School of Chemistry and Molecular Biosciences

Associate Professor Scott Beatson

BSc (Otago) Microbiology, MSc (Otago) Microbiology, PhD (Queensland) Genetics, MSc (Manchester) Bioinformatics
Associate Professor
School of Chemistry and Molecular Biosciences
+61 7 336 54863
Molecular Biosciences Building (76), Room 157
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Primary research interest

Molecular pathogenomics

Lab website

Beatson lab

About me

I specialise in bacterial pathogenomics: using whole-genome sequencing to investigate transmission, pathogenesis and antibiotic resistance in bacteria. Recent work from my group includes genomic investigations of hospital outbreaks and a phylogenomic analysis of the multidrug resistant Escherichia coli ST131 superbug.

I was awarded a PhD from UQ for my work in bacterial pathogenesis in 2002 and developed my career in bacterial genomics in the United Kingdom with fellowships from the Royal Commission for the Exhibition of 1851 (University of Oxford) and the UK Medical Research Council (University of Birmingham). Since returning to Australia I have held fellowships from both the NHMRC and ARC and have led a successful research group in the School of Chemistry and Molecular Biosciences at UQ since 2008. I am a member of the Australian Centre for Ecogenomics and the Australian Infectious Diseases Research Centre. In 2016 I received the Frank Fenner Award from the Australian Society for Microbiology in recognition of my contribution to microbiology research in Australia.

Research focus and collaborations

My group aims to better understand the evolution of clinically important bacterial pathogens through phylogenomics and comparative genomic analysis, and apply this knowledge in the clinical setting. Ongoing studies encompass Escherichia coli, Klebsiella, Pseudomonas aeruginosa, Staphylococci, Streptococci, Acinetobacter baumannii, and Legionella pneumophila, many of which are considered "superbugs" via their resistance to multiple antibiotics. With expertise in bioinformatics, evolution and a detailed understanding of bacterial pathogenesis and antibiotic resistance, we are driving the way that high-throughput and long-read genomic data is translated into precision medicine.

Major research themes include genomic approaches to characterise the emergence and spread of multidrug resistant superbugs at the global scale of pandemic clones (e.g. E. coli ST131) and at the local scale of health-care associated infections (e.g CPE and CRAB outbreaks). A major focus is the evolution and function of virulence factors that are widely conserved amongst pathogenic (e.g. fimbriae, pili and type III and type IV secretion systems and secreted effectors).

Virulence and antibiotic resistance genes are commonly transferred between bacterial cells by mobile genetic elements such as phage, plasmids, genomic islands and insertion sequences. Genomic (and metagenomic) study of mobile elements is difficult due to their repetitive nature. Meeting these challenges with novel bioinformatic approaches and high quality complete reference genome sequences is a priority of the group.

Software for comparative analysis of bacterial genome data have been developed by PhD students in our lab. These include the widely used BRIG (by Nabil Alikhan) and Easyfig (by Mitchell Sullivan) tools, which collectively have more than 1200 citations (GS 28/07/18). Recent software projects include an interactive web-based visualiser for communicating genomic and epidemiological data for Healthcare-associated infections (HAIviz (Budi Permana)). 

Example projects:

  • Developing software for Next-Gen bacterial genome and meta-genome assembly, annotation and analysis
  • PacBio or Nanopore sequencing of multidrug resistant superbugs from hospital patients
  • Genomic epidemiology: investigating outbreaks using genome sequencing
  • Reverse vaccinology: identifying candidate bacterial vaccine candidates
  • Investigating the role of bacteriophage in mobilizing virulence genes

Collaborations

  • Genomic epidemiology, antibiotic resistance and virulence of E. coli and other Gram negative superbugs: Mark Schembri (UQ), David Paterson (UQ), Patrick Harris (UQ/PathQ), Andrew Henderson (UQ/PAH), Amy Jennison (QFFS), Jeff Lipman (UQ/RBH), Jason Roberts (UQ), Mat Upton (Manchester), Tim Walsh (Cardiff), James Ussher (Otago), Deborah Williamson (Doherty/MDU).
  • Streptococcal pathogens: Mark Walker (UQ), Andrew Barnes (UQ), Glen Ulett (Griffith). 
  • Veterinary bacterial genomics (one health): Darren Trott (UAdelaide), Justine Gibson (UQ), Rowland Cobbold (UQ), Pat Blackhall (UQ).
  • Phage genomics: Karen Weynberg (UQ), Phil Hugenholtz (UQ).
  • Pseudomonas aerguinosa: Scott Bell (UQ/PCH), Claire Wainwright (UQ/LCCH), Tim Kidd (UQ). 
  • Legionella pneumophila: Elizabeth Hartland (Hudson/Monash), Phil Bond (UQ), Gene Tyson (UQ).
  • Metagenomics and long-read sequencing: Phil Hugenholtz (UQ), Gene Tyson (UQ), Nicole Webster (UQ/AIMS), Kok Gan Chan (UMalaysia).
  • Bacterial pathogenomics: Nick West (UQ), David Gally (Roslin/UEdinburgh), Andrew Roe (UGlasgow), Ian Henderson (UBirmingham), Kari Gobius (CSIRO).

Group members

  • Brian Forde, Postdoctoral Research Fellow
  • Lida Omaleki, Postdoctoral Research Fellow (Pat Blackhall lab)
  • Leah Roberts, PhD candidate (co-advisor Mark Schembri)
  • Areej Alsheikh, PhD (submitted July 2018)
  • Melinda Ashcroft, PhD (submitted June 2018)
  • Cameron Buckley, PhD candidate (co-advisor David Whiley)
  • David Wakeham, PhD candidate (associate advisor; principle advisor Justine Gibson)
  • Budi Permana, PhD candidate
  • Rhys White, PhD candidate
  • Caitlin Falconer, MBioinf project student
  • Kirt Hanks, PhD candidate

Teaching interests

I coordinate BINF7001 (Advanced Genome Informatics), a Masters in Bioinformatics core course designed to provide hands-on training in command-line genomics using dedicated high-performance computing resources. 

I have taught a variety of courses at undergraduate and postgraduate level in microbiology, bioinformatics and genomics (including BIOL1020, SCIE2100, MICR3003, BINF6000). I taught and coordinated BIOL3004 (Genomics and Bioinformatics) between 2007 and 2017. 

Achievements and awards

Awards

  • 2016: Australian Society for Microbiology Frank Fenner Award
  • 2015: Australian National Health and Medical Research Council Career Development Fellowship (Level 2) 
  • 2008: ARC Australian Research Fellowship.
  • 2006: Australian National Health and Medical Research Council Howard Florey Centenary Fellowship.
  • 2003: Medical Research Council (UK) Special Fellowship in Bioinformatics.
  • 2001: Royal Commission for the Exhibition of 1851 Fellowship.

Appointments

  • 2018: Chair, Data Enhanced and user Enhanced Genomics Virtual Laboratory (DeVL) project governance group.
  • 2017-now: Editorial board, Scientific Reports 
  • Associate editor BMC Genomics
  • Associate editor Microbiology Open
  • 2018: Chair, Data Enhanced and user Enhanced Genomics Virtual Laboratory (DeVL) project governance group.
  • 2017-now: Editorial board Scientific Reports 
  • 2015-now: Associate editor BMC Genomics
  • 2012-2015: Associate editor Microbiology Open
  • 2012-2013 Bacpath 2013 local organizing committee member.
  • 2008-2011 Lorne Genomes conference organizing committee.
  • 2009-2011 Australian Society for Microbiology Queensland Branch ex-officio member.

Featured publications

Researcher biography

Scott Beatson is an Associate Professor and NHMRC Career Development Fellow at The University of Queensland (UQ). He specializes in bacterial pathogenomics: using whole-genome sequencing to investigate transmission, pathogenesis and antibiotic resistance in bacteria. Recent work from his group includes genomic analyses of pandrug resistant enterobacteriaceae and the multidrug resistant Escherichia coli ST131 pandemic clone. He was awarded a PhD from UQ for his work in bacterial pathogenesis in 2002 and developed his career in bacterial genomics in the United Kingdom with the support of fellowships from the Royal Commission for the Exhibition of 1851 (University of Oxford) and the UK Medical Research Council (University of Birmingham). Since returning to Australia he has held fellowships from both the NHMRC and ARC and has led a successful research group in the School of Chemistry and Molecular Biosciences at UQ since 2008. He is also a member of the Australian Infectious Diseases Research Centre and the Australian Centre for Ecogenomics. In 2016 he received the Frank Fenner Award from the Australian Society for Microbiology in recognition of his contribution to microbiology research in Australia.

Publications

Journal Articles (163)
Conference Papers (12)
Data Collection (1)
Thesis (1)

Journal Articles

Xie, Ouli, Morris, Jacqueline M., Hayes, Andrew J., Towers, Rebecca J., Jespersen, Magnus G., Lees, John A., Ben Zakour, Nouri L., Berking, Olga, Baines, Sarah L., Carter, Glen P., Tonkin-Hill, Gerry, Schrieber, Layla, McIntyre, Liam, Lacey, Jake A., James, Taylah B., Sriprakash, Kadaba S., Beatson, Scott A., Hasegawa, Tadao, Giffard, Phil, Steer, Andrew C., Batzloff, Michael R., Beall, Bernard W., Pinho, Marcos D., Ramirez, Mario, Bessen, Debra E., Dougan, Gordon, Bentley, Stephen D., Walker, Mark J., Currie, Bart J. ... Davies, Mark R. (2024). Inter-species gene flow drives ongoing evolution of Streptococcus pyogenes and Streptococcus dysgalactiae subsp. equisimilis. Nature Communications, 15 (1) 2286, 1-14. doi: 10.1038/s41467-024-46530-2
Nhu, Nguyen Thi Khanh, Rahman, M. Arifur, Goh, Kelvin G. K., Kim, Seung Jae, Phan, Minh-Duy, Peters, Kate M., Alvarez-Fraga, Laura, Hancock, Steven J., Ravi, Chitra, Kidd, Timothy J., Sullivan, Matthew J., Irvine, Katharine M., Beatson, Scott A., Sweet, Matthew J., Irwin, Adam D., Vukovic, Jana, Ulett, Glen C., Hasnain, Sumaira Z. and Schembri, Mark A. (2024). A convergent evolutionary pathway attenuating cellulose production drives enhanced virulence of some bacteria. Nature Communications, 15 (1) 1441, 1441. doi: 10.1038/s41467-024-45176-4
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
Baleivanualala, Sakiusa C., Isaia, Lupeoletalalelei, Devi, Swastika V., Howden, Benjamin, Gorrie, Claire L., Matanitobua, Silivia, Sharma, Sajnel, Wilson, Donald, Kumar, Silpa, Maharaj, Komal, Beatson, Scott, Boseiwaqa, Lusiana V., Dyet, Kristin, Crump, John A., Hill, Philip C. and Ussher, James E. (2023). Molecular and clinical epidemiology of carbapenem resistant Acinetobacter baumannii ST2 in Oceania: a multicountry cohort study. The Lancet Regional Health - Western Pacific, 40 100896, 100896. doi: 10.1016/j.lanwpc.2023.100896
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
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
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
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
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
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
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
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
Hancock, Steven J., Phan, Minh‐Duy, Roberts, Leah, Vu, Thu Ngoc Minh, Harris, Patrick N.A., Beatson, Scott A. and Schembri, Mark A. (2021). Characterisation of DtrJ as an IncC plasmid conjugative DNA transfer component. Molecular Microbiology, 116 (1), 154-167. doi: 10.1111/mmi.14697
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
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
Sherrard, Laura J., Wee, Bryan A., Duplancic, Christine, Ramsay, Kay A., Dave, Keyur A., Ballard, Emma, Wainwright, Claire E., Grimwood, Keith, Sidjabat, Hanna E., Whiley, David M., Beatson, Scott A., Kidd, Timothy J. and Bell, Scott C. (2021). Emergence and impact of oprD mutations in Pseudomonas aeruginosa strains in cystic fibrosis. Journal of Cystic Fibrosis, 21 (1), e35-e43. doi: 10.1016/j.jcf.2021.03.007
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
Henderson, A., Paterson, D. L., Chatfield, M. D., Tambyah, P. A., Lye, D. C., De, P. P., Lin, R. T. P., Chew, K. L., Yin, M., Lee, T. H., Yilmaz, M., Cakmak, R., Alenazi, T. H., Arabi, Y. M., Falcone, M., Bassetti, M., Righi, E., Rogers, B.A., Kanj, S. S., Bhally, H., Iredell, J., Mendelson, M., Boyles, T. H., Looke, D. F. M., Runnegar, N. J., Miyakis, S., Walls, G., AI Khamis, M., Zikri, A. ... For the MERINO Trial Investigators and the Australasian Society for Infectious Disease Clinical Research Network (ASID-CRN) (2020). Association between minimum inhibitory concentration, beta-lactamase genes and mortality for patients treated with piperacillin/tazobactam or meropenem from the MERINO study. Clinical Infectious Diseases, 73 (11), e3842-e3850. doi: 10.1093/cid/ciaa1479
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
Kidsley, Amanda K., White, Rhys T., Beatson, Scott A., Saputra, Sugiyono, Schembri, Mark A., Gordon, David, Johnson, James R., O’Dea, Mark, Mollinger, Joanne L., Abraham, Sam and Trott, Darren J. (2020). Companion animals are spillover hosts of the multidrug-resistant human extraintestinal Escherichia coli pandemic clones ST131 and ST1193. Frontiers in Microbiology, 11 1968, 1968. doi: 10.3389/fmicb.2020.01968
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
Roberts, Leah W., Catchpoole, Elizabeth, Jennison, Amy V., Bergh, Haakon, Hume, Anna, Heney, Claire, George, Narelle, Paterson, David L., Schembri, Mark A., Beatson, Scott A. and Harris, Patrick N. A. (2019). Genomic analysis of carbapenemase-producing Enterobacteriaceae in Queensland reveals widespread transmission of blaIMP-4 on an IncHI2 plasmid. Microbial Genomics, 6 (1) 000321. doi: 10.1099/mgen.0.000321
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
Tan, Yi Jie Chelsea, Zhao, Chengzhi, Nasreen, Marufa, O'Rourke, Leo, Dhouib, Rabeb, Roberts, Leah, Wan, Ying, Beatson, Scott A. and Kappler, Ulrike (2019). Control of bacterial sulfite detoxification by conserved and species-specific regulatory circuits. Frontiers in Microbiology, 10 (MAY) 960, 960. doi: 10.3389/fmicb.2019.00960
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
Murthy, Ambika M. V., Sullivan, Matthew J., Nhu, Nguyen Thi Khanh, Lo, Alvin W., Phan, Minh-Duy, Peters, Kate M., Boucher, Dave, Schroder, Kate, Beatson, Scott A., Ulett, Glen C., Schembri, Mark A. and Sweet, Matthew J. (2019). Variation in hemolysin A expression between uropathogenic Escherichia coli isolates determines NLRP3-dependent vs. -independent macrophage cell death and host colonization. FASEB Journal : official publication of the Federation of American Societies for Experimental Biology, 33 (6), fj201802100R-7450. doi: 10.1096/fj.201802100R
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
Sherrard, Laura J., Tai, Anna S., Wee, Bryan A., Ramsay, Kay A., Kidd, Timothy J., Ben Zakour, Nouri L., Whiley, David M., Beatson, Scott A. and Bell, Scott C. (2019). Correction: Within-host whole genome analysis of an antibiotic resistant Pseudomonas aeruginosa strain sub-type in cystic fibrosis (PLoS One (2017) 12:3 (e0172179) DOI: 10.1371/journal.pone.0172179). PLoS ONE, 14 (1) e0210929. doi: 10.1371/journal.pone.0210929
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
Harris, Patrick N. A., Tambyah, Paul A., Lye, David C., Mo, Yin, Lee, Tau H., Yilmaz, Mesut, Alenazi, Thamer H., Arabi, Yaseen, Falcone, Marco, Bassetti, Matteo, Righi, Elda, Rogers, Benjamin A., Kanj, Souha, Bhally, Hasan, Iredell, Jon, Mendelson, Marc, Boyles, Tom H., Looke, David, Miyakis, Spiros, Walls, Genevieve, Al Khamis, Mohammed, Zikri, Ahmed, Crowe, Amy, Ingram, Paul, Daneman, Nick, Griffin, Paul, Athan, Eugene, Lorenc, Penelope, Baker, Peter ... MERINO Trial Investigators and the Australasian Society for Infectious Disease Clinical Research Network (ASID-CRN) (2018). Effect of piperacillin-tazobactam vs meropenem on 30-day mortality for patients with E coli or Klebsiella pneumoniae bloodstream infection and ceftriaxone resistance: a randomized clinical trial. JAMA, 320 (10), 984-994. doi: 10.1001/jama.2018.12163
Wee, Bryan A., Tai, Anna S., Sherrard, Laura J., Ben Zakour, Nouri L., Hanks, Kirt R., Kidd, Timothy J., Ramsay, Kay A., Lamont, Iain, Whiley, David M., Bell, Scott C. and Beatson, Scott A. (2018). Whole genome sequencing reveals the emergence of a Pseudomonas aeruginosa shared strain sub-lineage among patients treated within a single cystic fibrosis centre. BMC Genomics, 19 (1) 644, 644. doi: 10.1186/s12864-018-5018-x
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
Kawasaki, Minami, Delamare-Deboutteville, Jerome, Bowater, Rachel O, Walker, Mark J., Beatson, Scott, Ben Zakour, Nouri L. and Barnes, Andrew C. (2018). Microevolution of aquatic Streptococcus agalactiae ST-261 from Australia indicates dissemination via imported tilapia and ongoing adaptation to marine hosts or environment. Applied and Environmental Microbiology, 84 (16) e00859-18, AEM.00859-18. doi: 10.1128/aem.00859-18
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
Chhabra, Yash, Yong, Hilary X. L., Fane, Mitchell E., Soogrim, Arish, Lim, Wen, Mahiuddin, Dayana Nur, Kim, Reuben S. Q., Ashcroft, Melinda, Beatson, Scott A., Ainger, Stephen A., Smit, Darren J., Jagirdar, Kasturee, Walker, Graeme J., Sturm, Richard A. and Smith, Aaron G. (2018). Genetic variation in IRF4 expression modulates growth characteristics, tyrosinase expression and interferon-gamma response in melanocytic cells. Pigment Cell & Melanoma Research, 31 (1), 51-63. doi: 10.1111/pcmr.12620
Harris, Patrick N. A., Ben Zakour, Nouri L., Roberts, Leah W., Wailan, Alexander M., Zowawi, Hosam M., Tambyah, Paul A., Lye, David C., Jureen, Roland, Lee, Tau H., Yin, Mo, Izharuddin, Ezlyn, Looke, David, Runnegar, Naomi, Rogers, Benjamin, Bhally, Hasan, Crowe, Amy, Schembri, Mark A., Beatson, Scott A. and Paterson, David L. (2017). Whole genome analysis of cephalosporin-resistant Escherichia coli from bloodstream infections in Australia, New Zealand and Singapore: high prevalence of CMY-2 producers and ST131 carrying blaCTX-M-15 and blaCTX-M-27. The Journal of Antimicrobial Chemotherapy, 73 (3), 634-642. doi: 10.1093/jac/dkx466
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
Lo, Alvin W., Moriel, Danilo G., Phan, Minh-Duy, Schulz, Benjamin L., Kidd, Timothy J., Beatson, Scott A. and Schembri, Mark A. (2017). 'Omic' approaches to study Uropathogenic Escherichia coli virulence. Trends in Microbiology, 25 (9), 729-740. doi: 10.1016/j.tim.2017.04.006
Kakkanat, Asha, Minh-Duy Phan, Lo, Alvin W., Beatson, Scott A. and Schembri, Mark A. (2017). Novel genes associated with enhanced motility of Escherichia coli ST131. PLoS One, 12 (5) e0176290, e0176290.1-e0176290.22. doi: 10.1371/journal.pone.0176290
Beatson, Scott A.  and Bartley, Paul B. (2017). Diving deep into hospital-acquired Legionella pneumophila with whole-genome sequencing. Clinical Infectious Diseases, 64 (9), 1260-1262. doi: 10.1093/cid/cix156
Sherrard, Laura J., Tai, Anna S., Wee, Bryan A., Ramsay, Kay A., Kidd, Timothy J., Ben Zakour, Nouri L., Whiley, David M., Beatson, Scott A. and Bell, Scott C. (2017). Within-host whole genome analysis of an antibiotic resistant Pseudomonas aeruginosa strain sub-type in cystic fibrosis. PLoS One, 12 (3) e0172179, e0172179.1-e0172179.15. doi: 10.1371/journal.pone.0172179
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
Moriel, Danilo G., Tan, Lendl, Goh, Kelvin G. K., Phan, Minh-Duy, Ipe, Deepak S., Lo, Alvin W., Peters, Kate M., Ulett, Glen C., Beatson, Scott. A. and Schembri, Mark A. (2016). A novel protective vaccine antigen from the core Escherichia coli genome. mSphere, 1 (6) e00326-16. doi: 10.1128/mSphere.00326-16
Tan, Lendl, Moriel, Danilo G., Totsika, Makrina, Beatson, Scott A. and Schembri, Mark A. (2016). Differential regulation of the surface-exposed and secreted SslE lipoprotein in extraintestinal pathogenic Escherichia coli. PLoS One, 11 (9) e0162391, e0162391. doi: 10.1371/journal.pone.0162391
Sarkar, Sohinee, Roberts, Leah W., Phan, Minh-Duy, Tan, Lendl, Lo, Alvin W., Peters, Kate M., Paterson, David L., Upton, Mathew, Ulett, Glen C., Beatson, Scott A., Totsika, Makrina and Schembri, Mark A. (2016). Comprehensive analysis of type 1 fimbriae regulation in fimB-null strains from the multidrug resistant Escherichia coli ST131 clone. Molecular Microbiology, 101 (6), 1069-1087. doi: 10.1111/mmi.13442
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
Ben Zakour, Nouri L, Alsheikh-Hussain, Areej S, Ashcroft, Melinda M, Khanh Nhu, Nguyen Thi, Roberts, Leah W, Stanton-Cook, Mitchell, Schembri, Mark A and Beatson, Scott A (2016). Erratum for Ben Zakour et al., Sequential Acquisition of Virulence and Fluoroquinolone Resistance Has Shaped the Evolution of Escherichia coli ST131. mBio, 7 (3), 1-1. doi: 10.1128/mBio.00958-16
Kappler, Ulrike, Davenport, Karen, Beatson, Scott, Lapidus, Alla, Pan, Chongle, Han, Cliff, Montero-Calasanz, Maria del Carmen, Land, Miriam, Hauser, Loren, Rohde, Manfred, Goeker, Markus, Ivanova, Natalia, Woyke, Tanja, Klenk, Hans-Peter and Kyrpides, Nikos C. (2016). Complete genome sequence of the haloalkaliphilic, obligately chemolithoautotrophic thiosulfate and sulfide-oxidizing γ-proteobacterium Thioalkalimicrobium cyclicum type strain ALM 1 (DSM 14477T). Standards in Genomic Sciences, 11 (38) 38, 1-12. doi: 10.1186/s40793-016-0162-x
Nichols, Katie B., Totsika, Makrina, Moriel, Danilo G., Lo, Alvin W., Yang, Ji, Wurpel, Daniel J., Rossiter, Amanda E., Strugnell, Richard A., Henderson, Ian R., Ulett, Glen C., Beatson, Scott A. and Schembri, Mark A. (2016). Molecular characterisation of the Vacuolating Autotransporter Toxin in Uropathogenic Escherichia coli. Journal of Bacteriology, 198 (10), 1487-1498. doi: 10.1128/JB.00791-15
Ben Zakour, Nouri L., Alsheikh-Hussain, Areej S., Ashcroft, Melinda M., Nhu, Nguyen Thi Khanh, Roberts, Leah W., Stanton-Cook, Mitchell, Schembri, Mark A. and Beatson, Scott A. (2016). Sequential acquisition of virulence and fluoroquinolone resistance has shaped the evolution of Escherichia coli ST131. MBio, 7 (2) e00347-16, e00347-16.1-e00347-16.11. doi: 10.1128/mBio.00347-16
Moriel, Danilo G., Heras, Begona, Paxman, Jason J., Lo, Alvin W., Tan, Lendl, Sullivan, Matthew J., Dando, Samantha J., Beatson, Scott A., Ulett, Glen C. and Schembri, Mark A. (2016). Molecular and structural characterization of a novel Escherichia coli interleukin receptor mimic protein. mBio, 7 (2) e02046-15, 1-11. doi: 10.1128/mBio.02046-15
Ho, Chun-Hoong, Stanton-Cook, Mitchell, Beatson, Scott A., Bansal, Nidhi and Turner, Mark S. (2016). Stability of active prophages in industrial Lactococcus lactis strains in the presence of heat, acid, osmotic, oxidative and antibiotic stressors. International Journal of Food Microbiology, 220, 26-32. doi: 10.1016/j.ijfoodmicro.2015.12.012
McAllister, Lauren J., Bent, Stephen J., Petty, Nicola K., Skippington, Elizabeth, Beatson, Scott A., Paton, Jmaes C. and Paton, Adrienne W. (2016). Genomic comparison of two O111:H- Enterohemorrhagic Escherichia coli isolates from a historic hemolytic uremic syndrome outbreak in Australia. Infection and Immunity, 84 (3), 775-781. doi: 10.1128/IAI.01229-15
Ipe, Deepak S., Ben Zakour, Nouri L., Sullivan, Matthew J., Beatson, Scott A., Ulett, Kimberly B., Benjamin, William H., Davies, Mark R., Dando, Samantha J., King, Nathan P., Cripps, Allan W., Schembri, Mark A., Dougan, Gordon and Ulett, Glen C. (2016). Discovery and Characterization of Human Urine Utilization by Asymptomatic Bacteriuria Streptococcus agalactiae. Infection and Immunity, 84 (1), 307-319. doi: 10.1128/IAI.00938-15
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
Kakkanat, Asha, Totsika, Makrina, Schaale, Kolja, Duell, Benjamin L., Lo, Alvin W., Phan, Minh-Duy, Moriel, Danilo G., Beatson, Scott A., Sweet, Matthew J., Ulett, Glen C. and Schembri, Mark A. (2015). The role of H4 flagella in Escherichia coli ST131 virulence. Scientific Reports, 5 (16149) 16149, 1-14. doi: 10.1038/srep16149
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
Connolly, James P. R., Goldstone, Robert J., Burgess, Karl, Cogdell, Richard J., Beatson, Scott A., Vollmer, Waldemar, Smith, David G. E. and Roe, Andrew J. (2015). Erratum: the host metabolite D-serine contributes to bacterial niche specificity through gene selection. ISME Journal, 9 (4), 1052-1052. doi: 10.1038/ismej.2015.17
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
Arden, Katherine E., Beatson, Scott A., Lambert, Stephen B., Wang, Claire W. T., McVernon, Jodie, Nissen, Michael D., Nolan, Terry, Sloots, Theo P. and Mackay, Ian M. (2015). Deep sequence characterisation of a divergent HPIV-4a from an adult with prolonged influenza-like illness. Virology Reports, 5, 19-28. doi: 10.1016/j.virep.2015.02.001
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
Lo, Raquel, Stanton-Cook, Mitchell J., Beatson, Scott A., Turner, Mark S. and Bansal, Nidhi (2015). Draft genome sequence of Pseudomonas fluorescens SRM1, an isolate from spoiled raw milk. Genome Announcements, 3 (2) e00138-15, 1-2. doi: 10.1128/genomeA.00138-15
Mavromatis, Charalampos (Harris), Bokil, Nilesh J., Totsika, Makrina, Kakkanat, Asha, Schaale, Kolja, Cannistraci, Carlo V., Ryu, Taewoo, Beatson, Scott A., Ulett, Glen C., Schembri, Mark A., Sweet, Matthew J. and Ravasi, Timothy (2015). The co-transcriptome of uropathogenic Escherichia coli-infected mouse macrophages reveals new insights into host–pathogen interactions. Cellular Microbiology, 17 (5), 730-746. doi: 10.1111/cmi.12397
Bartley, Paul B., Ben Zakour, Nouri L., Stanton-Cook, Mitchell, Muguli, Raghuram, Prado, Luis, Garnys, Vyt, Taylor, Katherine, Barnett, Timothy C., Pinna, Glen, Robson, Jennifer, Paterson, David L., Walker, Mark J., Schembri, Mark A. and Beatson, Scott A. (2015). Hospital-Wide Eradication of a Nosocomial Legionella pneumophila Serogroup 1 Outbreak. Clinical Infectious Diseases, 62 (3), 273-279. doi: 10.1093/cid/civ870
Connolly, James P., Goldstone, Robert J., Burgess, Karl, Cogdell, Richard J., Beatson, Scott A., Vollmer, Waldemar, Smith, David G. E. and Roe, Andrew J. (2014). The host metabolite D-serine contributes to bacterial niche specificity through gene selection.. The ISME Journal, 9 (4), 1039-1051. doi: 10.1038/ismej.2014.242
Henningham, Anna, Yamaguchi, Masaya, Aziz, Ramy K., Kuipers, Kirsten, Buffalo,Cosmo Z., Dahesh, Samira, Choudhury, Biswa, Van Vleet, Jeremy, Yamaguchi, Yuka, Seymour, Lisa M., Ben Zakour, Nouri L., He, Lingjun, Smith, Helen V., Grimwood, Keith, Beatson, Scott A., Ghosh, Partho, Walker, Mark J., Nizet, Victor and Cole, Jason N. (2014). Mutual exclusivity of hyaluronan and hyaluronidase in invasive group a Streptococcus. Journal of Biological Chemistry, 289 (46), 32303-32315. doi: 10.1074/jbc.M114.602847
Franz, Eelco, Delaquis, Pascal, Morabito, Stefano, Beutin, Lothar, Gobius, Kari, Rasko, David A., Jim, Bono, Nigel, French, Osek, Jacek, Lindstedt, Bjørn-Arne, Muniesa, Maite, Manning, Shannon, LeJeune, Jeff, Callaway, Todd, Beatson, Scott, Eppinger, Mark, Dallman, Tim, Forbes, Ken J., Aarts, Henk, Pearl, David L., Gannon, Victor P.J., Laing, Chad R. and Strachan, Norval J.C. (2014). Corrigendum to "Exploiting the explosion of information associated with whole genome sequencing to tackle Shiga toxin-producing Escherichia coli (STEC) in global food production systems". International Journal of Food Microbiology, 193, 159-159. doi: 10.1016/j.ijfoodmicro.2014.09.026
Easton, Donna M., Allsopp, Luke P., Phan, Minh-Duy, Gomes Moriel, Danilo, Goh, Guan Kai, Beatson, Scott A., Mahony, Timothy J., Cobbold, Rowland N. and Schembri, Mark A. (2014). The intimin-like protein FdeC is regulated by H-NS and temperature in Enterohaemorrhagic Escherichia coli. Applied and Environmental Microbiology, 80 (23), 7337-7347. doi: 10.1128/AEM.02114-14
Beatson, Scott A. and Walker, Mark J. (2014). Tracking antibiotic resistance. Science, 345 (6203), 1454-1455. doi: 10.1126/science.1260471
Franz, Eelco, Delaquis, Pascal, Morabito, Stefano, Beutin, Lothar, Gobius, Kari, Rasko, David A., Bono, Jim, French, Nigel, Osek, Jacek, Lindstedt, Bjørn-Arne, Muniesa, Maite, Manning, Shannon, LeJeune, Jeff, Callaway, Todd, Beatson, Scott, Eppinger, Mark, Dallman, Tim, Forbes, Ken J., Aarts, Henk, Pearl, David L., Gannon, Victor P. J., Laing, Chad R. and Strachan, Norval J. C. (2014). Exploiting the explosion of information associated with whole genome sequencing to tackle Shiga toxin-producing Escherichia coli (STEC) in global food production systems. International Journal of Food Microbiology, 187, 57-72. doi: 10.1016/j.ijfoodmicro.2014.07.002
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
Alghoribi, Majed F., Gibreel, Tarek M., Dodgson, Andrew R., Beatson, Scott A. and Upton, Mathew (2014). Galleria mellonella Infection Model Demonstrates High Lethality of ST69 and ST127 Uropathogenic E. coli.. PLoS One, 9 (7) e101547, e101547.1-e101547.10. doi: 10.1371/journal.pone.0101547
Beckham, Katherine S. H., Connolly, James P. R., Ritchie, Jennifer M., Wang, Dai, Gawthorne, Jayde A., Tahoun, Amin, Gall, David L., Burgess, Karl, Burchmore, Richard J., Smith, Brian O., Beatson, Scott A., Byron, Olwyn, Wolfe, Alan J., Douce, Gillian R. and Roe, Andrew J. (2014). The metabolic enzyme AdhE controls the virulence of Escherichia coli O157:H7. Molecular Microbiology, 93 (1), 199-211. doi: 10.1111/mmi.12651
Bachmann, Nathan L., Petty, Nicola K., Ben Zakour, Nouri L., Szubert, Jan M., Savill, John and Beatson, Scott A. (2014). Genome analysis and CRISPR typing of Salmonella enterica serovar Virchow. BMC Genomics, 15 (1) 389, 389. doi: 10.1186/1471-2164-15-389
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
Skarshewski, Adam, Stanton-Cook, Mitchell, Huber, Thomas, Al Mansoori, Sumaya, Smith, Ross, Beatson, Scott A. and Rothnagel, Joseph A. (2014). uPEPperoni: an online tool for upstream open reading frame location and analysis of transcript conservation. BMC Bioinformatics, 15 (36) 36, 1-6. doi: 10.1186/1471-2105-15-36
Wee, Bryan A., Woolfit, Megan, Beatson, Scott A. and Petty, Nicola K. (2013). A distinct and divergent lineage of genomic island-associated Type IV Secretion Systems in Legionella. PloS One, 8 (12) e82221, 1-13. doi: 10.1371/journal.pone.0082221
Goh, H. M. Sharon, Beatson, Scott A., Totsika, Makrina, Moriel, Danilo G., Phan, Minh-Duy, Szubert, Jan, Runnegar, Naomi, Sidjabat, Hanna E., Paterson, David L., Nimmo, Graeme R., Lipman, Jeffrey and Schembri, Mark A. (2013). Molecular analysis of the Acinetobacter baumannii biofilm-associated protein. Applied and Environmental Microbiology, 79 (21), 6535-6543. doi: 10.1128/AEM.01402-13
Moriel, Danilo G., Beatson, Scott A., Wurpel, Daniël J., Lipman, Jeffrey, Nimmo, Graeme R., Paterson, David L. and Schembri, Mark A. (2013). Identification of novel vaccine candidates against multidrug-resistant Acinetobacter baumannii. PLoS ONE, 8 (10) e77631, e77631.1-e77631.9. doi: 10.1371/journal.pone.0077631
Phan, Minh-Duy, Peters, Kate M., Sarkar, Sohinee, Lukowski, Samuel W., Allsopp, Luke P., Moriel, Danilo Gomes, Achard, Maud E. S., Totsika, Makrina, Marshall, Vikki M., Upton, Mathew, Beatson, Scott A. and Schembri, Mark A. (2013). The serum resistome of a globally disseminated multidrug resistant uropathogenic Escherichia coli clone. PloS Genetics, 9 (10) e1003834, e1003834.1-e1003834.18. doi: 10.1371/journal.pgen.1003834
Dunne, Karl A., Allam, Amr, McIntosh, Anne, Houston, Stephanie A., Cerovic, Vuk, Goodyear, Carl S., Roe, Andrew J., Beatson, Scott A., Milling, Simon W., Walker, Daniel and Wall, Daniel M. (2013). Increased S-nitrosylation and proteasomal degradation of caspase-3 during infection contribute to the persistence of adherent invasive Escherichia coli (AIEC) in immune cells. PLoS ONE, 8 (7) e68386, e68386. doi: 10.1371/journal.pone.0068386
Venturini, Carola, Ong, Cheryl-Iynn Y., Gillen, Christine M., Ben-Zakour, Nouri L., Maamary, Peter G., Nizet, Victor, Beatson, Scott A. and Walker, Mark J. (2013). Acquisition of the Sda1-encoding bacteriophage does not enhance virulence of the serotype M1 Streptococcus pyogenes strain SF370. Infection and Immunity, 81 (6), 2062-2069. doi: 10.1128/IAI.00192-13
Totsika, Makrina, Kostakioti, Maria, Hannan, Thomas J., Upton, Mathew, Beatson, Scott A., Janetka, James W., Hultgren, Scott J. and Schembri, Mark A. (2013). A FimH inhibitor prevents acute bladder infection and treats chronic cystitis caused by multidrug resistant uropathogenic Escherichia coli ST131. Journal of Infectious Diseases, 208 (6), 921-928. doi: 10.1093/infdis/jit245
Wurpel, Daniel J., Beatson, Scott A., Totsika, Makrina, Petty, Nicola K. and Schembri, Mark A. (2013). Chaperone-usher fimbriae of Escherichia coli. PLoS One, 85 (1) e52835, e52835.1-e52835.11. doi: 10.1371/journal.pone.0052835
Woolfit, Megan, Iturbe-Ormaetxe, Inaki, Brownlie, Jeremy C., Walker, Thomas, Riegler, Markus, Seleznev, Andrei, Popovici, Jean, Rances, Edwige, Wee, Bryan A., Pavlides, Jennifer, Sullivan, Mitchell J., Beatson, Scott A., Lane, Amanda, Sidhu, Manpreet, McMeniman, Conor J., McGraw, Elizabeth A. and O'Neill, Scott L. (2013). Genomic evolution of the pathogenic Wolbachia strain, wMelPop. Genome Biology and Evolution, 5 (11), 2189-2204. doi: 10.1093/gbe/evt169
Handley, Kim M., Upton, Mathew, Beatson, Scott A., Héry, Marina and Lloyd, Jonathan R. (2013). Genome sequence of hydrothermal arsenic-respiring bacterium Marinobacter santoriniensis NKSG1T. Genome Announcements, 1 (3) e00231-13. doi: 10.1128/genomeA.00231-13
Tsatsaronis, James A., Hollands, Andrew, Cole, Jason N., Maamary, Peter G., Gillen, Christine M., Ben Zakour, Nouri L., Kotb, Malak, Nizet, Victor, Beatson, Scott A., Mark J. Walker and Sanderson-Smith, Martina L. (2013). Streptococcal collagen-like protein A and general stress protein 24 are immunomodulating virulence factors of group A Streptococcus. FASEB Journal, 27 (7), 2633-2643. doi: 10.1096/fj.12-226662
Duplouy, Anne, Iturbe-Ormaetxe, Inaki, Beatson, Scott A., Szubert, Jan M., Brownlie, Jeremy C., McMeniman, Conor J., McGraw, Elizabeth A., Hurst, Gregory D. D., Charlat, Sylvain, O'Neill, Scott L. and Woolfit, Megan (2013). Draft genome sequence of the male-killing Wolbachia strain wBol1 reveals recent horizontal gene transfers from diverse sources. Bmc Genomics, 14 (1) 20, 20.1-20.13. doi: 10.1186/1471-2164-14-20
Nolan, Laura M., Beatson, Scott A., Croft, Larry, Jones, Peter M., George, Anthony M., Mattick, John S., Turnbull, Lynne and Whitchurch, Cynthia B. (2012). Extragenic suppressor mutations that restore twitching motility to fimL mutants of Pseudomonas aeruginosa are associated with elevated intracellular cyclic AMP levels. MicrobiologyOpen, 1 (4), 490-501. doi: 10.1002/mbo3.49
Walker, Mark J. and Beatson, Scott A. (2012). Outsmarting outbreaks. Science, 338 (6111), 1161-1162. doi: 10.1126/science.1232327
Smith, William M., Pham, Thi Huong, Lei, Lin, Dou, Junchao, Soomro, Aijaz H., Beatson, Scott A., Dykes, Gary A. and Turner, Mark S. (2012). Heat resistance and salt Hypersensitivity in Lactococcus lactis due to spontaneous mutation of llmg_1816 (gdpP) induced by high-temperature growth. Applied and Environmental Microbiology, 78 (21), 7753-7759. doi: 10.1128/AEM.02316-12
Maamary, Peter G., Ben Zakour, Nouri L., Cole, Jason N., Hollands, Andrew, Aziz, Ramy K., Barnett, Timothy C., Cork, Amanda J., Henningham, Anna, Sanderson-Smith, Martina, McArthur, Jason D., Venturini, Carola, Gillen, Christine M., Kirk, Joshua K., Johnson, Dwight R., Taylor, William L., Kaplan, Edward L., Kotb, Malak, Nizet, Victor, Beatson, Scott A. and Walker, Mark J. (2012). Tracing the evolutionary history of the pandemic group A streptococcal M1T1 clone. FASEB Journal, 26 (11), 4675-4684. doi: 10.1096/fj.12-212142
Kappler, Ulrike, Davenport, Karen, Beatson, Scott, Lucas, Susan, Lapidus, Alla, Copeland, Alex, Berry, Kerrie W., Del Rio, Tijana Glavina, Hammon, Nancy, Dalin, Eileen, Tice, Hope, Pitluck, Sam, Richardson, Paul, Bruce, David, Goodwin, Lynne A., Han, Cliff, Tapia, Roxanne, Detter, John C., Chang, Yun-juan, Jeffries, Cynthia D., Land, Miriam, Hauser, Loren, Kyrpides, Nikos C., Goeker, Markus, Ivanova, Natalia, Klenk, Hans-Peter and Woyke, Tanja (2012). Complete genome sequence of the facultatively chemolithoautotrophic and methylotrophic alpha Proteobacterium Starkeya novella type strain (ATCC 8093(T)). Standards in Genomic Sciences, 7 (1), 44-58. doi: 10.4056/sigs.3006378
Xu, Xuefang, McAteer, Sean P., Tree, Jai J., Shaw, Darren J., Wolfson, Eliza B. K., Beatson, Scott A., Roe, Andrew J., Allison, Lesley J., Chase-Topping, Margo E., Mahajan, Arvind, Tozzoli, Rosangela, Woolhouse, Mark E. J., Morabito, Stefano and Gally, David L. (2012). Lysogeny with shiga toxin 2-encoding bacteriophages represses type III secretion in enterohemorrhagic Escherichia coli. PLoS Pathogens, 8 (5) e1002672, e1002672.1-e1002672.15. doi: 10.1371/journal.ppat.1002672
Ben Zakour, Nouri L., Beatson, Scott A., van den Broek, Adri H. M., Thoday, Keith L. and Fitzgerald, J. Ross (2012). Comparative genomics of the Staphylococcus intermedius group of animal pathogens. Frontiers in Cellular and Infection Microbiology, 2, 44.1-44.15. doi: 10.3389/fcimb.2012.00044
Gawthorne, Jayde A., Beatson, Scott A., Srikantha, Yogitha N., Fox, Kate L. and Jennings, Michael P. (2012). Origin of the diversity in DNA recognition domains in phasevarion associated modA genes of pathogenic Neisseria and Haemophilus influenzae. PLoS One, 7 (3) e32337, e32337.1-e32337.10. doi: 10.1371/journal.pone.0032337
Stocker, Ann J., Rusuwa, Bosco B., Blacket, Mark J., Frentiu, Francesca D., Sullivan, Mitchell, Foley, Bradley R., Beatson, Scott, Hoffman, Ary A. and Chenoweth, Stephen F. (2012). Physical and linkage maps for Drosophila serrata, a model species for studies of clinal adaptation and sexual selection. G3: Genes, Genomes, Genetics, 2 (2), 287-297. doi: 10.1534/g3.111.001354
King, Nathan P, Sakinc, Turkan, Ben Zakour, Nouri L, Totsika, Makrina, Heras, Begona, Simerska, Pavla, Shepherd, Mark, Gatermann, Soren G, Beatson, Scott A and Schembri, Mark A (2012). Characterisation of a cell wall-anchored protein of Staphylococcus saprophyticus associated with linoleic acid resistance. BMC Microbiology, 12 (1) 8, 8.1-8.25. doi: 10.1186/1471-2180-12-8
Ben Zakour, Nouri L., Venturini, Carola, Beatson, Scott A. and Walker, Mark J. (2012). Analysis of a Streptococcus pyogenes puerperal sepsis cluster using whole-genome sequencing. Journal of Clinical Microbiology, 50 (7), 2224-2228. doi: 10.1128/JCM.00675-12
Totsika, Makrina, Beatson, Scott A., Sarkar, Sohinee, Phan, Minh-Duy, Petty, Nicola K., Bachmann, Nathan, Szubert, Marek, Sidjabat, Hanna E., Paterson, David L., Upton, Mathew and Schembri, Mark A. (2011). Insights into a multidrug resistant escherichia coli pathogen of the globally disseminated ST131 lineage: Genome analysis and virulence mechanisms. Plos One, 6 (10) e26578, e26578-1-e26578-11. doi: 10.1371/journal.pone.0026578
Alikhan, Nabil-Fareed, Petty, Nicola K., Ben Zakour, Nouri L. and Beatson, Scott A. (2011). BLAST Ring Image Generator (BRIG): Simple prokaryote genome comparisons. BMC Genomics, 12 (402) 402, 1-10. doi: 10.1186/1471-2164-12-402
Al-Mahrous, Mohammed M., Jack, Ralph W., Sandiford, Stephanie K., Tagg, John R., Beatson, Scott A. and Upton, Mathew (2011). Identification of a haemolysin-like peptide with antibacterial activity using the draft genome sequence of Staphylococcus epidermidis strain A487. FEMS Immunology and Medical Microbiology, 62 (3), 273-282. doi: 10.1111/j.1574-695X.2011.00811.x
Easton, Donna M., Totsika, Makrina, Allsopp, Luke P., Phan, Minh-Duy, Idris, Adi, Wurpel, Daniël J., Sherlock, Orla, Zhang, Bing, Venturini, Carola, Beatson, Scott A., Mahony, Timothy J., Cobbold, Rowland N. and Schembri, Mark A. (2011). Characterization of EhaJ, a new autotransporter protein from enterohemorrhagic and enteropathogenic Escherichia coli. Frontiers in Microbiology: Frontiers in Cellular and Infection Microbiology, 2 (JUNE), 120.1-120.9. doi: 10.3389/fmicb.2011.00120
Tree, Jai J., Roe, Andrew J., Flockhart, Allen, McAteer, Sean P., Xu, Xuefang, Shaw, Darren, Mahajan, Arvind, Beatson, Scott A., Best, Angus, Lotz, Sabrina, Woodward, Martin J., La Ragione, Roberto, Murphy, Kenan C., Leong, John M. and Gally, David L. (2011). Transcriptional regulators of the GAD acid stress island are carried by effector protein-encoding prophages and indirectly control type III secretion in enterohemorrhagic Escherichia coli O157:H7. Molecular Microbiology, 80 (5), 1349-1365. doi: 10.1111/j.1365-2958.2011.07650.x
King, Nathan P., Beatson, Scott A., Totsika, Makrina, Ulett, Glen C., Alm, Richard A., Manning, Paul A. and Schembri, Mark A. (2011). UafB is a serine-rich repeat adhesin of Staphylococcus saprophyticus that mediates binding to fibronectin, fibrinogen and human uroepithelial cells. Microbiology, 157 (4), 1161-1175. doi: 10.1099/mic.0.047639-0
Sullivan, Mitchell J., Petty, Nicola K. and Beatson, Scott A. (2011). Easyfig: A genome comparison visualizer. Bioinformatics, 27 (7) btr039, 1009-1010. doi: 10.1093/bioinformatics/btr039
Beatson, Scott A., de Luna, Maria das Graças, Bachmann, Nathan L., Alikhan, Nabil-Fareed, Hanks, Kirstin R., Sullivan, Mitchell J., Wee, Bryan A., Freitas-Almeida, Angela C., dos Santos, Paula A., de Melo, Janyne T. B., Squire, Derrick J. P., Cunningham, Adam F., Fitzgerald, J. Ross and Henderson, Ian R. (2011). Genome sequence of the emerging pathogen aeromonas caviae. Journal of Bacteriology, 193 (5), 1286-1287. doi: 10.1128/JB.01337-10
Schroeder, Gunnar N., Petty, Nicola K., Mousnier, Aurelie, Harding, Clare R., Vogrin, Adam J., Wee, Bryan, Fry, Norman K., Harrison, Timothy G., Newton, Hayley J., Thomson, Nicholas R., Beatson, Scott A., Dougan, Gordon, Hartland, Elizabeth L. and Frankel, Gad (2010). Legionella pneumophila strain 130b possesses a unique combination of type IV secretion systems and novel Dot/Icm secretion system effector proteins. Journal of Bacteriology, 192 (22), 6001-6016. doi: 10.1128/JB.00778-10
Crossman, L. C., Chaudhuri, R. R., Beatson, S. A., Wells, T. J., Desvaux, M., Cunningham, A. F., Petty, N. K., Mahon, V., Brinkley, C., Hobman, J. L., Savarino, S. J., Turner, S. M., Pallen, M. J., Penn, C. W., Parkhill, J., Turner, A. K., Johnson, T. J., Thomson, N. R., Smith, S. G. J. and Henderson, I. R. (2010). A commensal gone bad: Complete genome sequence of the prototypical enterotoxigenic escherichia coli strain H10407. Journal of Bacteriology, 192 (21), 5822-5831. doi: 10.1128/JB.00710-10
Wilkinson, Paul, Paszkiewicz, Konrad, Moorhouse, Alex, Szubert, Jan M., Beatson, Scott, Gerrard, John, Waterfield, Nicholas R. and Ffrench-Constant, Nicholas R. (2010). New plasmids and putative virulence factors from the draft genome of an Australian clinical isolate of photorhabdus asymbiotica. FEMS Microbiology Letters, 309 (2), 136-143. doi: 10.1111/j.1574-6968.2010.02030.x
Ong, Cheryl-lynn Y., Beatson, Scott A., Totsika, Makrina, Forestier, Christiane, McEwan, Alastair G. and Schembri, Mark A. (2010). Molecular analysis of type 3 fimbrial genes from Escherichia coli, Klebsiella and Citrobacter species. BMC Microbiology, 10 (183) 183, 1-12. doi: 10.1186/1471-2180-10-183
Allsopp, Luke P., Totsika, Makrina, Tree, Jai J., Ulett, Glen C., Mabbett, Amanda N., Wells, Timothy J., Kobe, Bostjan, Beatson, Scott A. and Schembri, Mark A. (2010). UpaH is a newly identified autotransporter protein that contributes to biofilm formation and bladder colonization by uropathogenic Escherichia coli CFT073. Infection and Immunity, 78 (4), 1659-1669. doi: 10.1128/IAI.01010-09
Venturini, C, Beatson, SA, Djordjevic, SP and Walker, MJ (2010). Multiple antibiotic resistance gene recruitment onto the enterohemorrhagic Escherichia coli virulence plasmid. The FASEB Journal, 24 (4), 1160-1166. doi: 10.1096/fj.09-144972
Oliver, Peter L., Goodstadt, Leo, Bayes, Joshua J., Birtle, Zoe, Roach, Kevin C., Phadnis, Nitin, Beatson, Scott A., Lunter, Gerton, Malik, Harmit S. and Ponting, Chris P. (2009). Accelerated evolution of the Prdm9 speciation gene across diverse metazoan taxa. PLOS Genetics, 5 (12) e1000753, x-x. doi: 10.1371/journal.pgen.1000753
Ong, Cheryl-Lynn Y., Beatson, Scott A., McEwan, Alastair G. and Schembri, Mark A. (2009). Conjugative plasmid transfer and adhesion dynamics in an Escherichia coli Biofilm. Applied and Environmental Microbiology, 75 (21), 6783-6791. doi: 10.1128/AEM.00974-09
Badea, Luminita, Beatson, Scott A., Kaparakis, Maria, Ferrero, Richard L. and Hartland, Elizabeth L. (2009). Secretion of flagellin by the LEE-encoded type III secretion system of enteropathogenic Escherichia coli. BMC Microbiology, 9 (3) 30, x-xx. doi: 10.1186/1471-2180-9-30
Totsika, M., Beatson, S.A., Holden, N. and Gally, D.L. (2008). Regulatory interplay between pap operons in uropathogenic Escherichia coli. Molecular Microbiology, 67 (5), 996-1011. doi: 10.1111/j.1365-2958.2007.06098.x
Wells, T.J., Sherlock, O., Rivas, L., Mahajan, A., Beatson, S.A., Torpdahl, M., Webb, R.I., Allsopp, L., Gobius, K., Gally, D.L. and Schembri, M.A. (2008). EhaA is a novel autotransporter protein of enterohemorrhagic Escherichia coli O157:H7 that contributes to adhesion and biofilm formation. Environmental Microbiology, 10 (3), 589-604. doi: 10.1111/j.1462-2920.2007.01479.x
Ong, C., Ulett, G., Mabbett, A., Beatson, S., Webb, R., Monaghan, W., Nimmo, G., Looke, D., McEwan, A. and Schembri, M. (2008). Identification of Type 3 Fimbriae in Uropathogenic Escherichia coli Reveals a Role in Biofilm Formation. Journal of Bacteriology, 190 (3), 1054-1063. doi: 10.1128/JB.01523-07
Pallen, M. J., Bailey, C. M. and Beatson, S. A. (2006). Evolutionary links between FliH/YscL-like proteins from bacterial type III secretion systems and second-stalk components of the FoF1 and vacuolar ATPases. Protein Science, 15 (4), 935-940. doi: 10.1110/ps.051958806
Beatson, Scott A., Minamino, Tohru and Pallen, Mark J. (2006). Variation in bacterial flagellins: from sequence to structure. Trends In Microbiology, 14 (4), 151-155. doi: 10.1016/j.tim.2006.02.008
Tobe, Toru, Beatson, Scott A., Taniguchi, Hisaaki, Abe, Hiroyuki, Bailey, Christopher M., Fivian, Amanda, Younis, Rasha, Matthews, Sophie, Marches, Olivier, Frankel, Gad, Hayashi, Tetsuya and Pallen, Mark J. (2006). An extensive repertoire of type III secretion effectors in Escherichia coli O157 and the role of lambdoid phages in their dissemination. Proceedings of The National Academy of Sciences of The United States of America, 103 (40), 14941-14946. doi: 10.1073/pnas.0604891103
Desvaux, Mickaël, Khan, Arshad, Beatson, Scott A., Scott-Tucker, Anthony and Henderson, Ian R. (2005). Protein secretion systems in Fusobacterium nucleatum: Genomic identification of Type 4 piliation and complete Type V pathways brings new insight into mechanisms of pathogenesis. Biochimica Et Biophysica Acta-biomembranes, 1713 (2), 92-112. doi: 10.1016/j.bbamem.2005.05.002
Parham, Nick J., Pollard, Samantha J., Chaudhuri, Roy R., Beatson, Scott A., Desvaux, Mickaël, Russell, Michael A., Ruiz, Joaquim, Fivian, Amanda, Vila, Jordi and Henderson, Ian R. (2005). Prevalence of pathogenicity island IICFT073 genes among extraintestinal clinical isolates of Escherichia coli. Journal of Clinical Microbiology, 43 (5), 2425-2434. doi: 10.1128/JCM.43.5.2425-2434.2005
Pallen, Mark J., Beatson, Scott A. and Bailey, Christopher M. (2005). Bioinformatics, genomics and evolution of non-flagellar type-III secretion systems: a Darwinian perpective. Fems Microbiology Reviews, 29 (2), 201-229. doi: 10.1016/j.femsre.2005.01.001
Whitchurch, Cynthia B., Beatson, Scott A., Comolli, James C., Jakobsen, Thania, Sargent, Jennifer L., Bertrand, Jacob J., West, Joyce, Klausen, Mikkel, Waite, Leslie L., Kang, Pil Jung, Tolker-Nielsen, Tim, Mattick, John S. and Engel, Joanne N. (2005). Pseudomonas aeruginosa fimL regulates multiple virulence functions by intersecting with Vfr-modulated pathways. Molecular Microbiology, 55 (5), 1357-1378. doi: 10.1111/j.1365-2958.2005.04479.x
Ren, Chuan-Peng, Beatson, Scott A., Parkhill, Julian and Pallen, Mark J. (2005). The Flag-2 locus, an ancestral gene cluster, is potentially associated with a novel flagellar system from Escherichia coli. Journal of Bacteriology, 187 (4), 1430-1440. doi: 10.1128/JB.187.4.1430-1440.2005
Pallen, Mark J., Beatson, Scott A. and Bailey, Christopher M. (2005). Bioinformatics analysis of the locus for enterocyte effacement provides novel insights into type-III secretion. BMC Microbiology, 5 9, 9.1-9.21. doi: 10.1186/1471-2180-5-9
Garske, L. A., Beatson, S. A., Leech, A. J., Walsh, S. L. and Bell, S. C. (2004). Sub-inhibitory concentrations of ceftazidime and tobramycin reduce the quorum sensing signals of Pseudomonas aeruginosa. Pathology, 36 (6), 571-575. doi: 10.1080/00313020400011300
Beatson, Scott and Ponting, Chris P. (2004). GIFT domains: linking eukaryotic intraflagellar transport and glycosylation to bacterial gliding. Trends In Biochemical Sciences, 29 (8), 396-399. doi: 10.1016/j.tibs.2004.06.002
Ghysels, Bart, Dieu, Bui Thi Min, Beatson, Scott A., Pirnay, Jean-Paul, Ochsner, Urs A., Vasil, Michael L. and Cornelis, Pierre (2004). FpvB, an alternative type I ferripyoverdine receptor of Pseudomonas aeruginosa. Microbiology, 150 (6), 1671-1680. doi: 10.1099/mic.0.27035-0
Emes, Richard D., Beatson, Scott A., Ponting, Chris P. and Goodstadt, Leo (2004). Evolution and comparative genomics of odorant-and pheromone-associated genes in rodents. Genome Research, 14 (4), 591-602. doi: 10.1101/gr.1940604
Gibbs, R. A., Weinstock, G. M., Metzker, M. L., Muzny, D. M., Sodergren, E. J., Scherer, S., Scott, G., Steffen, D., Worley, K. C., Burch, P. E., Okwuonu, G., Hines, S., Lewis, L., DeRamo, C., Delgado, O., Dugan-Rocha, S., Miner, G., Morgan, M., Hawes, A., Gill, R., Holt, R. A., Adams, M. D., Amanatides, P. G., Baden-Tillson, H., Barnstead, M., Chin, S., Evans, C. A., Ferriera, S., Fosler, C. ... et al (2004). Genome Sequence of the Brown Norway Rat Yields Insights Into Mammalian Evolution. Nature, 428 (6982), 493-521. doi: 10.1038/nature02426
Whitchurch, Cynthia B., Leech, Andrew J., Young, Michael D., Kennedy, Derek, Sargent,Jennifer L., Bertrand, Jacob J., Semmler, Annalese B.T., Mellick, Albert S., Martin, Paul R., Alm, Richard A., Hobbs, Matthew, Beatson, Scott A., Huang, Bixing, Nguyen, Lam, Commolli, James C., Engel, Joanne N., Darzins, Aldis and Mattick, John S. (2004). Characterization of a complex chemosensory signal transduction system which controls twitching motility in Pseudomonas aeruginosa. Molecular Microbiology, 52 (3), 873-893. doi: 10.1111/j.1365-2958.2004.04026.x
Nouwens, Amanda S., Beatson, Scott A., Whitchurch, Cynthia B., Walsh, Bradley. J., Schweizer, Herbert P., Mattick, John S. and Cordwell, Stuart J. (2003). Proteome analysis of extracellular proteins regulated by the las and rhl quorum sensing systems in Pseudomonas aeruginosa PAO1. Microbiology-sgm, 149 (5), 1311-1322. doi: 10.1099/mic.0.25967-0
de Chial, Magaly, Ghysels, Bart, Beatson, Scott A., Geoffroy, Valérie, Meyer, Jean Marie, Pattery, Theresa, Baysse, Christine, Chablain, Patrice, Parsons, Yasmin N., Winstanley, Craig, Cordwell, Stuart J. and Cornelis, Pierre (2003). Identification of type II and type III pyoverdine receptors from Pseudomonas aeruginosa. Microbiology, 149 (4), 821-831. doi: 10.1099/mic.0.26136-0
Beatson, Scott A., Whitchurch, Cynthia B., Sargent, Jennifer L., Levesque, Roger C. and Mattick, John S. (2002). Differential regulation of twitching motility and elastase production by Vfr in Pseudomonas aeruginosa. Journal of Bacteriology, 184 (13), 3605-3613. doi: 10.1128/JB.184.13.3605-3613.2002
Dickens, Nicholas J., Beatson, Scott and Ponting, Chris P. (2002). Cadherin-like domains in alpha-dystroglycan, alpha/epsilon-sarcoglycan and yeast and bacterial proteins. Current Biology, 12 (6), R197-R199. doi: 10.1016/S0960-9822(02)00748-0
Beatson, S. A., Whitchurch, C. B., Semmler, A. B. T. and Mattick, J. S. (2002). Quorum sensing is not required for twitching motility in Pseudomonas aeruginosa. Journal of Bacteriology, 184 (13), 3598-3604. doi: 10.1128/JB.184.13.3598-3604.2002
Huang, Bixing, Whitchurch, Cynthia B., Croft, Larry, Beatson, Scott A. and Mattick, John S. (2000). A minimal tiling path cosmid library for functional analysis of the Pseudomonas aeruginosa PAO1 genome. Microbial and Comparative Genomics, 5 (4), 189-203. doi: 10.1089/omi.1.2000.5.189
Croft, L., Beatson, S. A., Whitchurch, C. B., Huang, B., Blakeley, R. L. and Mattick, J. S. (2000). An interactive web-based Pseudomonas aeruginosa genome database: discovery of new genes, pathways and structures. Microbiology, 146 (10), 2351-2364. doi: 10.1099/00221287-146-10-2351
Beatson, S. A., Sloan, G. L. and Simmonds, R. S. (1998). Zoocin A immunity factor: A femA-like gene found in a group C Streptococcus. FEMS Microbiology Letters, 163 (1), 73-77. doi: 10.1111/j.1574-6968.1998.tb13028.x

Conference Papers

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.
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
Omaleki, L., Turni, C., Beatson, S. and Blackall, P. J. (2017). Clouds and Pasteurella multocida – an updated forecast. Australasian Poultry Veterinary Alliance Meeting, Geelong, Victoria, 15 -17 November 2017.
Omaleki, L., Turni, C., Beatson, S. and Blackall, P. J. (2017). Clouds and Pasteurella multocida. Microbiology in Moreton Bay, Dunwich, North Stradbroke Island, Qld, Australia, 2 December 2017.
Sherrard, L., Tai, A., Wee, B., Ramsay, K., Kidd, T., Ben Zakour, N., Whiley, D., Beatson, S. and Bell, S. C. (2016). Within-host whole genome analysis of an antibiotic resistant Pseudomonas aeruginosa strain sub-type in cystic fibrosis. Annual North American Cystic Fibrosis Conference, Orlando, FL, United States, 27-29 October 2016. Hoboken, NJ, United States: John Wiley & Sons.
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.
Hanks-Thomson, Kirstin R., Kidd, Timothy J., Wainwright, Claire E., Ramsey, Kay A., Steen, Jason A., Bell, Scott C., Zakour, Nouri L. Ben and Beatson, Scott A. (2012). Acquired aminoglycoside resistance in pseudomonas aeruginosa from a cystic fibrosis patient. Australian Society for Microbiology Annual Scientific Meeting (ASM2012), Brisbane, Australia, 1-4 July 2012.
Kirstin R. Hanks-Thomson, Timothy J. Kidd, Jason A. Steen, Claire E. Wainwright, Keith Grimwood, Scott C. Bell, Nouri L. Ben Zakour, Barbara Rose, Jim Manos, Nicola K. Petty and Scott A. Beatson (2011). Genetic adaptation of Pseudomonas aeruginosa to the airways of two Australian cystic fibrosis patients. Pseudomonas 2011, Sydney, 4-9-2011 to 7-9-2011. Sydney: University of Technology - Sydney (UTS).
Garske, L., Bell, S. C., Beatson, S., Walsh, S., Mattick, J., Leach, A. and Whitchurch, C. (2003). Pseudomonas aeruginosa exposed to sub-inhibitory ceftazidime or tobramycin has reduced homoserine lactones. The Thoracic Society of Australia and New Zealand 2003 Annual Scientific Meeting, Adelaide, Australia, 4 - 9 April 2003. Carlton, VIC: Blackwell Science. doi: 10.1111/j.1440-1843.2003.supp_1.x
Croft, L., Beatson, S. A., Whitchurch, C. B., Blakeley, R. L., Huang, B. and Mattick, J. S. (1999). One approach to developing a bacterial genome database. ComBio 99, Conrad Jupiters, Gold Coast, 27-30 September, 1999. Kent Town, SA: Aust. Society for Biochemistry & Molecular Biology.

Data Collection

Beatson, Scott A. and Stanton-Cook, Mitchell (2015). Microbial Genomics Raw Sequence and Analysis Data. The University of Queensland. (Collection) doi: 10.14264/uql.2017.106

Thesis

Beatson, Scott. (2002). Pseudomonas aeruginosa genomics and pathogenesis. PhD Thesis, School of Molecular and Microbial Sciences, The University of Queensland.

Areas of research

Biochemistry and molecular biology discipline
Microbiology discipline
Molecular genetics and genomics theme