Overview
Background
Brian Forde is a fellow in microbial bioinformatics and Advance Queensland Industry Research Fellow at the University of Queensland (UQ) Centre for Clinical Research (CCR). Brian was awarded a PhD from University College Cork, Ireland, in 2013 and developed his interest in bacterial genomics as a postdoctoral fellow at the UQ School of Chemistry and Molecular Biosciences (SCMB). Currently, his work is primarily focused on clinical microbial genomics, including: the evolution of antibiotic resistance, genomic epidemiology, genomic surveillance of Infectious Diseases and translating genomic research into clinical practice. Since 2017 he has been part of a multidisciplinary team, including researchers, infectious diseases clinicians and infection control professionals, leading the introduction of WGS to investigate hospital-acquired infection in Queensland (https://www.queenslandgenomics.org). In 2020, Brian was awarded Advance Queensland Industry Research Fellowship to explore the application of Artificial Intelligence to genomic surveillance and transmission dynamics.
Availability
- Dr Brian Forde is:
- Available for supervision
Qualifications
- Bachelor (Honours) of Science (Advanced), University College Cork
- Doctor of Philosophy, National University of Ireland
Research impacts
Since 2010 Brian has co-authored 52 journal articles, with 13 as first, co-first or senior author. His has been cited 1430 times, resulting in a h-index of 19 and an i10-index of 25 (Google Scholar 28/10/2020). Brians work is regularly published in leading specialist microbiology or infectious disease journals including MBio, AAC and JAC and have also featured in high impact journals such as Nat Comm, Nat Micro, PNAS, CID and CMR. Recent work include a longitudinal study describing a unique comprehensive genomic analysis of a clonal lineage within a single individual over a 5-year period (Forde et al. Nat Comm, 2019). This work provided the framework for the utilization of genomics to help manage and treat patients suffering from debilitating chronic infections.
As part of Queensland Genomics Brian has led and assisted in projects that apply genomics to characterise and resolve infectious outbreaks in clinical settings (Chapman & Forde et al. JCM, 2020; Roberts et al. Nat Comm, 2020; Roberts et al. bioRxiv, 2018). In his current role as lead Bioinformatician for the Queensland Genomics (QG) infectious diseases (ID) project, Brian has developed pipelines for surveillance of priority bacterial pathogens. These tools, which included the development of an outbreak detection and visualisation tool, CATHAI (https:cathai.beatsonlab.com), are used by infection control professional in large Brisbane metropolitan hospitals.
Works
Search Professor Brian Forde’s works on UQ eSpace
2024
Journal Article
TcrXY is an acid-sensing two-component transcriptional regulator of Mycobacterium tuberculosis required for persistent infection
Stupar, Miljan, Tan, Lendl, Kerr, Edward D., De Voss, Christopher J., Forde, Brian M., Schulz, Benjamin L. and West, Nicholas P. (2024). TcrXY is an acid-sensing two-component transcriptional regulator of Mycobacterium tuberculosis required for persistent infection. Nature Communications, 15 (1) 1615, 1-14. doi: 10.1038/s41467-024-45343-7
2024
Journal Article
HAIviz: an interactive dashboard for visualising and integrating healthcare-associated genomic epidemiological data
Permana, Budi, Harris, Patrick N. A., Roberts, Leah W., Cuddihy, Thom, Paterson, David L., Beatson, Scott A. and Forde, Brian M. (2024). HAIviz: an interactive dashboard for visualising and integrating healthcare-associated genomic epidemiological data. Microbial Genomics, 10 (2) 001200. doi: 10.1099/mgen.0.001200
2024
Journal Article
Genomic epidemiology reveals geographical clustering of multidrug-resistant Escherichia coli ST131 associated with bacteraemia in Wales
White, Rhys T., Bull, Matthew J., Barker, Clare R., Arnott, Julie M., Wootton, Mandy, Jones, Lim S., Howe, Robin A., Morgan, Mari, Ashcroft, Melinda M., Forde, Brian M., Connor, Thomas R. and Beatson, Scott A. (2024). Genomic epidemiology reveals geographical clustering of multidrug-resistant Escherichia coli ST131 associated with bacteraemia in Wales. Nature Communications, 15 (1) 1371, 1-10. doi: 10.1038/s41467-024-45608-1
2024
Journal Article
Differences in antimicrobial resistance gene abundance and microbial diversity of the gut microbiome in patients on antibiotics enrolled in a clinical trial
Stewart, Adam G., Harris, Patrick N.A., Graham, Rikki M.A., Jennison, Amy V., Schlebusch, Sanmarie, Harris-Brown, Tiffany, Paterson, David L. and Forde, Brian M. (2024). Differences in antimicrobial resistance gene abundance and microbial diversity of the gut microbiome in patients on antibiotics enrolled in a clinical trial. Pathology, 56, S36-S37. doi: 10.1016/j.pathol.2023.12.137
2024
Conference Publication
The molecular epidemiology of Burkholderia pseudomallei in North Queensland
Gassiep, Ian, Burnard, Delaney, Permana, Budi, Bauer, Michelle J., Cuddihy, Thom, Forde, Brian M., Chatfield, Mark D., Ling, Weiping, Mayer-Coverdale, Johanna, Norton, Robert and Harris, Patrick N.A. (2024). The molecular epidemiology of Burkholderia pseudomallei in North Queensland. Pathology Update 2024, Adelaide, VIC, Australia, 1 - 3 March 2024. Oxford, United Kingdom: Elsevier. doi: 10.1016/j.pathol.2023.12.133
2024
Journal Article
Rapid nanopore sequencing and predictive susceptibility testing of positive blood cultures from intensive care patients with sepsis
Harris, Patrick N. A., Bauer, Michelle J., Lüftinger, Lukas, Beisken, Stephan, Forde, Brian M., Balch, Ross, Cotta, Menino, Schlapbach, Luregn, Raman, Sainath, Shekar, Kiran, Kruger, Peter, Lipman, Jeff, Bialasiewicz, Seweryn, Coin, Lachlan, Roberts, Jason A., Paterson, David L. and Irwin, Adam D. (2024). Rapid nanopore sequencing and predictive susceptibility testing of positive blood cultures from intensive care patients with sepsis. Microbiology Spectrum, 12 (2) e0306523, 1-16. doi: 10.1128/spectrum.03065-23
2024
Book Chapter
Microbiome-based approaches to food allergy treatment
Yao, Lu, Forde, Brian, Lunjani, Nonhlanhla, Cronin, Caoimhe and O'Mahony, Liam (2024). Microbiome-based approaches to food allergy treatment. Encyclopedia of Food Allergy. (pp. 610-623) Amsterdam, Netherlands: Elsevier. doi: 10.1016/b978-0-323-96018-2.00109-7
2023
Journal Article
Melioidosis Queensland: an analysis of clinical outcomes and genomic factors
Gassiep, Ian, Burnard, Delaney, Permana, Budi, Bauer, Michelle J., Cuddihy, Thom, Forde, Brian M., Chatfield, Mark D., Ling, Weiping, Norton, Robert and Harris, Patrick N. A. (2023). Melioidosis Queensland: an analysis of clinical outcomes and genomic factors. PLoS Neglected Tropical Diseases, 17 (10) e0011697, 1-13. doi: 10.1371/journal.pntd.0011697
2023
Journal Article
Higher rates of cefiderocol resistance among NDM producing Klebsiella bloodstream isolates applying EUCAST over CLSI breakpoints
Isler, Burcu, Vatansever, Cansel, Özer, Berna, Çınar, Güle, Aslan, Abdullah Tarık, Falconer, Caitlin, Bauer, Michelle J., Forde, Brian, Şimşek, Funda, Tülek, Necla, Demirkaya, Hamiyet, Menekşe, Şirin, Akalin, Halis, Balkan, İlker İnanç, Aydın, Mehtap, Tigen, Elif Tükenmez, Demir, Safiye Koçulu, Kapmaz, Mahir, Keske, Şiran, Doğan, Özlem, Arabacı, Çiğdem, Yağcı, Serap, Hazırolan, Gülşen, Bakır, Veli Oğuzalp, Gönen, Mehmet, Saltoğlu, Neşe, Azap, Alpay, Azap, Özlem, Akova, Murat ... Harris, Patrick N. A. (2023). Higher rates of cefiderocol resistance among NDM producing Klebsiella bloodstream isolates applying EUCAST over CLSI breakpoints. Infectious Diseases, 55 (9), 607-613. doi: 10.1080/23744235.2023.2226709
2023
Journal Article
GraphSNP: an interactive distance viewer for investigating outbreaks and transmission networks using a graph approach
Permana, Budi, Beatson, Scott A. and Forde, Brian M. (2023). GraphSNP: an interactive distance viewer for investigating outbreaks and transmission networks using a graph approach. BMC Bioinformatics, 24 (1) 209, 1-9. doi: 10.1186/s12859-023-05332-x
2023
Journal Article
Using genomics to investigate an outbreak of vancomycin-resistant Enterococcus faecium ST78 at a large tertiary hospital in Queensland
Permana, Budi, Harris, Patrick N. A., Runnegar, Naomi, Lindsay, Margaret, Henderson, Belinda C., Playford, E. G., Paterson, David L., Beatson, Scott A. and Forde, Brian M. (2023). Using genomics to investigate an outbreak of vancomycin-resistant Enterococcus faecium ST78 at a large tertiary hospital in Queensland. Microbiology Spectrum, 11 (3) e0420422, 1-10. doi: 10.1128/spectrum.04204-22
2023
Journal Article
Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria
Mu, Andre, Klare, William P., Baines, Sarah L., Ignatius Pang, C. N., Guérillot, Romain, Harbison-Price, Nichaela, Keller, Nadia, Wilksch, Jonathan, Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Keller, Bernhard, Nijagal, Brunda, Tull, Dedreia, Dayalan, Saravanan, Chua, Hwa Huat Charlie, Skoneczny, Dominik, Koval, Jason, Hachani, Abderrahman, Shah, Anup D., Neha, Nitika, Jadhav, Snehal, Partridge, Sally R., Cork, Amanda J., Peters, Kate, Bertolla, Olivia, Brouwer, Stephan, Hancock, Steven J., Álvarez-Fraga, Laura, De Oliveira, David M. P. ... Walker, Mark J. (2023). Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria. Nature Communications, 14 (1) 1530, 1-21. doi: 10.1038/s41467-023-37200-w
2023
Journal Article
Treatment Failure Due to Adaptive Resistance Mechanisms in a Severe and Complicated Bloodstream Infection Due to
Stewart, Adam G., Roberts, Jason A., Forde, Brian M., Bergh, Haakon, Kidd, Timothy J., Wright, Hugh and Harris, Patrick N. A. (2023). Treatment Failure Due to Adaptive Resistance Mechanisms in a Severe and Complicated Bloodstream Infection Due to . Microbial Drug Resistance, 29 (4), 145-149. doi: 10.1089/mdr.2022.0179
2022
Journal Article
High prevalence of ArmA-16S rRNA methyltransferase among aminoglycoside-resistant Klebsiella pneumoniae bloodstream isolates
Isler, Burcu, Falconer, Caitlin, Vatansever, Cansel, Özer, Berna, Çınar, Güle, Aslan, Abdullah Tarık, Forde, Brian, Harris, Patrick, Şimşek, Funda, Tülek, Necla, Demirkaya, Hamiyet, Menekşe, Şirin, Akalin, Halis, Balkan, İlker İnanç, Aydın, Mehtap, Tigen, Elif Tükenmez, Demir, Safiye Koçulu, Kapmaz, Mahir, Keske, Şiran, Doğan, Özlem, Arabacı, Çiğdem, Yağcı, Serap, Hazırolan, Gülşen, Bakır, Veli Oğuzalp, Gönen, Mehmet, Saltoğlu, Neşe, Azap, Alpay, Azap, Özlem, Akova, Murat ... Paterson, David L. (2022). High prevalence of ArmA-16S rRNA methyltransferase among aminoglycoside-resistant Klebsiella pneumoniae bloodstream isolates. Journal of Medical Microbiology, 71 (12) 001629, 1-8. doi: 10.1099/jmm.0.001629
2022
Conference Publication
Demographic, clinical and molecular epidemiology of extended-spectrum beta-lactamase (ESBL)-producing Escherichia coli bloodstream infections in Central Australia
Langham, Freya, Tsai, Danny, Camilleri, Shayne, Forde, Brian, Harris, Patrick, Roberts, Jason A. and Chiong, Fabian (2022). Demographic, clinical and molecular epidemiology of extended-spectrum beta-lactamase (ESBL)-producing Escherichia coli bloodstream infections in Central Australia. 32nd International Congress of Antimicrobial Chemotherapy (ICC), Perth, WA Australia, 27-30 November 2022. Amsterdam, Netherlands: Elsevier. doi: 10.1016/s2213-7165(22)00286-7
2022
Journal Article
Immunomodulation by foods and microbes: unravelling the molecular tango
Forde, Brian, Yao, Lu, Shaha, Rupin, Murphy, Sally, Lunjani, Nonhlanhla and O'Mahony, Liam (2022). Immunomodulation by foods and microbes: unravelling the molecular tango. Allergy: European Journal of Allergy and Clinical Immunology, 77 (12), 3513-3526. doi: 10.1111/all.15455
2022
Journal Article
Case report: a fatal case of Aspergillus felis infection in an immunocompetent host
Parkes-Smith, Jill, Bauer, Michelle J., Bergh, Haakon, Eidan, Anthony, Forde, Brian M., Hilton, John, Kidd, Timothy J., Schmidt, Campbell, Stewart, Adam G. and Harris, Patrick N. A. (2022). Case report: a fatal case of Aspergillus felis infection in an immunocompetent host. Access Microbiology, 4 (11) acmi000453, 1-4. doi: 10.1099/acmi.0.000453
2022
Journal Article
Optimized method for bacterial nucleic acid extraction from positive blood culture broth for whole-genome sequencing, resistance phenotype prediction, and downstream molecular applications
Bauer, Michelle J., Peri, Anna Maria, Lüftinger, Lukas, Beisken, Stephan, Bergh, Haakon, Forde, Brian M., Buckley, Cameron, Cuddihy, Thom, Tan, Patrice, Paterson, David L., Whiley, David M. and Harris, Patrick N. A. (2022). Optimized method for bacterial nucleic acid extraction from positive blood culture broth for whole-genome sequencing, resistance phenotype prediction, and downstream molecular applications. Journal of Clinical Microbiology, 60 (11) e01012-22, 1-11. doi: 10.1128/jcm.01012-22
2022
Conference Publication
Lonepinella - the devil in the oral cavity (of the koala)
Omaleki, Lida, Blyde, David, McKay, Philippa, Lobo, Edina T., Zhang, Ge, Harris, Louise M., Sinclair, Holly A., Bergh, Haakon, White, Rhys T., Forde, Brian M., Beatson, Scott A., Turni, Conny and Blackall, Patrick J. (2022). Lonepinella - the devil in the oral cavity (of the koala). One Health Downunder Symposium 2022, Brisbane, QLD Australia, 12-13 September 2022.
2022
Journal Article
Clinical implementation of routine whole-genome sequencing for hospital infection control of multi-drug resistant pathogens
Forde, Brian M., Bergh, Haakon, Cuddihy, Thom, Hajkowicz, Krispin, Hurst, Trish, Playford, E Geoffrey, Henderson, Belinda C., Runnegar, Naomi, Clark, Julia, Jennison, Amy V., Moss, Susan, Hume, Anna, Leroux, Hugo, Beatson, Scott A., Paterson, David L. and Harris, Patrick N. A. (2022). Clinical implementation of routine whole-genome sequencing for hospital infection control of multi-drug resistant pathogens. Clinical Infectious Diseases, 76 (3), e1277-e1284. doi: 10.1093/cid/ciac726
Funding
Current funding
Past funding
Supervision
Availability
- Dr Brian Forde is:
- Available for supervision
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Supervision history
Current supervision
-
Doctor Philosophy
Genomic and molecular characterisation of antibiotic resistance mechanisms
Principal Advisor
Other advisors: Professor Mark Schembri
-
Doctor Philosophy
Malaria and Infections Diseases in military personnel in the Asia Pacific Region
Principal Advisor
-
Doctor Philosophy
Genomic approaches to the surveillance and control of multidrug resistant Enterobacterales.
Principal Advisor
Other advisors: Dr Patrick Harris
-
Doctor Philosophy
New diagnostic strategies for antibiotic-resistant infections
Associate Advisor
Other advisors: Associate Professor Adam Irwin, Dr Patrick Harris
-
Doctor Philosophy
A Multidisciplinary Approach to Identifying Novel Vaccine and Drug Targets of Non-Tuberculous Mycobacteria
Associate Advisor
Other advisors: Dr Emily Strong, Professor Nick West
Completed supervision
-
2025
Doctor Philosophy
Treatment Strategies for Extended-Spectrum Beta-Lactamase (ESBL) and AmpC-producing Enterobacterales
Associate Advisor
Other advisors: Dr Patrick Harris, Mr Mark Chatfield
-
2022
Doctor Philosophy
Comparative Genomics of Extraintestinal Pathogenic Escherichia coli
Associate Advisor
Other advisors: Associate Professor Scott Beatson
-
2022
Doctor Philosophy
New approaches in visualising genomic data for surveillance and control of drug-resistant bacteria in healthcare settings
Associate Advisor
Other advisors: Associate Professor Scott Beatson
-
2019
Doctor Philosophy
Factors that influence Neisseria gonorrhoeae antimicrobial resistance and transmission in Australia
Associate Advisor
Other advisors: Associate Professor Scott Beatson, Associate Professor David Whiley
-
2019
Doctor Philosophy
Evolution and function of mobile genetic elements and DNA methyltransferases in extraintestinal pathogenic Escherichia coli
Associate Advisor
Other advisors: Associate Professor Scott Beatson
Media
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