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AUSGEM 2

Project Member(s): Djordjevic, S., Darling, A., Bhattacharya, P., Myers, G., Labbate, M., Seymour, J.

Funding or Partner Organisation: NSW Department of Primary Industries
NSW Department of Primary Industries

Start year: 2017

Publications:

Bogema, DR, McKinnon, J, Liu, M, Hitchick, N, Miller, N, Venturini, C, Iredell, J, Darling, AE, Roy Chowdury, P & Djordjevic, SP 2020, 'Whole-genome analysis of extraintestinal Escherichia coli sequence type 73 from a single hospital over a 2 year period identified different circulating clonal groups.', Microbial Genomics, vol. 6, no. 1, pp. 1-18.
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Cummins, ML, Hamidian, M & Djordjevic, ASP 2020, 'Salmonella Genomic Island 1 is Broadly Disseminated within Gammaproteobacteriaceae.', Microorganisms, vol. 8, no. 2.
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Dadd-Daigle, P, Kirkby, K, Collins, D, Cuddy, W, Lonergan, P, Roser, S, Bhattacharya, P, Labbate, M & Chapman, T 2020, 'Virulence not linked with vegetative compatibility groups in Australian cotton Verticillium dahliae isolates', Australian Joural of Crop Science, vol. 14, no. 04, pp. 633-640.
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Hudson, BJ, Chicken, C, Blishen, A, Todhunter, KH, Begg, AP, Chan, L, Karagiannis, T, Raymond, B, Bogema, D, Adkins, AR, O'Sullivan, CB, O'Rourke, BA, Roy Chowdhury, P, Djordjevic, SP, Charles, IG, Edgar, A & Mitsakos, K 2020, 'Osteoarticular Infection in Three Young Thoroughbred Horses Caused by a Novel Gram Negative Cocco-Bacillus', Case Reports in Veterinary Medicine, vol. 2020.
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Jarocki, VM, Reid, CJ, Chapman, TA & Djordjevic, SP 2020, 'Escherichia coli ST302: Genomic Analysis of Virulence Potential and Antimicrobial Resistance Mediated by Mobile Genetic Elements', FRONTIERS IN MICROBIOLOGY, vol. 10.
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King, WL, Siboni, N, Kahlke, T, Dove, M, O'Connor, W, Mahbub, KR, Jenkins, C, Seymour, JR & Labbate, M 2020, 'Regional and oyster microenvironmental scale heterogeneity in the Pacific oyster bacterial community', FEMS Microbiology Ecology, vol. 96, no. 5.
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McKinnon, J, Roy Chowdhury, P & Djordjevic, SP 2020, 'Molecular Analysis of an IncF ColV-Like Plasmid Lineage That Carries a Complex Resistance Locus with a Trackable Genetic Signature.', Microbial drug resistance (Larchmont, N.Y.).
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Reid, CJ, Blau, K, Jechalke, S, Smalla, K & Djordjevic, SP 2020, 'Whole Genome Sequencing of Escherichia coli From Store-Bought Produce', FRONTIERS IN MICROBIOLOGY, vol. 10.
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Cummins, ML, Reid, CJ, Roy Chowdhury, P, Bushell, RN, Esbert, N, Tivendale, KA, Noormohammadi, AH, Islam, S, Marenda, MS, Browning, GF, Markham, PF & Djordjevic, SP 2019, 'Whole genome sequence analysis of Australian avian pathogenic Escherichia coli that carry the class 1 integrase gene.', Microbial genomics, vol. 5, no. 2.
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Cummins, ML, Roy Chowdhury, P, Marenda, MS, Browning, GF & Djordjevic, SP 2019, 'Salmonella Genomic Island 1B Variant Found in a Sequence Type 117 Avian Pathogenic Escherichia coli Isolate.', mSphere, vol. 4, no. 3.
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Djordjevic, SP & Morgan, BS 2019, 'A One Health genomic approach to antimicrobial resistance is essential for generating relevant data for a holistic assessment of the biggest threat to public health', Microbiology Australia, vol. 40, no. 2, pp. 73-76.
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Espinoza-Vergara, G, Noorian, P, Silva-Valenzuela, CA, Raymond, BBA, Allen, C, Hoque, MM, Sun, S, Johnson, MS, Pernice, M, Kjelleberg, S, Djordjevic, SP, Labbate, M, Camilli, A & McDougald, D 2019, 'Vibrio cholerae residing in food vacuoles expelled by protozoa are more infectious in vivo', Nature Microbiology, vol. 4, no. 12, pp. 2466-2474.
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Fourment, M & Darling, AE 2019, 'Evaluating probabilistic programming and fast variational Bayesian inference in phylogenetics', PEERJ, vol. 7.
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Harvey, KL, Jarocki, VM, Charles, IG & Djordjevic, SP 2019, 'The Diverse Functional Roles of Elongation Factor Tu (EF-Tu) in Microbial Pathogenesis.', Frontiers in Microbiology, vol. 10.
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Jarocki, VM, Steele, JR, Widjaja, M, Tacchi, JL, Padula, MP & Djordjevic, SP 2019, 'Formylated N-terminal methionine is absent from the Mycoplasma hyopneumoniae proteome: Implications for translation initiation.', International journal of medical microbiology : IJMM, vol. 309, no. 5, pp. 288-298.
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King, WL, Jenkins, C, Go, J, Siboni, N, Seymour, JR & Labbate, M 2019, 'Characterisation of the Pacific Oyster Microbiome During a Summer Mortality Event.', Microbial Ecology, vol. 77, pp. 502-512.
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King, WL, Jenkins, C, Seymour, JR & Labbate, M 2019, 'Oyster disease in a changing environment: Decrypting the link between pathogen, microbiome and environment.', Marine environmental research, vol. 143, pp. 124-140.
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King, WL, Siboni, N, Kahlke, T, Green, TJ, Labbate, M & Seymour, JR 2019, 'A New High Throughput Sequencing Assay for Characterizing the Diversity of Natural Vibrio Communities and Its Application to a Pacific Oyster Mortality Event.', Frontiers in Microbiology, vol. 10, pp. 2907-2907.
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Monahan, LG, DeMaere, MZ, Cummins, ML, Djordjevic, SP, Roy Chowdhury, P & Darling, AE 2019, 'High contiguity genome sequence of a multidrug-resistant hospital isolate of Enterobacter hormaechei.', Gut pathogens, vol. 11, no. 1.
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Reid, C, McKinnon, J & Djordjevic, S 2019, 'Clonal ST131-H22 Escherichia coli strains from a healthy pig and a human urinary tract infection carry highly similar resistance and virulence plasmids', Microbial Genomics, vol. 5, no. 9.

Reid, CJ, DeMaere, MZ & Djordjevic, SP 2019, 'Australian porcine clonal complex 10 (CC10) Escherichia coli belong to multiple sublineages of a highly diverse global CC10 phylogeny', Microbial Genomics, vol. 5, pp. ---.
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Roy Chowdhury, P, Fourment, M, DeMaere, MZ, Monahan, L, Merlino, J, Gottlieb, T, Darling, AE & Djordjevic, SP 2019, 'Identification of a novel lineage of plasmids within phylogenetically diverse subclades of IncHI2-ST1 plasmids.', Plasmid, vol. 102, pp. 56-61.
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Roy Chowdhury, P, McKinnon, J, Liu, M & Djordjevic, SP 2019, 'Multidrug Resistant Uropathogenic Escherichia coli ST405 With a Novel, Composite IS26 Transposon in a Unique Chromosomal Location.', Frontiers in microbiology, vol. 9, no. Jan, pp. 3212-3212.
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Venturini, C, Zingali, T, Wyrsch, ER, Bowring, B, Iredell, J, Partridge, SR & Djordjevic, SP 2019, 'Diversity of P1 phage-like elements in multidrug resistant Escherichia coli.', Scientific reports, vol. 9, no. 1.
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Wyrsch, ER, Hawkey, J, Judd, LM, Haites, R, Holt, KE, Djordjevic, SP & Billman-Jacobe, H 2019, 'Z/I1 Hybrid Virulence Plasmids Carrying Antimicrobial Resistance genes in S. Typhimurium from Australian Food Animal Production.', Microorganisms, vol. 7, no. 9.
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Wyrsch, ER, Reid, CJ, DeMaere, MZ, Liu, MY, Chapman, TA, Roy Chowdhury, P & Djordjevic, SP 2019, 'Complete Sequences of Multiple-Drug Resistant IncHI2 ST3 Plasmids in Escherichia coli of Porcine Origin in Australia', Frontiers in Sustainable Food Systems, vol. 3.
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Fourment, M & Darling, AE 2018, 'Local and relaxed clocks, the best of both worlds'.
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Fourment, M, Claywell, BC, Dinh, V, McCoy, C, Matsen Iv, FA & Darling, AE 2018, 'Effective Online Bayesian Phylogenetics via Sequential Monte Carlo with Guided Proposals.', Systematic Biology, vol. 67, no. 3, pp. 490-502.
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McKinnon, J, Roy Chowdhury, P & Djordjevic, SP 2018, 'Genomic analysis of multidrug-resistant Escherichia coli ST58 causing urosepsis.', International journal of antimicrobial agents, vol. 52, no. 3, pp. 430-435.
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Smalla, K, Cook, K, Djordjevic, SP, Kl├╝mper, U & Gillings, M 2018, 'Environmental dimensions of antibiotic resistance: assessment of basic science gaps.', FEMS microbiology ecology, vol. 94, no. 12, pp. 1-6.
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Reid, CJ, Wyrsch, ER, Roy Chowdhury, P, Zingali, T, Liu, M, Darling, AE, Chapman, TA & Djordjevic, SP 2017, 'Porcine commensal Escherichia coli: a reservoir for class 1 integrons associated with IS26.', Microbial Genomics, vol. 3, no. 12, pp. 1-13.
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Fourment, Darling, AE & Matsen, E 2016, 'Phylogenetic inference with streaming data using sequential Monte Carlo', Sydney Bioinformatics Research Symposium, Sydney.

FOR Codes: Microbiology, Health, Animal Production and Animal Primary Products