2023

• Bell, J., Fajardo Lubian, A., Partridge, S., Gottlieb, T., Robson, J., Iredell, J., Daley, D., Coombs, G. (2023). Australian Group on Antimicrobial Resistance (AGAR) Australian Gram-negative Surveillance Outcome Program (GnSOP) Bloodstream Infection Annual Report 2022. Communicable Diseases Intelligence, 47. [More Information]
• Mu, A., Klare, W., Baines, S., Ignatius, P., Guérillot, R., Harbison-Price, N., Keller, N., Wilksch, J., Nhu, N., Phan, M., Partridge, S., et al (2023). Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria. Nature Communications, 14(1). [More Information]
• Mason, L., Greig, D., Cowley, L., Partridge, S., Martinez, E., Blackwell, G., Draper, J., Ginn, A., Sandaradura, I., Sim, E., Iredell, J., Sintchenko, V., et al (2023). The evolution and international spread of extensively drug resistant Shigella sonnei. Nature Communications, 14(1). [More Information]

2022

• Bell, J., Fajardo Lubian, A., Partridge, S., Gottlieb, T., Iredell, J., Daley, D., Coombs, G. (2022). Australian Group on Antimicrobial Resistance (AGAR) Australian Gram-negative Sepsis Outcome Programme (GnSOP) Annual Report 2020. Communicable Diseases Intelligence, 46. [More Information]
• Bell, J., Fajardo Lubian, A., Partridge, S., Gottlieb, T., Robson, J., Iredell, J., Daley, D., Coombs, G. (2022). Australian Group on Antimicrobial Resistance (AGAR) Australian Gram-negative Surveillance Outcome Program (GnSOP). Communicable Diseases Intelligence, 46. [More Information]
• Venturini, C., Bowring, B., Partridge, S., Ben Zakour, N., Fajardo Lubian, A., Ayala Lopez, A., Qin, J., Totsika, M., Van Galen, G., Norris, J., Iredell, J. (2022). Co-Occurrence of Multidrug Resistant Klebsiella pneumoniae Pathogenic Clones of Human Relevance in an Equine Pneumonia Case. Microbiology Spectrum, 10(3). [More Information]

2021

• Partridge, S., Enne, V., Grohmann, E., Hall, R., Rood, J., Roy, P., Thomas, C., Firth, N. (2021). Classifying mobile genetic elements and their interactions from sequence data: The importance of existing biological knowledge. Proceedings of the National Academy of Sciences of the United States of America, 118(35), e2104685118-1-e2104685118-4. [More Information]
• Roy, P., Partridge, S., Hall, R. (2021). Comment on Conserved phylogenetic distribution and limited antibiotic resistance of class 1 integrons revealed by assessing the bacterial genome and plasmid collection" by AN Zhang et al". Microbiome, 9(1), 3. [More Information]
• Gamage, H., Venturini, C., Tetu, S., Kabir, M., Nayyar, V., Ginn, A., Roychoudhry, B., Thomas, L., Brown, M., Holmes, A., Partridge, S., Seppelt, I., Iredell, J., et al (2021). Third generation cephalosporins and piperacillin/tazobactam have distinct impacts on the microbiota of critically ill patients. Scientific Reports, 11(1), 7252. [More Information]

2020

• Bell, J., Fajardo Lubian, A., Partridge, S., Gottlieb, T., Iredell, J., Daley, D., Coombs, G. (2020). Australian Group on Antimicrobial Resistance (AGAR) Australian Gram-negative Sepsis Outcome Programme (GNSOP) Annual Report 2019. Communicable Diseases Intelligence, 44. [More Information]
• Lv, L., Wan, M., Wang, C., Gao, X., Yang, Q., Partridge, S., Wang, Y., Zong, Z., Doi, Y., Shen, J., et al (2020). Emergence of a plasmid-encoded resistance-nodulation- division efflux pump conferring resistance to multiple drugs, including tigecycline, in Klebsiella pneumoniae. mBio, 11(2), e02930-19. [More Information]
• Tagg, K., Venturini, C., Kamruzzaman, M., Ginn, A., Partridge, S. (2020). Plasmid DNA Isolation and Visualization: Isolation and Characterization of Plasmids from Clinical Samples. In Fernando de la Cruz (Eds.), Horizontal Gene Transfer: Methods and Protocols, (pp. 3-20). New York: Springer. [More Information]

2019

• Botelho, J., Lood, C., Partridge, S., van Noort, V., Lavigne, R., Grosso, F., Peixe, L. (2019). Combining sequencing approaches to fully resolve a carbapenemase-encoding megaplasmid in a Pseudomonas shirazica clinical strain. Emerging Microbes and Infections, 8(1), 1186-1194. [More Information]
• Venturini, C., Zingali, T., Wyrsch, E., Bowring, B., Iredell, J., Partridge, S., Djordjevic, S. (2019). Diversity of P1 phage-like elements in multidrug resistant Escherichia coli. Scientific Reports, 9(1), 1-10. [More Information]

2018

• Partridge, S., Tsafnat, G. (2018). Automated annotation of mobile antibiotic resistance in Gram-negative bacteria: The Multiple Antibiotic Resistance Annotator (MARA) and database. Journal of Antimicrobial Chemotherapy, 73(4), 883-890. [More Information]
• Venturini, C., Ginn, A., Wilson, B., Tsafnat, G., Paulsen, I., Partridge, S., Iredell, J. (2018). Ecological effects of cefepime use during antibiotic cycling on the Gram-negative enteric flora of ICU patients. Intensive Care Medicine Experimental, 6(1), 1-7. [More Information]
• Partridge, S., Kwong, S., Firth, N., Jensen, S. (2018). Mobile Genetic Elements Associated with Antimicrobial Resistance. Clinical Microbiology Reviews, 31(4), 1-61. [More Information]
• Partridge, S., Di Pilato, V., Doi, Y., Feldgarden, M., Haft, D., Klimke, W., Kumar-Singh, S., Liu, J., Malhotra-Kumar, S., Prasad, A., et al (2018). Proposal for assignment of allele numbers for mobile colistin resistance (mcr) genes. Journal of Antimicrobial Chemotherapy, 73(10), 2625-2630. [More Information]

2017

• Ellem, J., Ginn, A., Chen, S., Ferguson, J., Partridge, S., Iredell, J. (2017). Locally acquired mcr-1 in Escherichia coli, Australia, 2011 and 2013. Emerging Infectious Diseases, 23(7), 1160-1163. [More Information]
• Partridge, S. (2017). mcr-2 in the IncX4 plasmid pKP37-BE is flanked by directly oriented copies of ISEc69. Journal of Antimicrobial Chemotherapy, 72(5), 1533-1535. [More Information]
• Kamruzzaman, M., Shoma, S., Thomas, C., Partridge, S., Iredell, J. (2017). Plasmid interference for curing antibiotic resistance plasmids in vivo. PloS One, 12(2), 1-20. [More Information]

2016

• Agyekum, A., Fajardo Lubian, A., Ansong, D., Partridge, S., Agbenyega, T., Iredell, J. (2016). blaCTX-M-15 carried by IncF-type plasmids is the dominant ESBL gene in Escherichia coli and Klebsiella pneumoniae at a hospital in Ghana. Diagnostic Microbiology and Infectious Disease, 84(4), 328-333. [More Information]
• Wailan, A., Sidjabat, H., Yam, W., Alikhan, N., Petty, N., Sartor, A., Williamson, D., Forde, B., Schembri, M., Partridge, S., et al (2016). Mechanisms involved in acquisition of bla[subscript NDM] genes by IncA/C[subscript 2] and IncFIIY plasmids. Antimicrobial Agents and Chemotherapy, 60(7), 4082-4088. [More Information]
• Partridge, S. (2016). Mobilization of blaBKC-1 by ISKpn23? Antimicrobial Agents and Chemotherapy, 60(8), 5102-5104. [More Information]
• Harmer, C., Partridge, S., Hall, R. (2016). pDGO100, a type 1 IncC plasmid from 1981 carrying ARI-A and a Tn1696-like transposon in a novel integrating element. Plasmid, 86, 38-45. [More Information]
• Agyekum, A., Fajardo Lubian, A., Ai, X., Ginn, A., Zong, Z., Guo, X., Turnidge, J., Partridge, S., Iredell, J. (2016). Predictability of Phenotype in Relation to Common beta-Lactam Resistance Mechanisms in Escherichia coli and Klebsiella pneumoniae. Journal of Clinical Microbiology, 54(5), 1243-1250. [More Information]

2015

• Liu, L., He, D., Lv, L., Liu, W., Chen, X., Zeng, Z., Partridge, S., Liu, J. (2015). blaCTX-M-1/9/1 hybrid genes may have been generated from blaCTX-M-15 on an IncI2 plasmid. Antimicrobial Agents and Chemotherapy, 59(8), 4464-4470. [More Information]
• Zong, Z., Ginn, A., Dobiasova, H., Iredell, J., Partridge, S. (2015). Different IncI1 plasmids from Escherichia coli carry ISEcp1-blaCTX-M-15 associated with different Tn2-derived elements. Plasmid, 80, 118-126. [More Information]
• Tagg, K., Ginn, A., Jiang, X., Ellem, J., Partridge, S., Iredell, J. (2015). Distribution of acquired AmpC Beta-lactamase genes in Sydney, Australia. Diagnostic Microbiology and Infectious Disease, 83(1), 56-58. [More Information]
• Partridge, S., Ginn, A., Wiklendt, A., Ellem, J., Wong, J., Ingram, P., Guy, S., Garner, S., Iredell, J. (2015). Emergence of blaKPC carbapenemase genes in Australia. International Journal of Antimicrobial Agents, 45(2), 130-136. [More Information]
• Brouwer, M., Tagg, K., Mevius, D., Iredell, J., Bossers, A., Smith, H., Partridge, S. (2015). IncI shufflons: Assembly issues in the next-generation sequencing era. Plasmid, 80, 111-117. [More Information]
• Tagg, K., Ginn, A., Partridge, S., Iredell, J. (2015). MALDI-TOF Mass Spectrometry for Multilocus Sequence Typing of Escherichia coli Reveals Diversity among Isolates Carrying blaCMY-2-Like Genes. PloS One, 10(11), 1-10. [More Information]
• Kamruzzaman, M., Patterson, J., Shoma, S., Ginn, A., Partridge, S., Iredell, J. (2015). Relative strengths of promoters provided by common mobile genetic elements associated with resistance gene expression in Gram-negative bacteria. Antimicrobial Agents and Chemotherapy, 59(8), 5088-5091. [More Information]
• Partridge, S. (2015). Resistance mechanisms in Enterobacteriaceae. Pathology, 47(3), 276-284. [More Information]
• Partridge, S. (2015). What's in a Name? ISSwi1 Corresponds to Transposons Related to Tn2 and Tn3. mBio, 6(5), 1-2. [More Information]

2014

• Shoma, S., Kamruzzaman, M., Ginn, A., Iredell, J., Partridge, S. (2014). Characterization of multidrug-resistant Klebsiella pneumoniae from Australia carrying blaNDM-1. Diagnostic Microbiology and Infectious Disease, 78(1), 93-97. [More Information]
• Tagg, K., Iredell, J., Partridge, S. (2014). Complete Sequencing of IncI1 Sequence Type 2 Plasmid pJIE512b Indicates Mobilization of blaCMY-2 from an IncA/C Plasmid. Antimicrobial Agents and Chemotherapy, 58(8), 4949-4952. [More Information]
• Ginn, A., Wiklendt, A., Zong, Z., Lin, R., Teo, J., Tambyah, P., Peterson, L., Kaul, K., Partridge, S., Iredell, J. (2014). Prediction of major antibiotic resistance in Escherichia coli and Klebsiella pneumoniae in Singapore, USA and China using a limited set of gene targets. International Journal of Antimicrobial Agents, 43(6), 563-565. [More Information]
• Guo, X., Dillon, B., Ginn, A., Wiklendt, A., Partridge, S., Iredell, J. (2014). Simple multiplex real-time PCR for rapid detection of common 16S rRNA methyltransferase genes. Diagnostic Microbiology and Infectious Disease, 80(1), 29-31. [More Information]
• Partridge, S. (2014). Tn4401 Carrying blaKPC Is Inserted within Another Insertion in pKpQIL and Related Plasmids. Journal of Clinical Microbiology, 52(12), 4448-4449. [More Information]

2013

• He, L., Partridge, S., Yang, X., Hou, J., Deng, Y., Yao, Q., Zeng, Z., Chen, Z., Liu, J. (2013). Complete nucleotide sequence of pHN7A8, an F33:A-:B-type epidemic plasmid carrying blaCTX-M-65, fosA3 and rmtB from China. Journal of Antimicrobial Chemotherapy, 68(1), 46-50. [More Information]
• Stokes, M., AbuOun, M., Umur, S., Wu, G., Partridge, S., Mevius, D., Coldham, N., Fielder, M. (2013). Complete sequence of pSAM7, an IncX4 plasmid carrying a novel blaCTX-M-14b transposition unit isolated from Escherichia coli and Enterobacter cloacae from cattle. Antimicrobial Agents and Chemotherapy, 57(9), 4590-4594. [More Information]
• He, D., Partridge, S., Shen, J., Zeng, Z., Liu, L., Rao, L., Lv, L., Liu, J. (2013). CTX-M-123, a novel hybrid of the CTX-M-1 and CTX-M-9 Group Beta-Lactamases recovered from Escherichia coli isolates in China. Antimicrobial Agents and Chemotherapy, 57(8), 4068-4071. [More Information]
• Ginn, A., Partridge, S. (2013). Generation of the blaCTX-M-116 Hybrid Gene. Antimicrobial Agents and Chemotherapy, 57(8), 4091-4091. [More Information]
• Lv, L., Partridge, S., He, L., Zeng, Z., He, D., Ye, J., Liu, J. (2013). Genetic Characterization of IncI2 Plasmids Carrying blaCTX-M-55 Spreading in both Pets and Food Animals in China. Antimicrobial Agents and Chemotherapy, 57(6), 2824-2827. [More Information]
• Kamruzzaman, M., Shoma, S., Naymul Bari, S., Ginn, A., Wiklendt, A., Partridge, S., Faruque, S., Iredell, J. (2013). Genetic diversity and antibiotic resistance in Escherichia coli from environmental surface water in Dhaka City, Bangladesh. Diagnostic Microbiology and Infectious Disease, 76(2), 222-226. [More Information]
• Ginn, A., Zong, Z., Wiklendt, A., Thomas, L., Merlino, J., Gottlieb, T., van Hal, S., Harkness, J., Macleod, C., Bell, S., Partridge, S., Iredell, J., et al (2013). Limited diversity in the gene pool allows prediction of third-generation cephalosporin and aminoglycoside resistance in Escherichia coli and Klebsiella pneumoniae. International Journal of Antimicrobial Agents, 42(1), 19-26. [More Information]

2012

• Warburg, G., Hidalgo-Grass, C., Partridge, S., Tolmasky, M., Temper, V., Moses, A., Block, C., Strahilevitz, J. (2012). A carbapenem-resistant Klebsiella pneumoniae epidemic clone in Jerusalem: sequence type 512 carrying a plasmid encoding aac(6)-Ib. Journal of Antimicrobial Chemotherapy, 67(4), 898-901. [More Information]
• Partridge, S., Tsafnat, G. (2012). A novel gene cassette potentially conferring resistance to aminoglycosides. Antimicrobial Agents and Chemotherapy, 56(8), 4566-4567. [More Information]
• Partridge, S., Iredell, J. (2012). Genetic Contexts of blaNDM-1. Antimicrobial Agents and Chemotherapy, 56(11), 6065-6067. [More Information]
• Partridge, S., Ginn, A., Paulsen, I., Iredell, J. (2012). pEl1573 carrying blaIMP-4, from Sydney, Australia, is closely related to other IncL/M plasmids. Antimicrobial Agents and Chemotherapy, 56(11), 6029-6032. [More Information]
• Partridge, S., Paulsen, I., Iredell, J. (2012). pJIE137 Carrying blaCTX-M-62 Is Closely Related to p271A Carrying blaNDM-1. Antimicrobial Agents and Chemotherapy, 56(4), 2166-2168. [More Information]
• Ginn, A., Wiklendt, A., Gidding, H., George, N., O'Driscoll, J., Partridge, S., O'Toole, B., Perri, R., Faoagali, J., Gallagher, J., Iredell, J., et al (2012). The Ecology of Antibiotic Use in the ICU: Homogeneous Prescribing of Cefepime but Not Tazocin Selects for Antibiotic Resistant Infection. PloS One, 7(6), 1-10. [More Information]

2011

• Partridge, S., Thomas, L., Ginn, A., Wiklendt, A., Kyme, P., Iredell, J. (2011). A Novel Gene Cassette, aacA43, in a Plasmid-Borne Class 1 Integron. Antimicrobial Agents and Chemotherapy, 55(6), 2979-2982. [More Information]
• Partridge, S. (2011). Analysis of antibiotic resistance regions in Gram-negative bacteria. FEMS Microbiology Reviews, 35(5), 820-855. [More Information]
• Partridge, S., Ellem, J., Tetu, S., Zong, Z., Paulsen, I., Iredell, J. (2011). Complete Sequence of pJIE143, a pir-Type Plasmid Carrying IS Ecp1-blaCTX-M-15 from an Escherichia coli ST131 Isolate. Antimicrobial Agents and Chemotherapy, 55(12), 5933-5935. [More Information]
• Tsafnat, G., Setzermann, P., Grimm, D., Partridge, S. (2011). Computational inference of difficult word boundaries in DNA languages. 4th International Symposium on Applied Sciences in Biomedical and Communication Technologies, ISABEL 2011, New York, United States of America: Association for Computing Machinery (ACM). [More Information]
• Tsafnat, G., Schaeffer, J., Clayphan, A., Iredell, J., Partridge, S., Coiera, E. (2011). Computational inference of grammars for larger-than-gene structures from annotated gene sequences. Bioinformatics, 27(6), 791-796. [More Information]
• Ellem, J., Partridge, S., Iredell, J. (2011). Efficient Direct Extended-Spectrum B-Lactamase Detection by Multiplex Real-Time PCR: Accurate Assignment of Phenotype by Use of a Limited Set of Genetic Markers. Journal of Clinical Microbiology, 49(8), 3074-3077. [More Information]
• Betteridge, T., Partridge, S., Iredell, J., Stokes, H. (2011). Genetic context and structural diversity of class 1 integrons from human commensal bacteria in a hospital intensive care unit. Antimicrobial Agents and Chemotherapy, 55(8), 3939-3943. [More Information]
• Tsafnat, G., Copty, J., Partridge, S. (2011). RAC: Repository of Antibiotic resistance Cassettes. Database: the journal of biological databases and curation, 2011, Article ID bar054 - 1-Article ID bar054 - 7. [More Information]
• Partridge, S., Zong, Z., Iredell, J. (2011). Recombination in IS26 and Tn2 in the Evolution of Multi-Resistance Regions Carrying blaCTX-M-15 on Conjugative IncF Plasmids from Escherichia coli. Antimicrobial Agents and Chemotherapy, 55(11), 4971-4978. [More Information]

2010

• Zong, Z., Partridge, S., Iredell, J. (2010). ISEcp1-Mediated Transposition and Homologous Recombination Can Explain the Context of blaCTX-M-62 Linked to qnrB2. Antimicrobial Agents and Chemotherapy, 54(7), 3039-3042. [More Information]
• Iredell, J., Partridge, S. (2010). Understanding the Shared Bacterial Genome. In Vitali Sintchenko (Eds.), Infectious Disease Informatics, (pp. 245-261). New York: Springer. [More Information]

2009

• Zong, Z., Partridge, S., Iredell, J. (2009). A blaVEB-1 Variant, blaVEB-6, Associated with Repeated Elements in a Complex Genetic Structure. Antimicrobial Agents and Chemotherapy, 53(4), 1693-1697. [More Information]
• Tsafnat, G., Coiera, E., Partridge, S., Schaeffer, J., Iredell, J. (2009). Context-driven discovery of gene cassettes in mobile integrons using a computational grammar. BMC Bioinformatics, 10, 281-1-281-9. [More Information]
• Partridge, S., Tsafnat, G., Coiera, E., Iredell, J. (2009). Gene cassettes and cassette arrays in mobile resistance integrons. FEMS Microbiology Reviews, 33(4), 757-784. [More Information]
• Jiang, X., Espedido, B., Partridge, S., Thomas, L., Wang, F., Iredell, J. (2009). Paradoxical effect of Klebsiella pneumoniae OmpK36 porin deficiency. Pathology, 41(4), 388-392. [More Information]

2008

• Zong, Z., Lü, X., Valenzuela, J., Partridge, S., Iredell, J. (2008). An outbreak of carbapenem-resistant Acinetobacter baumannii producing OXA-23 carbapenemase in western China. International Journal of Antimicrobial Agents, 31(1), 50-54. [More Information]
• Espedido, B., Partridge, S., Iredell, J. (2008). blaIMP-4 in different genetic contexts in Enterobacteriaceae Isolates from Australia. Antimicrobial Agents and Chemotherapy, 52(8), 2984-2987. [More Information]
• Zong, Z., Partridge, S., Thomas, L., Iredell, J. (2008). Dominance of blaCTX-M within an Australian Extended-Spectrum {beta}-Lactamase Gene Pool. Antimicrobial Agents and Chemotherapy, 52(11), 4198-4202. [More Information]

2007

• Partridge, S. (2007). Genetic environment of ISEcp1 and blaACC-1. Antimicrobial Agents and Chemotherapy, 51(7), 2658-9; author reply 2659. [More Information]
• Yiasemides, E., Partridge, S., Iredell, J. (2007). RmtC 16S rRNA methyltransferase in Australia. Antimicrobial Agents and Chemotherapy, 52, 794-5. [More Information]

2006

• Valenzuela, J., Thomas, L., Partridge, S., van der Reijden, T., Dijkshoorn, L., Iredell, J. (2006). Horizontal gene transfer within a polyclonal outbreak of carbapenem-resistant Acinetobacter baumannii. Journal of Clinical Microbiology, 45(2), 453-460. [More Information]

2005

• Partridge, S., Hall, R. (2005). Correctly identifying the streptothricin resistance gene cassette. Journal of Clinical Microbiology, 43(8), 4298-4300. [More Information]
• Partridge, S., Hall, R. (2005). Evolution of transposons containing blaTEM genes. Antimicrobial Agents and Chemotherapy, 49(3), 1267-8. [More Information]
• Partridge, S., Hall, R. (2005). Gene cassettes potentially encoding fosfomycin resistance. Antimicrobial Agents and Chemotherapy, 49(2), 860-861. [More Information]

2003

• Partridge, S., Hall, R. (2003). In34, a Complex In5 Family Class 1 Integron Containing orf513 and dfrA10. Antimicrobial Agents and Chemotherapy, 47(1), 342-349. [More Information]
• Partridge, S., Hall, R. (2003). The IS1111 family members IS4321 and IS5075 have sub-terminal inverted repeats and target the terminal inverted repeats of Tn21 family transposons. Journal of Bacteriology, 185(21), 6371-6384. [More Information]
• Hall, R., Partridge, S. (2003). Unambiguous Numbering of Antibiotic Resistance Genes (Letter to the Editor). Antimicrobial Agents and Chemotherapy, 47(12), 3998-3999. [More Information]

2002

• Partridge, S., Brown, H., Hall, R. (2002). Characterization and movement of the class 1 integron known as Tn2521 and Tn1405. Antimicrobial Agents and Chemotherapy, 46(5), 1288-1294. [More Information]
• Collis, C., Kim, M., Partridge, S., Stokes, H., Hall, R. (2002). Characterization of the class 3 integron and the site-specific recombination system it determines. Journal of Bacteriology, 184(11), 3017-3026. [More Information]
• Partridge, S., Collis, C., Hall, R. (2002). Class 1 Integron Containing a New Gene Cassette, aadA10, associated with Tn1404 from R151. Antimicrobial Agents and Chemotherapy, 46, 2400-2408. [More Information]
• Hall, R., Stokes, H., Partridge, S. (2002). Integration of Integrons in res Sites. (Authors Reply). Antimicrobial Agents and Chemotherapy, 46(6), 2058-2059.

2001

• Partridge, S., Recchia, G., Stokes, H., Hall, R. (2001). Family of Class 1 Integrons Related to In4 from Tn1696. Antimicrobial Agents and Chemotherapy, 45(11), 3014-3020.

2000

• Partridge, S., Recchia, G., Scaramuzzi, C., Collis, C., Stokes, H., Hall, R. (2000). Definition of the attI1 site of class 1 integrons. Microbiology, 146, 2855-2864.