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Bacteria and viruses in the nasopharynx immediately prior to onset of acute lower respiratory infections in Indigenous Australian children.

Smith-Vaughan HC, Binks MJ, Beissbarth J, Chang AB, McCallum GB, Mackay IM, Morris PS, Marsh RL, Torzillo PJ, Wurzel DF, Grimwood K, Nosworthy E, Gaydon JE, Leach AJ, MacHunter B, Chatfield MD, Sloots TP, Cheng AC.

Eur J Clin Microbiol Infect Dis. 2018 Sep;37(9):1785-1794. doi: 10.1007/s10096-018-3314-7. Epub 2018 Jun 29.


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

Sarna M, Lambert SB, Sloots TP, Whiley DM, Alsaleh A, Mhango L, Bialasiewicz S, Wang D, Nissen MD, Grimwood K, Ware RS.

Thorax. 2018 Oct;73(10):969-979. doi: 10.1136/thoraxjnl-2017-210233. Epub 2017 Dec 15.


Timing of First Respiratory Virus Detections in Infants: A Community-Based Birth Cohort Study.

Sarna M, Ware RS, Lambert SB, Sloots TP, Nissen MD, Grimwood K.

J Infect Dis. 2018 Jan 17;217(3):418-427. doi: 10.1093/infdis/jix599.


Presence of atopy increases the risk of asthma relapse.

Teoh L, Mackay IM, Van Asperen PP, Acworth JP, Hurwitz M, Upham JW, Siew WH, Wang CYT, Sloots TP, Neeman T, Chang AB.

Arch Dis Child. 2018 Apr;103(4):346-351. doi: 10.1136/archdischild-2017-312982. Epub 2017 Oct 11.


Detection of Toscana virus from an adult traveler returning to Australia with encephalitis.

Arden KE, Heney C, Shaban B, Nimmo GR, Nissen MD, Sloots TP, Mackay IM.

J Med Virol. 2017 Oct;89(10):1861-1864. doi: 10.1002/jmv.24839. Epub 2017 May 29.


Upper airway viruses and bacteria in urban Aboriginal and Torres Strait Islander children in Brisbane, Australia: a cross-sectional study.

O'Grady KF, Hall KK, Sloots TP, Anderson J, Chang AB.

BMC Infect Dis. 2017 Apr 4;17(1):245. doi: 10.1186/s12879-017-2349-1.


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 KF, Grimwood K, Toombs M, Sloots TP, Otim M, Whiley D, Anderson J, Rablin S, Torzillo PJ, Buntain H, Connor A, Adsett D, Meng Kar O, Chang AB.

BMJ Open. 2017 Mar 3;7(3):e013796. doi: 10.1136/bmjopen-2016-013796.


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 S, Whiley DM, Ware RS, Sloots TP, Kirkwood CD, Grimwood K, Lambert SB.

J Med Virol. 2017 May;89(5):917-921. doi: 10.1002/jmv.24716. Epub 2016 Nov 9.


Respiratory Viruses in Neonates: A Prospective, Community-based Birth Cohort Study.

Sarna M, Alsaleh A, Lambert SB, Ware RS, Mhango LP, Mackay IM, Whiley DM, Sloots TP, Grimwood K.

Pediatr Infect Dis J. 2016 Dec;35(12):1355-1357.


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

O'Grady KF, Grimwood K, Sloots TP, Whiley DM, Acworth JP, Phillips N, Marchant J, Goyal V, Chang AB.

Pediatr Pulmonol. 2017 Mar;52(3):373-381. doi: 10.1002/ppul.23527. Epub 2016 Jul 26.


A Difficult Decision: Atypical JC Polyomavirus Encephalopathy in a Kidney Transplant Recipient.

Bialasiewicz S, Hart G, Oliver K, Agnihotri SP, Koralnik IJ, Viscidi R, Nissen MD, Sloots TP, Burke MT, Isbel NM, Burke J.

Transplantation. 2017 Jun;101(6):1461-1467. doi: 10.1097/TP.0000000000001275.


The burden of community-managed acute respiratory infections in the first 2-years of life.

Sarna M, Ware RS, Sloots TP, Nissen MD, Grimwood K, Lambert SB.

Pediatr Pulmonol. 2016 Dec;51(12):1336-1346. doi: 10.1002/ppul.23480. Epub 2016 May 26.


Detection of Recently Discovered Human Polyomaviruses in a Longitudinal Kidney Transplant Cohort.

Bialasiewicz S, Rockett RJ, Barraclough KA, Leary D, Dudley KJ, Isbel NM, Sloots TP.

Am J Transplant. 2016 Sep;16(9):2734-40. doi: 10.1111/ajt.13799. Epub 2016 Apr 19.


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

O'Grady KF, Grimwood K, Sloots TP, Whiley DM, Acworth JP, Phillips N, Goyal V, Chang AB.

Clin Microbiol Infect. 2016 Jun;22(6):527-34. doi: 10.1016/j.cmi.2016.02.004. Epub 2016 Feb 22.


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

Chang AB, Smith-Vaughan H, Sloots TP, Valery PC, Whiley D, Beissbarth J, Torzillo PJ.

Pneumonia (Nathan). 2015 Dec 1;6:48-56. doi: 10.15172/pneu.2015.6/636. eCollection 2015.


The social network of cystic fibrosis centre care and shared Pseudomonas aeruginosa strain infection: a cross-sectional analysis.

Kidd TJ, Soares Magalhães RJ, Paynter S, Bell SC; ACPinCF Investigator Group.

Lancet Respir Med. 2015 Aug;3(8):640-50. doi: 10.1016/S2213-2600(15)00228-3. Epub 2015 Jul 22.


The respiratory health of urban indigenous children aged less than 5 years: study protocol for a prospective cohort study.

Hall KK, Chang AB, Sloots TP, Anderson J, Kemp A, Hammill J, Otim M, O'Grady KA.

BMC Pediatr. 2015 May 14;15:56. doi: 10.1186/s12887-015-0375-y.


Three-weekly doses of azithromycin for indigenous infants hospitalized with bronchiolitis: a multicentre, randomized, placebo-controlled trial.

McCallum GB, Morris PS, Grimwood K, Maclennan C, White AV, Chatfield MD, Sloots TP, Mackay IM, Smith-Vaughan H, McKay CC, Versteegh LA, Jacobsen N, Mobberley C, Byrnes CA, Chang AB.

Front Pediatr. 2015 Apr 21;3:32. doi: 10.3389/fped.2015.00032. eCollection 2015.


Rapid identification of pathogens using molecular techniques.

Sloots TP, Nissen MD, Ginn AN, Iredell JR.

Pathology. 2015 Apr;47(3):191-8. doi: 10.1097/PAT.0000000000000241. Review.


Specific rolling circle amplification of low-copy human polyomaviruses BKV, HPyV6, HPyV7, TSPyV, and STLPyV.

Rockett R, Barraclough KA, Isbel NM, Dudley KJ, Nissen MD, Sloots TP, Bialasiewicz S.

J Virol Methods. 2015 Apr;215-216:17-21. doi: 10.1016/j.jviromet.2015.02.004. Epub 2015 Feb 16.


Acquisition of human polyomaviruses in the first 18 months of life.

Rockett RJ, Bialasiewicz S, Mhango L, Gaydon J, Holding R, Whiley DM, Lambert SB, Ware RS, Nissen MD, Grimwood K, Sloots TP.

Emerg Infect Dis. 2015 Feb;21(2):365-7. doi: 10.3201/eid2102.141429.


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

Ye S, Lambert SB, Grimwood K, Roczo-Farkas S, Nimmo GR, Sloots TP, Kirkwood CD, Whiley DM.

J Clin Microbiol. 2015 Jan;53(1):295-7. doi: 10.1128/JCM.02251-14. Epub 2014 Oct 22.


Enhancing influenza diagnostics to catch a shifting target.

Whiley DM, Mackay IM, Nimmo GR, Sloots TP, Nissen MD.

Lancet Infect Dis. 2014 Oct;14(10):923. doi: 10.1016/S1473-3099(14)70916-8. No abstract available.


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

Syrmis MW, Kidd TJ, Moser RJ, Ramsay KA, Gibson KM, Anuj S, Bell SC, Wainwright CE, Grimwood K, Nissen M, Sloots TP, Whiley DM.

BMC Infect Dis. 2014 Jun 5;14:307. doi: 10.1186/1471-2334-14-307.


Detection of a divergent Parainfluenza 4 virus in an adult patient with influenza like illness using next-generation sequencing.

Bialasiewicz S, McVernon J, Nolan T, Lambert SB, Zhao G, Wang D, Nissen MD, Sloots TP.

BMC Infect Dis. 2014 May 19;14:275. doi: 10.1186/1471-2334-14-275.


Respiratory viruses in exacerbations of non-cystic fibrosis bronchiectasis in children.

Kapur N, Mackay IM, Sloots TP, Masters IB, Chang AB.

Arch Dis Child. 2014 Aug;99(8):749-53. doi: 10.1136/archdischild-2013-305147. Epub 2014 May 12.


Feasibility of parental collected nasal swabs for virus detection in young children with cystic fibrosis.

Gangell CL, Shackleton C, Poreddy S, Kappers J, Gaydon JE, Sloots TP, Stick SM, Ranganathan SC, Sly PD.

J Cyst Fibros. 2014 Dec;13(6):661-6. doi: 10.1016/j.jcf.2014.02.009. Epub 2014 Mar 15.


Molecular approaches to enhance surveillance of gonococcal antimicrobial resistance.

Goire N, Lahra MM, Chen M, Donovan B, Fairley CK, Guy R, Kaldor J, Regan D, Ward J, Nissen MD, Sloots TP, Whiley DM.

Nat Rev Microbiol. 2014 Mar;12(3):223-9. doi: 10.1038/nrmicro3217. Epub 2014 Feb 10. Review.


Epidemiology of respiratory viral infections in children enrolled in a study of influenza vaccine effectiveness.

Dierig A, Heron LG, Lambert SB, Yin JK, Leask J, Chow MY, Sloots TP, Nissen MD, Ridda I, Booy R.

Influenza Other Respir Viruses. 2014 May;8(3):293-301. doi: 10.1111/irv.12229. Epub 2014 Jan 31.


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

Trembizki E, Smith H, Lahra MM, Chen M, Donovan B, Fairley CK, Guy R, Kaldor J, Regan D, Ward J, Nissen MD, Sloots TP, Whiley DM.

J Antimicrob Chemother. 2014 Jun;69(6):1526-32. doi: 10.1093/jac/dkt544. Epub 2014 Jan 26.


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 AN, Whiley DM, Bialasiewicz S, Lambert SB, Ware RS, Nissen MD, Sloots TP, Grimwood K.

BMC Infect Dis. 2014 Jan 9;14:15. doi: 10.1186/1471-2334-14-15.


Different serologic behavior of MCPyV, TSPyV, HPyV6, HPyV7 and HPyV9 polyomaviruses found on the skin.

van der Meijden E, Bialasiewicz S, Rockett RJ, Tozer SJ, Sloots TP, Feltkamp MC.

PLoS One. 2013 Nov 21;8(11):e81078. doi: 10.1371/journal.pone.0081078. eCollection 2013.


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

Alsaleh AN, Grimwood K, Sloots TP, Whiley DM.

J Med Virol. 2014 May;86(5):795-801. doi: 10.1002/jmv.23844. Epub 2013 Nov 14.


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

O'Grady KA, Whiley DM, Torzillo PJ, Sloots TP, Lambert SB.

BMC Infect Dis. 2013 Nov 14;13:543. doi: 10.1186/1471-2334-13-543.


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 GR, Nissen MD, Sloots TP, Whiley DM.

J Virol Methods. 2014 Jan;195:123-5. doi: 10.1016/j.jviromet.2013.10.016. Epub 2013 Oct 14.


Respiratory virus detection in nasopharyngeal aspirate versus bronchoalveolar lavage is dependent on virus type in children with chronic respiratory symptoms.

Wurzel DF, Marchant JM, Clark JE, Mackay IM, Wang CY, Sloots TP, Upham JW, Yerkovich ST, Masters IB, Baker PJ, Anderson-James S, Chang AB.

J Clin Virol. 2013 Dec;58(4):683-8. doi: 10.1016/j.jcv.2013.09.016. Epub 2013 Sep 23.


A single dose of azithromycin does not improve clinical outcomes of children hospitalised with bronchiolitis: a randomised, placebo-controlled trial.

McCallum GB, Morris PS, Chatfield MD, Maclennan C, White AV, Sloots TP, Mackay IM, Chang AB.

PLoS One. 2013 Sep 25;8(9):e74316. doi: 10.1371/journal.pone.0074316. eCollection 2013.


The development of chronic cough in children following presentation to a tertiary paediatric emergency department with acute respiratory illness: study protocol for a prospective cohort study.

Drescher BJ, Chang AB, Phillips N, Acworth J, Marchant J, Sloots TP, David M, O'Grady KA.

BMC Pediatr. 2013 Aug 15;13:125. doi: 10.1186/1471-2431-13-125.


Bordetella holmesii and pertussis diagnosis: authors' reply.

Cox HC, Jacob K, Whiley DM, Bletchly C, Nimmo GR, Nissen MD, Sloots TP.

Pathology. 2013 Aug;45(5):532. doi: 10.1097/PAT.0b013e3283639c0d. No abstract available.


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, Lambert S, Robson J, Heney C, Nimmo G, Grimwood K, Sloots T, Kirkwood C.

Euro Surveill. 2013 May 23;18(21). pii: 20483. No abstract available.


Circularizing picornavirus genomes to rapidly obtain terminal sequence.

Mackay IM, Wang CY, Sloots TP.

J Clin Virol. 2013 Sep;58(1):286-7. doi: 10.1016/j.jcv.2013.04.020. Epub 2013 May 21. No abstract available.


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

Rockett RJ, Sloots TP, Bowes S, O'Neill N, Ye S, Robson J, Whiley DM, Lambert SB, Wang D, Nissen MD, Bialasiewicz S.

PLoS One. 2013 May 8;8(5):e62764. doi: 10.1371/journal.pone.0062764. Print 2013.


Potential animal and environmental sources of Q fever infection for humans in Queensland.

Tozer SJ, Lambert SB, Strong CL, Field HE, Sloots TP, Nissen MD.

Zoonoses Public Health. 2014 Mar;61(2):105-12. doi: 10.1111/zph.12051. Epub 2013 May 10.


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

Rahimi F, Goire N, Guy R, Kaldor JM, Ward J, Nissen MD, Sloots TP, Whiley DM.

Sex Health. 2013 Aug;10(4):299-304. doi: 10.1071/SH12108.


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

Goire N, Lahra MM, Ohnishi M, Hogan T, Liminios AE, Nissen MD, Sloots TP, Whiley DM.

Euro Surveill. 2013 Apr 4;18(14):20444.


Association of micropapillary urothelial carcinoma of the bladder and BK viruria in kidney transplant recipients.

Bialasiewicz S, Cho Y, Rockett R, Preston J, Wood S, Fleming S, Shepherd B, Barraclough K, Sloots TP, Isbel N.

Transpl Infect Dis. 2013 Jun;15(3):283-9. doi: 10.1111/tid.12072. Epub 2013 Apr 1.


Bronchiectasis exacerbation study on azithromycin and amoxycillin-clavulanate for respiratory exacerbations in children (BEST-2): study protocol for a randomized controlled trial.

Chang AB, Grimwood K, Wilson AC, van Asperen PP, Byrnes CA, O'Grady KA, Sloots TP, Robertson CF, Torzillo PJ, McCallum GB, Masters IB, Buntain HM, Mackay IM, Ungerer J, Tuppin J, Morris PS.

Trials. 2013 Feb 20;14:53. doi: 10.1186/1745-6215-14-53.


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

Syrmis MW, Moser RJ, Kidd TJ, Hunt P, Ramsay KA, Bell SC, Wainwright CE, Grimwood K, Nissen MD, Sloots TP, Whiley DM.

J Med Microbiol. 2013 May;62(Pt 5):734-40. doi: 10.1099/jmm.0.055905-0. Epub 2013 Feb 14.


Human rhinovirus C in adult haematopoietic stem cell transplant recipients with respiratory illness.

Ferguson PE, Gilroy NM, Faux CE, Mackay IM, Sloots TP, Nissen MD, Dwyer DE, Sorrell TC.

J Clin Virol. 2013 Mar;56(3):255-9. doi: 10.1016/j.jcv.2012.11.010. Epub 2013 Jan 3.


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

Cox HC, Jacob K, Whiley DM, Bletchly C, Nimmo GR, Nissen MD, Sloots TP.

Pathology. 2013 Feb;45(2):202-3. doi: 10.1097/PAT.0b013e32835cc2d7. No abstract available.


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