Find articles published in scientific journals, conference publications and research articles. You can also find further work on the Resources page.
Publications
Within-host evolution during severe infections
Giulieri SG Leroi M, Daniel D, Chean R, Bond K, Walker H, Holmes NE, Mothobi N, Alexander A, Jenney A, Beckett C, Mahony A, Stevens K, Sherry NL, Howden BP. A multi-hospital, clinician-initiated bacterial genomics program to investigate treatment failure in severe Staphylococcus aureus infections. medRxiv 2023.10.23.23297384; DOI: 10.1101/2023.10.23.23297384.
This was the first clinical implementation of my within-host evolution research. For 4 years, clinicians across multiple hospitals in Victoria referred S. aureus strains to me from patients experiencing antibiotic treatment failure.
Giulieri SG. Case Commentary: The hidden side of oxacillin resistance in Staphylococcus aureus. Antimicrob Agents Chemother. 2023 Oct 18;67(10):e0071623. doi: 10.1128/aac.00716-23.
Giulieri SG, Guérillot R, Duchene S, Hachani A, Daniel D, Seemann T, Davis JS, Tong SYC, Young B, Wilson DJ, Stinear TP, Howden BP. Niche-specific genome degradation and convergent evolution shaping Staphylococcus aureus adaptation during severe infections. eLife. 2022 Jun 14;11:e77195. DOI:10.7554/eLife.77195.
Largest genomic analysis of S. aureus evolution during infection: a global collection of >400 serially sequenced infections, which revealed critical genes for pathogenesis and antibiotic resistance and pioneered large-scale within-host evolution analysis.
Giulieri SG, Guérillot R, Kwong JC, Monk IR, Hayes AS, Daniel D, Baines S, Sherry NL, Holmes NE, Ward P, Gao W, Seemann T, Stinear TP, Howden BP. Comprehensive Genomic Investigation of Adaptive Mutations Driving the Low-Level Oxacillin Resistance Phenotype in Staphylococcus aureus. mBio 2020; 11(6):e02882-20. DOI: 10.1128/mBio.02882-20.
A comprehensive investigation of the mec-independent oxacillin resistance phenotype in S. aureus. I used within-host evolution analysis, adaptive laboratory evolution and bacterial GWAS to demonstrate that this phenotype is adaptive and arises during chronic, deep seated infections.
GIULIERI SG, Baines SL, Guerillot R, Seemann T, Gonçalves da Silva A, Schultz M, Massey RC, Holmes NE, Stinear TP, Howden MP. Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia. Genome Med. 2018 Aug 23;10(1):65. DOI: 10.1186/s13073-018-0574-x.
This was the first systematic study of S. aureus within-host evolution during bloodstream infections, whereby I developed a new method to detect chromosomal structural variation.
Statistical genomics
Hachani A*, Giulieri SG*, Guérillot R*, Walsh CJ, Herisse M, Soe YM, Baines SL, Thomas DR, Cheung SD, Hayes AS, Cho E, Newton HJ, Pidot S, Massey RC, Howden BP, Stinear TP. A high-throughput cytotoxicity screening platform reveals agr-independent mutations in bacteraemia-associated Staphylococcus aureus that promote intracellular persistence. Elife. 2023 Jun 8;12:e84778. DOI: 10.7554/eLife.84778.
A pheno-genomics study that introduced an innovative high-throughput method to study a key virulence trait of S. aureus - hiding inside host cells without killing them to avoid immune detection. The genomic investigation of 380 isolates revealed a previously undescribed mechanism promoting intracellular persistence.
Bastien S, Meyers S, Salgado-Pabón W, Giulieri SG, Rasigade JP, Liesenborghs L, Kinney KJ, Couzon F, Martins-Simoes P, Moing VL, Duval X, Holmes NE, Bruun NE, Skov R, Howden BP, Fowler VG Jr, Verhamme P, Andersen PS, Bouchiat C, Moreau K, Vandenesch F. All Staphylococcus aureus bacteraemia-inducing strains can cause infective endocarditis: Results of GWAS and experimental animal studies. J Infect. 2023 Jan 2: S0163- 4453(22)00754-X.
This was the first study that investigated bacterial factors of S. aureus infective endocarditis. It used a combination of GWAS, in vitro and animal studies to study a global collection of 924 isolates, revealing that any S. aureus strain can infect the heart valves
Giulieri SG, Guérillot R, Holmes NE, Baines SL, Hachani A, Hayes AS, Daniel DS, Seemann T, Davis JS, Van Hal S, Tong SYC, Stinear TP, Howden BP. A statistical genomics framework to trace bacterial genomic predictors of clinical outcomes in Staphylococcus aureus bacteremia. Cell Rep. 2023 Sep 8:113069. DOI: 10.1016/j.celrep.2023.113069.
The largest bacterial GWAS of clinical outcomes in S. aureus infections. My analysis of >1,300 bacteraemia strains led to the discovery of novel antibiotic resistance genes and to assess for the first time the value of bacterial genomics in predicting clinical outcomes.
Staphylococcus aureus genomics
Petersiel N, Giulieri SG, Daniel DS, Fan S-H, Ersoy SC, Davis JS, Bayer AS, Howden BP, Tong SYC; CAMERA2 study group. 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. Antimicrob Agents Chemother. 2024 Jun 5:e0021824. DOI: 10.1128/aac.00218-24.
Howden BP, Giulieri SG, Wong Fok Lung T, Baines SL, Sharkey LK, Lee JYH, Hachani A, Monk IR, Stinear TP. Staphylococcus aureus host interactions and adaptation. Nat Rev Microbiol. 2023 Jan 27. DOI: 10.1038/s41579-023-00852-y.
Highly cited review on staphylococcal pathogenesis covered critical areas of burning scientific interest, including adaptation to the human host, within-host evolution during infection, interactions with other human microbiota, immune evasion, and immunometabolism. It outlined future applications of this emerging knowledge, such as anti-virulence strategies, microbiome manipulation and precision medicine.
Giulieri SG, Tong SYC, Williamson DA. Using genomics to understand methicillin- and vancomycin- resistant Staphylococcus aureus infections. Microb Genom. 2020 Jan;6(1):e000324. DOI: 10.1099/mgen.0.000324.
Guérillot R, Kostoulias X, Donovan L, Li L, Carter GP, Hachani A, Vandelannoote K, Giulieri SG, Monk IR, Kunimoto M, Starrs L, Burgio G, Seemann T, Peleg AY, Stinear TP, Howden BP. Unstable chromosome rearrangements in Staphylococcus aureus cause phenotype switching associated with persistent infections. Proc Natl Acad Sci U S A. 2019 Oct 1;116(40):20135-20140. doi: 10.1073/pnas.1904861116.
Guérillot R, Li L, Baines S, Howden B, Schultz MB, Seemann T, Monk I, Pidot SJ, Gao W, Giulieri S, Gonçalves da Silva A, D'Agata A, Tomita T, Peleg AY, Stinear TP, Howden BP. Comprehensive antibiotic-linked mutation assessment by resistance mutation sequencing (RM-seq). Genome Med. 2018 Aug 31;10(1):63. doi: 10.1186/s13073-018-0572-z.
Guérillot R, Gonçalves da Silva A, Monk I, Giulieri S, Tomita T, Alison E, Porter J, Pidot S, Gao W, Peleg AY, Seemann T, Stinear TP, Howden BP. Convergent Evolution Driven by Rifampin Exacerbates the Global Burden of Drug-Resistant Staphylococcus aureus. mSphere. 2018 Jan 24;3(1):e00550-17. doi: 10.1128/mSphere.00550-17.
Kpeli G, Buultjens AH, Giulieri S, Owusu-Mireku E, Aboagye SY, Baines SL, Seemann T, Bulach D, Gonçalves da Silva A, Monk IR, Howden BP, Pluschke G, Yeboah-Manu D, Stinear T. Genomic analysis of ST88 community-acquired methicillin resistant Staphylococcus aureus in Ghana. PeerJ. 2017 Feb 28;5:e3047. doi: 10.7717/peerj.3047.
Giulieri SG, Holmes NE, Stinear TP, Howden BP. Use of bacterial whole-genome sequencing to understand and improve the management of invasive Staphylococcus aureus infections. Expert Rev Anti Infect Ther. 2016 Nov;14(11):1023-1036. doi: 10.1080/14787210.2016.1233815.
Kpeli G, Darko Otchere I, Lamelas A, Buultjens AL, Bulach D, Baines SL, Seemann T, Giulieri S, Nakobu Z, Aboagye SY, Owusu-Mireku E, Pluschke G, Stinear TP, Yeboah-Manu D. Possible healthcare-associated transmission as a cause of secondary infection and population structure of Staphylococcus aureus isolates from two wound treatment centres in Ghana. New Microbes New Infect. 2016 Jul 12;13:92-101. doi: 10.1016/j.nmni.2016.07.001.
Clinical research
Henderson A, Cheng MP, Chew KL, Coombs GW, Davis JS, Grant JM, Gregson D, Giulieri SG, Howden BP, Lee TC, Nguyen V, Mora JM, Morpeth SC, Robinson JO, Tong SYC, Van Hal SJ; Microbiology Working Group of the Staphylococcus aureus Network Adaptive Platform (SNAP) Trial Group. A multi-site, international laboratory study to assess the performance of penicillin susceptibility testing of Staphylococcus aureus. J Antimicrob Chemother. 2023 Jun 1;78(6):1499-1504. doi: 10.1093/jac/dkad116.
Duss FR, Garcia de la Mària C, Croxatto A, Giulieri S, Lamoth F, Manuel O, Miró JM. Successful treatment with daptomycin and ceftaroline of MDR Staphylococcus aureus native valve endocarditis: a case report. J Antimicrob Chemother. 2019 Sep 1;74(9):2626-2630. doi: 10.1093/jac/dkz253.
Tusgul S, Prod'hom G, Senn L, Meuli R, Bochud PY, Giulieri SG. Bacillus cereus bacteraemia: comparison between haematologic and nonhaematologic patients. New Microbes New Infect. 2016 Nov 17;15:65-71. doi: 10.1016/j.nmni.2016.11.011. PMID: 28050250; PMCID: PMC5192042.
Chan M, Yusuf E, Giulieri S, Perrottet N, Von Segesser L, Borens O, Trampuz A. A retrospective study of deep sternal wound infections: clinical and microbiological characteristics, treatment, and risk factors for complications. Diagn Microbiol Infect Dis. 2016 Mar;84(3):261-5. doi: 10.1016/j.diagmicrobio.2015.11.011.
Asner SA, Giulieri S, Diezi M, Marchetti O, Sanglard D. Acquired Multidrug Antifungal Resistance in Candida lusitaniae during Therapy. Antimicrob Agents Chemother. 2015 Dec;59(12):7715-22. doi: 10.1128/AAC.02204-15. Epub 2015 Oct 5.