Dr Sanmarié Schlebusch is currently undertaking research with the University of Queensland:
“Assessing the effects of antibiotics on the gut microbiome – a metagenomic approach”.
This research involves:
The Gut and its microbiome in the Fight against Superbug Threats (GaimitFaST) research, which includes patients from the MERINO trials (https://clinicaltrials.gov/ct2/show/NCT02437045) and patients admitted to the Royal Brisbane Hospital intensive care unit (ICU).
The human gut contains a vast array of micro-organisms that play an essential role in human health and disease. The use of antimicrobials has a detrimental effect on gut microbiota and increased risk for infection or colonisation with resistant organisms. The gastro-intestinal tract is a major reservoir for colonisation with multi-drug resistant pathogens. This study utilised whole genome sequencing on faecal samples and rectal swabs from hospitalised patients with a focus on three groups (no antibiotics, piperacillin-tazobactam or meropenem treatment), to describe changes to the relative microbial diversity in each patient sample set collected over time and compared between groups. In addition, changes to key organisms and antimicrobial resistance genes will be assessed. This work will inform decisions around antibiotic usage and have implications for preventing antimicrobial resistance transfer. The project also involves enhancing laboratory methodology, bioinformatics pipelines, and clinical interpretation of metagenomic sequencing to support utilisation in healthcare.
Journal Articles
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
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
Stewart, Adam, Schlebusch, Sanmarie, Vlack, Susan, McMahon, Jamie, Sullivan, Mitchell, Pyke, Alyssa and Hajkowicz, Krispin (2023). First case of mpox diagnosed in Queensland, Australia: clinical and molecular aspects. Medical Journal of Australia, 218 (4), 157-159. doi: 10.5694/mja2.51842
Eustace, Matthew B, Sud, Ambika, Thompson, Craig, Schlebusch, Sanmarie and Horvath, Robert L (2022). Responding to the
COVID
‐19 pandemic in real time: coordinating a local hospital response using whole genome sequencing of
SARS‐CoV
‐2. Medical Journal of Australia, 217 (10), 546-547. doi: 10.5694/mja2.51762
Ahmed, Warish, Bivins, Aaron, Smith, Wendy J.M., Metcalfe, Suzanne, Stephens, Mikayla, Jennison, Amy V., Moore, Frederick A.J., Bourke, Jayden, Schlebusch, Sanmarie, McMahon, Jamie, Hewitson, Glen, Nguyen, Son, Barcelon, Jean, Jackson, Greg, Mueller, Jochen F., Ehret, John, Hosegood, Ian, Tian, Wei, Wang, Haofei, Yang, Lin, Bertsch, Paul M., Tynan, Josh, Thomas, Kevin V., Bibby, Kyle, Graber, Tyson E., Ziels, Ryan and Simpson, Stuart L. (2022). Detection of the Omicron (B.1.1.529) variant of SARS-CoV-2 in aircraft wastewater. Science of the Total Environment, 820 153171, 1-8. doi: 10.1016/j.scitotenv.2022.153171
Schlebusch, Sanmarié, Graham, Rikki M. A., Jennison, Amy V., Lassig-Smith, Melissa M., Harris, Patrick N. A., Lipman, Jeffrey, Ó Cuív, Páraic and Paterson, David L. (2022). Standard rectal swabs as a surrogate sample for gut microbiome monitoring in intensive care. BMC Microbiology, 22 (1) 99, 1-14. doi: 10.1186/s12866-022-02487-0
Brischetto, Anna, Schooneveldt, Jacqueline and Schlebusch, Sanmarie (2022). Evaluation of direct antimicrobial susceptibility testing using positive blood culture broth in an Australian laboratory. Pathology, 54 (1), 113-116. doi: 10.1016/j.pathol.2021.03.013
Smoll, Nicolas R., Taylor, Carmel, Martin, Ross, Wheatley, Sarah, Moore, Peter, Finger, Mitchell, Moore, Frederick, Schlebusch, Sanmarié and Khandaker, Gulam (2021). SARS-CoV-2 public health investigation in an aged care facility and challenges with serological screening in low pre-test probability settings. Communicable Diseases Intelligence, 45. doi: 10.33321/cdi.2021.45.42
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
Pyke, Alyssa T., Nair, Neelima, van den Hurk, Andrew F., Burtonclay, Peter, Nguyen, Son, Barcelon, Jean, Kistler, Carol, Schlebusch, Sanmarié, McMahon, Jamie and Moore, Frederick (2021). Replication kinetics of B.1.351 and B.1.1.7 SARS-CoV-2 variants of concern including assessment of a B.1.1.7 mutant carrying a defective ORF7a gene. Viruses, 13 (6) 1087, 1087. doi: 10.3390/v13061087
Pyke, Alyssa T., Choong, Keat, Moore, Frederick, Schlebusch, Sanmarié, Taylor, Carmel, Hewitson, Glen, McMahon, Jamie, Nair, Neelima, Moore, Peter, Finger, Mitchell, Burtonclay, Peter and Wheatley, Sarah (2020). A case of Japanese encephalitis with a fatal outcome in an Australian who traveled from Bali in 2019. Tropical Medicine and Infectious Disease, 5 (3) 133, 133. doi: 10.3390/tropicalmed5030133
Walczak, Andrew, Wilks, Kathryn, Shakhovskoy, Rebekah, Baird, Timothy, Schlebusch, Sanmarie, Taylor, Carmel, Reid, David and Choong, Keat (2020). COVID-19 in a complex obstetric patient with cystic fibrosis. Infection, Disease & Health, 25 (4), 239-241. doi: 10.1016/j.idh.2020.07.002
Moynihan, Katie M., McGarvey, Tambra, Barlow, Andrew, Heney, Claire, Gibbons, Kristen, Clark, Julia E., Schlebusch, Sanmarié and Schlapbach, Luregn J. (2020). Testing for Common Respiratory Viruses in Children Admitted to Pediatric Intensive Care: Epidemiology and Outcomes. Pediatric critical care medicine : a journal of the Society of Critical Care Medicine and the World Federation of Pediatric Intensive and Critical Care Societies, 21 (6), 1-e341. doi: 10.1097/PCC.0000000000002302
Arulkumaran, Nishkantha, Routledge, Matthew, Schlebusch, Sanmarié, Lipman, Jeffrey and Conway Morris, Andrew (2020). Antimicrobial-associated harm in critical care: a narrative review. Intensive Care Medicine, 46 (2), 225-235. doi: 10.1007/s00134-020-05929-3
Moynihan, Katie M., Barlow, Andrew, Heney, Claire, Clark, Julia E., Schlebusch, Sanmarie and Schlapbach, Luregn J. (2019). Viral respiratory infections diagnosed after PICU admission. Pediatric Critical Care Medicine, 20 (1), E46-E50. doi: 10.1097/PCC.0000000000001757
Moynihan, Katie M., Barlow, Andrew, Nourse, Clare, Heney, Claire, Schlebusch, Sanmarié and Schlapbach, Luregn J. (2018). Severe Mycoplasma Pneumoniae Infection in Children Admitted to Pediatric Intensive Care. The Pediatric infectious disease journal, 37 (12), e336-e338. doi: 10.1097/INF.0000000000002029
Catchpoole, Elizabeth M., Thirunavukarasu, Caitlin E., Varelias, Antiopi, Schlebusch, Sanmarié, Olver, Stuart, Zomerdijk, Nienke, Osland, Emma, Kennedy, Glen A., Tey, Siok-Keen, Hill, Geoffrey R. and Markey, Kate A. (2018). Early blood stream infection after BMT is associated with cytokine dysregulation and poor overall survival. Biology of Blood and Marrow Transplantation, 24 (7), 1360-1366. doi: 10.1016/j.bbmt.2018.02.025
Kaczmarek, Marlena C., Schlebusch, Sanmarie, Ware, Robert S., Coulthard, Mark G., McEniery, Julie A. and Lambert, Stephen B. (2017). Diagnostic testing in influenza and pertussis related paediatric intensive care unit admissions,Queensland, Australia, 1997-2013. Communicable Diseases Intelligence Quarterly Report, 41 (4), E308-E317.
Moynihan, Katie, Barlow, Andrew, Alphonso, Nelson, Anderson, Ben, Johnson, Janelle, Nourse, Clare, Schlebusch, Sanmarié, Karl, Tom R. and Schlapbach, Luregn J. (2017). Impact of viral respiratory pathogens on outcomes after pediatric cardiac surgery. Pediatric Critical Care Medicine, 18 (3), 219-227. doi: 10.1097/PCC.0000000000001083
Schlebusch, S., Price, G. R., Gallagher, R. L., Horton-Szar, V., Elbourne, L. D. H., Griffin, P., Venter, D. J., Jensen, S. O. and van Hal, S. J. (2017). MALDI-TOF MS meets WGS in a VRE outbreak investigation. European Journal of Clinical Microbiology and Infectious Diseases, 36 (3), 1-5. doi: 10.1007/s10096-016-2824-4
Gassiep, Ian, Armstrong, Mark, Van Havre, Zoe, Schlebusch, Sanmarie, McCormack, Joseph and Griffin, Paul (2015). Acute vancomycin-resistant enterococcal bacteraemia outbreak analysis in haematology patients: a case-control study. Healthcare Infection, 20 (4), 115-123. doi: 10.1071/HI15013
WAN SAI CHEONG, J, SMITH, H, HENEY, C, ROBSON, J, SCHLEBUSCH, S, FU, J and NOURSE, C (2015). Trends in the epidemiology of invasive Haemophilus influenzae disease in Queensland, Australia from 2000 to 2013: what is the impact of an increase in invasive non-typable H. influenzae (NTHi)?. Epidemiology and Infection, 143 (14), 2993-3000. doi: 10.1017/S0950268815000345
Zowawi, Hosam M., Sartor, Anna L., Balkhy, Hanan H., Walsh, Timothy R., Al Johani, Sameera M., AlJindan, Reem Y., Alfaresi, Mubarak, Ibrahim, Emad, Al-Jardani, Amina, Al-Abri, Seif, Al Salman, Jameela, Dashti, Ali A., Kutbi, Abdullah H., Schlebusch, Sanmarie, Sidjabat, Hanna E. and Paterson, David L. (2014). Molecular characterization of carbapenemase-producing Escherichia coli and Klebsiella pneumoniae in the countries of the gulf cooperation council: Dominance of OXA-48 and NDM Producers. Antimicrobial Agents and Chemotherapy, 58 (6), 3085-3090. doi: 10.1128/AAC.02050-13
Huber, Charlotte A., Hall, Lisa, Foster, Niki F., Gray, Mareeka, Allen, Michelle, Richardson, Leisha J., Robson, Jennifer, Vohra, Renu, Schlebusch, Sanmaire, George, Narelle, Nimmo, Graeme R., Riley, Thomas V. and Paterson, David L. (2014). Surveillance snapshot of Clostridium difficile infection in hospitals across Queensland detects binary toxin producing ribotype UK 244. Communicable Diseases Intelligence Quarterly Report, 38 (4), E279-E284.
Serisier, David J., Martin, Megan L., McGuckin, Michael A., Lourie, Rohan, Chen, Alice C., Brain, Barbara, Biga, Sally, Schlebusch, Sanmarié, Dash, Peter and Bowler, Simon D. (2013). Effect of long-term, low-dose erythromycin on pulmonary exacerbations among patients with non-cystic fibrosis bronchiectasis: the BLESS randomized controlled trial. JAMA: The Journal of the American Medical Association, 309 (12), 1260-1267. doi: 10.1001/jama.2013.2290
Griffin, Paul M., Price, Gareth R., Schooneveldt, Jacqueline M., Schlebusch, Sanmarie, Tilse, Martyn H., Urbanski, Tess, Hamilton, Brett and Venter, Deon (2012). Use of matrix-assisted laser desorption ionization-time of flight mass spectrometry to identify vancomycin-resistant enterococci and investigate the epidemiology of an outbreak. Journal of Clinical Microbiology, 50 (9), 2918-2931. doi: 10.1128/JCM.01000-12
Schlebusch, S., Price, G. R., Hinds, S., Nourse, C., Schooneveldt, J. M., Tilse, M. H., Liley, H. G., Wallis, T., Bowling, F., Venter, D. and Nimmo, G. R. (2010). First outbreak of PVL-positive nonmultiresistant MRSA in a neonatal ICU in Australia: Comparison of MALDI-TOF and SNP-plus-binary gene typing. European Journal of Clinical Microbiology and Infectious Diseases, 29 (10), 1311-1314. doi: 10.1007/s10096-010-0995-y
Schlebusch, S., Schooneveldt, J.M., Huygens, F. and Nimmo, G.R. (2009). Prevalence of staphylococcus aureus strains in an australian cohort, 1989-2003: evidence for the low prevalence of the toxic shock toxin and panton-valentine leukocidin genes. European Journal of Clinical Microbiology & Infectious Diseases, 28 (10), 1183-1189. doi: 10.1007/s10096-009-0761-1
Munckhof, WJ, Nimmo, GR, Schooneveldt, JM, Schlebusch, S, Stephens, AJ, Williams, G, Huygens, F and Giffard, P (2009). Nasal carriage of Staphylococcus aureus, including community-associated methicillin-resistant strains, in Queensland adults. Clinical Microbiology & Infection, 15 (2), 149-155. doi: 10.1111/j.1469-0691.2008.02652.x
Schlebusch, S. and Looke, D. F. M. (2005). Intraabdominal zygomycosis caused by Syncephalastrum racemosum infection successfully treated with partial surgical debridement and high-dose amphotericin B lipid complex. Journal of Clinical Microbiology, 43 (11), 5825-5827. doi: 10.1128/JCM.43.11.5825-5827.2005
Conference Papers
Stokes, Matthew, (Frank) Yu, Zirong, Schlebusch, Sanmarie, Jennison, Amy, Graham, Rikki, Cooper, Caroline, Smithers, B. Mark, Barbour, Andrew, Thomson, Iain and Frankel, Adam (2024). Alterations In Local Oesophageal Microbiota And Outcomes After Oesophagectomy For Oesophago-gastric Cancer: A Pilot Study. 20th ISDE World Congress for Esophageal Diseases, Edinburgh, United Kingdom, 22 - 24 September 2024. Cary, NC United States: Oxford University Press. doi: 10.1093/dote/doae057.006
Tsutsumi, Tamao, Shah, Alok, Lam, Lisa M T, Schlebusch, Sanmarie, Krueger, Annika, Frazer, Ian, Hugenholtz, Phil, Soyer, H Peter, Morrison, Mark, Hill, Michelle, Sedman, Jacqueline and Ismail, Ashraf (2019). 2125. Staphylococcus Species Identification by Fourier Transform Infrared (FTIR) Spectroscopic Techniques: A Cross-Lab Study. IDWeek 2019, Washington, DC, United States, 2-6 October 2019. Oxford, United Kingdom: Oxford University Press. doi: 10.1093/ofid/ofz360.1805
Griffin, Paul M., Price, Gareth R., Schooneveldt, Jacqueline M., Schlebusch, Sanmarié, Urbanski, Tess, Hamilton, Brett and Venter, Deon (2013). Rapid identification of VRE with MALDI-TOF MS. Australasian Division of the International Academy of Pathology 37th Annual Scientific Meeting 2012, Sydney, NSW Australia, 1-3 June 2012. London, United Kingdom: Elsevier. doi: 10.1097/01.pat.0000426852.32930.4a
Griffin, Paul, Price, Gareth, Hamilton, Brett, Schooneveldt, Jacqueline, Urbanski, Tess, Schlebusch, Sanmarie and Venter, Deon (2013). Rapid Identification of Vancomycin Resistant Enterococci with Maldi-Tof Mass Spectrometry. The Royal Australasian College of Physicians Future Directions in Health Congress 2013 (RACP), Perth, WA Australia, 26-29 May 2013. Richmond, VIC Australia: Wiley-Blackwell. doi: 10.1111/imj.12153
Thesis
Schlebusch, Sanmarié (2024). Assessing the effects of antibiotics on the gut microbiome - a metagenomic approach. PhD Thesis, Faculty of Medicine, The University of Queensland. doi: 10.14264/cec9391