The University of Queensland

Identification and discrimination of Chlamydia trachomatis ocular and urogenital strains and major phylogenetic lineages by CtGEM typing, a double-locus genotyping method

Holt, Deborah C., Andersson, Patiyan, Buckley, Cameron, Whiley, David M. and Giffard, Philip M. (2019). Identification and discrimination of Chlamydia trachomatis ocular and urogenital strains and major phylogenetic lineages by CtGEM typing, a double-locus genotyping method. Chlamydia trachomatis. (pp. 87-122) edited by Amanda Claire Brown. New York, NY, United States: Humana Press. doi: 10.1007/978-1-4939-9694-0_8

A new, multiplex, quantitative real-time polymerase chain reaction system for nucleic acid detection and quantification

Liang, Fang, Arora, Neetika, Zhang, Kang Liang, Yeh, David Che Cheng, Lai, Richard, Pearson, Darnley, Barnett, Graeme, Whiley, David, Sloots, Theo, Corrie, Simon R. and Barnard, Ross T. (2013). A new, multiplex, quantitative real-time polymerase chain reaction system for nucleic acid detection and quantification. Nucleic acid detection: methods and protocols. (pp. 51-68) edited by Dmitry M. Kolpashchikov and Yulia V. Gerasimova. New York, NY, United States: Humana Press. doi: 10.1007/978-1-62703-535-4_4

Protocol for the molecular detection of antibiotic resistance mechanisms in Neisseria gonorrhoeae

Goire, Namraj, Sloots, Theo P., Whiley, David M. and Nissen, Michael D. (2012). Protocol for the molecular detection of antibiotic resistance mechanisms in Neisseria gonorrhoeae. Diagnosis of sexually transmitted diseases. (pp. 319-328) edited by Colin R. MacKenzie and Birgit Henrich. Heidelberg, Germany: Springer. doi: 10.1007/978-1-61779-937-2_22

Protocol for the use of enzyme-linked hybridization assays for genital ulcer disease

Bialasiewicz, Seweryn, Mackay, Ian M., Whiley, David M. and Sloots, Theo P. (2012). Protocol for the use of enzyme-linked hybridization assays for genital ulcer disease. Diagnosis of sexually transmitted diseases. (pp. 225-233) edited by Colin R. MacKenzie and Birgit Henrich. New York, NY, United States: Humana Press. doi: 10.1007/978-1-61779-937-2_14

Pseudomonas

Kidd, Timothy J., Whiley, David M., Bell, Scott C. and Grimwood, Keith (2011). Pseudomonas. Molecular detection of human bacterial pathogens. (pp. 1009-1021) edited by Dongyou Liu. Boca Raton, FL, USA: Taylor & Francis.

Sexually transmitted infections

Garland, Suzanne M., Smith, David W., Tabrizi, Sepehr N. and Whiley, David M. (2010). Sexually transmitted infections. PCR for Clinical Microbiology: An Australian and International Perspective. (pp. 99-115) Dordrecht: Springer Netherlands. doi: 10.1007/978-90-481-9039-3_8

Malaria (P. falciparum, P. vivax, P. malariae, P. ovale)

Bialasiewicz, Seweryn, Whiley, David M. and Sloots, Theo P. (2010). Malaria (P. falciparum, P. vivax, P. malariae, P. ovale). PCR for clinical microbiology : An Australian and international perspective. (pp. 373-377) edited by Margaret Schuller, Theo P. Sloots, Gregory S. James, Catriona L. Halliday and Ian W.J. Carter. Dordrecht ; London: Springer Publishing. doi: 10.1007/978-90-481-9039-3_64

Molecular amplification methods in diagnostic virology

Whiley, David M. and Sloots, Theo P. (2010). Molecular amplification methods in diagnostic virology. Lennette's laboratory diagnosis of viral infections. (pp. 19-39) edited by Keith R. Jerome. New York, United States; Boca Raton, FL, United States: Informa Healthcare; CRC Press.

Respiratory infections

Nissen, Michael D., Lambert, Stephen B., Whiley, David M. and Sloots, Theo P. (2010). Respiratory infections. PCR for clinical microbiology: an Australian and international perspective. (pp. 67-82) edited by Margret Schuller, Theo P. Sloots, Gregory S. James, Catriona L. Halliday and Ian W. J. Carter. Dordrecht, Netherlands : Springer. doi: 10.1007/978-90-481-9039-3_5

Clinical virology

Whiley, David M. (2007). Clinical virology. Real-time PCR. (pp. 231-243) New York, NY USA: Taylor and Francis.

Clinical Virology

Whiley, D. M. and Sloots, T. P. (2006). Clinical Virology. Real-Time PCR. (pp. 231-276) edited by M. Tevfik Dorak. UK: Taylor & Francis.

Point-of-care testing and treatment of sexually transmitted and genital infections to improve birth outcomes in high-burden, low-resource settings (WANTAIM): a pragmatic cluster randomised crossover trial in Papua New Guinea

Riddell, Michaela A, Vallely, Lisa M, Mengi, Alice, Badman, Steven G, Low, Nicola, Wand, Handan, Bolnga, John W, Babona, Delly, Mola, Glen D L, Wiseman, Virginia, Kelly-Hanku, Angela, Homer, Caroline S E, Morgan, Christopher, Luchters, Stanley, Whiley, David M, Robinson, Leanne J, Au, Lucy, Pukai-Gani, Irene, Laman, Moses, Kariwiga, Grace, Toliman, Pamela J, Batura, Neha, Tabrizi, Sepehr N, Rogerson, Stephen J, Garland, Suzanne M, Guy, Rebecca J, Peeling, Rosanna W, Pomat, William S, Kaldor, John M ... Vallely, Andrew J.B. (2024). Point-of-care testing and treatment of sexually transmitted and genital infections to improve birth outcomes in high-burden, low-resource settings (WANTAIM): a pragmatic cluster randomised crossover trial in Papua New Guinea. The Lancet Global Health, 12 (4), e641-e651. doi: 10.1016/S2214-109X(24)00004-4

Achievement of therapeutic antibiotic exposures using Bayesian dosing software in critically unwell children and adults with sepsis

Chai, Gene G., Tu, Quyen, Cotta, Menino O., Bauer, Michelle J., Balch, Ross, Okafor, Charles, Comans, Tracy, Kruger, Peter, Meyer, Jason, Shekar, Kiran, Brady, Kara, Fourie, Cheryl, Sharp, Natalie, Vlad, Luminita, Whiley, David, Ungerer, Jacobus P. J., McWhinney, Brett C., Farkas, Andras, Paterson, David L., Clark, Julia E., Hajkowicz, Krispin, Raman, Sainath, Bialasiewicz, Seweryn, Lipman, Jeffrey, Forde, Brian M., Harris, Patrick N. A., Schlapbach, Luregn J., Coin, Lachlan, Roberts, Jason A. and Irwin, Adam D. (2024). Achievement of therapeutic antibiotic exposures using Bayesian dosing software in critically unwell children and adults with sepsis. Intensive Care Medicine, 1-9. doi: 10.1007/s00134-024-07353-3

Comparison of nasopharyngeal swab vs. lower respiratory tract specimen PCR for the diagnosis of <i>Pneumocystis jirovecii</i> pneumonia

Chew, Rusheng, Tozer, Sarah, Ulett, Kimberly, Paterson, David L, Whiley, David, Sloots, Theo, Fielding, David, Zappala, Christopher, Bashirzadeh, Farzad, Hundloe, Justin, Bletchley, Cheryl and Woods, Marion L (2024). Comparison of nasopharyngeal swab vs. lower respiratory tract specimen PCR for the diagnosis of Pneumocystis jirovecii pneumonia. Open Forum Infectious Diseases, 11 (3) ofae071. doi: 10.1093/ofid/ofae071

Investigating oral human papillomavirus co-infection with <i>Neisseria gonorrhoeae</i> and <i>Chlamydia trachomatis</i>

Trembizki, Ella, Anderson, Taylah, Whiley, David M. and Antonsson, Annika (2024). Investigating oral human papillomavirus co-infection with Neisseria gonorrhoeae and Chlamydia trachomatis. Epidemiology and Infection, 152 e8, 1-7. doi: 10.1017/s095026882300198x

Determining Pneumocystis jirovecii Colonisation from Infection Using PCR-Based Diagnostics in HIV-Negative Individuals

Watson, Anna Louise, Woodford, John, Britton, Sumudu, Gupta, Rita, Whiley, David and McCarthy, Kate (2024). Determining Pneumocystis jirovecii Colonisation from Infection Using PCR-Based Diagnostics in HIV-Negative Individuals. Diagnostics, 14 (1) 114, 114. doi: 10.3390/diagnostics14010114

Response to the ASHM 2023 statement on the use of doxy-PEP in Australia: considerations and recommendations

Bell, Sara F E, Sweeney, Emma L, Kong, Fabian Y S, Whiley, David M, Bradshaw, Catriona S and Tickner, Jacob A (2024). Response to the ASHM 2023 statement on the use of doxy-PEP in Australia: considerations and recommendations. Medical Journal of Australia. doi: 10.5694/mja2.52255

Concurrent <i>parC</i> and <i>gyrA</i> fluoroquinolone resistance mutations and associated strains in <i>Mycoplasma genitalium</i> in Queensland, Australia

Ertl, Nicole G, Anderson, Taylah K, Pardo, Carolyn J, Maidment, Toby I, Murray, Gerald L, Bradshaw, Catriona S, Whiley, David M and Sweeney, Emma L (2023). Concurrent parC and gyrA fluoroquinolone resistance mutations and associated strains in Mycoplasma genitalium in Queensland, Australia. Journal of Antimicrobial Chemotherapy, 79 (2), 467-469. doi: 10.1093/jac/dkad373

Maximizing the <i>Neisseria gonorrhoeae</i> confirmatory rate and the genotypic detection of ciprofloxacin resistance for samples screened with cobas CT/NG

Pryce, Todd M., Foti, Olivia R., Haygarth, Erin J. and Whiley, David M. (2023). Maximizing the Neisseria gonorrhoeae confirmatory rate and the genotypic detection of ciprofloxacin resistance for samples screened with cobas CT/NG. Journal of Clinical Microbiology, 62 (1), e0103923. doi: 10.1128/jcm.01039-23

Evaluation of Illumina® COVIDSeq™ as a Tool for Omicron SARS-CoV-2 Characterisation

Lowry, Kym, Bauer, Michelle J., Buckley, Cameron, Wang, Claire, Bordin, Amanda, Badman, Steven, Harris, Patrick N.A., Mackay, Ian and Whiley, David (2023). Evaluation of Illumina® COVIDSeq™ as a Tool for Omicron SARS-CoV-2 Characterisation. Journal of Virological Methods, 322 114827, 1-5. doi: 10.1016/j.jviromet.2023.114827

Rapid inactivation and sample preparation for SARS-CoV-2 PCR-based diagnostics using TNA-Cifer reagent E

Pollak, Nina, Rawle, Daniel J., Yan, Kexin, Buckley, Cameron, Le, Thuy, Wang, Claire Y., Ertl, Nicole G., Van Huyssteen, Karla, Crkvencic, Nicole, Hashmi, Misha, Lyons, Russell E., Whiley, David M., Suhrbier, Andreas and Macdonald, Joanne (2023). Rapid inactivation and sample preparation for SARS-CoV-2 PCR-based diagnostics using TNA-Cifer reagent E. Frontiers in Virology, 14 1238542, 1-12. doi: 10.3389/fmicb.2023.1238542

Rapid expansion of Neisseria gonorrhoeae ST7827 clone in Australia, with variable ceftriaxone phenotype unexplained by genotype

van Hal, S. J., Whiley, D. M., Le, T., Ray, S., Kundu, R. L., Kerr, E. and Lahra, M. M. (2023). Rapid expansion of Neisseria gonorrhoeae ST7827 clone in Australia, with variable ceftriaxone phenotype unexplained by genotype. The Journal of antimicrobial chemotherapy, 78 (9), 2203-2208. doi: 10.1093/jac/dkad221

Application of the ViroKey® SQ FLEX assay for detection of cytomegalovirus antiviral resistance

Hume, Jocelyn, Lowry, Kym, Whiley, David M., Irwin, Adam D., Bletchly, Cheryl and Sweeney, Emma L. (2023). Application of the ViroKey® SQ FLEX assay for detection of cytomegalovirus antiviral resistance. Journal of Clinical Virology, 167 105556, 1-8. doi: 10.1016/j.jcv.2023.105556

gyrA mutations in Mycoplasma genitalium and their contribution to moxifloxacin failure: time for the next generation of resistance-guided therapy

Murray, Gerald L, Plummer, Erica L, Bodiyabadu, Kaveesha, Vodstrcil, Lenka A, Huaman, Jose L, Danielewski, Jennifer A, Chua, Teck Phui, Machalek, Dorothy A, Garland, Suzanne, Doyle, Michelle, Sweeney, Emma L, Whiley, David M and Bradshaw, Catriona S (2023). gyrA mutations in Mycoplasma genitalium and their contribution to moxifloxacin failure: time for the next generation of resistance-guided therapy. Clinical Infectious Diseases, 76 (12), 2187-2195. doi: 10.1093/cid/ciad057

A universal reagent for detection of emerging diseases using bioengineered multifunctional yeast nanofragments

Li, Junrong, Howard, Christopher B., Dey, Shuvashis, Lowry, Kym, Whiley, David M., Puttick, Simon, Rose, Stephen, Lobb, Richard J., Wuethrich, Alain, Edwardraja, Selvakumar and Trau, Matt (2023). A universal reagent for detection of emerging diseases using bioengineered multifunctional yeast nanofragments. Nature Nanotechnology, 18 (10), 1222-1229. doi: 10.1038/s41565-023-01415-1

Antimicrobial susceptibility assays for Neisseria gonorrhoeae: a proof-of-principle population-based retrospective analysis

Bell, Sara F. E., Ware, Robert S., Lewis, David A., Lahra, Monica M. and Whiley, David M. (2023). Antimicrobial susceptibility assays for Neisseria gonorrhoeae: a proof-of-principle population-based retrospective analysis. The Lancet Microbe, 4 (7), e544-e551. doi: 10.1016/s2666-5247(23)00071-x

Selection of Neisseria gonorrhoeae ceftriaxone resistance using doxycycline post-exposure prophylaxis

Whiley, David M., Tickner, Jacob A., Kundu, Ratan L., Hogan, Tiffany R., van Hal, Sebastiaan J. and Lahra, Monica M. (2023). Selection of Neisseria gonorrhoeae ceftriaxone resistance using doxycycline post-exposure prophylaxis. The Lancet Infectious Diseases, 23 (8), e268-e269. doi: 10.1016/s1473-3099(23)00359-6

Cytomegalovirus in children undergoing haematopoietic stem cell transplantation: a diagnostic and therapeutic approach to antiviral resistance

Hume, Jocelyn, Sweeney, Emma L., Lowry, Kym, Fraser, Chris, Clark, Julia E., Whiley, David M. and Irwin, Adam D. (2023). Cytomegalovirus in children undergoing haematopoietic stem cell transplantation: a diagnostic and therapeutic approach to antiviral resistance. Frontiers in Pediatrics, 11 1180392, 1180392. doi: 10.3389/fped.2023.1180392

Neisseria gonorrhoeae ciprofloxacin susceptibility testing and gyrA targets

Tickner, Jacob A, Trembizki, Ella and Whiley, David M (2023). Neisseria gonorrhoeae ciprofloxacin susceptibility testing and gyrA targets. The Lancet Microbe, 4 (8), e574-E574. doi: 10.1016/s2666-5247(23)00149-0

Rapid molecular detection of CMY-2, and CTX-M group 1 and 9 variants via recombinase polymerase amplification

Ertl, Nicole G., Irwin, Adam D., Macdonald, Joanne, Bauer, Michelle J., Wang, Claire Y. T., Harris, Patrick N. A., Heney, Claire, Zowawi, Hosam M. and Whiley, David M. (2023). Rapid molecular detection of CMY-2, and CTX-M group 1 and 9 variants via recombinase polymerase amplification. JAC - Antimicrobial Resistance, 5 (2) dlad023, dlad023. doi: 10.1093/jacamr/dlad023

Travel-associated lineages and unique endemic antimicrobial-susceptible lineages of Neisseria gonorrhoeae predominate in Western Australia

Al Suwayyid, Barakat A., Haese, Ethan C., Mowlaboccus, Shakeel, Pearson, Julie C., Whiley, David M., Armstrong, Paul K., Giele, Carolien M., Mak, Donna B., Bastian, Lisa, Wise, Michael J., Coombs, Geoffrey W. and Kahler, Charlene M. (2023). Travel-associated lineages and unique endemic antimicrobial-susceptible lineages of Neisseria gonorrhoeae predominate in Western Australia. Microbial Genomics, 9 (3) 000969. doi: 10.1099/mgen.0.000969

The changing epidemiology of Neisseria gonorrhoeae genogroups and antimicrobial resistance in Queensland, Australia, 2010–15: a case series analysis of unique Neisseria gonorrhoeae isolates

McHugh, Lisa, Dyda, Amalie, Guglielmino, Christine, Buckley, Cameron, Lau, Colleen L., Jennison, Amy V., Regan, David G., Wood, James, Whiley, David and Trembizki, Ella (2023). The changing epidemiology of Neisseria gonorrhoeae genogroups and antimicrobial resistance in Queensland, Australia, 2010–15: a case series analysis of unique Neisseria gonorrhoeae isolates. Sexual Health, 20 (4), 296-302. doi: 10.1071/sh22118

Mycoplasma hominis and Ureaplasma urealyticum infections in the immediate post-lung transplant period: A case series and literature review

Divithotewala, Chandima, Sweeney, Emma L., Burke, Andrew, Graves, Bianca, Stewart, Adam, Whiley, David, Heney, Claire, Hopkins, Peter M. and Chambers, Daniel C. (2023). Mycoplasma hominis and Ureaplasma urealyticum infections in the immediate post-lung transplant period: A case series and literature review. Transplant Infectious Disease, 25 (3) e14058, 1-7. doi: 10.1111/tid.14058

Decreased Neisseria gonorrhoeae genotypic diversity following COVID-19 restrictions in Queensland, Australia 2020

Alharbi, Bushra, Jennison, Amy V., Hicks, Vicki, Whiley, David M, Sweeney, Emma and Trembizki, Ella (2023). Decreased Neisseria gonorrhoeae genotypic diversity following COVID-19 restrictions in Queensland, Australia 2020. Epidemiology and Infection, 151 e67, 1-8. doi: 10.1017/S0950268823000523

Genome-based epidemiology and antimicrobial resistance of Neisseria gonorrhoeae in Spain: a prospective multicentre study

Salmerón, P., Buckley, C., Arando, M., Alcoceba, E., Romero, B., Clavo, P., Whiley, D. and Serra-Pladevall, J. (2023). Genome-based epidemiology and antimicrobial resistance of Neisseria gonorrhoeae in Spain: a prospective multicentre study. Journal of the European Academy of Dermatology and Venereology, 37 (12), 2575-2582. doi: 10.1111/jdv.19458

Histo-blood group antigens and rotavirus vaccine virus shedding in Australian infants

El-Heneidy, Asmaa, Cheung, Catherine, Lambert, Stephen B., Wang, Claire Y. T., Whiley, David M., Sly, Peter D., Ware, Robert S. and Grimwood, Keith (2022). Histo-blood group antigens and rotavirus vaccine virus shedding in Australian infants. Pathology, 54 (7), 928-934. doi: 10.1016/j.pathol.2022.04.006

Optimized method for bacterial nucleic acid extraction from positive blood culture broth for whole-genome sequencing, resistance phenotype prediction, and downstream molecular applications

Bauer, Michelle J., Peri, Anna Maria, Lüftinger, Lukas, Beisken, Stephan, Bergh, Haakon, Forde, Brian M., Buckley, Cameron, Cuddihy, Thom, Tan, Patrice, Paterson, David L., Whiley, David M. and Harris, Patrick N. A. (2022). Optimized method for bacterial nucleic acid extraction from positive blood culture broth for whole-genome sequencing, resistance phenotype prediction, and downstream molecular applications. Journal of Clinical Microbiology, 60 (11) e01012-22, 1-11. doi: 10.1128/jcm.01012-22

Limited evidence of patient-to-patient transmission of Staphylococcus aureus strains between children with cystic fibrosis, Queensland, Australia

Biggs, Sharon L., Jennison, Amy V., Bergh, Haakon, Graham, Rikki, Nimmo, Graeme and Whiley, David (2022). Limited evidence of patient-to-patient transmission of Staphylococcus aureus strains between children with cystic fibrosis, Queensland, Australia. PLoS One, 17 (10) e0275256, 1-18. doi: 10.1371/journal.pone.0275256

Near-infrared spectroscopy as a feasible method for the differentiation of Neisseria gonorrhoeae from Neisseria commensals and antimicrobial resistant from susceptible gonococcal strains

Alharbi, Bushra, Cozzolino, Daniel, Sikulu-Lord, Maggy, Whiley, David and Trembizki, Ella (2022). Near-infrared spectroscopy as a feasible method for the differentiation of Neisseria gonorrhoeae from Neisseria commensals and antimicrobial resistant from susceptible gonococcal strains. Journal of Microbiological Methods, 201 106576, 106576. doi: 10.1016/j.mimet.2022.106576

Can ParC Ser83Ile status predict fluoroquinolone efficacy in Mycoplasma genitalium infection? – Authors’ reply

Sweeney, Emma L, Bradshaw, Catriona S, Murray, Gerald L and Whiley, David M (2022). Can ParC Ser83Ile status predict fluoroquinolone efficacy in Mycoplasma genitalium infection? – Authors’ reply. The Lancet Infectious Diseases, 22 (9), 1274-1275. doi: 10.1016/S1473-3099(22)00446-7

Combination Therapy for Mycoplasma genitalium, and New Insights Into the Utility of parC Mutant Detection to Improve Cure

Vodstrcil, Lenka A., Plummer, Erica L., Doyle, Michelle, Murray, Gerald L., Bodiyabadu, Kaveesha, Jensen, Jorgen S., Whiley, David, Sweeney, Emma, Williamson, Deborah A., Chow, Eric P. F., Fairley, Christopher K. and Bradshaw, Catriona S. (2022). Combination Therapy for Mycoplasma genitalium, and New Insights Into the Utility of parC Mutant Detection to Improve Cure. Clinical Infectious Diseases, 75 (5), 813-823. doi: 10.1093/cid/ciab1058

SARS-CoV-2 RT-PCR to screen for B.1.617.2 (Delta) Variant of Concern

Lowry, Kym, Wang, Claire, Bordin, Amanda, Buckley, Cameron, Badman, Steven, Harris, Patrick, Mackay, Ian and Whiley, David (2022). SARS-CoV-2 RT-PCR to screen for B.1.617.2 (Delta) Variant of Concern. Diagnostics, 12 (9) 2056, 1-7. doi: 10.3390/diagnostics12092056

Mycoplasma genitalium macrolide and fluoroquinolone resistance in pregnant women in Papua New Guinea

Jonduo, Marinjho E., Vallely, Andrew J., Whiley, David M., Riddell, Michaela A., Pomat, William, Low, Nicola and Sweeney, Emma L. (2022). Mycoplasma genitalium macrolide and fluoroquinolone resistance in pregnant women in Papua New Guinea. Sexually Transmitted Infections, 99 (1) 055552, 71-72. doi: 10.1136/sextrans-2022-055552

Molecular characterisation of Neisseria gonorrhoeae associated with disseminated gonococcal infections in Queensland, Australia: a retrospective surveillance study

Guglielmino, Christine J. D., Sandhu, Sumeet, Lau, Colleen L., Buckely, Cameron, Trembizki, Ella, Whiley, David M. and Jennison, Amy V. (2022). Molecular characterisation of Neisseria gonorrhoeae associated with disseminated gonococcal infections in Queensland, Australia: a retrospective surveillance study. BMJ Open, 12 (8) e061040, e061040. doi: 10.1136/bmjopen-2022-061040

The need for a commercial test using the penA60 allele to identify ceftriaxone-resistant Neisseria gonorrhoeae

Tickner, Jacob A., Lahra, Monica M. and Whiley, David M. (2022). The need for a commercial test using the penA60 allele to identify ceftriaxone-resistant Neisseria gonorrhoeae. The Lancet Infectious Diseases, 22 (9), 1271-1272. doi: 10.1016/s1473-3099(22)00520-5

Proof-of-concept, rapid, instrument-free molecular detection of Neisseria gonorrhoeae and ciprofloxacin susceptibility

Ayfan, Abdulrahman K. S., Macdonald, Joanne, Irwin, Adam D., Zowawi, Hosam M., Forde, Brian M., Paterson, David L., Lahra, Monica M. and Whiley, David M. (2022). Proof-of-concept, rapid, instrument-free molecular detection of Neisseria gonorrhoeae and ciprofloxacin susceptibility. Journal of Antimicrobial Chemotherapy, 77 (11), 2933-2936. doi: 10.1093/jac/dkac242

Antimicrobial susceptibility testing and molecular characterization of Neisseria gonorrhoeae in Tehran, Iran

Zolfaghari, Pouria, Emamie, Amir Darb, Rajabpour, Mohammadreza, Zarei, Atefe, Whiley, David M., Pourmand, Mohammad Reza and Pourmand, Gholamreza (2022). Antimicrobial susceptibility testing and molecular characterization of Neisseria gonorrhoeae in Tehran, Iran. International Journal of STD and AIDS, 33 (7), 660-665. doi: 10.1177/09564624221091746

Mycoplasma genitalium: enhanced management using expanded resistance-guided treatment strategies

Sweeney, Emma L., Whiley, David M., Murray, Gerald L. and Bradshaw, Catriona S. (2022). Mycoplasma genitalium: enhanced management using expanded resistance-guided treatment strategies. Sexual Health, 19 (4), 248-254. doi: 10.1071/sh22012

Two Treponema pallidum strains account for the majority of syphilis infections, including among females, in Queensland, Australia

Sweeney, Emma L., Lowry, Kym, Seel, Mandy, Rahimi, Frashta, Langton-Lockton, Julian, Bletchly, Cheryl, Nimmo, Graeme R. and Whiley, David M. (2022). Two Treponema pallidum strains account for the majority of syphilis infections, including among females, in Queensland, Australia. Communicable Diseases Intelligence, 46. doi: 10.33321/cdi.2022.46.26

Surveillance systems to monitor antimicrobial resistance in Neisseria gonorrhoeae: a global, systematic review, 1 January 2012 to 27 September 2020

Medland, Nicholas A., Zhang, Ye, Gunaratnam, Praveena, Lewis, David A., Donovan, Basil, Whiley, David M., Guy, Rebecca J. and Kaldor, John M. (2022). Surveillance systems to monitor antimicrobial resistance in Neisseria gonorrhoeae: a global, systematic review, 1 January 2012 to 27 September 2020. Eurosurveillance, 27 (18) 2100917, 25-36. doi: 10.2807/1560-7917.es.2022.27.18.2100917

parC Variants in Mycoplasma genitalium: trends over time and association with moxifloxacin failure

Murray, Gerald L., Bodiyabadu, Kaveesha, Vodstrcil, Lenka A., Machalek, Dorothy A., Danielewski, Jennifer, Plummer, Erica L., Garland, Suzanne M., Whiley, David M., Sweeney, Emma L. and Bradshaw, Catriona S. (2022). parC Variants in Mycoplasma genitalium: trends over time and association with moxifloxacin failure. Antimicrobial Agents and Chemotherapy, 66 (5) e0027822, e0027822. doi: 10.1128/aac.00278-22

HIV risk and gonococcal genotype: Opportunities to improve passive surveillance for prompt identification of syndemics?

Bell, Sara F.E., Lambert, Stephen B., Jennison, Amy V., Guglielmino, Christine Jd, Ware, Robert S. and Whiley, David M. (2022). HIV risk and gonococcal genotype: Opportunities to improve passive surveillance for prompt identification of syndemics?. Communicable Diseases Intelligence, 46. doi: 10.33321/cdi.2022.46.22

Intestinal shedding of enteric agents in histo-blood group antigen-secretor children in an Australian community-based birth cohort study

Mihala, Gabor, Ware, Robert S., Cheung, Catherine, Lambert, Stephen B., Sly, Peter D., Whiley, David M. and Grimwood, Keith (2022). Intestinal shedding of enteric agents in histo-blood group antigen-secretor children in an Australian community-based birth cohort study. Journal of Pediatric and Neonatal Individualized Medicine, 11 (1) e110116. doi: 10.7363/110116

Novel probe-based melting curve assays for the characterization of fluoroquinolone resistance in Mycoplasma genitalium

Tickner, Jacob A., Bradshaw, Catriona S., Murray, Gerald L., Whiley, David M. and Sweeney, Emma L. (2022). Novel probe-based melting curve assays for the characterization of fluoroquinolone resistance in Mycoplasma genitalium. Journal of Antimicrobial Chemotherapy, 77 (6), 1592-1599. doi: 10.1093/jac/dkac097

Individualised treatment of Mycoplasma genitalium infection—incorporation of fluoroquinolone resistance testing into clinical care

Sweeney, Emma L., Bradshaw, Catriona S., Murray, Gerald L. and Whiley, David M. (2022). Individualised treatment of Mycoplasma genitalium infection—incorporation of fluoroquinolone resistance testing into clinical care. The Lancet Infectious Diseases, 22 (9), e267-e270. doi: 10.1016/s1473-3099(21)00629-0

A gonococcal vaccine has the potential to rapidly reduce the incidence of Neisseria gonorrhoeae infection among urban men who have sex with men

Hui, Ben B., Padeniya, Thilini N., Rebuli, Nic, Gray, Richard T., Wood, James G., Donovan, Basil, Duan, Qibin, Guy, Rebecca, Hocking, Jane S., Lahra, Monica M., Lewis, David A., Whiley, David M., Regan, David G. and Seib, Kate L. (2022). A gonococcal vaccine has the potential to rapidly reduce the incidence of Neisseria gonorrhoeae infection among urban men who have sex with men. Journal of Infectious Diseases, 225 (6), 983-993. doi: 10.1093/infdis/jiab581

The impact of COVID-19 epidemic phase and changes in mean viral loads: implications for SARS-CoV-2 testing strategies

Buckley, Cameron, Wang, Claire Y.T., Chatfield, Mark D., Bletchly, Cheryl, Harris, Patrick and Whiley, David (2022). The impact of COVID-19 epidemic phase and changes in mean viral loads: implications for SARS-CoV-2 testing strategies. Diagnostic Microbiology and Infectious Disease, 102 (3) 115598, 1-5. doi: 10.1016/j.diagmicrobio.2021.115598

An observational study to assess the effectiveness of 4CMenB against meningococcal disease and carriage and gonorrhea in adolescents in the Northern Territory, Australia—study protocol

Marshall, Helen S., Andraweera, Prabha H., Ward, James, Kaldor, John, Andrews, Ross, Macartney, Kristine, Richmond, Peter, Krause, Vicki, Koehler, Ann, Whiley, David, Giles, Lynne, Webby, Rosalind, D’antoine, Heather, Karnon, Jonathan, Baird, Rob, Lawrence, Andrew, Petousis-Harris, Helen, Wals, Philippe De, Greenwood-Smith, Belinda, Binks, Michael and Whop, Lisa (2022). An observational study to assess the effectiveness of 4CMenB against meningococcal disease and carriage and gonorrhea in adolescents in the Northern Territory, Australia—study protocol. Vaccines, 10 (2) 309. doi: 10.3390/vaccines10020309

The prevalence of antimicrobial resistant Neisseria gonorrhoeae in Papua New Guinea: A systematic review and meta-analysis

Willie, Barne, Sweeney, Emma L., Badman, Steven G., Chatfield, Mark, Vallely, Andrew J., Kelly-Hanku, Angela and Whiley, David M. (2022). The prevalence of antimicrobial resistant Neisseria gonorrhoeae in Papua New Guinea: A systematic review and meta-analysis. International Journal of Environmental Research and Public Health, 19 (3) 1520. doi: 10.3390/ijerph19031520

Potentially Pathogenic Organisms in Stools and Their Association With Acute Diarrheal Illness in Children Aged &lt;2 Years

Mihala, Gabor, Ware, Robert S., Lambert, Stephen B., Bialasiewicz, Seweryn, Whiley, David M., Sarna, Mohinder, Sloots, Theo P., Nissen, Michael D. and Grimwood, Keith (2022). Potentially Pathogenic Organisms in Stools and Their Association With Acute Diarrheal Illness in Children Aged <2 Years. Journal of the Pediatric Infectious Diseases Society, 11 (5), 199-206. doi: 10.1093/jpids/piab130

Analytical validation of a real-time hydrolysis probe PCR assay for quantifying Plasmodium falciparum parasites in experimentally infected human adults

Wang, Claire Y. T., Ballard, Emma L., Pava, Zuleima, Marquart, Louise, Gaydon, Jane, Murphy, Sean C., Whiley, David, O’Rourke, Peter and McCarthy, James S. (2021). Analytical validation of a real-time hydrolysis probe PCR assay for quantifying Plasmodium falciparum parasites in experimentally infected human adults. Malaria Journal, 20 (1) 181, 181. doi: 10.1186/s12936-021-03717-y

Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis

Beale, Mathew A., Marks, Michael, Cole, Michelle J., Lee, Min-Kuang, Pitt, Rachel, Ruis, Christopher, Balla, Eszter, Crucitti, Tania, Ewens, Michael, Fernández-Naval, Candela, Grankvist, Anna, Guiver, Malcolm, Kenyon, Chris R., Khairullin, Rafil, Kularatne, Ranmini, Arando, Maider, Molini, Barbara J., Obukhov, Andrey, Page, Emma E., Petrovay, Fruzsina, Rietmeijer, Cornelis, Rowley, Dominic, Shokoples, Sandy, Smit, Erasmus, Sweeney, Emma L., Taiaroa, George, Vera, Jaime H., Wennerås, Christine, Whiley, David M. ... Thomson, Nicholas R. (2021). Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis. Nature Microbiology, 6 (12), 1549-1560. doi: 10.1038/s41564-021-01000-z

High prevalence of pulmonary tuberculosis among female sex workers, men who have sex with men, and transgender women in Papua New Guinea

Willie, Barne, Hakim, Avi J., Badman, Steven G., Weikum, Damian, Narokobi, Rebecca, Coy, Kelsey, Gabuzzi, Josephine, Pekon, Simon, Gene, Samson, Amos, Angelyn, Kupul, Martha, Hou, Parker, Dala, Nick M., Whiley, David M., Wapling, Johanna, Kaldor, John M., Vallely, Andrew J. and Kelly-Hanku, Angela (2021). High prevalence of pulmonary tuberculosis among female sex workers, men who have sex with men, and transgender women in Papua New Guinea. Tropical Medicine and Health, 49 (1) 4, 4. doi: 10.1186/s41182-020-00293-w

Scaling up sexually transmissible infections point-of-care testing in remote Aboriginal and Torres Strait Islander communities: healthcare workers’ perceptions of the barriers and facilitators

Lafferty, Lise, Smith, Kirsty, Causer, Louise, Andrewartha, Kelly, Whiley, David, Badman, Steven G., Donovan, Basil, Anderson, Lorraine, Tangey, Annie, Mak, Donna, Maher, Lisa, Shephard, Mark, Guy, Rebecca, on behalf of the TTANGO2 Collaboration, Bastian, Lisa, Ward, James, Kaldor, John, Comerford, Crissy, Bushby, Trish, Moore, Liz, Gunathilake, Manoji, Johnson, David and Gallant, Daniel (2021). Scaling up sexually transmissible infections point-of-care testing in remote Aboriginal and Torres Strait Islander communities: healthcare workers’ perceptions of the barriers and facilitators. Implementation Science Communications, 2 (1) 127. doi: 10.1186/s43058-021-00232-8

Modelling response strategies for controlling gonorrhoea outbreaks in men who have sex with men in Australia

Duan, Qibin, Carmody, Chris, Donovan, Basil, Guy, Rebecca J., Hui, Ben B., Kaldor, John M., Lahra, Monica M., Law, Matthew G., Lewis, David A., Maley, Michael, McGregor, Skye, McNulty, Anna, Selvey, Christine, Templeton, David J., Whiley, David M., Regan, David G. and Wood, James G. (2021). Modelling response strategies for controlling gonorrhoea outbreaks in men who have sex with men in Australia. PLoS Computational Biology, 17 (11) e1009385, 1-17. doi: 10.1371/journal.pcbi.1009385

High rate of asymptomatic colonisation with antimicrobial-resistant E. coli in Australian returned travellers

Furuya-Kanamori, Luis, Mills, Deborah J., Trembizki, Ella, Robson, Jennifer M., Jennison, Amy V., Whiley, David M. and Lau, Colleen L. (2021). High rate of asymptomatic colonisation with antimicrobial-resistant E. coli in Australian returned travellers. Journal of Travel Medicine, 29 (1) taab141. doi: 10.1093/jtm/taab141

Point-of-care testing and treatment of sexually transmitted and genital infections during pregnancy in Papua New Guinea (WANTAIM trial): Protocol for an economic evaluation alongside a cluster-randomised trial

Batura, Neha, Saweri, Olga Pm, Vallely, Andrew, Pomat, William, Homer, Caroline, Guy, Rebecca, Luchters, Stanley, Mola, Glen, Vallely, Lisa M, Morgan, Christopher, Kariwiga, Grace, Wand, Handan, Rogerson, Stephen, Tabrizi, Sepehr N, Whiley, David M, Low, Nicola, Peeling, Rosanna W, Siba, Peter M, Riddell, Michaela, Laman, Moses, Bolnga, John, Robinson, Leanne J, Morewaya, Jacob, Badman, Steven, Kelly-Hanku, Angela, Toliman, Pamela J, Peter, Wilfred, Peach, Elizabeth, Garland, Suzanne ... Wiseman, Virginia (2021). Point-of-care testing and treatment of sexually transmitted and genital infections during pregnancy in Papua New Guinea (WANTAIM trial): Protocol for an economic evaluation alongside a cluster-randomised trial. BMJ Open, 11 (8) e046308, 1-8. doi: 10.1136/bmjopen-2020-046308

Limited evidence for the role of environmental factors in the unusual peak of influenza in Brisbane during the 2018-2019 Australian summer

Lu, Jianyun, Yang, Zhicong, Karawita, Anjana C., Bunte, Myrna, Chew, Keng Yih, Pegg, Cassandra, Mackay, Ian, Whiley, David and Short, Kirsty R. (2021). Limited evidence for the role of environmental factors in the unusual peak of influenza in Brisbane during the 2018-2019 Australian summer. The Science of the Total Environment, 776 145967, 145967. doi: 10.1016/j.scitotenv.2021.145967

MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction

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

Optimising treatment outcomes for children and adults through rapid genome sequencing of sepsis pathogens. A study protocol for a prospective, multi-centre trial (DIRECT)

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

Rapid detection of NDM and VIM carbapenemase encoding genes by recombinase polymerase amplification and lateral flow–based detection

Ayfan, Abdulrahman K. S., Macdonald, Joanne, Harris, Patrick N. A., Heney, Claire, Paterson, David L., Trembizki, Ella, Wang, Claire Y. T., Whiley, David M., Zowawi, Hosam M. and Irwin, Adam D. (2021). Rapid detection of NDM and VIM carbapenemase encoding genes by recombinase polymerase amplification and lateral flow–based detection. European Journal of Clinical Microbiology & Infectious Diseases, 40 (11), 2447-2453. doi: 10.1007/s10096-021-04267-6

Antiseptic mouthwash for gonorrhoea prevention (OMEGA): a randomised, double-blind, parallel-group, multicentre trial

Chow, Eric P. F., Williamson, Deborah A., Hocking, Jane S., Law, Matthew G., Maddaford, Kate, Bradshaw, Catriona S., McNulty, Anna, Templeton, David J., Moore, Richard, Murray, Gerald L., Danielewski, Jennifer A., Wigan, Rebecca, Chen, Marcus Y., Guy, Rebecca J., Zhang, Lei, Donovan, Basil, Grulich, Andrew E., Kaldor, John M., Whiley, David M., Cornelisse, Vincent J., Howden, Benjamin P., Lewis, David A., Read, Tim R. H. and Fairley, Christopher K. (2021). Antiseptic mouthwash for gonorrhoea prevention (OMEGA): a randomised, double-blind, parallel-group, multicentre trial. The Lancet Infectious Diseases, 21 (5), 647-656. doi: 10.1016/S1473-3099(20)30704-0

Reflex detection of ciprofloxacin resistance in Neisseria gonorrhoeae by use of the SpeeDx ResistancePlus GC assay

Lee, Darren Y.J., Ashcroft, Melinda M., Chow, Eric P.F., Sait, Michelle, De Petra, Vesna, Tschaepe, Marlene, Lange, Sigrid, Taiaroa, George, Bradshaw, Catriona S., Whiley, David M., Fairley, Christopher K., Howden, Benjamin P., Chen, Marcus Y., Pasricha, Shivani and Williamson, Deborah A. (2021). Reflex detection of ciprofloxacin resistance in Neisseria gonorrhoeae by use of the SpeeDx ResistancePlus GC assay. Journal of Clinical Microbiology, 59 (5) e00089-21. doi: 10.1128/JCM.00089-21

Rapid macrolide and amikacin resistance testing for Mycobacterium abscessus in people with cystic fibrosis

Bordin, Amanda, Pandey, Sushil, Coulter, Christopher, Syrmis, Melanie, Pardo, Carolyn, Hackett, Hazel, Bell, Scott C., Wainwright, Claire E., Nimmo, Graeme R., Jennison, Amy V., Clark, Julia E. and Whiley, David M. (2021). Rapid macrolide and amikacin resistance testing for Mycobacterium abscessus in people with cystic fibrosis. Journal of Medical Microbiology, 70 (4) 001349, 1-11. doi: 10.1099/jmm.0.001349

A comparison of ThinPrep against four non-volatile transport media for HPV testing at or near the point of care

Badman, S. G., Vallely, A. J., Pardo, C., Mhango, L. P., Cornall, A. M., Kaldor, J. K. and Whiley, D. (2021). A comparison of ThinPrep against four non-volatile transport media for HPV testing at or near the point of care. Pathology, 53 (2), 264-266. doi: 10.1016/j.pathol.2020.10.006

Exploring the implications for coincidental treatment of Mycoplasma genitalium infection in Neisseria gonorrhoeae-positive patients

Mhango, Lebogang P., Trembizki, Ella, Thng, Caroline, Whiley, David M. and Sweeney, Emma L. (2021). Exploring the implications for coincidental treatment of Mycoplasma genitalium infection in Neisseria gonorrhoeae-positive patients. JAC - Antimicrobial Resistance, 3 (1) dlab033, dlab033. doi: 10.1093/jacamr/dlab033

Mycoplasma genitalium infections can comprise a mixture of both fluoroquinolone-susceptible and fluoroquinolone-resistant strains

Sweeney, Emma L., Lowry, Kym, Bletchly, Cheryl, Nimmo, Graeme R. and Whiley, David M. (2021). Mycoplasma genitalium infections can comprise a mixture of both fluoroquinolone-susceptible and fluoroquinolone-resistant strains. Journal of Antimicrobial Chemotherapy, 76 (4), 887-892. doi: 10.1093/jac/dkaa542

Emergence and impact of oprD mutations in Pseudomonas aeruginosa strains in cystic fibrosis

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

Evaluation of the SpeeDx ResistancePlusVR GC and SpeeDx GC 23S 2611 (beta) molecular assays for prediction of antimicrobial resistance/susceptibility to ciprofloxacin and azithromycin in Neisseria gonorrhoeae

Hadad, Ronza, Cole, Michelle Jayne, Ebeyan, Samantha, Jacobsson, Susanne, Tan, Lit Yeen, Golparian, Daniel, Erskine, Simon, Day, Michaela, Whiley, David, Unemo, Magnus and the European collaborative group (2021). Evaluation of the SpeeDx ResistancePlusVR GC and SpeeDx GC 23S 2611 (beta) molecular assays for prediction of antimicrobial resistance/susceptibility to ciprofloxacin and azithromycin in Neisseria gonorrhoeae. Journal of Antimicrobial Chemotherapy, 76 (1), 84-90. doi: 10.1093/JAC/DKAA381

High coverage of diverse invasive meningococcal serogroup B strains by the 4-component vaccine 4CMenB in Australia, 2007–2011: concordant predictions between MATS and genetic MATS

Tozer, Sarah J., Smith, Helen V., Whiley, David M., Borrow, Ray, Boccadifuoco, Giuseppe, Medini, Duccio, Serruto, Davide, Giuliani, Marzia Monica, Stella, Maria, De Paola, Rosita, Muzzi, Alessandro, Pizza, Mariagrazia, Sloots, Theo P. and Nissen, Michael D. (2021). High coverage of diverse invasive meningococcal serogroup B strains by the 4-component vaccine 4CMenB in Australia, 2007–2011: concordant predictions between MATS and genetic MATS. Human Vaccines and Immunotherapeutics, 17 (9), 3230-3238. doi: 10.1080/21645515.2021.1904758

Improved sensitivity from pooled urine, pharyngeal and rectal specimens when using a molecular assay for the detection of chlamydia and gonorrhoea near point of care

Dean, Judith Ann, Bell, Sara Fiona Elizabeth, Coffey, Luke, Debattista, Joseph, Badman, Steven, Redmond, Andrew M, Whiley, David M., Lemoire, Jime, Williams, Owain David, Howard, Chris and Gilks, Charles F. (2020). Improved sensitivity from pooled urine, pharyngeal and rectal specimens when using a molecular assay for the detection of chlamydia and gonorrhoea near point of care. Sexually Transmitted Infections, 97 (6), sextrans-2020. doi: 10.1136/sextrans-2020-054835

Evaluation of commercially available viral transport medium (VTM) for SARS-CoV-2 inactivation and use in point-of-care (POC) testing

Van Bockel, David, Munier, C. Mee Ling, Turville, Stuart, Badman, Steven G., Walker, Gregory, Stella, Alberto Ospina, Aggarwal, Anupriya, Yeang, Malinna, Condylios, Anna, Kelleher, Anthony D., Applegate, Tanya L., Vallely, Andrew, Whiley, David, Rawlinson, William, Cunningham, Phillip, Kaldor, John and Guy, Rebecca (2020). Evaluation of commercially available viral transport medium (VTM) for SARS-CoV-2 inactivation and use in point-of-care (POC) testing. Viruses, 12 (11) 1208, 1-11. doi: 10.3390/v12111208

Enhanced molecular surveillance in response to the detection of extensively resistant gonorrhoea in Australia

Trembizki, Ella, Jennison, Amy V, Buckley, Cameron, Bright, Amy, Holds, Judith, Ward, Alison, Pitt, John, Pendle, Stella, Baird, Rob, Freeman, Kevin, Robson, Jenny, Mhango, Lebogang, Lowry, Kym, Lahra, Monica and Whiley, David (2020). Enhanced molecular surveillance in response to the detection of extensively resistant gonorrhoea in Australia. Journal of Antimicrobial Chemotherapy, 76 (1), 270-271. doi: 10.1093/jac/dkaa402

Developing target product profiles for Neisseria gonorrhoeae diagnostics in the context of antimicrobial resistance: An expert consensus

Ferreyra, Cecilia, Osborn, Jennifer, Moussy, Francis, Alirol, Emilie, Lahra, Monica, Whiley, David, Shafer, William, Unemo, Magnus, Klausner, Jeffrey, Cirino, Cassandra Kelly and Wi, Teodora (2020). Developing target product profiles for Neisseria gonorrhoeae diagnostics in the context of antimicrobial resistance: An expert consensus. PLoS One, 15 (9) e0237424, 1-15. doi: 10.1371/journal.pone.0237424

Young Aboriginal people's sexual health risk reduction strategies: a qualitative study in remote Australia

Bell, Stephen, Ward, James, Aggleton, Peter, Murray, Walbira, Silver, Bronwyn, Lockyer, Andrew, Ferguson, Tellisa, Fairley, Christopher K., Whiley, David, Ryder, Nathan, Donovan, Basil, Guy, Rebecca, Kaldor, John and Maher, Lisa (2020). Young Aboriginal people's sexual health risk reduction strategies: a qualitative study in remote Australia. Sexual Health, 17 (4), 303-310. doi: 10.1071/SH19204

Are sex norms the norm in gonococcal surveillance?

George, C R Robert, Kundu, Ratan L, Whiley, David M and Lahra, Monica M (2020). Are sex norms the norm in gonococcal surveillance?. The Lancet Microbe, 1 (4), e143-e144. doi: 10.1016/S2666-5247(20)30087-2

Contamination of SARS-CoV-2 RT-PCR probes at the oligonucleotide manufacturer

Wang, Claire Y.T., Buckley, Cameron, Bletchly, Cheryl, Harris, Patrick and Whiley, David (2020). Contamination of SARS-CoV-2 RT-PCR probes at the oligonucleotide manufacturer. Pathology, 52 (7), 814-816. doi: 10.1016/j.pathol.2020.08.002

Peer-delivered point-of-care testing for Chlamydia trachomatis and Neisseria gonorrhoeae within an urban community setting: a cross-sectional analysis

Bell, Sara F. E., Coffey, Luke, Debattista, Joseph, Badman, Steven G., Redmond, Andrew M., Whiley, David M., Lemoire, Jime, Williams, Owain D., Howard, Chris, Gilks, Charles F. and Dean, Judith A. (2020). Peer-delivered point-of-care testing for Chlamydia trachomatis and Neisseria gonorrhoeae within an urban community setting: a cross-sectional analysis. Sexual Health, 17 (4), 359-367. doi: 10.1071/sh19233

Evaluation of the SpeeDx MG parC (beta) PCR assay for the rapid detection of Mycoplasma genitalium quinolone resistance-associated mutations

Sweeney, Emma L., Lowry, Kym, Ebeyan, Samantha, Lundgren, Marie and Whiley, David M. (2020). Evaluation of the SpeeDx MG parC (beta) PCR assay for the rapid detection of Mycoplasma genitalium quinolone resistance-associated mutations. Journal of Clinical Microbiology, 58 (10) e0143220, 1-2. doi: 10.1128/jcm.01432-20

Chlamydia trachomatis, Neisseria gonorrhoeae, and Trichomonas vaginalis among women with genitourinary infection and pregnancy-related complications in Tehran: A cross-sectional study

Rajabpour, Mohammadreza, Emamie, Amir Darb, Pourmand, Mohammad Reza, Goodarzi, Narjes Noori, Asbagh, Firouzeh Akbari and Whiley, David M. (2020). Chlamydia trachomatis, Neisseria gonorrhoeae, and Trichomonas vaginalis among women with genitourinary infection and pregnancy-related complications in Tehran: A cross-sectional study. International Journal of STD and AIDS, 31 (8), 773-780. doi: 10.1177/0956462420922462

Genotyping of Mycoplasma genitalium suggests de novo acquisition of antimicrobial resistance, Queensland, Australia

Sweeney, Emma L., Tickner, Jacob, Bletchly, Cheryl, Nimmo, Graeme R. and Whiley, David M. (2020). Genotyping of Mycoplasma genitalium suggests de novo acquisition of antimicrobial resistance, Queensland, Australia. Journal of Clinical Microbiology, 58 (9) e00641-20. doi: 10.1128/jcm.00641-20

Young Aboriginal people's engagement with STI testing in the Northern Territory, Australia

Bell, Stephen, Aggleton, Peter, Ward, James, Murray, Walbira, Silver, Bronwyn, Lockyer, Andrew, Ferguson, Tellisa, Fairley, Christopher K., Whiley, David, Ryder, Nathan, Donovan, Basil, Guy, Rebecca, Kaldor, John and Maher, Lisa (2020). Young Aboriginal people's engagement with STI testing in the Northern Territory, Australia. BMC Public Health, 20 (1) 459, 459. doi: 10.1186/s12889-020-08565-0

Lessons learnt from ceftriaxone-resistant gonorrhoea in the UK and Australia

Fifer, Helen, Hughes, Gwenda, Whiley, David and Lahra, Monica M (2020). Lessons learnt from ceftriaxone-resistant gonorrhoea in the UK and Australia. The Lancet Infectious Diseases, 20 (3), 276-278. doi: 10.1016/S1473-3099(20)30055-4

Evaluation of the ResistancePlus® MG FleXible cartridge for near point-of-care testing of Mycoplasma genitalium and associated macrolide resistance mutations

Sweeney, E. L., Mhango, L. P., Ebeyan, S., Tan, L. Y., Bletchly, C., Nimmo, G. R. and Whiley, D. M. (2020). Evaluation of the ResistancePlus® MG FleXible cartridge for near point-of-care testing of Mycoplasma genitalium and associated macrolide resistance mutations. Journal of Clinical Microbiology, 58 (3) e01897-19. doi: 10.1128/jcm.01897-19

Reduced sensitivity from pooled urine, pharyngeal and rectal specimens when using a molecular assay for the detection of chlamydia and gonorrhoea near the point of care

Badman, Steven G., Bell, Sara F. E., Dean, Judith A., Lemoire, Jime, Coffey, Luke, Debattista, Joseph, Redmond, Andrew M., Williams, Owain D., Gilks, Charles F. and Whiley, David M. (2020). Reduced sensitivity from pooled urine, pharyngeal and rectal specimens when using a molecular assay for the detection of chlamydia and gonorrhoea near the point of care. Sexual Health, 17 (1), 15-21. doi: 10.1071/sh19028

Second- and third-generation commercial Neisseria gonorrhoeae screening assays and the ongoing issues of false-positive results and confirmatory testing

Pryce, Todd M., Hiew, Valerie J., Haygarth, Erin J. and Whiley, David M. (2020). Second- and third-generation commercial Neisseria gonorrhoeae screening assays and the ongoing issues of false-positive results and confirmatory testing. European Journal of Clinical Microbiology and Infectious Diseases, 40 (1), 67-75. doi: 10.1007/s10096-020-04004-5

Over-diagnosis of rotavirus infection in infants due to detection of vaccine virus

Whiley, David M., Ye, Suifang, Tozer, Sarah, Clark, Julia E., Bletchly, Cheryl, Lambert, Stephen B., Grimwood, Keith and Nimmo, Graeme R. (2019). Over-diagnosis of rotavirus infection in infants due to detection of vaccine virus. Clinical Infectious Diseases, 71 (5), 1324-1326. doi: 10.1093/cid/ciz1196

Whole-genome sequencing as an improved means of investigating Neisseria gonorrhoeae treatment failures

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

Emergence and spread of ciprofloxacin-resistant Neisseria gonorrhoeae in New South Wales, Australia: lessons from history

Hanrahan, Jane K., Hogan, Tiffany R., Buckley, Cameron, Trembizki, Ella, Mitchell, Hazel, Lau, Colleen L., Whiley, David M. and Lahra, Monica M. (2019). Emergence and spread of ciprofloxacin-resistant Neisseria gonorrhoeae in New South Wales, Australia: lessons from history. Journal of Antimicrobial Chemotherapy, 74 (8), 2214-2219. doi: 10.1093/jac/dkz182

Solithromycin versus ceftriaxone plus azithromycin for the treatment of uncomplicated genital gonorrhoea (SOLITAIRE-U): a randomised phase 3 non-inferiority trial

Chen, Marcus Y., McNulty, Anna, Avery, Ann, Whiley, David, Tabrizi, Sepehr N., Hardy, Dwight, Das, Anita F., Nenninger, Ashley, Fairley, Christopher K., Hocking, Jane S., Bradshaw, Catriona S., Donovan, Basil, Howden, Benjamin P. and Oldach, David (2019). Solithromycin versus ceftriaxone plus azithromycin for the treatment of uncomplicated genital gonorrhoea (SOLITAIRE-U): a randomised phase 3 non-inferiority trial. The Lancet Infectious Diseases, 19 (8), 833-842. doi: 10.1016/S1473-3099(19)30116-1

False-negative Chlamydia polymerase chain reaction result caused by a cryptic plasmid-deficient Chlamydia trachomatis strain in Australia

Sweeney, Emma L., Bletchly, Cheryl, Gupta, Rita and Whiley, David M. (2019). False-negative Chlamydia polymerase chain reaction result caused by a cryptic plasmid-deficient Chlamydia trachomatis strain in Australia. Sexual Health, 16 (4), 394-396. doi: 10.1071/sh18205

Evaluation of the SpeeDx Carba (beta) multiplex real-time PCR assay for detection of NDM, KPC, OXA-48-like, IMP-4-like and VIM carbapenemase genes

Bordin, Amanda, Trembizki, Ella, Windsor, Madeline, Wee, Rachel, Tan, Lit Yeen, Buckley, Cameron, Syrmis, Melanie, Bergh, Haakon, Cottrell, Kyra, Zowawi, Hosam M., Sidjabat, Hanna E, Harris, Patrick N. A., Nimmo, Graeme R., Paterson, David L. and Whiley, David M. (2019). Evaluation of the SpeeDx Carba (beta) multiplex real-time PCR assay for detection of NDM, KPC, OXA-48-like, IMP-4-like and VIM carbapenemase genes. BMC Infectious Diseases, 19 (1) 571, 571. doi: 10.1186/s12879-019-4176-z

Evaluation of the ResistancePlus GC (beta) assay: A commercial diagnostic test for the direct detection of ciprofloxacin susceptibility or resistance in Neisseria gonorrhoeae

Ebeyan, Samantha, Windsor, Madeline, Bordin, Amanda, Mhango, Lebogang, Erskine, Simon, Trembizki, Ella, Mokany, Elisa, Tan, Lit Yeen, Whiley, David and GRAND2 Study Investigators (2019). Evaluation of the ResistancePlus GC (beta) assay: A commercial diagnostic test for the direct detection of ciprofloxacin susceptibility or resistance in Neisseria gonorrhoeae. Journal of Antimicrobial Chemotherapy, 74 (7), 1820-1824. doi: 10.1093/jac/dkz108

A diagnostic evaluation of a molecular assay used for testing and treating anorectal chlamydia and gonorrhoea infections at the point-of-care in Papua New Guinea

Badman, S. G., Willie, B., Narokobi, R., Gabuzzi, J., Pekon, S., Amos-Kuma, A., Hakim, A. J., Weikum, D., Gare, J., Silim, S., Guy, R. J., Donovan, B., Cunningham, P., Kaldor, J. M., Vallely, A. J., Whiley, D. and Kelly-Hanku, A. (2019). A diagnostic evaluation of a molecular assay used for testing and treating anorectal chlamydia and gonorrhoea infections at the point-of-care in Papua New Guinea. Clinical Microbiology and Infection, 25 (5), 623-627. doi: 10.1016/j.cmi.2018.08.001

Systematic review and survey of Neisseria gonorrhoeae ceftriaxone and azithromycin susceptibility data in the Asia Pacific, 2011 to 2016

George, C.R. Robert, Enriquez, Rodney P., Gatus, Barrie J., Whiley, David M., Lo, Ying-Ru, Ishikawa, Naoko, Wi, Teodora and Lahra, Monica M. (2019). Systematic review and survey of Neisseria gonorrhoeae ceftriaxone and azithromycin susceptibility data in the Asia Pacific, 2011 to 2016. PLoS ONE, 14 (4) e0213312, e0213312. doi: 10.1371/journal.pone.0213312

Illumina sequencing of clinical samples for virus detection in a public health laboratory

Huang, Bixing, Jennsion, Amy, Whiley, David, McMahon, Jamie, Hewitson, Glen, Graham, Rikki, De Jong, Amanda and Warrilow, David (2019). Illumina sequencing of clinical samples for virus detection in a public health laboratory. Scientific Reports, 9 (1) 5409, 5409. doi: 10.1038/s41598-019-41830-w

Genetic relatedness of ceftriaxone-resistant and high-level azithromycin resistant Neisseria gonorrhoeae cases, United Kingdom and Australia, February to April 2018

Jennison, Amy V., Whiley, David, Lahra, Monica M., Supsup, Rikki M. Graham, Cole, Michelle J., Hughes, Gwenda, Fifer, Helen, Andersson, Monique, Edwards, Anne and Eyre, David (2019). Genetic relatedness of ceftriaxone-resistant and high-level azithromycin resistant Neisseria gonorrhoeae cases, United Kingdom and Australia, February to April 2018. Eurosurveillance, 24 (8) 1900118, 15-18. doi: 10.2807/1560-7917.ES.2019.24.8.1900118

Levels of Mycoplasma genitalium antimicrobial resistance differ by both region and gender in the state of Queensland, Australia: implications for treatment guidelines

Sweeney, E. L., Trembizki, E., Bletchly, C., Bradshaw, C. S., Menon, A., Francis, F., Langton-Lockton, J., Nimmo, G. R. and Whiley, D. M. (2019). Levels of Mycoplasma genitalium antimicrobial resistance differ by both region and gender in the state of Queensland, Australia: implications for treatment guidelines. Journal of Clinical Microbiology, 57 (3) e01555-18. doi: 10.1128/jcm.01555-18

Point-of-care testing and treatment of sexually transmitted infections to improve birth outcomes in high-burden, low-income settings: study protocol for a cluster randomized crossover trial (the WANTAIM Trial, Papua New Guinea) [version 1; peer review: 1 approved, 1 approved with reservations]

Vallely, Andrew J., Pomat, William S., Homer, Caroline, Guy, Rebecca, Luchters, Stanley, Mola, Glen D. L., Kariwiga, Grace, Vallely, Lisa M., Wiseman, Virginia, Morgan, Chris, Wand, Handan, Rogerson, Stephen J., Tabrizi, Sepehr N., Whiley, David M., Low, Nicola, Peeling, Rosanna, Siba, Peter, Riddell, Michaela, Laman, Moses, Bolnga, John, Robinson, Leanne J., Morewaya, Jacob, Badman, Steven G., Batura, Neha, Kelly-Hanku, Angela, Toliman, Pamela J., Peter, Wilfred, Babona, Delly, Peach, Elizabeth ... Kaldor, John M. (2019). Point-of-care testing and treatment of sexually transmitted infections to improve birth outcomes in high-burden, low-income settings: study protocol for a cluster randomized crossover trial (the WANTAIM Trial, Papua New Guinea) [version 1; peer review: 1 approved, 1 approved with reservations]. Wellcome Open Research, 4 53, 53. doi: 10.12688/wellcomeopenres.15173.1

Treatment for pharyngeal gonorrhoea under threat

Regan, David G., Hui, Ben B., Wood, James G., Fifer, Helen, Lahra, Monica M. and Whiley, David M. (2018). Treatment for pharyngeal gonorrhoea under threat. Lancet Infectious Diseases, 18 (11), 1175-1177. doi: 10.1016/S1473-3099(18)30610-8

Discovery of mcr-1-mediated colistin resistance in a highly virulent Escherichia coli lineage

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

Molecular point-of-care testing for chlamydia and gonorrhoea in Indigenous Australians attending remote primary health services (TTANGO): a cluster-randomised, controlled, crossover trial

Guy, Rebecca J., Ward, James, Causer, Louise M., Natoli, Lisa, Badman, Steven G., Tangey, Annie, Hengel, Belinda, Wand, Handan, Whiley, David, Tabrizi, Sepehr N., Shephard, Mark, Fairley, Christopher K., Donovan, Basil, Anderson, David A., Regan, David G., Maher, Lisa and Kaldor, John M. (2018). Molecular point-of-care testing for chlamydia and gonorrhoea in Indigenous Australians attending remote primary health services (TTANGO): a cluster-randomised, controlled, crossover trial. The Lancet Infectious Diseases, 18 (10), 1117-1126. doi: 10.1016/S1473-3099(18)30429-8

Whole genome sequencing reveals the emergence of a Pseudomonas aeruginosa shared strain sub-lineage among patients treated within a single cystic fibrosis centre

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

Direct detection of penA gene associated with Ceftriaxone-resistant Neisseria gonorrhoeae FC428 strain by using PCR

Whiley, David M., Mhango, Lebogang, Jennison, Amy V., Nimmo, Graeme and Lahra, Monica M. (2018). Direct detection of penA gene associated with Ceftriaxone-resistant Neisseria gonorrhoeae FC428 strain by using PCR. Emerging Infectious Diseases, 24 (8), 1573-1575. doi: 10.3201/eid2408.180295

Genetic characterisation of Neisseria gonorrhoeae resistant to both ceftriaxone and azithromycin

Whiley, David M., Jennison, Amy, Pearson, Julie and Lahra, Monica M. (2018). Genetic characterisation of Neisseria gonorrhoeae resistant to both ceftriaxone and azithromycin. The Lancet Infectious Diseases, 18 (7), 717-718. doi: 10.1016/S1473-3099(18)30340-2

Molecular test for chlamydia and gonorrhoea used at point of care in remote primary healthcare settings: a diagnostic test evaluation

Causer, Louise M, Guy, Rebecca J, Tabrizi, Sepehr N, Whiley, David M, Speers, David John, Ward, James, Tangey, Annie, Badman, Steven G, Hengel, Belinda, Natoli, Lisa Jane, Anderson, David A, Wand, Handan, Wilson, David, Regan, David G, Shephard, Mark, Donovan, Basil, Fairley, Christopher K and Kaldor, John M (2018). Molecular test for chlamydia and gonorrhoea used at point of care in remote primary healthcare settings: a diagnostic test evaluation. Sexually Transmitted Infections, 94 (5), 340-345. doi: 10.1136/sextrans-2017-053443

Identification of carbapenem-resistant Pseudomonas aeruginosa in selected hospitals of the Gulf Cooperation Council States: dominance of high-risk clones in the region

Zowawi, Hosam M., Syrmis, Melanie W., Kidd, Timothy J., Balkhy, Hanan H., Walsh, Timothy R., Al Johani, Sameera M., Al Jindan, Reem Y., Alfaresi, Mubarak, Ibrahim, Emad, Al-Jardani, Amina, Al Salman, Jameela, Dashti, Ali A., Sidjabat, Hanna E., Baz, Omar, Trembizki, Ella, Whiley, David M. and Paterson, David L. (2018). Identification of carbapenem-resistant Pseudomonas aeruginosa in selected hospitals of the Gulf Cooperation Council States: dominance of high-risk clones in the region. Journal of Medical Microbiology, 67 (6) 000730, 846-853. doi: 10.1099/jmm.0.000730

CtGEM typing: Discrimination of Chlamydia trachomatis ocular and urogenital strains and major evolutionary lineages by high resolution melting analysis of two amplified DNA fragments

Giffard, Philip M., Andersson, Patiyan, Wilson, Judith, Buckley, Cameron, Lilliebridge, Rachael, Harris, Tegan M., Kleinecke, Mariana, O'Grady, Kerry-Ann F., Huston, Wilhelmina M., Lambert, Stephen B., Whiley, David M. and Holt, Deborah C. (2018). CtGEM typing: Discrimination of Chlamydia trachomatis ocular and urogenital strains and major evolutionary lineages by high resolution melting analysis of two amplified DNA fragments. PloS One, 13 (4) e0195454, e0195454. doi: 10.1371/journal.pone.0195454

Cooperative recognition of internationally disseminated ceftriaxone-resistant Neisseria gonorrhoeae strain

Lahra, Monica M., Martin, Irene, Demczuk, Walter, Jennison, Amy V., Lee, Ken-Ichi, Nakayama, Shu-Ichi, Lefebvre, Brigitte, Longtin, Jean, Ward, Alison, Mulvey, Michael R., Wi, Teodora, Ohnishi, Makoto and Whiley, David (2018). Cooperative recognition of internationally disseminated ceftriaxone-resistant Neisseria gonorrhoeae strain. Emerging Infectious Diseases, 24 (4), 735-740. doi: 10.3201/eid2404.171873

Retrospective review of Treponema pallidum PCR and serology results: Are both tests necessary?

Brischetto, Anna, Gassiep, Ian, Whiley, David and Norton, Robert (2018). Retrospective review of Treponema pallidum PCR and serology results: Are both tests necessary?. Journal of Clinical Microbiology, 56 (5) e01782-17, e01782-17. doi: 10.1128/JCM.01782-17

Azithromycin-resistant Neisseria gonorrhoeae spreading amongst men who have sex with men (MSM) and heterosexuals in New South Wales, Australia, 2017

Whiley, David M., Kundu, Ratan L., Jennison, Amy V., Buckley, Cameron, Limnios, Athena, Hogan, Tiffany, Enriquez, Rodney, El Nasser, Jasmin, George, C Robert and Lahra, Monica M. (2018). Azithromycin-resistant Neisseria gonorrhoeae spreading amongst men who have sex with men (MSM) and heterosexuals in New South Wales, Australia, 2017. The Journal of Antimicrobial Chemotherapy, 73 (5), 1242-1246. doi: 10.1093/jac/dky017

Use of whole genome sequencing to investigate an increase in Neisseria gonorrhoeae infection among women in urban areas of Australia

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

A reliable and easy to transport quality control method for chlamydia and gonorrhoea molecular point of care testing

Badman, S. G., Causer, L. M., Guy, R., Wand, H., Donovan, B., Tabrizi, S. N., Speers, D., Shephard, M. D., Vallely, A., Whiley, D. and TTANGO investigators (2018). A reliable and easy to transport quality control method for chlamydia and gonorrhoea molecular point of care testing. Pathology, 50 (3), 317-321. doi: 10.1016/j.pathol.2017.09.012

Viruses causing lower respiratory symptoms in young children: findings from the ORChID birth cohort

Sarna, Mohinder, Lambert, Stephen B., Sloots, Theo P., Whiley, David M., Alsaleh, Asma, Mhango, Lebogang, Bialasiewicz, Seweryn, Wang, David, Nissen, Michael D., Grimwood, Keith and Ware, Robert S. (2017). Viruses causing lower respiratory symptoms in young children: findings from the ORChID birth cohort. Thorax, 73 (10), thoraxjnl-2017. doi: 10.1136/thoraxjnl-2017-210233

Multivalent rotavirus vaccine and wild-type rotavirus strain shedding in Australian infants: a birth cohort study

Ye, Suifang, Whiley, David M., Ware, Robert S., Kirkwood, Carl D., Lambert, Stephen B. and Grimwood, Keith (2017). Multivalent rotavirus vaccine and wild-type rotavirus strain shedding in Australian infants: a birth cohort study. Clinical Infectious Diseases , 66 (9), 1411-1418. doi: 10.1093/cid/cix1022

Antibiotic perturbation of mixed-strain Pseudomonas aeruginosa infection in patients with cystic fibrosis

Tai, Anna S., Sherrard, Laura J., Kidd, Timothy J., Ramsay, Kay A., Buckley, Cameron, Syrmis, Melanie, Grimwood, Keith, Bell, Scott C. and Whiley, David M. (2017). Antibiotic perturbation of mixed-strain Pseudomonas aeruginosa infection in patients with cystic fibrosis. BMC pulmonary medicine, 17 (1) 138, 1-10. doi: 10.1186/s12890-017-0482-7

The Australian Gonococcal Surveillance Programme 1979-2017

Lahra, Monica M., George, C. R. Robert and Whiley, David M. (2017). The Australian Gonococcal Surveillance Programme 1979-2017. Microbiology Australia, 38 (4), 175-179. doi: 10.1071/MA17062

High levels of macrolide-resistant Mycoplasma genitalium in Queensland, Australia

Trembizki, Ella, Buckley, Cameron, Bletchly, Cheryl, Nimmo, Graeme R. and Whiley, David M. (2017). High levels of macrolide-resistant Mycoplasma genitalium in Queensland, Australia. Journal of Medical Microbiology, 66 (10) 000584, 1451-1453. doi: 10.1099/jmm.0.000584

Molecular antimicrobial resistance surveillance for Neisseria gonorrhoeae, Northern Territory, Australia

Whiley, David M., Trembizki, Ella, Buckley, Cameron, Freeman, Kevin, Baird, Robert W., Beaman, Miles, Chen, Marcus, Donovan, Basil, Kundu, Ratan L., Fairley, Christopher K., Guy, Rebecca, Hogan, Tiffany, Kaldor, John M., Karimi, Mahdad, Limnios, Athena, Regan, David G., Ryder, Nathan, Su, Jiunn-Yih, Ward, James and Lahra, Monica M. (2017). Molecular antimicrobial resistance surveillance for Neisseria gonorrhoeae, Northern Territory, Australia. Emerging Infectious Diseases, 23 (9), 1478-1485. doi: 10.3201/eid2309.170427

A multicentre double-blind randomised controlled trial evaluating the efficacy of daily use of antibacterial mouthwash against oropharyngeal gonorrhoea among men who have sex with men: the OMEGA (Oral Mouthwash use to Eradicate GonorrhoeA) study protocol

Chow, Eric P. F., Walker, Sandra, Hocking, Jane S., Bradsha, Catriona S., Chen, Marcus Y., Tabrizi, Sepehr N., Howden, Benjamin P., Law, Matthew G., Maddaford, Kate, Read, Tim R. H., Lewis, David A., Whiley, David M., Zhang, Lei, Grulich, Andrew E., Kaldor, John M., Cornelisse, Vincent J., Phillips, Samuel, Donovan, Basil, McNulty, Anna M., Templeto, David J., Roth, Norman, Moore, Richard and Fairley, Christopher K. (2017). A multicentre double-blind randomised controlled trial evaluating the efficacy of daily use of antibacterial mouthwash against oropharyngeal gonorrhoea among men who have sex with men: the OMEGA (Oral Mouthwash use to Eradicate GonorrhoeA) study protocol. BMC Infectious Diseases, 17 (1) 456, 456. doi: 10.1186/s12879-017-2541-3

Detection of viruses in weekly stool specimens collected during the first 2 years of life: a pilot study of five healthy Australian infants in the rotavirus vaccine era

Ye, Suifang, Whiley, David M., Ware, Robert S., Sloots, Theo P., Kirkwood, Carl D., Grimwood, Keith and Lambert, Stephen B. (2017). Detection of viruses in weekly stool specimens collected during the first 2 years of life: a pilot study of five healthy Australian infants in the rotavirus vaccine era. Journal of Medical Virology, 89 (5), 917-921. doi: 10.1002/jmv.24716

Neisseria gonorrhoeae sequence typing for antimicrobial resistance, a novel antimicrobial resistance multilocus typing scheme for tracking global dissemination of N. Gonorrhoeae strains

Demczuk, W., Sidhu, S., Unemo, M., Whiley, D. M., Allen, V. G., Dillon, J. R., Cole, M., Seah, C., Trembizki, E., Trees, D. L., Kersh, E. N., Abrams, A. J., de Vries, H. J. C., van Dam, A. P., Medina, I., Bharat, A., Mulvey, M. R., Van Domselaar, G. and Martin, I. (2017). Neisseria gonorrhoeae sequence typing for antimicrobial resistance, a novel antimicrobial resistance multilocus typing scheme for tracking global dissemination of N. Gonorrhoeae strains. Journal of Clinical Microbiology, 55 (5), 1454-1468. doi: 10.1128/JCM.00100-17

Changes in the rates of Neisseria gonorrhoeae antimicrobial resistance are primarily driven by dynamic fluctuations in common gonococcal genotypes

Lahra, Monica M., Trembizki, Ella, Buckley, Cameron, Donovan, Basil, Chen, Marcus, Guy, Rebecca, Kundu, Ratan L., Regan, David G. and Whiley, David M. (2017). Changes in the rates of Neisseria gonorrhoeae antimicrobial resistance are primarily driven by dynamic fluctuations in common gonococcal genotypes. Journal of Antimicrobial Chemotherapy, 72 (3), 705-711. doi: 10.1093/jac/dkw452

Effectiveness of a cough management algorithm at the transitional phase from acute to chronic cough in Australian children aged <15 years: protocol for a randomised controlled trial

O'Grady, Kerry-Ann F., Grimwood, Keith, Toombs, Maree, Sloots, Theo P., Otim, Michael, Whiley, David, Anderson, Jennie, Rablin, Sheree, Torzillo, Paul J., Buntain, Helen, Connor, Anne, Adsett, Don, Meng Kar, Oon and Chang, Anne B. (2017). Effectiveness of a cough management algorithm at the transitional phase from acute to chronic cough in Australian children aged <15 years: protocol for a randomised controlled trial. BMJ Open, 7 (3) e013796, e013796. doi: 10.1136/bmjopen-2016-013796

Upper airway viruses and bacteria and clinical outcomes in children with cough

O'Grady, Kerry-Ann F., Grimwood, Keith, Sloots, Theo P., Whiley, David M., Acworth, Jason P., Phillips, Natalie, Marchant, Julie, Goyal, Vikas and Chang, Anne B. (2017). Upper airway viruses and bacteria and clinical outcomes in children with cough. Pediatric Pulmonology, 52 (3), 373-381. doi: 10.1002/ppul.23527

Within-host whole genome analysis of an antibiotic resistant Pseudomonas aeruginosa strain sub-type in cystic fibrosis

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

Mixed gonococcal infections in a high-risk population, Sydney, Australia 2015: implications for antimicrobial resistance surveillance?

Goire, Namraj, Kundu, Ratan, Trembizki, Ella, Buckley, Cameron, Hogan, Tiffany R., Lewis, David A., Branley, James M., Whiley, David M. and Lahra, Monica M. (2017). Mixed gonococcal infections in a high-risk population, Sydney, Australia 2015: implications for antimicrobial resistance surveillance?. Journal of Antimicrobial Chemotherapy, 72 (2), 407-409. doi: 10.1093/jac/dkw406

Treatment guidelines after an outbreak of azithromycin-resistant Neisseria gonorrhoeae in South Australia

Lahra, Monica M., Ward, Alison, Trembizki, Ella, Hermanson, Jamie, Clements, Emma, Lawrence, Andrew and Whiley, David (2017). Treatment guidelines after an outbreak of azithromycin-resistant Neisseria gonorrhoeae in South Australia. Lancet Infectious Diseases, 17 (2), 133-134. doi: 10.1016/S1473-3099(17)30007-5

The molecular epidemiology and antimicrobial resistance of Neisseria gonorrhoeae in Australia: a nationwide cross-sectional study, 2012

Trembizki, Ella, Wand, Handan, Donovan, Basil, Chen, Marcus, Fairley, Christopher K., Freeman, Kevin, Guy, Rebecca, Kaldor, John M., Lahra, Monica M., Lawrence, Andrew, Lau, Colleen, Pearson, Julie, Regan, David G., Ryder, Nathan, Smith, Helen, Stevens, Kerrie, Su, Jiunn-Yih, Ward, James and Whiley, David M. (2016). The molecular epidemiology and antimicrobial resistance of Neisseria gonorrhoeae in Australia: a nationwide cross-sectional study, 2012. Clinical Infectious Diseases, 63 (12), 1591-1598. doi: 10.1093/cid/ciw648

Respiratory viruses in neonates: a prospective, community-based birth cohort study

Sarna, Mohinder, Alsaleh, Asma, Lambert, Stephen B., Ware, Robert S., Mhango, Lebogang P., Mackay, Ian M., Whiley, David M., Sloots, Theo P. and Grimwood, Keith (2016). Respiratory viruses in neonates: a prospective, community-based birth cohort study. Pediatric Infectious Disease Journal, 35 (12), 1355-1357. doi: 10.1097/INF.0000000000001316

From zero to zero in 100 years: gonococcal antimicrobial resistance

Lahra, Monica M., Dillon, Jo-Anne R., George, C. R. Robert, Lewis, David A., Wi, Teodora E. and Whiley, David M. (2016). From zero to zero in 100 years: gonococcal antimicrobial resistance. Microbiology Australia, 37 (4), 173-176. doi: 10.1071/MA16058

Identifying factors that lead to the persistence of imported gonorrhoeae strains: a modelling study

Hui, Ben B., Whiley, David M., Donovan, Basil, Law, Matthew G., Regan, David G., Chen, Marcus, Guy, Rebecca and Lahra, Monica (2016). Identifying factors that lead to the persistence of imported gonorrhoeae strains: a modelling study. Sexually Transmitted Infections, 93 (3), 221-225. doi: 10.1136/sextrans-2016-052738

Further evidence to support the individualised treatment of gonorrhoea with ciprofloxacin

Trembizki, Ella, Guy, Rebecca, Donovan, Basil, Kaldor, John M., Lahra, Monica M. and Whiley, David M. (2016). Further evidence to support the individualised treatment of gonorrhoea with ciprofloxacin. Lancet Infectious Diseases, 16 (9), 1005-1006. doi: 10.1016/S1473-3099(16)30271-7

Real-time PCR detection of Neisseria gonorrhoeae susceptibility to penicillin

Buckley, Cameron, Trembizki, Ella, Donovan, Basil, Chen, Marcus, Freeman, Kevin, Guy, Rebecca, Lahra, Monica M., Kundu, Ratan L., Regan, David G., Smith, Helen V. and Whiley, David M. (2016). Real-time PCR detection of Neisseria gonorrhoeae susceptibility to penicillin. Journal of Antimicrobial Chemotherapy, 71 (11) dkw291, 3090-3095. doi: 10.1093/jac/dkw291

A novel point-of-care testing strategy for sexually transmitted infections among pregnant women in high-burden settings: results of a feasibility study in Papua New Guinea

Badman, Steven G., Vallely, Lisa M., Toliman, Pamela, Kariwiga, Grace, Lote, Bomesina, Pomat, William, Holmer, Caroline, Guy, Rebecca, Luchters, Stanley, Morgan, Chris, Garland, Suzanne M., Tabrizi, Sepehr, Whiley, David, Rogerson, Stephen J., Mola, Glen, Wand, Handan, Donovan, Basil, Causer, Louise, Kaldor, John and Vallely, Andrew (2016). A novel point-of-care testing strategy for sexually transmitted infections among pregnant women in high-burden settings: results of a feasibility study in Papua New Guinea. BMC Infectious Diseases, 16 (250) 250, 1-6. doi: 10.1186/s12879-016-1573-4

Prevalence, codetection and seasonal distribution of upper airway viruses and bacteria in children with acute respiratory illnesses with cough as a symptom

O'Grady, K. F., Grimwood, K., Sloots, T. P., Whiley, D. M., Acworth, J. P., Phillips, N., Goyal, V. and Chang, A. B. (2016). Prevalence, codetection and seasonal distribution of upper airway viruses and bacteria in children with acute respiratory illnesses with cough as a symptom. Clinical Microbiology and Infection, 22 (6), 527-534. doi: 10.1016/j.cmi.2016.02.004

A preliminary evaluation of a new GeneXpert (Gx) molecular point-of-care test for the detection of Trichomonas vaginalis

Badman, S. G., Causer, L. M., Guy, R., Tabrizi, S. N., Francis, F., Donovan, B. and Whiley, D. (2015). A preliminary evaluation of a new GeneXpert (Gx) molecular point-of-care test for the detection of Trichomonas vaginalis. Sexually Transmitted Infections, 92 (5), 350-U117. doi: 10.1136/sextrans-2015-052384

Genotypic Diversity within a Single Pseudomonas aeruginosa Strain Commonly Shared by Australian Patients with Cystic Fibrosis

Tai, Anna Sze, Bell, Scott Cameron, Kidd, Timothy James, Trembizki, Ella, Buckley, Cameron, Ramsay, Kay Annette, David, Michael, Wainwright, Claire Elizabeth, Grimwood, Keith and Whiley, David Mark (2015). Genotypic Diversity within a Single Pseudomonas aeruginosa Strain Commonly Shared by Australian Patients with Cystic Fibrosis. Plos One, 10 (12) e0144022, e0144022. doi: 10.1371/journal.pone.0144022

"I do feel like a scientist at times": a qualitative study of the acceptability of molecular point-of-care testing for chlamydia and gonorrhoea to primary care professionals in a remote high STI burden setting

Natoli, Lisa, Guy, Rebecca J., Shephard, Mark, Causer, Louise, Badman, Steven G., Hengel, Belinda, Tangey, Annie, Ward, James, Coburn, Tony, Anderson, David, Kaldor, John, Maher, Lisa, Donovan, Basil, Wilson, David, Regan, David, Wand, Handan, Whiley, David, Tabrizi, Sepehr N. and Fairley, Christopher (2015). "I do feel like a scientist at times": a qualitative study of the acceptability of molecular point-of-care testing for chlamydia and gonorrhoea to primary care professionals in a remote high STI burden setting. PLoS ONE, 10 (12) e0145993, e0145993. doi: 10.1371/journal.pone.0145993

A real-time PCR assay for direct characterization of the Neisseria gonorrhoeae GyrA 91 locus associated with ciprofloxacin susceptibility

Buckley, Cameron, Trembizki, Ella, Donovan, Basil, Chen, Marcus, Freeman, Kevin, Guy, Rebecca, Kundu, Ratan, Lahra, Monica M., Regan, David G., Smith, Helen and Whiley, David M. (2015). A real-time PCR assay for direct characterization of the Neisseria gonorrhoeae GyrA 91 locus associated with ciprofloxacin susceptibility. Journal of Antimicrobial Chemotherapy, 71 (2) dkv366, 353-356. doi: 10.1093/jac/dkv366

Detection of neisseria gonorrhoeae isolates from tonsils and posterior oropharynx

Bissessor, M., Whiley, D.M., Lee, D.M., Snow, A.F., Fairley, C.K., Peel, J., Bradshaw, C.S., Hocking, J.S., Lahra, M.M. and Chen, M.Y. (2015). Detection of neisseria gonorrhoeae isolates from tonsils and posterior oropharynx. Journal of Clinical Microbiology, 53 (11), 3624-3626. doi: 10.1128/JCM.01647-15

Direct real-time PCR-based detection of Neisseria gonorrhoeae 23S rRNA mutations associated with azithromycin resistance

Trembizki, Ella, Buckley, Cameron, Donovan, Basil, Chen, Marcus, Guy, Rebecca, Kaldor, John, Lahra, Monica M., Regan, David G., Smith, Helen, Ward, James and Whiley, David M. (2015). Direct real-time PCR-based detection of Neisseria gonorrhoeae 23S rRNA mutations associated with azithromycin resistance. Journal of Antimicrobial Chemotherapy, 70 (12), 3244-3249. doi: 10.1093/jac/dkv274

Multitarget PCR assay for direct detection of penicillinase-producing neisseria gonorrhoeae for enhanced surveillance of gonococcal antimicrobial resistance

Buckley, Cameron, Trembizki, Ella, Baird, Robert W., Chen, Marcus, Donovan, Basil, Freeman, Kevin, Goire, Namraj, Guy, Rebecca, Lahra, Monica M., Regan, David, Whiley, David M. and GRAND study investigators (2015). Multitarget PCR assay for direct detection of penicillinase-producing neisseria gonorrhoeae for enhanced surveillance of gonococcal antimicrobial resistance. Journal of Clinical Microbiology, 53 (8), 2706-2708. doi: 10.1128/JCM.00540-15

Exploring the benefits of molecular testing for gonorrhoea antibiotic resistance surveillance in remote settings

Hui, Ben B., Ryder, Nathan, Su, Jiunn-Yih, Ward, James, Chen, Marcus Y., Donovan, Basil, Fairley, Christopher K., Guy, Rebecca J., Lahra, Monica M., Law, Mathew G., Whiley, David M. and Regan, David G. (2015). Exploring the benefits of molecular testing for gonorrhoea antibiotic resistance surveillance in remote settings. PLoS One, 10 (7) e0133202, 1-14. doi: 10.1371/journal.pone.0133202

Estimating the prevalence of mixed-type gonococcal infections in Queensland, Australia

Trembizki, Ella, Doyle, Christine, Buckley, Cameron, Jennison, Amy, Smith, Helen, Bates, John, Sloots, Theo, Nissen, Michael, Lahra, Monica M. and Whiley, David (2015). Estimating the prevalence of mixed-type gonococcal infections in Queensland, Australia. Sexual Health, 12 (5), 439-444. doi: 10.1071/SH15009

Identification of Mycobacterium abscessus complex and M. abscessus subsp massiliense culture isolates by real-time assays

Syrmis, Melanie W., Pandey, Sushi, Tolson, Carla, Carter, Robyn, Congdon, Jake, Sloots, Theo, Coulter, Christopher and Whiley, David (2015). Identification of Mycobacterium abscessus complex and M. abscessus subsp massiliense culture isolates by real-time assays. Journal of Medical Microbiology, 64 (7), 790-794. doi: 10.1099/jmm.0.000085

Public health implications of molecular point-of-care testing for chlamydia and gonorrhoea in remote primary care services in Australia: a qualitative study

Natoli, L., Guy, R. J., Shephard, M., Whiley, D., Tabrizi, S. N., Ward, J., Regan, D. G., Badman, S. G., Anderson, D. A., Kaldor, J. and Maher, L. (2015). Public health implications of molecular point-of-care testing for chlamydia and gonorrhoea in remote primary care services in Australia: a qualitative study. BMJ Open, 5 (4) e006922, 1-8. doi: 10.1136/bmjopen-2014-006922

Evaluation of phenotypic screening tests for carbapenemase production in Pseudomonas aeruginosa from patients with cystic fibrosis

Tai, Anna S., Sidjabat, Hanna E., Kidd, Timothy J., Whiley, David M., Paterson, David L. and Bell, Scott C. (2015). Evaluation of phenotypic screening tests for carbapenemase production in Pseudomonas aeruginosa from patients with cystic fibrosis. Journal of Microbiological Methods, 111, 105-107. doi: 10.1016/j.mimet.2015.02.006

Opportunities and pitfalls of molecular testing for detecting sexually transmitted pathogens

Trembizki, Ella, Costa, Anna-Maria G., Tabrizi, Sepehr N., Whiley, David M. and Twin, Jimmy (2015). Opportunities and pitfalls of molecular testing for detecting sexually transmitted pathogens. Pathology, 47 (3), 219-226. doi: 10.1097/PAT.0000000000000239

Direct detection of markers associated with Neisseria gonorrhoeae antimicrobial resistance in New Zealand using residual DNA from the Cobas 4800 CT/NG NAAT assay

Nicol, Mackenzie, Whiley, David, Nulsen, Mary and Bromhead, Collette (2015). Direct detection of markers associated with Neisseria gonorrhoeae antimicrobial resistance in New Zealand using residual DNA from the Cobas 4800 CT/NG NAAT assay. Sexually Transmitted Infections, 91 (2), 91-93. doi: 10.1136/sextrans-2014-051632

Review of 2005 Public Health Laboratory Network Neisseria Gonorrhoeae Nucleic Acid Amplification Tests Guidelines

Whiley, David M. and Lahra, Monica M. (2015). Review of 2005 Public Health Laboratory Network Neisseria Gonorrhoeae Nucleic Acid Amplification Tests Guidelines. Communicable Diseases Intelligence, 39 (1), E42-E45.

Persistence of Neisseria gonorrhoeae DNA following treatment for pharyngeal and rectal gonorrhea is influenced by antibiotic susceptibility and reinfection

Bissessor, Melanie, Whiley, David M., Fairley, Christopher K., Bradshaw, Catriona S., Lee, David M., Snow, Anthony S., Lahra, Monica M., Hocking, Jane S. and Chen, Marcus Y. (2015). Persistence of Neisseria gonorrhoeae DNA following treatment for pharyngeal and rectal gonorrhea is influenced by antibiotic susceptibility and reinfection. Clinical Infectious Diseases, 60 (4), 557-563. doi: 10.1093/cid/ciu873

Acquisition of human polyomaviruses in the first 18 months of life

Rockett, Rebecca J., Bialasiewicz, Seweryn, Mhango, Lebogang, Gaydon, Jane, Holding, Rebecca, Whiley, David M., Lambert, Stephen B., Ware, Robert S., Nissen, Michael D., Grimwood, Keith and Sloots, Theo P. (2015). Acquisition of human polyomaviruses in the first 18 months of life. Emerging Infectious Diseases, 21 (2), 365-367. doi: 10.3201/eid2102.141429

Molecular surveillance for carbapenemase genes in carbapenem-resistant Pseudomonas aeruginosa in Australian patients with cystic fibrosis

Tai, Anna S., Kidd, Timothy J., Whiley, David M., Ramsay, Kay A., Buckley, Cameron, Bell, Scott C., The ACPinCF Investigator Group and David, Michael (2015). Molecular surveillance for carbapenemase genes in carbapenem-resistant Pseudomonas aeruginosa in Australian patients with cystic fibrosis. Pathology, 47 (2), 156-160. doi: 10.1097/PAT.0000000000000216

Substantial increases in chlamydia and gonorrhea positivity unexplained by changes in individual-level sexual behaviors among men who have sex with men in an australian sexual health service from 2007 to 2013

Chow, Eric P.F., Tomnay, Jane, Fehler, Glenda, Whiley, David, Read, Tim R.H., Denham, Ian, Bradshaw, Catriona S., Chen, Marcus Y. and Fairley, Christopher K. (2015). Substantial increases in chlamydia and gonorrhea positivity unexplained by changes in individual-level sexual behaviors among men who have sex with men in an australian sexual health service from 2007 to 2013. Sexually Transmitted Diseases, 42 (2), 81-87. doi: 10.1097/OLQ.0000000000000232

Comparison of test specificities of commercial antigen-based assays and in-house PCR methods for detection of rotavirus in stool specimens

Ye, S., Lambert, S. B., Grimwood, K., Roczo-Farkas, S., Nimmo, G. R., Sloots, T. P., Kirkwood, C. D. and Whiley, D. M. (2015). Comparison of test specificities of commercial antigen-based assays and in-house PCR methods for detection of rotavirus in stool specimens. Journal of Clinical Microbiology, 53 (1), 295-297. doi: 10.1128/JCM.02251-14

Prospects of untreatable gonorrhea and ways forward

Whiley, David M., Lahra, Monica M. and Unemo, Magnus (2015). Prospects of untreatable gonorrhea and ways forward. Future Microbiology, 10 (3), 313-316. doi: 10.2217/FMB.14.138

Upper airway viruses and bacteria detection in clinical pneumonia in a population with high nasal colonisation do not relate to clinical signs

Chang, Anne B., Smith-Vaughan, Heidi, Sloots, Theo P., Valery, Patricia C., Whiley, David, Beissbarth, Jemima and Torzillo, Paul J. (2015). Upper airway viruses and bacteria detection in clinical pneumonia in a population with high nasal colonisation do not relate to clinical signs. Pneumonia, 6 (1), 48-56. doi: 10.15172/pneu.2015.6/636

Neisseria gonorrhoeae isolates with high-level resistance to azithromycin in Australia

Stevens, Kerrie, Zaia, Angelo, Tawil, Samantha, Bates, John, Hicks, Vicki, Whiley, David, Limnios, Athena, Lahra, Monica M. and Howden, Benjamin P. (2014). Neisseria gonorrhoeae isolates with high-level resistance to azithromycin in Australia. Journal of Antimicrobial Chemotherapy, 70 (4), 1267-1268. doi: 10.1093/jac/dku490

Penicillinase-producing plasmid types in neisseria gonorrhoeae clinical isolates from Australia

Whiley, David, Trembizki, Ella, Buckley, Cameron, Freeman, Kevin, Lawrence, Andrew, Limniosd, Athena, Pearson, Julie, Smith, Helen, Stevens, Kerrie and Lahrae, Monica M. (2014). Penicillinase-producing plasmid types in neisseria gonorrhoeae clinical isolates from Australia. Antimicrobial Agents and Chemotherapy, 58 (12), 7576-7578. doi: 10.1128/AAC.04120-14

A field evaluation of a new molecular-based point-of-care test for chlamydia and gonorrhoea in remote Aboriginal health services in Australia

Causer, Louise M, Hengel, Belinda, Natoli, Lisa, Tangey, Annie, Badman, Steven G, Tabrizi, Sepehr N, Whiley, David, Ward, James, Kaldor, John M and Guy, Rebecca J (2014). A field evaluation of a new molecular-based point-of-care test for chlamydia and gonorrhoea in remote Aboriginal health services in Australia. Sexual Health, 12 (1), 27-33. doi: 10.1071/SH14158

A New Multidrug-Resistant Strain of Neisseria gonorrhoeae in Australia

Lahra, Monica M., Ryder, Nathan and Whiley, David M. (2014). A New Multidrug-Resistant Strain of Neisseria gonorrhoeae in Australia. New England Journal of Medicine, 371 (19), 1850-1851. doi: 10.1056/NEJMc1408109

Enhancing influenza diagnostics to catch a shifting target

Whiley, David M., Mackay, Ian M., Nimmo, Graeme R., Sloots, Theo P. and Nissen, Michael D. (2014). Enhancing influenza diagnostics to catch a shifting target. Lancet Infectious Diseases, 14 (10), 923-923. doi: 10.1016/S1473-3099(14)70916-8

A Neisseria gonorrhoeae strain with a meningococcal mtrR sequence

Trembizki, Ella, Doyle, Christine, Jennison, Amy, Smith, Helen, Bates, John, Lahra, Monica and Whiley, David (2014). A Neisseria gonorrhoeae strain with a meningococcal mtrR sequence. Journal of Medical Microbiology, 63 (Part 8), 1113-115. doi: 10.1099/jmm.0.074286-0

Characterization of a novel Neisseria gonorrhoeae penicillinase-producing plasmid isolated in Australia in 2012

Trembizki, Ella, Buckley, Cameron, Lawrence, Andrew, Lahra, Monica and Whiley, David (2014). Characterization of a novel Neisseria gonorrhoeae penicillinase-producing plasmid isolated in Australia in 2012. Antimicrobial Agents and Chemotherapy, 58 (8), 4984-4985. doi: 10.1128/AAC.02993-14

Point-of-care testing for chlamydia and gonorrhoea: implications for clinical practice

Natoli, Lisa, Maher, Lisa, Shephard, Mark, Hengel, Belinda, Tangey, Annie, Badman, Steven G., Ward, James, Guy, Rebecca J., TTANGO Investigators and Whiley, David M. (2014). Point-of-care testing for chlamydia and gonorrhoea: implications for clinical practice. PLoS One, 9 (6) e100518, e100518. doi: 10.1371/journal.pone.0100518

High-throughput informative single nucleotide polymorphism-based typing of Neisseria gonorrhoeae using the Sequenom MassARRAY iPLEX platform

Trembizki, Ella, Smith, Helen, Lahra, Monica M., Chen, Marcus, Donovan, Basil, Fairley, Christopher K., Guy, Rebecca, Kaldor, John, Regan, David, Ward, James, Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2014). High-throughput informative single nucleotide polymorphism-based typing of Neisseria gonorrhoeae using the Sequenom MassARRAY iPLEX platform. Journal of Antimicrobial Chemotherapy, 69 (6), 1526-1532. doi: 10.1093/jac/dkt544

A comparison of two informative SNP-based strategies for typing Pseudomonas aeruginosa isolates from patients with cystic fibrosis

Syrmis, Melanie W., Kidd, Timothy J., Moser, Ralf J., Ramsay, Kay A., Gibson, Kristen M., Anuj, Snehal, Bell, Scott C., Wainwright, Claire E., Grimwood, Keith, Nissen, Michael, Sloots, Theo P. and Whiley, David M. (2014). A comparison of two informative SNP-based strategies for typing Pseudomonas aeruginosa isolates from patients with cystic fibrosis. BMC Infectious Diseases, 14 (1) 307, 307.1-307.8. doi: 10.1186/1471-2334-14-307

Decreased susceptibility to cephalosporins among gonococci?

Lahra, Monica M., Donovan, Basil and Whiley, David M. (2014). Decreased susceptibility to cephalosporins among gonococci?. The Lancet Infectious Diseases, 14 (3), 186-186. doi: 10.1016/S1473-3099(14)70015-5

Nasal swab samples and real-time polymerase chain reaction assays in community-based, longitudinal studies of respiratory viruses: the importance of sample integrity and quality control

Alsaleh, Asma N., Whiley, David M., Bialasiewicz, Seweryn, Lambert, Stephen B., Ware, Robert S., Nissen, Michael D., Sloots, Theo P. and Grimwood, Keith (2014). Nasal swab samples and real-time polymerase chain reaction assays in community-based, longitudinal studies of respiratory viruses: the importance of sample integrity and quality control. BMC Infectious Diseases, 14 (1) 15, 15. doi: 10.1186/1471-2334-14-15

A national quality assurance survey of Neisseria gonorrhoeae testing

Trembizki, E., Lahra, M., Stevens, K., Freeman, K., Hogan, T., Hogg, G., Lawrence, A., Limnios, A., Pearson, J., Smith, H., Nissen, M., Sloots, T. and Whiley, D.M. (2014). A national quality assurance survey of Neisseria gonorrhoeae testing. Journal of Medical Microbiology, 63 (PART 1), 45-49. doi: 10.1099/jmm.0.065094-0

A retrospective performance evaluation of an adenovirus real-time PCR assay

Alsaleh, A.N., Grimwood, K., Sloots, T.P. and Whiley, D.M. (2014). A retrospective performance evaluation of an adenovirus real-time PCR assay. Journal of Medical Virology, 86 (5), 795-801. doi: 10.1002/jmv.23844

Molecular approaches to enhance surveillance of gonococcal antimicrobial resistance

Goire, Namraj, Lahra, Monica M., Chen, Marcus, Donovan, Basil, Fairley, Christopher K., Guy, Rebecca, Kaldor, John, Regan, David, Ward, James, Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2014). Molecular approaches to enhance surveillance of gonococcal antimicrobial resistance. Nature Reviews Microbiology, 12 (3), 223-229. doi: 10.1038/nrmicro3217

Screening for H7N9 influenza A by matrix gene-based real-time reverse-transcription PCR

Hackett, H., Bialasiewicz, S., Jacob, K., Bletchly, C., Harrower, B., Nimmo, G.R., Nissen, M.D., Sloots, T.P. and Whiley, D.M. (2014). Screening for H7N9 influenza A by matrix gene-based real-time reverse-transcription PCR. Journal of Virological Methods, 195, 123-125. doi: 10.1016/j.jviromet.2013.10.016

Gonococcal antimicrobial resistance in the Western Pacific Region

Lahra, Monica M, Lo, Ying-Ru and Whiley, David M (2013). Gonococcal antimicrobial resistance in the Western Pacific Region. Sexually Transmitted Infections, 89 (SUPPL. 4), iv19-iv23. doi: 10.1136/sextrans-2012-050906

Experimentally induced blood-stage plasmodium vivax infection in healthy volunteers

McCarthy, James S., Griffin, Paul M., Sekuloski, Silvana, Bright, A. Taylor, Rockett, Rebecca, Looke, David, Elliott, Suzanne, Whiley, David, Sloots, Theo, Winzeler, Elizabeth A. and Trenholme, Katharine R. (2013). Experimentally induced blood-stage plasmodium vivax infection in healthy volunteers. Journal of Infectious Diseases, 208 (10), 1688-1694. doi: 10.1093/infdis/jit394

Mailed versus frozen transport of nasal swabs for surveillance of respiratory bacteria in remote Indigenous communities in Australia

O'Grady K.-A.F., Whiley D.M., Torzillo P.J., Sloots T.P. and Lambert S.B. (2013). Mailed versus frozen transport of nasal swabs for surveillance of respiratory bacteria in remote Indigenous communities in Australia. BMC Infectious Diseases, 13 (543) 543, 1-7. doi: 10.1186/1471-2334-13-543

High-throughput molecular typing of microbes using the Sequenom Massarray platform

Whiley, David, Trembizki, Ella, Syrmis, Melanie, Nakos, Jenny, Bletchly, Cheryl, Nissen, Michael, Nimmo, Graeme and Sloots, Theo P. (2013). High-throughput molecular typing of microbes using the Sequenom Massarray platform. Microbiology Australia, 34 (4), 175-177. doi: 10.1071/MA13058

Replacement of healthcare-associated MRSA by community-associated MRSA in Queensland: confirmation by genotyping

Nimmo, Graeme R., Bergh, Haakon, Nakos, Jennifer, Whiley, David, Marquess, John, Huygens, Flavia and Paterson, David L. (2013). Replacement of healthcare-associated MRSA by community-associated MRSA in Queensland: confirmation by genotyping. Journal of Infection, 67 (5), 439-447. doi: 10.1016/j.jinf.2013.07.020

Sampling technique is important for optimal isolation of pharyngeal gonorrhoea

Mitchell, M., Rane, V., Fairley, C. K., Whiley, D. M., Bradshaw, C. S., Bissessor, M. and Chen, M. Y. (2013). Sampling technique is important for optimal isolation of pharyngeal gonorrhoea. Sexually Transmitted Infections, 89 (7), 557-560. doi: 10.1136/sextrans-2013-051077

A randomised trial of point-of-care tests for chlamydia and gonorrhoea infections in remote Aboriginal communities: Test, Treat ANd GO- the " TTANGO" trial protocol

Guy, R.J., Natoli, L., Ward, J., Causer, L., Hengel, B., Whiley, D., Tabrizi, S.N., Donovan, B., Fairley, C. K., Badman, S. B., Tangey, A., Wand, H., Shephard, M., Regan, D. G., Wilson, D., Anderson, D. and Kaldor, J. M. (2013). A randomised trial of point-of-care tests for chlamydia and gonorrhoea infections in remote Aboriginal communities: Test, Treat ANd GO- the " TTANGO" trial protocol. BMC Infectious Diseases, 13 (485) 485, 1-9. doi: 10.1186/1471-2334-13-485

Bordetella holmesii and pertussis diagnosis: authors' reply

Cox, Hannah C., Jacob, Kevin, Whiley, David M., Bletchly, Cheryl, Nimmo, Graeme R., Nissen, Michael D. and Sloots, Theo P. (2013). Bordetella holmesii and pertussis diagnosis: authors' reply. Pathology, 45 (5), 532-532. doi: 10.1097/PAT.0b013e3283639c0d

Failure of 500 mg of ceftriaxone to eradicate pharyngeal gonorrhoea, Australia

Y. Chen, Marcus, Stevens, Kerrie, Tideman, Robin, Zaia, Angelo, Tomita, Takehiro, Fairley, Christopher K., Lahra, Monica, Whiley, David and Hogg, Geoff (2013). Failure of 500 mg of ceftriaxone to eradicate pharyngeal gonorrhoea, Australia. Journal of Antimicrobial Chemotherapy, 68 (6), 1445-1447. doi: 10.1093/jac/dkt017

Point-of-care tests for the diagnosis of Neisseria gonorrhoeae infection: a systematic review of operational and performance characteristics

Smith, Lucy Alexandra Watchirs, Hillman, Richard, Ward, James, Whiley, David M., Causer, Louise, Skov, Steven, Donovan, Basil, Kaldor, John and Guy, Rebecca (2013). Point-of-care tests for the diagnosis of Neisseria gonorrhoeae infection: a systematic review of operational and performance characteristics. Sexually Transmitted Infections, 89 (4), 320-326. doi: 10.1136/sextrans-2012-050656

Evidence of false-positive results in a commercially available rotavirus assay in the vaccine era, Australia, 2011 to 2012

Ye, S., Roczo-Farkas, S., Whiley, D. M., Lambert, S. B., Robson, J., Heney, C., Nimmo, G., Grimwood, K., Sloots, T. P. and Kirkwood, C. D. (2013). Evidence of false-positive results in a commercially available rotavirus assay in the vaccine era, Australia, 2011 to 2012. Eurosurveillance, 18 (21), 14-18. doi: 10.2807/ese.18.21.20483-en

Neisseria gonorrhoeae false-positive result obtained from a pharyngeal swab by using the roche cobas 4800 CT/NG assay in New Zealand in 2012

Upton, Arlo, Bromhead, Collette and Whiley, David M. (2013). Neisseria gonorrhoeae false-positive result obtained from a pharyngeal swab by using the roche cobas 4800 CT/NG assay in New Zealand in 2012. Journal of Clinical Microbiology, 51 (5), 1609-1610. doi: 10.1128/JCM.00485-13

Detection of novel polyomaviruses, TSPyV, HPyV6, HPyV7, HPyV9 and MWPyV in feces, urine, blood, respiratory swabs and cerebrospinal fluid

Rockett, Rebecca J., Sloots, Theo P., Bowes, Sharleen, O'Neill, Nicholas, Ye, Suifang, Robson, Jenny, Whiley, David M., Lambert, Stephen B., Wang, David, Nissen, Michael D. and Bialasiewicz, Seweryn (2013). Detection of novel polyomaviruses, TSPyV, HPyV6, HPyV7, HPyV9 and MWPyV in feces, urine, blood, respiratory swabs and cerebrospinal fluid. PLoS ONE, 8 (5) e62764, e62764.1-e62764.9. doi: 10.1371/journal.pone.0062764

Comparison of the cobas 4800 CT/NG test with culture for detecting neisseria gonorrhoeae in genital and nongenital specimens in a low-prevalence population in New Zealand

Bromhead, Collette, Miller, Amanda, Jones, Mark and Whiley, David (2013). Comparison of the cobas 4800 CT/NG test with culture for detecting neisseria gonorrhoeae in genital and nongenital specimens in a low-prevalence population in New Zealand. Journal of Clinical Microbiology, 51 (5), 1505-1509. doi: 10.1128/JCM.03223-12

High-throughput single-nucleotide polymorphism-based typing of shared Pseudomonas aeruginosa strains in cystic fibrosis patients using the Sequenom iPLEX platform

Syrmis, Melanie W., Moser, Ralf J., Kidd, Timothy J., Hunt, Priscilla, Ramsay, Kay A., Bell, Scott C., Wainwright, Claire E., Grimwood, Keith, Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2013). High-throughput single-nucleotide polymorphism-based typing of shared Pseudomonas aeruginosa strains in cystic fibrosis patients using the Sequenom iPLEX platform. Journal of Medical Microbiology, 62 (5), 734-740. doi: 10.1099/jmm.0.055905-0

Polymerase chain reaction-based screening for the ceftriaxone-resistant Neisseria gonorrhoeae F89 strain

Goire, N., Lahra, M. M., Ohnishi, M., Hogan, T., Liminios, A. E., Nissen, M. D., Sloots, T. P. and Whiley, D. M. (2013). Polymerase chain reaction-based screening for the ceftriaxone-resistant Neisseria gonorrhoeae F89 strain. Eurosurveillance, 18 (14), 18-23. doi: 10.2807/1560-7917.ES2013.18.14.20444

Further evidence that the IS481 target is suitable for real-time PCR detection of Bordetella pertussis

Cox, Hannah C., Jacob, Kevin, Whiley, David M., Bletchly, Cheryl, Nimmo, Graeme R., Nissen, Michael D. and Sloots, Theo P. (2013). Further evidence that the IS481 target is suitable for real-time PCR detection of Bordetella pertussis. Pathology, 45 (2), 202-203. doi: 10.1097/PAT.0b013e32835cc2d7

Real-time PCR genotyping of Neisseria gonorrhoeae isolates using 14 informative single nucleotide polymorphisms on gonococcal housekeeping genes

Whiley, David M., Goire, Namraj, Rahimi, Frashta, Lahra, Monica M., Limnios, Athena E., Nissen, Michael D. and Sloots, Theo P. (2013). Real-time PCR genotyping of Neisseria gonorrhoeae isolates using 14 informative single nucleotide polymorphisms on gonococcal housekeeping genes. Journal of Antimicrobial Chemotherapy, 68 (2) dks381, 322-328. doi: 10.1093/jac/dks381

Direct urine polymerase chain reaction for chlamydia and gonorrhoea: a simple means of bringing high-throughput rapid testing to remote settings?

Rahimi, Frashta, Goire, Namraj, Guy, Rebecca, Kaldor, John M., Ward, James, Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2013). Direct urine polymerase chain reaction for chlamydia and gonorrhoea: a simple means of bringing high-throughput rapid testing to remote settings?. Sexual Health, 10 (4), 299-304. doi: 10.1071/SH12108

One confirmed and one suspected case of pharyngeal gonorrhoea treatment failure following 500mg ceftriaxone in Sydney, Australia

Read, P.J., Limnios, E.A., McNulty, A., Whiley, D. and Lahra, M.M. (2013). One confirmed and one suspected case of pharyngeal gonorrhoea treatment failure following 500mg ceftriaxone in Sydney, Australia. Sexual Health, 10 (5), 460-462. doi: 10.1071/SH13077

Observational Research in Childhood Infectious Diseases (ORChID): a dynamic birth cohort study

Lambert, Stephen Bernard, Ware, Robert S., Cook, Anne L., Maguire, Frances A., Whiley, David M,, Bialasiewicz, Seweryn, Mackay, Ian M, Wang, David, Sloots, Theo P., Nissen, Michael D. and Grimwood, Keith (2012). Observational Research in Childhood Infectious Diseases (ORChID): a dynamic birth cohort study. BMJ Open, 2 (6) e002134, e002134.1-e002134.7. doi: 10.1136/bmjopen-2012-002134

The ticking time bomb: escalating antibiotic resistance in Neisseria gonorrhoeae is a public health disaster in waiting

Whiley, David M., Goire, Namraj, Lahra, Monica M., Donovan, Basil, Limnios, Athena E., Nissen, Michael D. and Sloots, Theo P. (2012). The ticking time bomb: escalating antibiotic resistance in Neisseria gonorrhoeae is a public health disaster in waiting. Journal of Antimicrobial Chemotherapy, 67 (9) dks188, 2059-2061. doi: 10.1093/jac/dks188

In vitro activity of ertapenem versus ceftriaxone against Neisseria gonorrhoeae isolates with highly diverse ceftriaxone MIC values and effects of ceftriaxone resistance determinants: Ertapenem for treatment of gonorrhea?

Unemo, Magnus, Golparian, Daniel, Limnios, Athena, Whiley, David, Ohnishi, Makoto, Lahra, Monica M. and Tapsall, John W. (2012). In vitro activity of ertapenem versus ceftriaxone against Neisseria gonorrhoeae isolates with highly diverse ceftriaxone MIC values and effects of ceftriaxone resistance determinants: Ertapenem for treatment of gonorrhea?. Antimicrobial Agents and Chemotherapy, 56 (7), 3603-3609. doi: 10.1128/AAC.00326-12

Improved detection of genetic markers of antimicrobial resistance by hybridization probe-based melting curve analysis using primers to mask proximal mutations: Examples include the influenza H275Y substitution

Whiley, David M., Jacob, Kevin, Nakos, Jennifer, Bletchly, Cheryl, Nimmo, Graeme R., Nissen, Michael D. and Sloots, Theo P. (2012). Improved detection of genetic markers of antimicrobial resistance by hybridization probe-based melting curve analysis using primers to mask proximal mutations: Examples include the influenza H275Y substitution. Journal of Antimicrobial Chemotherapy, 67 (6) dks040, 1375-1379. doi: 10.1093/jac/dks040

Comparison of DNA extraction methods for microbial community profiling with an application to pediatric bronchoalveolar lavage samples

Willner, Dana, Daly, Joshua, Whiley, David, Grimwood, Keith, Wainwright, Claire E. and Hugenholtz, Philip (2012). Comparison of DNA extraction methods for microbial community profiling with an application to pediatric bronchoalveolar lavage samples. PLoS One, 7 (4) e34605, e34605.1-e34605.12. doi: 10.1371/journal.pone.0034605

Enhanced gonococcal antimicrobial surveillance in the era of ceftriaxone resistance: A real-time PCR assay for direct detection of the Neisseria gonorrhoeae H041 strain

Goire, Namraj, Ohnishi, Makoto, Limnios, Athena E., Lahra, Monica M., Lambert, Stephen B., Nimmo, Graeme R., Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2012). Enhanced gonococcal antimicrobial surveillance in the era of ceftriaxone resistance: A real-time PCR assay for direct detection of the Neisseria gonorrhoeae H041 strain. Journal of Antimicrobial Chemotherapy, 67 (4) dkr549, 902-905. doi: 10.1093/jac/dkr549

PrimRglo: A multiplexable quantitative real-time polymerase chain reaction system for nucleic acid detection

Lai, Richard, Liang, Fang, Pearson, Darnley, Barnett, Graeme, Whiley, David, Sloots, Theo, Barnard, Ross T. and Corrie, Simon R. (2012). PrimRglo: A multiplexable quantitative real-time polymerase chain reaction system for nucleic acid detection. Analytical Biochemistry, 422 (2), 89-95. doi: 10.1016/j.ab.2011.12.038

The influence of target population on nonculture-based detection of markers of Neisseria gonorrhoeae antimicrobial resistance

Goire, Namraj, Freeman, Kevin, Lambert, Stephen B., Nimmo, Graeme R., Limnios, Athena E., Lahra, Monica M., Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2012). The influence of target population on nonculture-based detection of markers of Neisseria gonorrhoeae antimicrobial resistance. Sexual Health, 9 (5), 422-429. doi: 10.1071/SH12026

Comparison of a multiplexed MassARRAY system with real-time allele-specific PCR technology for genotyping of methicillin-resistant Staphylococcus aureus

Syrmis, M. W., Moser, R. J., Whiley, D. M., Vaska, V., Coombs, G. W., Nissen, M. D., Sloots, T. P. and Nimmo, G. R. (2011). Comparison of a multiplexed MassARRAY system with real-time allele-specific PCR technology for genotyping of methicillin-resistant Staphylococcus aureus. Clinical Microbiology and Infection, 17 (12), 1804-1810. doi: 10.1111/j.1469-0691.2011.03521.x

Rapid single-nucleotide polymorphism-based identification of clonal Pseudomonas aeruginosa isolates from patients with cystic fibrosis by the use of real-time PCR and high-resolution melting curve analysis

Anuj, S. N., Whiley, D. M., Kidd, T. J., Ramsay, K. A., Bell, S. C., Syrmis, M. W., Grimwood, K., Wainwright, C. E., Nissen, M. D. and Sloots, T. P. (2011). Rapid single-nucleotide polymorphism-based identification of clonal Pseudomonas aeruginosa isolates from patients with cystic fibrosis by the use of real-time PCR and high-resolution melting curve analysis. Clinical Microbiology and Infection, 17 (9), 1403-1408. doi: 10.1111/j.1469-0691.2010.03439.x

Successful application of a simple transport method for the conduct of respiratory virus surveillance in remote Indigenous communities in Australia

O'Grady, Kerry-Ann F., Torzillo, Paul J., Rockett, Rebecca J., Whiley, David M., Nissen, Michael D., Sloots, Theo P. and Lambert, Stephen B. (2011). Successful application of a simple transport method for the conduct of respiratory virus surveillance in remote Indigenous communities in Australia. Tropical Medicine and International Health, 16 (6), 766-772. doi: 10.1111/j.1365-3156.2011.02757.x

Viral-bacterial co-infection in Australian Indigenous children with acute otitis media

Binks, Michael J., Cheng, Allen C., Smith-Vaughan, Heidi, Sloots, Theo, Nissen, Michael, Whiley, David, McDonnell, Joseph and Leach, Amanda J. (2011). Viral-bacterial co-infection in Australian Indigenous children with acute otitis media. BMC Infectious Diseases, 11 (161) 161, 1-8. doi: 10.1186/1471-2334-11-161

False-negative results using Neisseria gonorrhoeae porA pseudogene PCR - a clinical gonococcal isolate with an N. meningitidis porA sequence, Australia, March 2011

Whiley, D.M., Limnios, A., Moon, N.J., Gehrig, N., Goire, N., Hogan, T., Lam, A., Jacob, K., Lambert, S.B., Nissen, M.D. and Sloots, T.P. (2011). False-negative results using Neisseria gonorrhoeae porA pseudogene PCR - a clinical gonococcal isolate with an N. meningitidis porA sequence, Australia, March 2011. Eurosurveillance, 16 (21), 5-8. doi: 10.2807/ese.16.21.19874-en

Reduced susceptibility to ceftriaxone in Neisseria gonorrhoeae is spread internationally by genetically distinct gonococcal populations

Whiley, David M., Goire, Namraj, Lambert, Stephen B., Nissen, Michael D., Sloots, Theo P. and Tapsall, John W. (2011). Reduced susceptibility to ceftriaxone in Neisseria gonorrhoeae is spread internationally by genetically distinct gonococcal populations. Journal of Antimicrobial Chemotherapy, 66 (5) dkr052, 1186-1187. doi: 10.1093/jac/dkr052

A real-time, quantitative PCR method using hydrolysis probes for the monitoring of Plasmodium falciparum load in experimentally infected human volunteers

Rockett, Rebecca J., Tozer, Sarah J., Peatey, Chris, Bialasiewicz, Seweryn, Whiley, David M., Nissen, Michael D., Trenholme, Katharine, Mc Carthy, James S. and Sloots, Theo P. (2011). A real-time, quantitative PCR method using hydrolysis probes for the monitoring of Plasmodium falciparum load in experimentally infected human volunteers. Malaria Journal, 10 (48) 48, 48-1-48-6. doi: 10.1186/1475-2875-10-48

Enhancing gonococcal antimicrobial resistance surveillance: a real-time PCR assay for detection of penicillinase-producing Neisseria gonorrhoeae by use of noncultured clinical samples

Goire, Namraj, Freeman, Kevin, Tapsall, John W., Lambert, Stephen B., Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2011). Enhancing gonococcal antimicrobial resistance surveillance: a real-time PCR assay for detection of penicillinase-producing Neisseria gonorrhoeae by use of noncultured clinical samples. Journal of clinical microbiology, 49 (2), 513-518. doi: 10.1128/JCM.02024-10

Alterations of the pilQ gene in Neisseria gonorrhoeae are unlikely contributors to decreased susceptibility to ceftriaxone and cefixime in clinical gonococcal strains

Whiley, David M., Jacobsson, Susanne, Tapsall, John W., Nissen, Michael D., Sloots, Theo P. and Unemo, Magnus (2010). Alterations of the pilQ gene in Neisseria gonorrhoeae are unlikely contributors to decreased susceptibility to ceftriaxone and cefixime in clinical gonococcal strains. Journal of Antimicrobial Chemotherapy, 65 (12) dkq377, 2543-2547. doi: 10.1093/jac/dkq377

Evaluation of the cobas 4800 CT/NG test for detecting Chlamydia trachomatis and Neisseria gonorrhoeae

Rockett, Rebecca, Goire, Namraj, Limnios, Athena, Turra, Mark, Higgens, Geoffrey, Lambert, Stephen B., Bletchly, Cheryl, Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2010). Evaluation of the cobas 4800 CT/NG test for detecting Chlamydia trachomatis and Neisseria gonorrhoeae. Sexually Transmitted Infections, 86 (6), 470-473. doi: 10.1136/sti.2010.042812

Reduced susceptibility to ceftriaxone in neisseria gonorrhoeae is associated with mutations G542S, P551S and P551L in the gonococcal penicillin-binding protein 2

Whiley, David M., Goire, Namraj, Lambert, Stephen B., Ray, Sanghamitra, Limnios, E. Athena, Nissen, Michael D., Sloots, Theo P. and Tapsall, John W. (2010). Reduced susceptibility to ceftriaxone in neisseria gonorrhoeae is associated with mutations G542S, P551S and P551L in the gonococcal penicillin-binding protein 2. Journal of Antimicrobial Chemotherapy, 65 (8) dkq187, 1615-1618. doi: 10.1093/jac/dkq187

A simple approach for preparing real-time PCR positive reaction controls for rare or emerging viruses

Whiley, David M., Faux, Cassandra E., Bialasiewicz, Seweryn, Gould, Allan R., Lambert, Stephen B., Nissen, Michael D. and Sloots, Theo P. (2010). A simple approach for preparing real-time PCR positive reaction controls for rare or emerging viruses. Journal of Clinical Virology, 48 (3), 193-197. doi: 10.1016/j.jcv.2010.03.022

Whole-genome characterization and genotyping of global WU polyomavirus strains

Bialasiewicz, Seweryn, Rockett, Rebecca, Whiley, David W., Abed, Yacine, Allander, Tobias, Binks, Michael, Boivin, Guy, Cheng, Allen C., Chung, Ju-Young, Ferguson, Patricia E., Gilroy, Nicole M., Leach, Amanda J., Lindau, Cecilia, Rossen, John W., Sorrell, Tania C., Nissen, Michael D. and Sloots, Theo P. (2010). Whole-genome characterization and genotyping of global WU polyomavirus strains. Journal of Virology, 84 (12), 6229-6234. doi: 10.1128/JVI.02658-09

A novel duplex real-time reverse transcription PCR Assay for the detection of influenza A and the novel influenza A(H1N1)strain.

Rockett, Rebecca J., Bialasiewicz, Seweryn, Whiley, David M., Bletchly, Cheryl, Faux, Cassandra E., Lambert, Stephen B., Nimmo, Graeme R., Nissen, Michael D. and Sloots, Theodorus P. (2009). A novel duplex real-time reverse transcription PCR Assay for the detection of influenza A and the novel influenza A(H1N1)strain.. Viruses, 1 (3), 1204-1208. doi: 10.3390/v1031204

An example of competitive inhibition in a monoplex real-time PCR as a cause of reduced fluorescent signal response

Goire, Namraj, Kattenbelt, Jacqueline A., Gould, Allan R., Nissen, Michael D., Sloots, Theo P. and Whiley, David (2009). An example of competitive inhibition in a monoplex real-time PCR as a cause of reduced fluorescent signal response. Pathology, 41 (6), 607-609. doi: 10.1080/00313020903071488

Neisseria gonorrhoeae multi-antigen sequence typing using non-cultured clinical specimens.

Whiley, David M., Goire, Namraj, Ray, E. Sanghamitra, Limnios, Althena, Lambert, Stephen B., Nissen, Michael D., Sloots, Theo P. and Tapsall, John W. (2009). Neisseria gonorrhoeae multi-antigen sequence typing using non-cultured clinical specimens.. Sexually Trasmitted Infections, 86 (1), 51-55. doi: 10.1136/sti.2009.037689

Simple, rapid, and inexpensive detection of Neisseria gonorrhoeae resistance mechanisms using heat-denatured isolates and SYBR green-based real-time PCR.

Kugelman, Gayle, Tapsall, John W., Goire, Namraj, Syrmis, Melanie, Limnios, Athena, Lambert, Stephen B., Nissen, Michael D., Sloots, Theo P. and Whiley, David M. (2009). Simple, rapid, and inexpensive detection of Neisseria gonorrhoeae resistance mechanisms using heat-denatured isolates and SYBR green-based real-time PCR.. Antimicrobial Agents & Chemotherapy, 53 (10), 4211-4216. doi: 10.1128/AAC.00385-09

Detection of BK, JC, WU, or KI polyomaviruses in faecal, urine, blood, cerebrospinal fluid and respiratory samples

Bialasiewicz, Seweryn, Whiley, David M., Lambert, Stephen B., Nissen, Michael D. and Sloots, Theo P. (2009). Detection of BK, JC, WU, or KI polyomaviruses in faecal, urine, blood, cerebrospinal fluid and respiratory samples. Journal of Clinical Virology, 45 (3), 249-254. doi: 10.1016/j.jcv.2009.05.002

Detection of novel influenza A(H1N1) virus by real-time RT-PCR.

Whiley, David M., Bialasiewicz, Seweryn, Bletchly, Cheryl, Faux, Cassandra E., Harrower, Bruce, Gould, Allan R., Lambert, Stephen B., Nimmo, Graeme R., Nissen, Michael D. and Sloots, Theo P. (2009). Detection of novel influenza A(H1N1) virus by real-time RT-PCR.. Journal of Clinical Virology, 45 (3), 203-204. doi: 10.1016/j.jcv.2009.05.032

Two cases of failed ceftriaxone treatment in pharyngeal gonorrhoea verified by molecular microbiological methods.

Tapsall, John, Read, Phillip, Carmody, Christopher, Bourne, Christopher, Ray, Sanghamitra, Limnios, Athena, Sloots, Theo and Whiley, David (2009). Two cases of failed ceftriaxone treatment in pharyngeal gonorrhoea verified by molecular microbiological methods.. Journal of Medical Microbiology, 58 (5), 683-687. doi: 10.1099/jmm.0.007641-0

A novel gel-based method for self collection and ambient temperature postal transport of urine for PCR detection of Chlamydia trachomatis.

Bialasiewicz, S., Whiley, D. M., Buhrer-Skinner, M., Bautista, C., Barker, K., Aitken, S., Gordon, R., Muller, R., Lambert, S. B., Debattista, J., Nissen, M. D. and Sloots, T. P. (2009). A novel gel-based method for self collection and ambient temperature postal transport of urine for PCR detection of Chlamydia trachomatis.. Sexually Transmitted Infections, 85 (2), 102-105. doi: 10.1136/sti.2008.032607

Detection of Human Bocavirus in respiratory, fecal and blood samples by real-time PCR

Tozer, Sarah J., Lambert, Stephen B., Whiley, David M., Bialasiewicz, Seweryn, Lyon, Michael J, Nissen, Michael D. and Sloots, Theo P. (2009). Detection of Human Bocavirus in respiratory, fecal and blood samples by real-time PCR. Journal of Medical Virology, 81 (3), 488-493. doi: 10.1002/jmv.21409

Merkel cell polyomavirus DNA in respiratory specimens from children and adults

Bialasiewicz, Seweryn, Lambert, Stephen B., Whiley, David M., Nissen, Michael D. and Sloots, Theo P. (2009). Merkel cell polyomavirus DNA in respiratory specimens from children and adults. Emerging Infectious Diseases, 15 (3), 492-494. doi: 10.3201/eid1503.081067

Identification of Pseudomonas aeruginosa by a duplex real-time polymerase chain reaction assay targeting the ecfX and the gyrB genes

Anuj, Snehal N., Whiley, David M., Kidd, Timothy J., Bell, Scott C., Wainwright, Claire E., Nissen, Michael D. and Sloots, Theo P. (2009). Identification of Pseudomonas aeruginosa by a duplex real-time polymerase chain reaction assay targeting the ecfX and the gyrB genes. Diagnostic Microbiology And Infectious Disease, 63 (2), 127-131. doi: 10.1016/j.diagmicrobio.2008.09.018

Identification of Australian human respiratory syncytial virus strains containing a 60-nucleotide duplication within the G glycoprotein gene.

Tozer, S., Whiley, D. M., Lunn, G., Rawlinson, W. D., Sammels, L. M., Sloots, T. P. and Nissen, M. D. (2008). Identification of Australian human respiratory syncytial virus strains containing a 60-nucleotide duplication within the G glycoprotein gene.. Pathology, 40 (6), 632-635. doi: 10.1080/00313020802320655

Comparing nose-throat swabs and nasopharyngeal aspirates collected from children with symptoms for respiratory virus identification using real-time polymerase chain reaction

Lambert, Stephen B., Whiley, David M., O'Neill, Nicholas T., Andrews, Emily C., Canavan, Fiona M., Bletchly, Cheryl, Siebert, David J., Sloots, Theo P. and Nissen, Michael D. (2008). Comparing nose-throat swabs and nasopharyngeal aspirates collected from children with symptoms for respiratory virus identification using real-time polymerase chain reaction. Pediatrics, 122 (3), e615-e620. doi: 10.1542/peds.2008-0691

Emerging respiratory agents: New viruses for old diseases?

Sloots, T. P., Whiley, D. M., Lambert, S. B. and Nissen, M. D. (2008). Emerging respiratory agents: New viruses for old diseases?. Journal of Clinical Virology, 42 (3), 233-243. doi: 10.1016/j.jcv.2008.03.002

Low positive predictive value of a nucleic acid amplification test for nongenital Neisseria gonorrhoeae infection in homosexual men

McNally, Leon P., Templeton, David J., Jin, Fengyi, Grulich, Andrew E., Donovan, Basil, Whiley, David M. and Cunningham, Philip H. (2008). Low positive predictive value of a nucleic acid amplification test for nongenital Neisseria gonorrhoeae infection in homosexual men. Clinical Infectious Diseases, 47 (2), e25-e27. doi: 10.1086/589299

False-Negative results in nucleic acid amplification tests: do we need to routinely use two genetic targets in all assays to overcome problems caused by sequence variation?

Whiley, D. M., Lambert, S., Bialasiewicz, S., Goire, N., Nissen, M. D. and Sloots, T. P. (2008). False-Negative results in nucleic acid amplification tests: do we need to routinely use two genetic targets in all assays to overcome problems caused by sequence variation?. Critical Reviews in Microbiology, 34 (2), 71-76. doi: 10.1080/10408410801960913

Presence of the newly discovered human polyomaviruses KI and WU in Australian patients with acute respiratory tract infection

Bialasiewicz, S., Whiley, D. M., Lambert, S. B., Jacob, K., Bletchly, C., Wang, D., Nissen, M. D. and Sloots, T. P. (2008). Presence of the newly discovered human polyomaviruses KI and WU in Australian patients with acute respiratory tract infection. Journal of Clinical Virology, 41 (2), 63-68. doi: 10.1016/j.jcv.2007.11.001

A duplex Neisseria gonorrhoeae real-time polymerase chain reaction assay targeting the gonoccoccal porA pseudogene and multicopy opa genes

Goire, Namraj, Nissen, Michael D., LeCornec, Genevera M., Sloots, Theo P. and Whiley, David, M. (2008). A duplex Neisseria gonorrhoeae real-time polymerase chain reaction assay targeting the gonoccoccal porA pseudogene and multicopy opa genes. Diagnostic Microbiology and Infectious Disease, 61 (1), 6-12. doi: 10.1016/j.diagmicrobio.2007.12.007

Exploring 'best practice' for nucleic acid detection of Neisseria gonorrhoeae

Whiley, David M., Garland, Suzanne M., Harnett, Geoffrey, Lum, Gary, Smith, David W., Tabrizi, Sepehr N., Sloots, Theo P. and Tapsall, John W. (2008). Exploring 'best practice' for nucleic acid detection of Neisseria gonorrhoeae. Sexual Health, 5 (1), 17-23. doi: 10.1071/SH07050

A newly reported human polyomavirus, KI virus, is present in the respiratory tract of Australian children

Bialasiewicz, Seweryn, Whiley, David M., Lambert, Stephen B., Wang, David, Nissen, Michael D. and Sloots, Theo P. (2007). A newly reported human polyomavirus, KI virus, is present in the respiratory tract of Australian children. Journal of Clinical Virology, 40 (1), 15-18. doi: 10.1016/j.jcv.2007.07.001

Development and evaluation of real-time PCR assays for the detection of the newly identified KI and WU polyomaviruses

Bialasiewicz, S., Whiley, D. M., Lambert, S. B., Gould, A., Nissen, M. D. and Sloots, T. P. (2007). Development and evaluation of real-time PCR assays for the detection of the newly identified KI and WU polyomaviruses. Journal of Clinical Virology, 40 (1), 9-14. doi: 10.1016/j.jcv.2007.07.015

Diversity of penA alterations and subtypes in Neisseria gonorrhoeae strains from Sydney, Australia, that are less susceptible to ceftriaxone

Whiley, David M., Limnios, E. Athena, Ray, Sanghamitra, Sloots, Theo P. and Tapsall, John W. (2007). Diversity of penA alterations and subtypes in Neisseria gonorrhoeae strains from Sydney, Australia, that are less susceptible to ceftriaxone. Antimicrobial Agents And Chemotherapy, 51 (9), 3111-3116. doi: 10.1128/AAC.00306-07

Use of a novel screening PCR indicates presence of Neisseria gonorrhoeae isolates with a mosaic penA gene sequence in Australia

Whiley, David, Bates, John, Limnios, Athena, Nissen, Michael D., Tapsall, John and Sloots, Theo P. (2007). Use of a novel screening PCR indicates presence of Neisseria gonorrhoeae isolates with a mosaic penA gene sequence in Australia. Pathology, 39 (4), 445-446. doi: 10.1080/00313020701444515

Identification of a novel polyomavirus from patients with acute respiratory tract infections

Gaynor, Anne M., Nissen, Michael D., Whiley, David M., Mackay, Ian M., Lambert, Stephen B., Wu, Guang, Brennan, Daniel C., Storch, Gregory A., Sloots, Theo P. and Wang, David (2007). Identification of a novel polyomavirus from patients with acute respiratory tract infections. PLoS Pathogens, 3 (5 e64) e64, 0595-0604. doi: 10.1371/journal.ppat.0030064

Impact of competitive inhibition and sequence variation upon the sensitivity of Malaria PCR

Bialasiewicz, Seweryn, Whiley, David M., Nissen, Michael D. and Sloots, Theo P. (2007). Impact of competitive inhibition and sequence variation upon the sensitivity of Malaria PCR. Journal of Clinical Microbiology, 45 (5), 1621-1623. doi: 10.1128/JCM.02145-06

Further questions regarding the role of Mosaic penA sequences in conferring reduced susceptibility to Ceftriaxone in Neisseria gonorrhoeae

Whiley, David M., Limnios, E. Athena, Sloots, Theo P. and Tapsall, John W. (2007). Further questions regarding the role of Mosaic penA sequences in conferring reduced susceptibility to Ceftriaxone in Neisseria gonorrhoeae. Antimicrobial Agents and Chemotherapy, 51 (2), 802-803. doi: 10.1128/AAC.01307-06

Supplemental testing is still required in Australia for samples positive for Neisseria gonorrhoeae by nucleic acid detection tests

Lum, G., Garland, S. M., Tabrizi, S., Harnett, G., Smith, D. W., Sloots, T. P., Whiley, D. M. and Tapsall, J. W. (2006). Supplemental testing is still required in Australia for samples positive for Neisseria gonorrhoeae by nucleic acid detection tests. Journal of Clinical Microbiology, 44 (11), 4292-4294. doi: 10.1128/JCM.01577-06

Applications of molecular testing in clinical laboratories for the diagnosis and control of gonorrhea

Tapsall, John, David Whiley and Sloots, Theodorus P. (2006). Applications of molecular testing in clinical laboratories for the diagnosis and control of gonorrhea. Future Microbiology, 1 (3), 317-324. doi: 10.2217/17460913.1.3.317

Rapid detection of a chromosomally mediated penicillin resistance-associated ponA mutation in Neisseria gonorrhoeae using a real-time PCR assay

Vernel-Pauillac, Frédérique, Falcot, Virginie, Whiley, David and Merien, Fabrice (2006). Rapid detection of a chromosomally mediated penicillin resistance-associated ponA mutation in Neisseria gonorrhoeae using a real-time PCR assay. Fems Microbiology Letters, 255 (1), 66-74. doi: 10.1111/j.1574-6968.2005.00053.x

Evidence that the gonococcal porA pseudogene is present in a broad range of Neisseria gonorrhoeae strains; suitability as a diagnostic target

Whiley, David M., Anderson, Trevor P., Barratt, Kevin, Beaman, Miles H., Buda, Philip J., Carter, Martine, Freeman, Kevin, Hallsworth, Peter, Limnios, E. Athena, Lum, Gary, Merien, Fabrice, Vernel-Pauillac, Frédérique, Tapsall, John W., Witt, Michael J., Nissen, Michael D. and Sloots, Theo P. (2006). Evidence that the gonococcal porA pseudogene is present in a broad range of Neisseria gonorrhoeae strains; suitability as a diagnostic target. Pathology, 38 (5), 445-448. doi: 10.1080/00313020600928253

Nucleic acid amplification testing for Neisseria gonorrhoeae: An ongoing challenge

Whiley, David M., Tapsall, John W. and Sloots, Theo P. (2006). Nucleic acid amplification testing for Neisseria gonorrhoeae: An ongoing challenge. Journal of Molecular Diagnostics, 8 (1), 3-15. doi: 10.2353/jmoldx.2006.050045

Sequence variation can affect the performance of minor groove binder TaqMan probes in viral diagnostic assays

Whiley, David M. and Sloots, Theo P. (2006). Sequence variation can affect the performance of minor groove binder TaqMan probes in viral diagnostic assays. Journal of Clinical Virology, 35 (1), 81-83. doi: 10.1016/j.jcv.2005.05.002

A 5 '-nuclease real-time reverse transcriptase-polymerase chain reaction assay for the detection of a broad range of influenza A subtypes, including H5N1

Whiley, David M. and Sloots, Theo P. (2005). A 5 '-nuclease real-time reverse transcriptase-polymerase chain reaction assay for the detection of a broad range of influenza A subtypes, including H5N1. Diagnostic Microbiology and Infectious Disease, 53 (4), 335-337. doi: 10.1016/j.diagmicrobio.2005.08.002

A cluster of culture positive gonococcal infections but with false negative cppB gene based PCR

Lum, G., Freeman, K., Nguyen, N. L., Limnios, E. A., Tabrizi, S. M., Carter, I., Chambers, I. W., Sloots, T. P., Whiley, D. M., Garland, S. M. and Tapsall, J. (2005). A cluster of culture positive gonococcal infections but with false negative cppB gene based PCR. Sexually Transmitted Infections, 81 (5), 400-402. doi: 10.1136/sti.2004.013805

Sequence variation in primer targets affects the accuracy of viral quantitative PCR

Whiley, David M. and Sloots, Theo P. (2005). Sequence variation in primer targets affects the accuracy of viral quantitative PCR. Journal of Clinical Virology, 34 (2), 104-107. doi: 10.1016/j.jcv.2005.02.010

A real-time PCR assay for the detection of Neisseria gonorrhoeae in genital and extragenital specimens

Whiley, David M., Buda, Philip P., Freeman, Kevin, Prattle, Neville I., Bates, John and Sloots, Theo P. (2005). A real-time PCR assay for the detection of Neisseria gonorrhoeae in genital and extragenital specimens. Diagnostic Microbiology and Infectious Disease, 52 (1), 1-5. doi: 10.1016/j.diagmicrobio.2004.12.011

Cryptic-plasmid-free gonococci may contribute to failure of cppB gene-based assays to confirm results of BD ProbeTEC PCR for identification of Neisseria gonorrhoeae

Tapsall, J. W., Limnios, E. A., Nguyen, N. L., Carter, I., Lum, G., Freeman, K., Tabrizi, S. N., Garland, S. M., Whiley, D. M., Sloots, T. P. and Chambers, I. W. (2005). Cryptic-plasmid-free gonococci may contribute to failure of cppB gene-based assays to confirm results of BD ProbeTEC PCR for identification of Neisseria gonorrhoeae. Journal of Clinical Microbiology, 43 (4), 2036-2037. doi: 10.1128/JCM.43.4.2036-2037.2005

Comparison of three in-house multiplex PCR assays for the detection of Neisseria gonorrhoeae and Chlamydia trachomatis using real-time and conventional detection methodologies

Whiley, David M. and Sloots, Theo P. (2005). Comparison of three in-house multiplex PCR assays for the detection of Neisseria gonorrhoeae and Chlamydia trachomatis using real-time and conventional detection methodologies. Pathology, 37 (5), 364-370. doi: 10.1080/00313020500254552

Melting curve analysis using hybridisation probes: limitations in microbial molecular diagnostics

Whiley, David M. and Sloots, Theo P. (2005). Melting curve analysis using hybridisation probes: limitations in microbial molecular diagnostics. Pathology, 37 (3), 254-256. doi: 10.1080/00313020500099270

A new confirmatory Neisseria gonorrhoeae real-time PCR assay targeting the porA pseudogene

Whiley, D. M., Buda, P. J., Bayliss, J., Cover, L., Bates, J. and Sloots, T. P. (2004). A new confirmatory Neisseria gonorrhoeae real-time PCR assay targeting the porA pseudogene. European Journal of Clinical Microbiology & Infectious Diseases, 23 (9), 705-710. doi: 10.1007/s10096-004-1170-0

A sensitive, specific, and cost-effective multiplex reverse transcriptase-PCR assay for the detection of seven common respiratory viruses in respiratory samples

Syrmis, Melanie W., Whiley, David M., Thomas, Marion, Mackay, Ian M., Williamson, Jeanette, Siebert, David J., Nissen, Michael D. and Sloots, Theo P. (2004). A sensitive, specific, and cost-effective multiplex reverse transcriptase-PCR assay for the detection of seven common respiratory viruses in respiratory samples. Journal of Molecular Diagnostics, 6 (2), 125-131. doi: 10.1016/S1525-1578(10)60500-4

Detection and differentiation of Plasmodium species by polymerase chain reaction and colorimetric detection in blood samples of patients with suspected malaria

Whiley, David M., LeCornec, Genevera M., Baddeley, Annette, Savill, John, Syrmis, Melanie W., Mackay, Ian M., Siebert, David J., Burns, Dominic, Nissen, Michael and Sloots, Theo P. (2004). Detection and differentiation of Plasmodium species by polymerase chain reaction and colorimetric detection in blood samples of patients with suspected malaria. Diagnostic Microbiology And Infectious Disease, 49 (1), 25-29. doi: 10.1016/j.diagmicrobio.2003.10.014

Detection and differentiation of herpes simplex virus types 1 and 2 by a duplex LightCycler PCR that incorporates an internal control PCR reaction

Whiley, David M., Mackay, Ian M., Syrmis, Melanie W., Witt, Michael J. and Sloots, Theo P. (2004). Detection and differentiation of herpes simplex virus types 1 and 2 by a duplex LightCycler PCR that incorporates an internal control PCR reaction. Journal of Clinical Virology, 30 (1), 32-38. doi: 10.1016/j.jcv.2003.08.003

Simultaneous detection and differentiation of human Polyomaviruses JC and BK by a rapid and sensitive PCR-ELAHA assay and a survey of the JCV subtypes within an Australian population

Whiley, David M., Arden, Katherine E., Mackay, Ian M., Syrmis, Melanie W. and Sloots, Theo P. (2004). Simultaneous detection and differentiation of human Polyomaviruses JC and BK by a rapid and sensitive PCR-ELAHA assay and a survey of the JCV subtypes within an Australian population. Journal of Medical Virology, 72 (3), 467-472. doi: 10.1002/jmv.20005

Co-detection and discrimination of six human herpesviruses by multiplex PCR-ELAHA

Mackay, Ian M., Gardam, Tim, Arden, Katherine E., McHardy, Suzi, Whiley, David M., Crisante, Erin and Sloots, Theo P. (2003). Co-detection and discrimination of six human herpesviruses by multiplex PCR-ELAHA. Journal of Clinical Virology, 28 (3), 291-302. doi: 10.1016/S1386-6532(03)00072-6

Preliminary comparison of three lightcycler pcr assays for the detection of herpes simplex virus in swab specimens

Whiley, D. M., Syrmis, M. W., Mackay, I. M. and Sloots, T. P. (2003). Preliminary comparison of three lightcycler pcr assays for the detection of herpes simplex virus in swab specimens. European Journal of Clinical Microbiology & Infectious Diseases, 22 (12), 764-767. doi: 10.1007/s10096-003-1031-2

Detection of Influenza type A virus by LightCycler RT-PCR

Whiley, D. M., Syrmis, M. W., Mackay, I. M. and Sloots, T. P. (2003). Detection of Influenza type A virus by LightCycler RT-PCR. Australian Journal of Medical Science, 24 (3), 136-139.

Detection of Neisseria meningitidis by LightCycler PCR

Whiley, David M., Crisante, Michelle E., Syrmis, Melanie W., Mackay, Ian M. and Sloots, Theo P. (2003). Detection of Neisseria meningitidis by LightCycler PCR. Pathology, 35 (4), 347-349. doi: 10.1080/0031302031000152874

Detection of Neisseria Meningitidis in clinical samples by a duplex read-time PCR targeting the porA and ctrA Genes

Whiley, David M ., Crisante, Michelle E., Syrmis, Melanie W., Mackay, Ian M. and Sloots, Theo P. (2003). Detection of Neisseria Meningitidis in clinical samples by a duplex read-time PCR targeting the porA and ctrA Genes. Molecular Diagnosis, 7 (3), 141-145.

Detection of Neisseria Meningitidis in clinical samples by a duplex real-time PCR targeting the porA and ctrA genes

Whiley, D. M., Crisante, M. E., Syrmis, M. E., Mackay, I. M. and Sloots, T. P. (2003). Detection of Neisseria Meningitidis in clinical samples by a duplex real-time PCR targeting the porA and ctrA genes. Molecular Diagnostics, 7 (3/4), 141-145.

Molecular assays for detection of human metapneumovirus

Mackay, Ian M., Jacob, Kevin C., Woolhouse, Daniel, Waller, Katharine, Syrmis, Melanie W., Whiley, David M., Siebert, David J., Nissen, Michael and Sloots, Theo P. (2003). Molecular assays for detection of human metapneumovirus. Journal of Clinical Microbiology, 41 (1), 100-105. doi: 10.1128/JCM.41.1.100-105.2003

Detection of human respiratory syncytial virus in respiratory samples by LightCycler reverse transcriptase PCR

Whiley, David M., Syrmis, Melanie W., Mackay, Ian M. and Sloots, Theo P. (2002). Detection of human respiratory syncytial virus in respiratory samples by LightCycler reverse transcriptase PCR. Journal of Clinical Microbiology, 40 (12), 4418-4422. doi: 10.1128/JCM.40.12.4418-4422.2002

A real-time PCR assay for the detection of Neisseria gonorrhoeae by LightCycler

Whiley, David M., LeCornec, Genevera M., Mackay, Ian M., Siebert, David J. and Sloots, Theo P. (2002). A real-time PCR assay for the detection of Neisseria gonorrhoeae by LightCycler. Diagnostic Microbiology And Infectious Disease, 42 (2), 85-89. doi: 10.1016/S0732-8893(01)00326-1

Detection and differentiation of human polyomaviruses JC and BK by LightCycler PCR

Whiley, David M., Mackay, Ian M. and Sloots, Theo P. (2001). Detection and differentiation of human polyomaviruses JC and BK by LightCycler PCR. Journal of Clinical Microbiology, 39 (12), 4357-4361. doi: 10.1128/JCM.39.12.4357-4361.2001

Clinical effectiveness, sustainability and quality of a large, decentralised molecular point-of-care testing network for STIs in regional and remote primary care clinics in Australia

Causer, Louise M., Anderson, David, Andrewartha, Kelly, Armstrong, Paul, Atkinson, David, Badman, Steven, Bastian, Lisa, Carroll, Catherine, Donovan, Basil, Fairley, Christopher, Gunathilake, Manoji, Guy, Rebecca, Hengel, Belinda, Kaldor, John, Leonard, Jessica, Maher, Lisa, Mak, Donna, Moore, Liz, O'Connor, Sean, Persing, David, Rees, Tom, Regan, David, Saha, Amit, Shephard, Mark, Smith, Kirsty, Speers, David, Tangey, Annie, Walshe, Veronica, Wand, Handan ... White, Caitlyn (2024). Clinical effectiveness, sustainability and quality of a large, decentralised molecular point-of-care testing network for STIs in regional and remote primary care clinics in Australia. Annual Meeting of the Infectious-Diseases-Society-for-Obstetrics-and-Gynecology (IDSOG), Boston Ma, Aug 04-06, 2022. PHILADELPHIA: LIPPINCOTT WILLIAMS & WILKINS.

Simplifying approaches to detect Mycoplasma genitalium parC resistance mutations, to facilitate individualised fluoroquinolone treatment

Sweeney, Emma L., Bradshaw, Catriona, Murray, Gerald, Tickner, Jacob A. and Whiley, David (2024). Simplifying approaches to detect Mycoplasma genitalium parC resistance mutations, to facilitate individualised fluoroquinolone treatment. Annual Meeting of the Infectious-Diseases-Society-for-Obstetrics-and-Gynecology (IDSOG), Boston Ma, Aug 04-06, 2022. PHILADELPHIA: LIPPINCOTT WILLIAMS & WILKINS.

gyrA Mutations in Mycoplasma Genitalium Contribute to Moxifloxacin Failure - A New Target For Resistance-guided Therapy

Murray, Gerald, Plummer, Erica L., Bodihabadu, Kaveesha, Torres, Jose, Chua, Teck-Phui, Machalek, Dorothy, Garland, Suzanne M., Doyle, Michelle, Sweeney, Emma L., Whiley, David and Bradshaw, Catriona (2024). gyrA Mutations in Mycoplasma Genitalium Contribute to Moxifloxacin Failure - A New Target For Resistance-guided Therapy. Annual Meeting of the Infectious-Diseases-Society-for-Obstetrics-and-Gynecology (IDSOG), Boston, MA, United States, 4-6 August 2022. Philadelphia, PA, United States: Lippincott Williams & Wilkins.

Neisseria gonorrhoeae antimicrobial co-resistances: implications for the utility of rapid molecular antimicrobial resistance assays and informing antimicrobial use

Bell, S. F. E., Ware, R. S., Lewis, D. L., Lahra, M. M. and Whiley, D. W. (2023). Neisseria gonorrhoeae antimicrobial co-resistances: implications for the utility of rapid molecular antimicrobial resistance assays and informing antimicrobial use. Australasian Sexual and Reproductive Health Conference, Sydney, NSW Australia, 18-20 September 2023.

Rapid and sensitive molecular detection of antimicrobial resistance (AMR); towards point-of-care testing in low resource settings

Ayfan, A., Ertl, N., Whiley, D., Paterson, D., Heney, C., Harris, P., Macdonald, J., Irwin, A. and Zowawi, H. (2020). Rapid and sensitive molecular detection of antimicrobial resistance (AMR); towards point-of-care testing in low resource settings. GCCMID 2019, Dubai, United Arab Emirates, 6-9 November 2019. Amsterdam, Netherlands: Elsevier. doi: 10.1016/j.jiph.2020.01.059

Evaluation of reduced pooled urine volume to improve test sensitivity for molecular point-of-care detection of Chlamydia and Gonorrhoea – preliminary results

Bell, Sara Fiona Elisabeth, Badman, S. G., Dean, J. A., Coffey, L., Debattista, J., Redmond, A. M., Howard, C., Lemoire, C., Lemoire, J., Williams, O. D., Gilks, C. F. and Whiley, D. M. (2019). Evaluation of reduced pooled urine volume to improve test sensitivity for molecular point-of-care detection of Chlamydia and Gonorrhoea – preliminary results. 2019 Australasian Sexual Health Conference, Perth, WA Australia, 16-18 September 2019. Herston, QLD Australia:

Evaluation of a Specimen Pooling Method for Molecular Point-Of-Care Detection of Chlamydia and Gonorrhoea

Bell, Sara F. E., Badman, Steven G., Dean, Judith A., Lemoire, Jime, Coffey, Luke, Debattista, Joseph, Redmond, Andrew M., Williams, Owain D., Gilks, Charles F. and Whiley, David M. (2018). Evaluation of a Specimen Pooling Method for Molecular Point-Of-Care Detection of Chlamydia and Gonorrhoea. IUSTI Asia Pacific Sexual Health Congress, Auckland, New Zealand, 1 - 3 November 2018.

Multi-drug Resistant Enterobacteriaceae from Bhutan: Whole Genome Sequencing of ESBL and Carbapenemase-producing Strains

Harris, Patrick N. A., Wailan, Alexander, Buckley, Cameron, Catchpoole, Elizabeth, Zowawi, Hosam M., Whiley, David, Tshokey, Tshokey, Sharma, Ragunath, Chong, Smathi and Paterson, David L. (2016). Multi-drug Resistant Enterobacteriaceae from Bhutan: Whole Genome Sequencing of ESBL and Carbapenemase-producing Strains. International Congress for Tropical Medicine and Malaria (ICTMM 2016), Brisbane Australia, 18-22 September 2016.

Pseudomonas aeruginosa population fluctuation in cystic fibrosis pulmonary exacerbations-a battle of the strains?

Tai, A., Kidd, T., Buckley, C., Ramsay, K., Grimwood, K., Bell, S. and Whiley, D. (2016). Pseudomonas aeruginosa population fluctuation in cystic fibrosis pulmonary exacerbations-a battle of the strains?. Thoracic Society of Australia & New Zealand and the Australian & New Zealand Society of Respiratory Science, Annual Scientific Meeting, Perth, WA Australia, 1-6 April 2016. Richmond, VIC, Australia: Wiley-Blackwell Publishing Asia.

Within-host whole genome analysis of an antibiotic resistant Pseudomonas aeruginosa strain sub-type in cystic fibrosis

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.

Exploring the Relationship Between Importation Frequency and the Persistence of Gonorrhoea Strains in An Msm Population: a Modelling Study

Hui, B., Whiley, D., Donovan, B. and Regan, D. (2015). Exploring the Relationship Between Importation Frequency and the Persistence of Gonorrhoea Strains in An Msm Population: a Modelling Study. BMJ PUBLISHING GROUP. doi: 10.1136/sextrans-2015-052270.393

Factors Influencing the Detection of Neisseria Gonorrhoeae From the Tonsils and Posterior Oropharynx

Bissessor, M., Whiley, D. M., Lee, D. M., Snow, A. F., Fairley, C. K., Bradshaw, C. S., Hocking, J. S., Lahra, M., Peel, J. and Chen, M. Y. (2015). Factors Influencing the Detection of Neisseria Gonorrhoeae From the Tonsils and Posterior Oropharynx. BMJ PUBLISHING GROUP. doi: 10.1136/sextrans-2015-052270.328

Operational Performance of a New Molecular-Based Point-of-Care Test for Diagnosis of Chlamydia Trachomatis and Neisseria Gonorrhoeae Infection: Concordance with Conventional Laboratory Testing

Causer, L. M., Tangey, A., Badman, S. G., Hengel, B., Natoli, L., Speers, D., Tabrizi, S. N., Whiley, D., Anderson, D. A., Ward, J., Kaldor, J. M. and Guy, R. J. (2015). Operational Performance of a New Molecular-Based Point-of-Care Test for Diagnosis of Chlamydia Trachomatis and Neisseria Gonorrhoeae Infection: Concordance with Conventional Laboratory Testing. BMJ PUBLISHING GROUP. doi: 10.1136/sextrans-2015-052270.86

Point-of-Care Testing and Immediate Treatment of Curable Sexually Transmitted and Genital Infections Among Antenatal Women in Papua New Guinea

Badman, S. G., Vallely, L. M., Toliman, P., Kariwiga, G., Tabrizi, S., Pomat, W., Guy, R., Homer, C., Luchters, S., Morgan, C., Garland, S. M., Rogerson, S., Whiley, D., Mola, G. D. L., Wand, H., Donovan, B., Causer, L., Siba, P., Kaldor, J. M. and Vallely, A. (2015). Point-of-Care Testing and Immediate Treatment of Curable Sexually Transmitted and Genital Infections Among Antenatal Women in Papua New Guinea. BMJ PUBLISHING GROUP. doi: 10.1136/sextrans-2015-052270.85

Real-Time Pcr Detection of N. Gonorrhoeae Resistance: Where Are We Now?

Whiley, David (2015). Real-Time Pcr Detection of N. Gonorrhoeae Resistance: Where Are We Now?. BMJ PUBLISHING GROUP. doi: 10.1136/sextrans-2015-052270.57

An Australia-Wide Molecular Study of Neisseria Gonorrhoeae Identifies Frequent Occurrence of a Key Cephalosporin Resistance Mechanism

Trembizki, E., Regan, D. G., Donovan, B., Chen, M. Y., Guy, R. J., Lahra, M. M. and Whiley, D. (2015). An Australia-Wide Molecular Study of Neisseria Gonorrhoeae Identifies Frequent Occurrence of a Key Cephalosporin Resistance Mechanism. BMJ PUBLISHING GROUP. doi: 10.1136/sextrans-2015-052270.83

Exploring the benefits of molecular testing for gonorrhoea antibiotic resistance surveillance in remote settings

Hui, B., Ryder, N., Su, J-Y, Ward, J., Chen, M., Donovan, B., Fairley, C., Guy, R., Lahra, M., Law, M., Whiley, D. and Regan, D. (2015). Exploring the benefits of molecular testing for gonorrhoea antibiotic resistance surveillance in remote settings. STI & HIV World Congress 2015, Brisbane, QLD Australia, 13 - 16 September 2015. London, United Kingdom: BMJ. doi: 10.1136/sextrans-2015-052270.84

Molecular Characterization of Carbapenem Resistant Pseudomonas aeruginosa in the Arabian Peninsula

Zowawi, Hosam M. , Syrmis, Melanie W. , Kidd, Timothy J. , Balkhy, Hanan H. , Walsh, Timothy R. , Al Johani, Sameerah M. , Al Jindan, Reem Y. , Alfaresi, Mubarak , Ibrahim, Emad E. , Al-Jardani, Amenah , Al Salman, Jameela , Dashti, Ali A. , Sidjabat, Hanna , Baz, Omar , Whiley, David M. and Paterson, David L. (2015). Molecular Characterization of Carbapenem Resistant Pseudomonas aeruginosa in the Arabian Peninsula. The 55th Interscience Conference of Antimicrobial Agents and Chemotherapy (ICAAC) / International Society of Chemotherapy (ISC)’s International Congress of Chemotherapy and Infection (ICC) - ICAAC/ICC, San Diego CA, United States, 17–21 September 2015.

Wheeze In Infancy Decreases Airway Distensibility Assessed At 3 Years Of Age

Kumar, A., Czovek, D., Shackleton, C., Sarna, M., Whiley, D., Alsaleh, A., Sloots, T., Gingl, Z., Hantos, Z., Grimwood, K., Lambert, S. and Sly, P. D. (2015). Wheeze In Infancy Decreases Airway Distensibility Assessed At 3 Years Of Age. International Conference of the American-Thoracic-Society (ATS), Denver CO, United States, 15-20 May 2015. New York, NY United States: American Thoracic Society.

Wheezy episodes during the first year of life decrease airway distensibility

Kumar, A., Czovek, D., Shackleton, C., Hantos, Z., Grimwood, K., Sarna, M., Whiley, D., Sloot, T., Alsaleh, A., Lambert, S. and Sly, P. (2015). Wheezy episodes during the first year of life decrease airway distensibility. Thoracic Society of Australia & New Zealand and the Australian & New Zealand Society of Respiratory Science, Annual Scientific Meeting 2015, Gold Coast, Australia, 27 March – 1 April, 2015. Richmond, Australia: Wiley-Blackwell Publishing Asia. doi: 10.1111/resp.12494_7

Ttango: Operational Performance of a Molecular Based Chlamydia and Gonorrhoea Point-of-Care Testing in Remote Australian Aboriginal Communities

Hengel, Belinda, Badman, Steven, Causer, Louise, Natoli, Lisa, Tangey, Annie, Ward, James, Tabrizi, Sepehr, Whiley, David, Donovan, Basil, Fairley, Christopher Kir, Wilson, David, Regan, David, Wand, Handan, Shephard, Mark, Anderson, David, Kaldor, John and Guy, Rebecca (2014). Ttango: Operational Performance of a Molecular Based Chlamydia and Gonorrhoea Point-of-Care Testing in Remote Australian Aboriginal Communities. STD Prevention Conference, Atlanta Ga, Jun 09-12, 2014. PHILADELPHIA: LIPPINCOTT WILLIAMS & WILKINS.

Evidence of Cross-Transmission of a Multidrug Resistant (Mdr) Pseudomonas Aeruginosa Strain in Patient with Cystic Fibrosis (Cf)

Tai, A., Kidd, T., Ramsay, K., Bell, S. and Whiley, D. (2014). Evidence of Cross-Transmission of a Multidrug Resistant (Mdr) Pseudomonas Aeruginosa Strain in Patient with Cystic Fibrosis (Cf). Annual Scientific Meeting of the Thoracic Society of Australia and New Zealand and the Australian and New Zealand Society of Respiratory Science 2014, Adelaide, SA Australia, 4-9 April 2014. Richmond, VIC Australia: Wiley-Blackwell Publishing Asia. doi: 10.1111/resp.12263_10

Molecular Surveillance and Prevalence of Acquired Carbapenem Resistance in Pseudomonas Aeruginosa (Pa) Amongst Australian Cystic Fibrosis (Cf) Patients

Tai, A., Kidd, T. J., Whiley, D. M., Sidjabat, H. E. and Bell, S. C. (2013). Molecular Surveillance and Prevalence of Acquired Carbapenem Resistance in Pseudomonas Aeruginosa (Pa) Amongst Australian Cystic Fibrosis (Cf) Patients. Thoracic Society of Australia & New Zealand and the Australian & New Zealand Society of Respiratory Science 2013 Annual Scientific Meetings, Darwin Convention Centre, Darwin, NT, 22-27 March 2013. Richmond Australia: Wiley-Blackwell Publishing Asia. doi: 10.1111/resp.12046

WU, KI, MW and MCV polyomavirus infection in the first 2 years of life

Rockett, Rebecca, Bialasiewicz, Seweryn, Lambert, Stephen B., Ware, Robert, Whiley, David M., Nissen, Michael D., Grimwood, Keith and Sloots, Theo P. (2013). WU, KI, MW and MCV polyomavirus infection in the first 2 years of life. 5th International Conference on Polyomaviruses and Human Diseases: Basic and Clinical Perspectives, Stresa Italy, 09-11 May 2013. New York, NY United States: Springer New York LLC.

A new multiplexable, quantitative, real-time system for detection of nucleic acids

Barnard, R., Lai, R., Pearson, D., Phua, Z. Y., Whiley, D., Sloots, T. and Barnett, G. (2009). A new multiplexable, quantitative, real-time system for detection of nucleic acids. 14th European Congress on Biotechnology, Barcelona, Spain, 13-16 September 2009. Amsterdam, Netherlands: Elsevier. doi: 10.1016/j.nbt.2009.06.044

The impact of oligonucleotide design on PCR sensitivity. Abstract M-54

Bialasiewicz S., Whiley D., Nissen, M. D. and Sloots, T. P. (2007). The impact of oligonucleotide design on PCR sensitivity. Abstract M-54. Clinical Virology Symposium, Clearwater, FL, USA, 2007.

Factors influencing the sensitivity of the malarial PCR assay.

Bialasiewicz S., Whiley D., Nissen, M. D. and Sloots, T. P. (2006). Factors influencing the sensitivity of the malarial PCR assay.. ASM SVM Special Interest Group Meeting, Brisbane, 2006.

The impact of competitive inhibition and sequence variation upon the sensitivity of malaria PCR

Bialasiewicz S., Whiley D. and Sloots, Theodorus P. (2006). The impact of competitive inhibition and sequence variation upon the sensitivity of malaria PCR. Australian Society for Microbiology Annual Scientific Meeting, Gold Coast, Australia, 2006.

The impact of competitive inhibition and sequence variation upon the sensitivity of malaria PCR.

Bialasiewicz S., Whiley D. and Sloots, Theodorus P. (2006). The impact of competitive inhibition and sequence variation upon the sensitivity of malaria PCR.. Annual Health and Medical Research Conference of Queensland, Brisbane, Australia., 2006.

Prevalence of Bacteroides forsythus in a cardiovascular diseased population: A case controlled analysis using real-time PCR

Hamlet, S., Whiley, D., Sloots, T., Cullinan, M., Westerman, B., Palmer, J., West, M. and Seymour, G. (2002). Prevalence of Bacteroides forsythus in a cardiovascular diseased population: A case controlled analysis using real-time PCR. 80th General Session of the International Association of Dental Research, San Diego, 6-9th March, 2002. Chicago, Ill., USA: American Association of Dental Research.

FACTORS AFFECTING NUCLEIC ACID AMPLIFICATION TESTS FOR NEISSERIA GONORRHOEAE

Whiley, David (2007). FACTORS AFFECTING NUCLEIC ACID AMPLIFICATION TESTS FOR NEISSERIA GONORRHOEAE. PhD Thesis, School of Molecular & Microbial Sciences, The University of Queensland.