Dr Brian Forde
Affiliate Senior Research Fellow of UQ Centre for Clinical Research
UQ Centre for Clinical Research
Senior Research Fellow
Institute for Molecular Bioscience
+61 7 344 36245
Researcher biography
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.
Book Chapter
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
Journal Articles
Nhu, Nguyen Thi Khanh, Forde, Brian M., Ben Zakour, Nouri L., Phan, Minh-Duy, Roberts, Leah W., Beatson, Scott A. and Schembri, Mark A. (2024). Evolution of the pheV-tRNA integrated genomic island in Escherichia coli. PLoS Genetics, 20 (10) e1011459, e1011459. doi: 10.1371/journal.pgen.1011459
White, Rhys T., Ashcroft, Melinda M., Bauer, Michelle J., Bell, Jan, Butkiewicz, Dominika, Álvarez-Fraga, Laura, Gibson, Justine S., Kidsley, Amanda K., Mollinger, Joanne L., Peters, Kate M., Phan, Minh-Duy, Roberts, Leah W., Rogers, Benjamin A., Schembri, Mark A., Trott, Darren J., Turnidge, John, Forde, Brian M. and Beatson, Scott A. (2024). The complete genome sequence of five pre-2013 Escherichia coli sequence type (ST)1193 strains reveals insights into an emerging pathogen. Access Microbiology, 6 (10). doi: 10.1099/acmi.0.000894.v3
Sivabalan, Pirathaban, Satyaputra, Ferris, Gassiep, Ian, Forde, Brian, Frazer, Jaimie, Glover, Matthew, Adams, Buenafe and Norton, Robert (2024). Meropenem-resistant Burkholderia pseudomallei: a concerning single case in Australia with no prior meropenem exposure. Access Microbiology, 6 (10). doi: 10.1099/acmi.0.000619.v4
Wen, Sophie C. H., Harris, Patrick N. A., Forde, Brian, Permana, Budi, Chatfield, Mark D., Lau, Colleen L., Spurling, Geoffrey, Bauer, Michelle J., Balch, Ross, Chambers, Henry, Schlapbach, Luregn J., Clark, Julia E., Dougherty, Sonia, Blyth, Christopher C., Britton, Philip N., Clifford, Vanessa, Haeusler, Gabrielle M., McMullan, Brendan, Wadia, Ushma, Paterson, David L., Irwin, Adam D., on behalf of the PAEDS network, Carr, Jeremy, Vasilunas, Nan, Francis, Joshua R., Macartney, Kristine, Crawford, Nigel W., Wood, Nicholas, Buttery, Jim ... Glover, Catherine (2024). Characterization of gram-negative bloodstream infections in hospitalised Australian children and their clinical outcomes. Clinical Infectious Diseases, 79 (3), 734-743. doi: 10.1093/cid/ciae341
Hahn, Anne, Hung, Grace Ching Ching, Ahier, Arnaud, Dai, Chuan-Yang, Kirmes, Ina, Forde, Brian M., Campbell, Daniel, Lee, Rachel Shin Yie, Sucic, Josiah, Onraet, Tessa and Zuryn, Steven (2024). Misregulation of mitochondrial 6mA promotes the propagation of mutant mtDNA and causes aging in C. elegans. Cell Metabolism. doi: 10.1016/j.cmet.2024.07.020
Gassiep, Ian, Chatfield, Mark D., Permana, Budi, Burnard, Delaney, Bauer, Michelle J., Cuddihy, Thom, Forde, Brian M., Mayer-Coverdale, Johanna, Norton, Robert E. and Harris, Patrick N. A. (2024). The genomic epidemiology of clinical Burkholderia pseudomallei isolates in North Queensland, Australia. Pathogens, 13 (7) 584. doi: 10.3390/pathogens13070584
Langham, Freya, Tsai, Danny, Forde, Brian M., Camilleri, Shayne, Harris, Patrick N.A., Roberts, Jason A. and Chiong, Fabian (2024). Demographic, clinical and molecular epidemiology of extended-spectrum beta-lactamase-producing Escherichia coli bloodstream infections in Central Australia. Pathology, 56 (7), 1012-1020. doi: 10.1016/j.pathol.2024.04.013
Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Hancock, Steven J., Peters, Kate M., Alvarez-Fraga, Laura, Forde, Brian M., Andersen, Stacey B., Miliya, Thyl, Harris, Patrick N. A., Beatson, Scott A., Schlebusch, Sanmarie, Bergh, Haakon, Turner, Paul, Brauner, Annelie, Westerlund-Wikström, Benita, Irwin, Adam D. and Schembri, Mark A (2024). High-risk Escherichia coli clones that cause neonatal meningitis and association with recrudescent infection. eLife, 12 ARTN RP91853. doi: 10.7554/elife.91853.3
Chai, Ming G., Tu, Quyen, Cotta, Menino O., Bauer, Michelle J., Balch, Ross, Okafor, Charles, Comans, Tracy, Kruger, Peter, Meyer, Jason, Shekar, Kiran, Brady, Kara, Fourie, Cheryl, Sharp, Natalie, Vlad, Luminita, Whiley, David, Ungerer, Jacobus P. J., Mcwhinney, Brett C., Farkas, Andras, Paterson, David L., Clark, Julia E., Hajkowicz, Krispin, Raman, Sainath, Bialasiewicz, Seweryn, Lipman, Jeffrey, Forde, Brian M., Harris, Patrick N. A., Schlapbach, Luregn J., Coin, Lachlan, Roberts, Jason A. and Irwin, Adam D. (2024). Correction: Achievement of therapeutic antibiotic exposures using Bayesian dosing software in critically unwell children and adults with sepsis. Intensive Care Medicine, 50 (5), 810-810. doi: 10.1007/s00134-024-07393-9
Nong, Yi, Steinig, Eike, Pollock, Georgina L., Taiaroa, George, Carter, Glen P., Monk, Ian R., Pang, Stanley, Daley, Denise A., Coombs, Geoffrey W., Forde, Brian M., Harris, Patrick N. A., Sherry, Norelle L., Howden, Benjamin P., Pasricha, Shivani, Baines, Sarah L. and Williamson, Deborah A. (2024). Emergence and clonal expansion of a qacA-harbouring sequence type 45 lineage of methicillin-resistant Staphylococcus aureus. Communications Biology, 7 (1) 349, 349. doi: 10.1038/s42003-024-06012-z
Chai, Gene G., Tu, Quyen, Cotta, Menino O., Bauer, Michelle J., Balch, Ross, Okafor, Charles, Comans, Tracy, Kruger, Peter, Meyer, Jason, Shekar, Kiran, Brady, Kara, Fourie, Cheryl, Sharp, Natalie, Vlad, Luminita, Whiley, David, Ungerer, Jacobus P. J., McWhinney, Brett C., Farkas, Andras, Paterson, David L., Clark, Julia E., Hajkowicz, Krispin, Raman, Sainath, Bialasiewicz, Seweryn, Lipman, Jeffrey, Forde, Brian M., Harris, Patrick N. A., Schlapbach, Luregn J., Coin, Lachlan, Roberts, Jason A. and Irwin, Adam D. (2024). Achievement of therapeutic antibiotic exposures using Bayesian dosing software in critically unwell children and adults with sepsis. Intensive Care Medicine, 50 (4), 1-9. doi: 10.1007/s00134-024-07353-3
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
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
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
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
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, e0306523. doi: 10.1128/spectrum.03065-23
Korpela, Katri, Hurley, Sadhbh, Ford, Sinead Ahearn, Franklin, Ruth, Byrne, Susan, Lunjani, Nonhlanhla, Forde, Brian, Neogi, Ujjwal, Venter, Carina, Walter, Jens, Hourihane, Jonathan and O'Mahony, Liam (2024). Association between gut microbiota development and allergy in infants born during pandemic-related social distancing restrictions. Allergy: European Journal of Allergy and Clinical Immunology, 79 (7), 1938-1951. doi: 10.1111/all.16069
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
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
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
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
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
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
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
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
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
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
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
Isler, Burcu, Vatansever, Cansel, Özer, Berna, Çınar, Güle, Aslan, Abdullah Tarık, Stewart, Adam, Simos, Peter, Falconer, Caitlin, Bauer, Michelle J., 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 ... Can, Füsun (2022). Comparison of ceftazidime-avibactam susceptibility testing methods against OXA-48-like carrying Klebsiella blood stream isolates. Diagnostic Microbiology and Infectious Disease, 104 (1) 115745, 1-4. doi: 10.1016/j.diagmicrobio.2022.115745
Islam, Kamrul, Sime, Fekade B., Bauer, Michelle J., Forde, Brian M., Wallis, Steven C., Harris, Patrick, Naicker, Saiyuri, Shirin, Tahmina, Habib, Zakir H., Flora, Meerjady S. and Roberts, Jason A. (2022). Pharmacodynamic evaluation of piperacillin/tazobactam against extended-spectrum β-lactamase-producing versus non-producing Escherichia coli in a hollow-fibre infection model. International Journal of Antimicrobial Agents, 60 (2) 106623, 1-7. doi: 10.1016/j.ijantimicag.2022.106623
Ayfan, Abdulrahman K. S., Macdonald, Joanne, Irwin, Adam D., Zowawi, Hosam M., Forde, Brian M., Paterson, David L., Lahra, Monica M. and Whiley, David M. (2022). Proof-of-concept, rapid, instrument-free molecular detection of Neisseria gonorrhoeae and ciprofloxacin susceptibility. Journal of Antimicrobial Chemotherapy, 77 (11), 2933-2936. doi: 10.1093/jac/dkac242
Islam, Kamrul, Sime, Fekade B., Wallis, Steven C., Bauer, Michelle J., Forde, Brian M., Harris, Patrick, Shirin, Tahmina, Habib, Zakir H., Flora, Meerjady S. and Roberts, Jason A. (2022). Pharmacodynamic evaluation of piperacillin/tazobactam versus meropenem against extended-spectrum β-lactamase-producing and non-producing Escherichia coli clinical isolates in a hollow-fibre infection model. Journal of Antimicrobial Chemotherapy, 77 (9), 2448-2455. doi: 10.1093/jac/dkac186
Hancock, Steven J., Lo, Alvin W., Ve, Thomas, Day, Christopher J., Tan, Lendl, Mendez, Alejandra A., Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Peters, Kate M., Richards, Amanda C., Fleming, Brittany A., Chang, Chyden, Ngu, Dalton H. Y., Forde, Brian M., Haselhorst, Thomas, Goh, Kelvin G. K., Beatson, Scott A., Jennings, Michael P., Mulvey, Matthew A., Kobe, Bostjan and Schembri, Mark A. (2022). Ucl fimbriae regulation and glycan receptor specificity contribute to gut colonisation by extra-intestinal pathogenic Escherichia coli. PLoS Pathogens , 18 (6) e1010582, e1010582. doi: 10.1371/journal.ppat.1010582
Albrich, Werner C., Ghosh, Tarini Shankar, Ahearn-Ford, Sinead, Mikaeloff, Flora, Lunjani, Nonhlanhla, Forde, Brian, Suh, Noémie, Kleger, Gian-Reto, Pietsch, Urs, Frischknecht, Manuel, Garzoni, Christian, Forlenza, Rossella, Horgan, Mary, Sadlier, Corinna, Negro, Tommaso Rochat, Pugin, Jérôme, Wozniak, Hannah, Cerny, Andreas, Neogi, Ujjwal, O’Toole, Paul W. and O’Mahony, Liam (2022). A high-risk gut microbiota configuration associates with fatal hyperinflammatory immune and metabolic responses to SARS-CoV-2. Gut Microbes, 14 (1) 2073131, 1-16. doi: 10.1080/19490976.2022.2073131
O’ Mahony, Liam, Buwalda, Tanja, Blair, Matthew, Forde, Brian, Lunjani, Nonhlanhla, Ambikan, Anoop, Neogi, Ujjwal, Barrett, Peter, Geary, Eoin, O'Connor, Nuala, Dineen, Jennifer, Clarke, Gerard, Kelleher, Eric, Horgan, Mary, Jackson, Arthur and Sadlier, Corinna (2022). Impact of Long COVID on health and quality of life. HRB Open Research, 5 31, 1-19. doi: 10.12688/hrbopenres.13516.1
Isler, Burcu, Özer, Berna, Çınar, Güle, Aslan, Abdullah Tarık, Vatansever, Cansel, Falconer, Caitlin, Dolapçı, İştar, 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, Chatfield, Mark D., Forde, Brian, Saltoğlu, Neşe, Azap, Alpay, Azap, Özlem ... Ergönül, Önder (2022). Characteristics and outcomes of carbapenemase harbouring carbapenem-resistant Klebsiella spp. bloodstream infections: a multicentre prospective cohort study in an OXA-48 endemic setting. European Journal of Clinical Microbiology and Infectious Diseases, 41 (5), 841-847. doi: 10.1007/s10096-022-04425-4
Omaleki, Lida, Blackall, Patrick J., Cuddihy, Thom, White, Rhys T., Courtice, Jodi M., Turni, Conny, Forde, Brian M. and Beatson, Scott A. (2022). Phase variation in the glycosyltransferase genes of Pasteurella multocida associated with outbreaks of fowl cholera on free-range layer farms. Microbial Genomics, 8 (3) 000772. doi: 10.1099/mgen.0.000772
Fletcher, J.R., Yuen, K.Y., Stewart, A.J., Young, A.C., Gibson, J.S., James, O.A., Medina‐Torres, C.E., Forde, B.M. and Sole‐Guitart, A. (2022). Successful treatment of a chronic oroantral fistula infected with extensively drug resistant bacteria using long‐term oesophageal tube feeding and several non‐conventional treatments in a horse. Australian Veterinary Journal, 100 (3), 107-113. doi: 10.1111/avj.13136
Alsheikh-Hussain, Areej S., Ben Zakour, Nouri L., Forde, Brian M., Rudenko, Oleksandra, Barnes, Andrew C. and Beatson, Scott A. (2022). A high-quality reference genome for the fish pathogen Streptococcus iniae. Microbial Genomics, 8 (3) 000777. doi: 10.1099/mgen.0.000777
Phan, Minh-Duy, Peters, Kate M., Alvarez Fraga, Laura, Wallis, Steven C., Hancock, Steven, Nhu, Nguyen Thi Khanh, Forde, Brian, Bauer, Michelle J., Paterson, David L., Beatson, Scott A, Lipman, Jeffrey and Schembri, Mark A. (2022). Plasmid-mediated ciprofloxacin resistance imparts a selective advantage on Escherichia coli ST131. Antimicrobial Agents and Chemotherapy, 66 (1) e02146-21, 1-11. doi: 10.1128/aac.02146-21
Alvarez-Fraga, Laura, Phan, Minh-Duy, Goh, Kelvin G. K., Nhu, Nguyen Thi Khanh, Hancock, Steven J., Allsopp, Luke P., Peters, Kate M., Forde, Brian M., Roberts, Leah W., Sullivan, Matthew J., Totsika, Makrina, Beatson, Scott A., Ulett, Glen C. and Schembri, Mark A. (2022). Differential Afa/Dr fimbriae expression in the multidrug-resistant Escherichia coli ST131 clone. mBio, 13 (1) e03519, e0351921. doi: 10.1128/mbio.03519-21
De Oliveira, David M. P., Forde, Brian M., Phan, Minh-Duy, Steiner, Bernhard, Zhang, Bing, Zuegg, Johannes, El-deeb, Ibrahim M., Li, Gen, Keller, Nadia, Brouwer, Stephan, Harbison-Price, Nichaela, Cork, Amanda J., Bauer, Michelle J., Alquethamy, Saleh F., Beatson, Scott A., Roberts, Jason A., Paterson, David L., McEwan, Alastair G., Blaskovich, Mark A. T., Schembri, Mark A., McDevitt, Christopher A., von Itzstein, Mark and Walker, Mark J. (2022). Rescuing Tetracycline Class Antibiotics for the Treatment of Multidrug-Resistant Acinetobacter baumannii Pulmonary Infection. mBio, 13 (1) e03517, e0351721. doi: 10.1128/mbio.03517-21
Cuddihy, Thom, Harris, Patrick N. A., Permana, Budi, Beatson, Scott A. and Forde, Brian M. (2022). CATHAI: cluster analysis tool for healthcare-associated infections. Bioinformatics Advances, 2 (1) vbac040, vbac040. doi: 10.1093/bioadv/vbac040
Stewart, Adam G., Paterson, David L., Young, Barnaby, Lye, David C, Davis, Joshua S., Schneider, Kellie, Yilmaz, Mesut, Dinleyici, Rumeysa, Runnegar, Naomi, Henderson, Andrew, Archuleta, Sophia, Kalimuddin, Shirin, Forde, Brian M., Chatfield, Mark D., Bauer, Michelle J., Lipman, Jeffrey, Harris-Brown, Tiffany, Harris, Patrick N. A. and for the MERINO Trial Investigators and the Australasian Society for Infectious Disease Clinical Research Network (ASID-CRN) (2021). Meropenem versus piperacillin-tazobactam for definitive treatment of bloodstream infections caused by AmpC beta-lactamase producing Enterobacter spp., Citrobacter freundii, Morganella morganii, Providencia spp., or Serratia marcescens: a pilot multi-center randomized controlled trial (MERINO-2). Open Forum Infectious Diseases, 8 (8) ofab387, ofab387. doi: 10.1093/ofid/ofab387
Murigneux, Valentine, Roberts, Leah W., Forde, Brian M., Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Irwin, Adam D., Harris, Patrick N. A., Paterson, David L., Schembri, Mark A., Whiley, David M. and Beatson, Scott A. (2021). MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction. BMC Genomics, 22 (1) 474, 474. doi: 10.1186/s12864-021-07767-z
Irwin, Adam D., Coin, Lachlan J. M., Harris, Patrick N. A., Cotta, Menino Osbert, Bauer, Michelle J., Buckley, Cameron, Balch, Ross, Kruger, Peter, Meyer, Jason, Shekar, Kiran, Brady, Kara, Fourie, Cheryl, Sharp, Natalie, Vlad, Luminita, Whiley, David, Beatson, Scott A., Forde, Brian M., Paterson, David, Clark, Julia, Hajkowicz, Krispin, Raman, Sainath, Bialasiewicz, Seweryn, Lipman, Jeffrey, Schlapbach, Luregn J. and Roberts, Jason A. (2021). Optimising treatment outcomes for children and adults through rapid genome sequencing of sepsis pathogens. A study protocol for a prospective, multi-centre trial (DIRECT). Frontiers in Cellular and Infection Microbiology, 11 667680, 1-8. doi: 10.3389/fcimb.2021.667680
Stewart, Adam G., Satlin, Michael J., Schlebusch, Sanmarié, Isler, Burcu, Forde, Brian M., Paterson, David L. and Harris, Patrick N. A. (2021). Completing the picture - capturing the resistome in antibiotic clinical trials. Clinical Infectious Diseases, 72 (12), e1122-e1129. doi: 10.1093/cid/ciaa1877
Rynhoud, Hester, Forde, Brian M., Beatson, Scott A., Abraham, Sam, Meler, Erika, Soares Magalhães, Ricardo J. and Gibson, Justine S. (2021). Molecular Epidemiology of Clinical and Colonizing Methicillin-Resistant Isolates in Companion Animals. Frontiers in Veterinary Science, 8 620491, 620491. doi: 10.3389/fvets.2021.620491
Roberts, Leah W., Forde, Brian M., Hurst, Trish, Ling, Weiping, Nimmo, Graeme R., Bergh, Haakon, George, Narelle, Hajkowicz, Krispin, McNamara, John F., Lipman, Jeffrey, Permana, Budi, Schembri, Mark A., Paterson, David, Beatson, Scott A. and Harris, Patrick N. A. (2021). Genomic surveillance, characterization and intervention of a polymicrobial multidrug-resistant outbreak in critical care. Microbial Genomics, 7 (3) 000530. doi: 10.1099/mgen.0.000530
Elliott, Thomas M., Harris, Patrick N., Roberts, Leah W., Doidge, Michelle, Hurst, Trish, Hajkowicz, Krispin, Forde, Brian, Paterson, David L. and Gordon, Louisa G. (2021). Cost-effectiveness analysis of whole-genome sequencing during an outbreak of carbapenem-resistant Acinetobacter baumannii. Antimicrobial Stewardship and Healthcare Epidemiology, 1 (1) e62, e62. doi: 10.1017/ash.2021.233
Forde, Brian M., De Oliveira, David M. P., Falconer, Caitlin, Graves, Bianca and Harris, Patrick N. A. (2021). Strengths and caveats of identifying resistance genes from whole genome sequencing data. Expert Review of Anti-Infective Therapy, 20 (4), 1-15. doi: 10.1080/14787210.2022.2013806
Gordon, Louisa G., Elliott, Thomas M., Forde, Brian, Mitchell, Brett, Russo, Philip L., Paterson, David L. and Harris, Patrick N. A. (2020). Budget impact analysis of routinely using whole-genomic sequencing of six multidrug-resistant bacterial pathogens in Queensland, Australia. BMJ Open, 11 (2) e041968, e041968. doi: 10.1136/bmjopen-2020-041968
De Oliveira, David M. P., Bohlmann, Lisa, Conroy, Trent, Jen, Freda E.-C., Everest-Dass, Arun, Hansford, Karl A., Bolisetti, Raghu, El-Deeb, Ibrahim M., Forde, Brian M., Phan, Minh-Duy, Lacey, Jake A., Tan, Aimee, Rivera-Hernandez, Tania, Brouwer, Stephan, Keller, Nadia, Kidd, Timothy J., Cork, Amanda J., Bauer, Michelle J., Cook, Gregory M., Davies, Mark R., Beatson, Scott A., Paterson, David L., McEwan, Alastair G., Li, Jian, Schembri, Mark A., Blaskovich, Mark A. T., Jennings, Michael P., McDevitt, Christopher A., von Itzstein, Mark and Walker, Mark J. (2020). Repurposing a neurodegenerative disease drug to treat Gram-negative antibiotic-resistant bacterial sepsis. Science Translational Medicine, 12 (570) abb3791, eabb3791. doi: 10.1126/scitranslmed.abb3791
Guglielmino, Christine J. D., Kakkanat, Asha, Forde, Brian M., Rubenach, Sally, Merone, Lea, Stafford, Russell, Graham, Rikki M. A., Beatson, Scott A. and Jennison, Amy V. (2020). Outbreak of multi-drug-resistant (MDR) Shigella flexneri in northern Australia due to an endemic regional clone acquiring an IncFII plasmid. European Journal of Clinical Microbiology and Infectious Diseases, 40 (2), 279-286. doi: 10.1007/s10096-020-04029-w
Hancock, Steven J., Phan, Minh-Duy, Luo, Zhenyao, Lo, Alvin W., Peters, Kate M., Nhu, Nguyen Thi Khanh, Forde, Brian M., Whitfield, Jason, Yang, Ji, Strugnell, Richard A., Paterson, David L., Walsh, Timothy R., Kobe, Bostjan, Beatson, Scott A. and Schembri, Mark A. (2020). Comprehensive analysis of IncC plasmid conjugation identifies a crucial role for the transcriptional regulator AcaB. Nature Microbiology, 5 (11), 1340-1348. doi: 10.1038/s41564-020-0775-0
Forde, Brian M., Henderson, Andrew, Playford, Elliott G., Looke, David, Henderson, Belinda C., Watson, Catherine, Steen, Jason A., Sidjabat, Hanna E., Laurie, Gordon, Muttaiyah, Sharmini, Nimmo, Graeme R., Lampe, Guy, Smith, Helen, Jennison, Amy V., McCall, Brad, Carroll, Heidi, Cooper, Matthew A., Paterson, David L. and Beatson, Scott A. (2020). Fatal respiratory diphtheria caused by ß-lactam–resistant corynebacterium diphtheriae. Clinical Infectious Diseases, 73 (11), e4531-e4538. doi: 10.1093/cid/ciaa1147
De Oliveira, David M. P., Forde, Brian M., Kidd, Timothy J., Harris, Patrick N. A., Schembri, Mark A., Beatson, Scott A., Paterson, David L. and Walker, Mark J. (2020). Antimicrobial resistance in ESKAPE pathogens. Clinical Microbiology Reviews, 33 (3) e00181-19, e00181-19. doi: 10.1128/cmr.00181-19
Chapman, Paul, Forde, Brian M., Roberts, Leah W., Bergh, Haakon, Vesey, Debra, Jennison, Amy V., Moss, Susan, Paterson, David L., Beatson, Scott A. and Harris, Patrick N. A. (2020). Genomic investigation reveals contaminated detergent as the source of an Extended-Spectrum-β-Lactamase-producing Klebsiella michiganensis outbreak in a neonatal unit. Journal of Clinical Microbiology, 58 (5) e01980. doi: 10.1128/jcm.01980-19
Omaleki, Lida, Beatson, Scott A., Thomrongsuwannakij, Thotsapol, Blackall, Patrick J., Buller, Nicky B., Hair, Sam D., Vitali, Simone D., Wallace, Alisa M., Turni, Conny and Forde, Brian M. (2020). Phase variation in latB associated with a fatal Pasteurella multocida outbreak in captive squirrel gliders. Veterinary Microbiology, 243 108612, 108612. doi: 10.1016/j.vetmic.2020.108612
Omaleki, Lida, Blackall, Patrick J., Cuddihy, Thom, Beatson, Scott A., Forde, Brian M. and Turni, Conny (2020). Using genomics to understand inter- and intra- outbreak diversity of Pasteurella multocida isolates associated with fowl cholera in meat chickens. Microbial Genomics, 6 (3) 000346, 1-8. doi: 10.1099/mgen.0.000346
Lee, Brendon M., Harold, Liam K., Almeida, Deepak V., Afriat-Jurnou, Livnat, Aung, Htin Lin, Forde, Brian M., Hards, Kiel, Pidot, Sacha J., Ahmed, F. Hafna, Mohamed, A. Elaaf, Taylor, Matthew C., West, Nicholas P., Stinear, Timothy P., Greening, Chris, Beatson, Scott A., Nuermberger, Eric L., Cook, Gregory M. and Jackson, Colin J. (2020). Predicting nitroimidazole antibiotic resistance mutations in Mycobacterium tuberculosis with protein engineering. PLoS Pathogens, 16 (2) e1008287, e1008287. doi: 10.1371/journal.ppat.1008287
Roberts, Leah W., Harris, Patrick N. A., Forde, Brian M., Ben Zakour, Nouri L., Catchpoole, Elizabeth, Stanton-Cook, Mitchell, Phan, Minh-Duy, Sidjabat, Hanna E., Bergh, Haakon, Heney, Claire, Gawthorne, Jayde A., Lipman, Jeffrey, Allworth, Anthony, Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Schembri, Mark A., Paterson, David L. and Beatson, Scott A. (2020). Integrating multiple genomic technologies to investigate an outbreak of carbapenemase-producing Enterobacter hormaechei. Nature Communications, 11 (1) 466, 466. doi: 10.1038/s41467-019-14139-5
Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Forde, Brian M., Murthy, Ambika M. V., Peters, Kate M., Day, Christopher J., Poole, Jessica, Kidd, Timothy J., Welch, Rodney A., Jennings, Michael P., Ulett, Glen C., Sweet, Matthew J., Beatson, Scott A. and Schembri, Mark A. (2019). Complex multilevel control of hemolysin production by uropathogenic Escherichia coli. mBio, 10 (5) e02248-19. doi: 10.1128/mbio.02248-19
Buckley, Cameron, Beatson, Scott A., Limnios, Athena, Lahra, Monica M., Whiley, David M. and Forde, Brian M. (2019). Whole-genome sequencing as an improved means of investigating Neisseria gonorrhoeae treatment failures. Sexual Health, 16 (5), 500-507. doi: 10.1071/SH19012
Forde, Brian M., Roberts, Leah W., Phan, Minh-Duy, Peters, Kate M., Fleming, Brittany A., Russell, Colin W., Lenherr, Sara M., Myers, Jeremy B., Barker, Adam P., Fisher, Mark A., Chong, Teik-Min, Yin, Wai-Fong, Chan, Kok-Gan, Schembri, Mark A., Mulvey, Matthew A. and Beatson, Scott A. (2019). Population dynamics of an Escherichia coli ST131 lineage during recurrent urinary tract infection. Nature Communications, 10 (1) 3643, 3643. doi: 10.1038/s41467-019-11571-5
Forde, Brian M., McAllister, Lauren J., Paton, James C., Paton, Adrienne W. and Beatson, Scott A. (2019). SMRT sequencing reveals differential patterns of methylation in two O111:H- STEC isolates from a hemolytic uremic syndrome outbreak in Australia. Scientific Reports, 9 (1) 9436, 9436. doi: 10.1038/s41598-019-45760-5
Crawford, Rebecca L., Blyde, David, Blackall, Patrick J., Forde, Brian M., Beatson, Scott A., Harris, Louise M., Turni, Conny and Omaleki, Lida (2019). Novel insights into pasteurellosis in captive pinnipeds. Veterinary Microbiology, 231, 232-237. doi: 10.1016/j.vetmic.2019.03.017
Walker, Mark J., Brouwer, Stephan, Forde, Brian M., Worthing, Kate A., McIntyre, Liam, Sundac, Lana, Maloney, Sam, Roberts, Leah W., Barnett, Timothy C., Richter, Johanna, Cork, Amanda J., Irwin, Adam D., You, Yuanhai, Zhang, Jianzhong, Dougan, Gordon, Yuen, K. Y., Nizet, Victor, Beatson, Scott A., Grimwood, Keith and Davies, Mark R. (2019). Detection of epidemic scarlet fever group A Streptococcus in Australia. Clinical Infectious Diseases, 69 (7), 1232-1234. doi: 10.1093/cid/ciz099
Forde, Brian M., Zowawi, Hosam M., Harris, Patrick N. A., Roberts, Leah, Ibrahim, Emad, Shaikh, Nissar, Deshmukh, Anand, Sid Ahmed, Mazen A., Al Maslamani, Muna, Cottrell, Kyra, Trembizki, Ella, Sundac, Lana, Yu, Heidi H., Li, Jian, Schembri, Mark A., Whiley, David M., Paterson, David L. and Beatson, Scott A. (2018). Discovery of mcr-1-mediated colistin resistance in a highly virulent Escherichia coli lineage. mSphere, 3 (5) e00486-18. doi: 10.1128/msphere.00486-18
Nhu, Nguyen Thi Khanh, Phan, Minh-Duy, Peters, Kate M., Lo, Alvin W., Forde, Brian M., Min Chong, Teik, Yin, Wai-Fong, Chan, Kok-Gan, Chromek, Milan, Brauner, Annelie, Chapman, Matthew R., Beatson, Scott A. and Schembri, Mark A. (2018). Discovery of new genes involved in curli production by a uropathogenic Escherichia coli strain from the highly virulent O45:K1:H7 lineage. mBio, 9 (4) e01462-18. doi: 10.1128/mbio.01462-18
Buckley, Cameron, Forde, Brian M., Trembizki, Ella, Lahra, Monica M., Beatson, Scott A. and Whiley, David M. (2018). Use of whole genome sequencing to investigate an increase in Neisseria gonorrhoeae infection among women in urban areas of Australia. Scientific Reports, 8 (1) 1503, 1-7. doi: 10.1038/s41598-018-20015-x
Goh, Kelvin G. K., Phan, Minh-Duy, Forde, Brian M., Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, Ulett, Glen C., Sweet, Matthew J., Beatson, Scott A. and Schembri, Mark A. (2017). Genome-wide discovery of genes required for capsule production by uropathogenic Escherichia coli. MBio, 8 (5) e01558-17. doi: 10.1128/mBio.01558-17
Sullivan, Matthew J, Forde, Brian M, Prince, Darren W, Ipe, Deepak S, Ben Zakour, Nouri L, Davies, Mark R, Dougan, Gordon, Beatson, Scott A and Ulett, Glen C (2017). Complete Genome Sequence of Serotype III Streptococcus agalactiae Sequence Type 17 Strain 874391. Genome Announcements, 5 (42) e01107-17. doi: 10.1128/genomeA.01107-17
Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Achard, Maud E. S., Forde, Brian M., Hong, Kar Wai, Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, West, Nicholas P., Walker, Mark J., Paterson, David L., Beatson, Scott A. and Schembri, Mark A. (2017). Modifications in the pmrB gene are the primary mechanism for the development of chromosomally encoded resistance to polymyxins in uropathogenic Escherichia coli. Journal of Antimicrobial Chemotherapy, 72 (10), 2729-2736. doi: 10.1093/jac/dkx204
Hancock, Steven J., Phan, Minh-Duy, Peters, Kate M., Forde, Brian M., Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, Paterson, David L., Walsh, Timothy R., Beatson, Scott A. and Schembri, Mark A. (2017). Identification of IncA/C plasmid replication and maintenance genes and development of a plasmid multi-locus sequence-typing scheme. Antimicrobial Agents and Chemotherapy, 61 (2) e01740. doi: 10.1128/AAC.01740-16
Clancy, Ceara D., Forde, Brian M., Moore, Stanley A. and O'Toole, Paul W. (2016). Draft genome sequences of Helicobacter pylori strains 17874 and P79. Journal of Bacteriology, 198 (13), 1902-1902. doi: 10.1128/JB.00307-16
Wailan, Alexander M., Sidjabat, Hanna E., Yam, Wan Keat, Alikhan, Nabil-Fareed, Petty, Nicola K., Sartor, Anna L., Williamson, Deborah A., Forde, Brian M., Schembri, Mark A., Beatson, Scott A., Paterson, David L., Walsh, Timothy R. and Partridge, Sally R. (2016). Mechanisms involved in acquisition of blaNDM genes by IncA/C2 and IncFIIY plasmids. Antimicrobial Agents and Chemotherapy, 60 (7), 4082-4088. doi: 10.1128/AAC.00368-16
Forde, Brian M., Phan, Minh-Duy, Gawthorne, Jayde A., Ashcroft, Melinda M., Stanton-Cook, Mitchell, Sarkar, Sohinee, Peters, Kate M., Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Upton, Mathew, Schembri, Mark A. and Beatson, Scott A. (2015). Lineage-specific methyltransferases define the methylome of the globally disseminated Escherichia coli ST131 clone. MBio, 6 (6) e01602-15, e01602-15. doi: 10.1128/mBio.01602-15
Ben Zakour, Nouri L., Davies, Mark R., You, Yuanhai, Chen, Jonathan H. K., Forde, Brian M., Stanton-Cook, Mitchell, Yang, Ruifu, Cui, Yujun, Barnett, Timothy C., Venturini, Carola, Ong, Cheryl-lynn Y., Tse, Herman, Dougan, Gordon, Zhang, Jianzhong, Yuen, Kwok-Yung, Beatson, Scott A. and Walker MJ (2015). Transfer of scarlet fever-associated elements into the group A Streptococcus M1T1 clone. Scientific Reports, 5 (1) 15877, 15877.1-15877.7. doi: 10.1038/srep15877
Zowawi, Hosam M., Forde, Brian M., Alfaresi, Mubarak, Alzarouni, Abdulqadir, Farahat, Yasser, Chong, Teik-Min, Yin, Wai-Fong, Chan, Kok-Gan, Li, Jian, Schembri, Mark A., Beatson, Scott A. and Paterson, David L. (2015). Stepwise evolution of pandrug-resistance in Klebsiella pneumoniae.. Scientific Reports, 5 (Art No.: 15082) 15082, 15082. doi: 10.1038/srep15082
Schembri, Mark A., Ben Zakour, Nouri L., Minh-Duy Phan, Forde, Brian M., Stanton-Cook, Mitchell and Beatson, Scott A. (2015). Molecular characterization of the multidrug resistant escherichia coli ST131 clone. Pathogens, 4 (3), 422-430. doi: 10.3390/pathogens4030422
Beatson, Scott A., Ben Zakour, Nouri L., Totsika, Makrina, Forde, Brian M., Watts, Rebecca E., Mabbett, Amanda N., Szubert, Jan M., Sarkar, Sohinee, Phan, Minh-Duy, Peters, Kate M., Petty, Nicola K., Alikhan, Nabil-Fareed, Sullivan, Mitchell J., Gawthorne, Jayde A., Stanton-Cook, Mitchell, Nguyen Thi Khanh Nhu, Chong, Teik Min, Yin, Wai-Fong, Chan, Kok-Gan, Hancock, Viktoria, Ussery, David W., Ulett, Glen C. and Schembri, Mark A. (2015). Molecular analysis of asymptomatic bacteriuria Escherichia coli strain VR50 reveals adaptation to the urinary tract by gene acquisition. Infection and Immunity, 83 (5), 1749-1764. doi: 10.1128/IAI.02810-14
Phan, Minh Duy, Forde, Brian M., Peters, Kate M., Sarkar, Sohinee, Hancock, Steven, Stanton-Cook, Mitchell, Zakour, Nouri L. Ben, Upton, Mathew, Beatson, Scott A. and Schembri, Mark A. (2015). Molecular Characterization of a Multidrug Resistance IncF Plasmid from the Globally Disseminated Escherichia coli ST131 Clone.. PLoS One, 10 (4) e0122369, e0122369-e0122369. doi: 10.1371/journal.pone.0122369
Phan, Minh-Duy, Peters, Kate M., Sarkar, Sohinee, Forde, Brian M., Lo, Alvin W., Stanton-Cook, Mitchell, Roberts, Leah W., Upton, Mathew, Beatson, Scott A. and Schembri, Mark A. (2015). Third-generation cephalosporin resistance conferred by a chromosomally encoded blaCMY-23 gene in the Escherichia coli ST131 reference strain EC958. Journal of Antimicrobial Chemotherapy, 70 (7) dkv066, 1969-1972. doi: 10.1093/jac/dkv066
Raftis, Emma J., Forde, Brian M., Claesson, Marcus J. and O'Toole, Paul W. (2014). Unusual genome complexity in Lactobacillus salivarius JCM1046. BMC Genomics, 15 (1) 771, 771. doi: 10.1186/1471-2164-15-771
Forde, Brian M., Ben Zakour, Nouri L., Stanton-Cook, Mitchell, Phan, Minh-Duy, Totsika, Makrina, Peters, Kate M., Chan, Kok Gan, Schembri, Mark A., Upton, Mathew and Beatson, Scott A. (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) e104400, e104400.1-e104400.13. doi: 10.1371/journal.pone.0104400
Petty, Nicola K., Ben Zakour, Nouri L., Stanton-Cook, Mitchell, Skippington, Elizabeth, Totsika, Makrina, Forde, Brian M., Phan, Minh-Duy, Gomes Moriel, Danilo, Peters, Kate M., Davies, Mark, Rogers, Benjamin A., Dougan, Gordon, Rodriguez-Baño, Jesús, Pascual, Alvaro, Pitout, Johann D., Upton, Mathew, Paterson, David L., Walsh, Timothy R., Schembri, Mark A. and Beatson, Scott A. (2014). Global dissemination of a multidrug resistant Escherichia coli clone. Proceedings of the National Academy of Sciences, 111 (15), 5694-5699. doi: 10.1073/pnas.1322678111
Forde, Brian M. and O'Toole, Paul W. (2013). Next-generation sequencing technologies and their impact on microbial genomics. Briefings in Functional Genomics, 12 (5), 440-453. doi: 10.1093/bfgp/els062
Neville, B. Anne, Forde, Brian M., Claesson, Marcus J., Darby, Trevor, Coghlan, Avril, Nally, Kenneth, Ross, R. Paul and O'Toole, Paul W. (2012). Characterization of pro-inflammatory flagellin proteins produced by Lactobacillus ruminis and related motile Lactobacilli. PLoS One, 7 (7) e40592, e40592. doi: 10.1371/journal.pone.0040592
Clancy, Ceara D., Forde, Brian M., Moore, Stanley A. and O'Toole, Paul W. (2012). Draft Genome Sequences of Helicobacter pylori Strains 17874 and P79. Journal of Bacteriology, 194 (9), 2402-2402. doi: 10.1128/JB.00230-12
Riboulet-Bisson, Eliette, Sturme, Mark H. J., Jeffery, Ian B., O'Donnell, Michelle M., Neville, B. Anne, Forde, Brian M., Claesson, Marcus J., Harris, Hugh, Gardiner, Gillian E., Casey, Patrick G., Lawlor, Peadar G., O'Toole, Paul W. and Ross, R. Paul (2012). Effect of Lactobacillus salivarius bacteriocin Abp118 on the mouse and pig intestinal microbiota. PLoS One, 7 (2) e31113, e31113. doi: 10.1371/journal.pone.0031113
O'Toole, Paul W., Snelling, William J., Canchaya, Carlos, Forde, Brian M., Hardie, Kim R., Josenhans, Christine, Graham, Robert L. J., McMullan, Geoff, Parkhill, Julian, Belda, Eugenio and Bentley, Stephen D. (2010). Comparative genomics and proteomics of Helicobacter mustelae, an ulcerogenic and carcinogenic gastric pathogen. BMC Genomics, 11 (1) 164, 164. doi: 10.1186/1471-2164-11-164
Conference Papers
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
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
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.
Rynhoud, H., Forde, B.M., Beatson, S.A., Abraham, S., Meler, E., Soares Magalhães, R.J. and Gibson, J.S. (2021). Molecular epidemiology of clinical and colonising methicillin-resistant Staphylococcus isolates in companion animals. . Australian Society for Microbiology, Melbourne, VIC, Australia, 31 May-3 June 2021.
Liu, Ying, Jia, Zhongtao, Li, Xuelian, Wang, Zhangkui, Chen, Fanjun, Mi, Guohua, Forde, Brian, Takahashi, Hideki and Yuan, Lixing (2020). Involvement of a truncated MADS-box transcription factor ZmTMM1 in root nitrate foraging. 4th International Symposium on the Nitrogen Nutrition of Plants, Nanjing Peoples R China, Sep 21-25, 2019. OXFORD: OXFORD UNIV PRESS. doi: 10.1093/jxb/eraa116
Lee, Brendon, Almeida, Deepak, Afriat-Jurnou, Livnat, Aung, Htin, Forde, Brian, Harold, Liam, Hards, Kiel, Pidot, Sacha, Ahmed, Hafna, Mohamed, Elaaf, Taylor, Mathew, West, Nicholas, Stinear, Timothy, Greening, Chris, Beatson, Scott, Cook, Gregory, Nuermberger, Eric and Jackson, Colin (2020). Predicting nitroimidazole antibiotic resistance mutations in Mycobacterium tuberculosis with protein engineering. Annual Meeting on Experimental Biology, San Diego, CA, United States, 4-7 April 2020. Hoboken, NJ, United States: John Wiley & Sons. doi: 10.1096/fasebj.2020.34.s1.04923
Cuddihy, Thom, Forde, Brian, Rhodes, Nicholas, Paterson, David, Gorse, Dominique, Beatson, Scott and Harris, Patrick (2019). SRA down under: cache and analysis platform for infectious disease. Australian national conference for Health Informatics (HIC 2019), Melbourne, Australia, 12-14 August 2019. Amsterdam, Netherlands: IOS Press. doi: 10.3233/SHTI190776
Pal, Tibor , Sonnevend, Agnes Maria , Ghazawi, Akela , Haidermota, Aliashgher , Girgis, Safinaz , Alfaresi, Mubarak , Omar, Mohammed , Paterson, David L. , Beatson, Scott , Forde, Brian and Zowawi, Hosam M. (2016). Multi-hospital spread of a pan-resistant Klebsiella pneumoniae clone with an ISEcp1-directed blaOXA-181 insertion into the mgrB gene in the AE. The 26th European Congress on Clinical Microbiology and Infectious Diseases (ECCMID), Amsterdam, Netherlands, 9-12 April 2016.
Forde, Brian M., Neville, B. Anne, O'Donnell, Michelle M. , Riboulet-Bisson, E., Claesson, M. J., Coghlan, Avril, Ross, R. Paul and O'Toole, Paul W. (2011). Genome sequences and comparative genomics of two Lactobacillus ruminis strains from the bovine and human intestinal tracts. 10th Symposium on Lactic Acid Bacterium (LAB), Egmond aan Zee, Netherlands, 28 August-1 September 2011. London, United Kingdom: BioMed Central. doi: 10.1186/1475-2859-10-S1-S13
Donnell, Michelle M. O', Forde, Brian M., Neville, B., Ross, Paul R. and Toole, Paul W. O' (2011). Carbohydrate catabolic flexibility in the mammalian intestinal commensal Lactobacillus ruminis revealed by fermentation studies aligned to genome annotations. 10th Symposium on Lactic Acid Bacterium, The Netherlands, 28 August - 1 September 2011. London, United Kingdom: BioMed Central. doi: 10.1186/1475-2859-10-S1-S12
Preprints
White, Rhys T., Ashcroft, Melinda A., Bauer, Michelle J., Bell, Jan, Butkiewicz, Dominika, Álvarez-Fraga, Laura, Gibson, Justine S., Kidsley, Amanda K., Mollinger, Joanne L., Peters, Kate M., Phan, Duy, Roberts, Leah W., Rogers, Benjamin, Schembri, Mark, Trott, Darren J., Turnidge, John, Forde, Brian M. and Beatson, Scott A. (2024). The complete genome sequence of five pre-2013 Escherichia coli sequence type (ST)1193 strains reveals insights into an emerging pathogen.. doi: 10.1099/acmi.0.000894.v2
Ashcroft, Melinda M., Forde, Brian M., Phan, Minh-Duy, Peters, Kate M., Roberts, Leah W., Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Paterson, David L., Walsh, Timothy R., Schembri, Mark A. and Beatson, Scott A. (2020). Strain and lineage-level methylome heterogeneity in the multi-drug resistant pathogenic Escherichia coli ST101 clone. doi: 10.1101/2020.06.07.138552
Ashcroft, Melinda M., Forde, Brian M., Phan, Minh-Duy, Peters, Kate M., Henderson, Andrew, Hancock, Steven J., Roberts, Leah W., White, Rhys T., Chan, Kok-Gan, Chong, Teik Min, Yin, Wai-Fong, Paterson, David L., Walsh, Timothy R., Schembri, Mark A. and Beatson, Scott A. (2020). Genomic characterisation and context of the blaNDM-1 carbapenemase in Escherichia coli ST101. doi: 10.1101/860726