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| | Publication Year | Title | Author(s) |
| 1 | 7-Oct-2024 | Implementing a national programme of pathogen genomics for public health: the Australian Pathogen Genomics Program (AusPathoGen). | Webb, Jessica R; Andersson, Patiyan; Sim, Eby; Zahedi, Alireza; Donald, Angela; Hoang, Tuyet; Watt, Anne E; Agius, Jessica E; Donato, Celeste M; Cummins, Max L; Zulfiqar, Tehzeeb; Nghiem, Son; Lin, Chantel; Menouhos, Dimitrios; Leong, Lex E X; Baird, Rob; Kennedy, Karina; Cooley, Louise; Speers, David; Lim, Chuan Kok; de Ligt, Joep; Ferdinand, Angeline; Glass, Katie; Kirk, Martyn D; Djordjevic, Steven P; Sloggett, Clare; Horan, Kristy; Seemann, Torsten; Sintchenko, Vitali; Jennison, Amy V; Howden, Benjamin P |
| 2 | Oct-2024 | Surveillance of travel-associated isolates elucidates the diversity of non-pandemic Vibrio cholerae. | Bote, Lia; Taylor-Brown, Alyce; Maes, Mailis; Ingle, Danielle J; Valcanis, Mary; Howden, Benjamin P ; Thomson, Nicholas R |
| 3 | 9-Jul-2024 | Genomic investigation and clinical correlates of the in vitro β-lactam: NaHCO3 responsiveness phenotype among methicillin-resistant Staphylococcus aureus isolates from a randomized clinical trial. | Petersiel, Neta; Giulieri, Stefano G ; Daniel, Diane S; Fan, Sook-Ha; Ersoy, Selvi C; Davis, Joshua S; Bayer, Arnold S; Howden, Benjamin P ; Tong, Steven Y C |
| 4 | Jul-2024 | Rifaximin is associated with an increased risk of daptomycin-resistant VRE | Turner, Adrianna M; Vogrin, Sara; Gorrie, Claire L; Kwong, Jason C ; Howden, Benjamin P ; Carter, Glen P |
| 5 | 15-Jun-2024 | Prevalence of cefixime-resistant Neisseria gonorrhoeae in Melbourne, Australia, 2021-2022. | Chow, Eric P F; Stevens, Kerrie; De Petra, Vesna; Chen, Marcus Y; Bradshaw, Catriona S; Sherry, Norelle L ; Barbee, Lindley A; Vodstrcil, Lenka A; Aguirre, Ivette; Seib, Kate L; Maddaford, Kate; Williamson, Deborah A; Howden, Benjamin P ; Fairley, Christopher K |
| 6 | 30-Jan-2024 | High performance Legionella pneumophila source attribution using genomics-based machine learning classification. | Buultjens, Andrew H; Vandelannoote, Koen; Mercoulia, Karolina; Ballard, Susan; Sloggett, Clare; Howden, Benjamin P ; Seemann, Torsten; Stinear, Timothy P |
| 7 | 11-Jan-2024 | High-performance enrichment-based genome sequencing to support the investigation of hepatitis A virus outbreaks. | Zufan, Sara E; Mercoulia, Karolina; Kwong, Jason C ; Judd, Louise M; Howden, Benjamin P ; Seemann, Torsten; Stinear, Timothy P |
| 8 | 15-Nov-2023 | Comparison of contemporary invasive and non-invasive Streptococcus pneumoniae isolates reveals new insights into circulating anti-microbial resistance determinants. | Higgs, Charlie; Kumar, Lamali Sadeesh; Stevens, Kerrie; Strachan, Janet; Korman, Tony; Horan, Kristy; Daniel, Diane; Russell, Madeline; McDevitt, Christopher A; Sherry, Norelle L ; Stinear, Timothy P; Howden, Benjamin P ; Gorrie, Claire L |
| 9 | 26-Sep-2023 | A statistical genomics framework to trace bacterial genomic predictors of clinical outcomes in Staphylococcus aureus bacteremia. | Giulieri, Stefano G ; Guérillot, Romain; Holmes, Natasha E ; Baines, Sarah L; Hachani, Abderrahman; Hayes, Ashleigh S; Daniel, Diane S; Seemann, Torsten; Davis, Joshua S; Van Hal, Sebastiaan; Tong, Steven Y C; Stinear, Timothy P; Howden, Benjamin P |
| 10 | Aug-2023 | Public health implementation of pathogen genomics: the role for accreditation and application of ISO standards. | Ballard, Susan A; Sherry, Norelle L ; Howden, Benjamin P |
| 11 | Aug-2023 | The importance of utilizing travel history metadata for informative phylogeographical inferences: a case study of early SARS-CoV-2 introductions into Australia. | Porter, Ashleigh F; Featherstone, Leo; Lane, Courtney R; Sherry, Norelle L ; Nolan, Monica L; Lister, David; Seemann, Torsten; Duchene, Sebastian; Howden, Benjamin P |
| 12 | Jul-2023 | Reversible vancomycin susceptibility within emerging ST1421 Enterococcus faecium strains is associated with rearranged vanA-gene clusters and increased vanA plasmid copy number. | Wagner, Theresa Maria; Janice, Jessin; Schulz, Mark; Ballard, Susan A; da Silva, Anders Goncalves; Coombs, Geoffrey W; Daley, Denise A; Pang, Stanley; Mowlaboccus, Shakeel; Stinear, Tim; Hegstad, Kristin; Howden, Benjamin P ; Sundsfjord, Arnfinn |
| 13 | Jul-2023 | Population structure, serotype distribution and antibiotic resistance of Streptococcus pneumoniae causing invasive disease in Victoria, Australia. | Higgs, Charlie; Kumar, Lamali Sadeesh; Stevens, Kerrie; Strachan, Janet; Sherry, Norelle L ; Horan, Kristy; Zhang, Josh; Stinear, Timothy P; Howden, Benjamin P ; Gorrie, Claire L |
| 14 | 1-Jun-2023 | A multi-site, international laboratory study to assess the performance of penicillin susceptibility testing of Staphylococcus aureus. | Henderson, Andrew; Cheng, Matthew P; Chew, Ka Lip; Coombs, Geoffrey W; Davis, Joshua S; Grant, Jennifer M; Gregson, Dan; Giulieri, Stefano G ; Howden, Benjamin P ; Lee, Todd C; Nguyen, Vi; Mora, Jocelyn M; Morpeth, Susan C; Robinson, James O; Tong, Steven Y C; Van Hal, Sebastiaan J |
| 15 | Jun-2023 | Staphylococcus aureus host interactions and adaptation. | Howden, Benjamin P ; Giulieri, Stefano G ; Wong Fok Lung, Tania; Baines, Sarah L; Sharkey, Liam K; Lee, Jean Y H; Hachani, Abderrahman; Monk, Ian R; Stinear, Timothy P |
| 16 | Feb-2023 | All Staphylococcus aureus bacteraemia-inducing strains can cause infective endocarditis: Results of GWAS and experimental animal studies. | Bastien, Sylvère; Meyers, Severien; Salgado-Pabón, Wilmara; Giulieri, Stefano G ; Rasigade, Jean-Phillipe; Liesenborghs, Laurens; Kinney, Kyle J; Couzon, Florence; Martins-Simoes, Patricia; Moing, Vincent Le; Duval, Xavier; Holmes, Natasha E ; Bruun, Niels Eske; Skov, Robert; Howden, Benjamin P ; Fowler, Vance G; Verhamme, Peter; Andersen, Paal Skytt; Bouchiat, Coralie; Moreau, Karen; Vandenesch, François |
| 17 | 19-Jan-2023 | The epidemiology of the COVID-19 pandemic in the small, low-resource country of Timor-Leste, January 2020 - June 2022. | Niha, Maria Av; Draper, Anthony Dk; Viegas, Odete da Silva; de Araujo, Rui M; Joao, Josefina C; da Silva, Endang; Barreto, Ismail; Sarmento, Nevio; Oakley, Tessa; Machado, Filipe de Neri; Fancourt, Nicholas Ss; Marr, Ian; Dos Santos Fernandes, Liliana N; Martins, Noemia; Arkell, Paul; Tilman, Ari Jp; Dingle, Benjamin; Freitas, Carlito C; Bhowmick, Partha S; Sheridan, Sarah; Howden, Benjamin P ; Yan, Jennifer; Francis, Joshua R; Martins, Nelson |
| 18 | 4-Jan-2023 | An ISO-certified genomics workflow for identification and surveillance of antimicrobial resistance. | Sherry, Norelle L ; Horan, Kristy A; Ballard, Susan A; Gonҫalves da Silva, Anders; Gorrie, Claire L; Schultz, Mark B; Stevens, Kerrie; Valcanis, Mary; Sait, Michelle L; Stinear, Timothy P; Howden, Benjamin P ; Seemann, Torsten |
| 19 | 2023 | Genomic investigation of the emergence of vanD vancomycin-resistant Enterococcus faecium. | Baines, Sarah L; Guérillot, Romain; Ballard, Susan; Johnson, Paul D R ; Stinear, Timothy P; Roberts, Sally; Howden, Benjamin P |
| 20 | Jul-2022 | The demand-supply gap for faecal microbiota transplantation in Australia and New Zealand: a survey of infectious diseases physicians. | Manning, Laurens; Gosbell, Iain B; Howden, Benjamin P ; Tong, Steven |
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