In : Nature Genetics. 51, 6, p. 1035-1043

  Research output: Contribution to journal ? Article

• Chlorhexidine and octenidine use, qac genes carriage, and reduced antiseptic susceptibility in methicillin-resistant Staphylococcus aureus isolates from a healthcare network

  Htun, H. L., Hon, P. Y., Holden, M. T. G., Ang, B. & Chow, A., Sep 2019, In : Clinical Microbiology and Infection. 25, 9, p. 1154.e1-1154.e7

  Research output: Contribution to journal ? Article

• Evolution and global transmission of a multidrug-resistant, community-associated methicillin-resistant Staphylococcus aureus lineage from the Indian subcontinent

  Steinig, E. J., Duchene, S., Robinson, D. A., Monecke, S., Yokoyama, M., Laabei, M., Slickers, P., Andersson, P., Williamson, D., Kearns, A., Goering, R. V., Dickson, E., Ehricht, R., Ip, M., O'Sullivan, M. V. N., Coombs, G. W., Petersen, A., Brennan, G., Shore, A. C., Coleman, D. C., Pantosti, A., de Lencastre, H., Westh, H., Kobayashi, N., Heffernan, H., Strommenger, B., Layer, F., Weber, S., Aamot, H. V., Skakni, L., Peacock, S. J., Sarovich, D., Harris, S., Parkhill, J., Massey, R. C., Holden, M. T. G., Bentley, S. D. & Tong, S. Y. C., 26 Nov 2019, In : mBio. 10, 6, p. 1-20 20 p., e01105.

  Research output: Contribution to journal ? Article

• Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei

  Chewapreecha, C., Mather, A. E., Harris, S. R., Hunt, M., Holden, M. T. G., Chaichana, C., Wuthiekanun, V., Dougan, G., Day, N. P. J., Limmathurotsakul, D., Parkhill, J. & Peacock, S. J., 22 Nov 2019, In : Communications Biology. 2, 11 p., 428.

  Research output: Contribution to journal ? Article

• Genomic identification of cryptic susceptibility to penicillins and ?-lactamase inhibitors in methicillin-resistant Staphylococcus aureus

  Harrison, E. M., Ba, X., Coll, F., Blane, B., Restif, O., Carvell, H., Köser, C. U., Jamrozy, D., Reuter, S., Lovering, A., Gleadall, N., Bellis, K. L., Uhlemann, A. C., Lowy, F. D., Massey, R. C., Grilo, I. R., Sobral, R., Larsen, J., Rhod Larsen, A., Vingsbo Lundberg, C., Parkhill, J., Paterson, G. K., Holden, M. T. G., Peacock, S. J. & Holmes, M. A., Oct 2019, In : Nature Microbiology. 4, 10, p. 1680-1691 15 p.

  Research output: Contribution to journal ? Article

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