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2023 Journal Article GraphSNP: an interactive distance viewer for investigating outbreaks and transmission networks using a graph approachPermana, 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 |
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2023 Journal Article Using genomics to investigate an outbreak of vancomycin-resistant Enterococcus faecium ST78 at a large tertiary hospital in QueenslandPermana, 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 |
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2023 Journal Article Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteriaMu, 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 |
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2023 Journal Article Treatment Failure Due to Adaptive Resistance Mechanisms in a Severe and Complicated Bloodstream Infection Due toStewart, 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 |
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2022 Journal Article High prevalence of ArmA-16S rRNA methyltransferase among aminoglycoside-resistant Klebsiella pneumoniae bloodstream isolatesIsler, 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 |
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2022 Journal Article Immunomodulation by foods and microbes: unravelling the molecular tangoForde, 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 |
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2022 Journal Article Case report: a fatal case of Aspergillus felis infection in an immunocompetent hostParkes-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 |
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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 applicationsBauer, 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 |
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2022 Journal Article Clinical implementation of routine whole-genome sequencing for hospital infection control of multi-drug resistant pathogensForde, 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 |
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2022 Journal Article Comparison of ceftazidime-avibactam susceptibility testing methods against OXA-48-like carrying Klebsiella blood stream isolatesIsler, 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 |
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2022 Journal Article Pharmacodynamic evaluation of piperacillin/tazobactam against extended-spectrum β-lactamase-producing versus non-producing Escherichia coli in a hollow-fibre infection modelIslam, 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 |
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2022 Journal Article Proof-of-concept, rapid, instrument-free molecular detection of Neisseria gonorrhoeae and ciprofloxacin susceptibilityAyfan, 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 |
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2022 Journal Article 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 modelIslam, 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 |
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2022 Journal Article Ucl fimbriae regulation and glycan receptor specificity contribute to gut colonisation by extra-intestinal pathogenic Escherichia coliHancock, 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 |
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2022 Journal Article A high-risk gut microbiota configuration associates with fatal hyperinflammatory immune and metabolic responses to SARS-CoV-2Albrich, 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 |
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2022 Journal Article Impact of Long COVID on health and quality of lifeO’ 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 |
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2022 Journal Article Characteristics and outcomes of carbapenemase harbouring carbapenem-resistant Klebsiella spp. bloodstream infections: a multicentre prospective cohort study in an OXA-48 endemic settingIsler, 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 |
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2022 Journal Article Phase variation in the glycosyltransferase genes of Pasteurella multocida associated with outbreaks of fowl cholera on free-range layer farmsOmaleki, 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 |
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2022 Journal Article A high-quality reference genome for the fish pathogen Streptococcus iniaeAlsheikh-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 |
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2022 Journal Article 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 horseFletcher, 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 |
