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Items: 1 to 50 of 160

1.

Advances in Clinical Sample Preparation for Identification and Characterization of Bacterial Pathogens Using Metagenomics.

Bachmann NL, Rockett RJ, Timms VJ, Sintchenko V.

Front Public Health. 2018 Dec 12;6:363. doi: 10.3389/fpubh.2018.00363. eCollection 2018. Review.

2.

Whole Genome Sequencing of Australian Candida glabrata Isolates Reveals Genetic Diversity and Novel Sequence Types.

Biswas C, Marcelino VR, Van Hal S, Halliday C, Martinez E, Wang Q, Kidd S, Kennedy K, Marriott D, Morrissey CO, Arthur I, Weeks K, Slavin MA, Sorrell TC, Sintchenko V, Meyer W, Chen SC.

Front Microbiol. 2018 Dec 3;9:2946. doi: 10.3389/fmicb.2018.02946. eCollection 2018.

3.

Comparison of the Whole Cell Proteome and Secretome of Epidemic Bordetella pertussis Strains From the 2008-2012 Australian Epidemic Under Sulfate-Modulating Conditions.

Luu LDW, Octavia S, Zhong L, Raftery MJ, Sintchenko V, Lan R.

Front Microbiol. 2018 Nov 27;9:2851. doi: 10.3389/fmicb.2018.02851. eCollection 2018.

4.

Cluster of invasive Mycobacteria chimaera infections following cardiac surgery demonstrating novel clinical features and risks of aortic valve replacement.

Overton K, Mennon V, Mothobi N, Neild B, Martinez E, Masters J, Grant P, Akhunji Z, Su WY, Torda A, Whyte CM, Lloyd A, Weatherall C, Hofmeyr A, Foo H, Brookes K, Marriott D, Sintchenko V, Clezy K, Konecny P, Post JJ.

Intern Med J. 2018 Dec;48(12):1514-1520. doi: 10.1111/imj.14093.

PMID:
30517986
5.

Genome-wide comparison of Corynebacterium diphtheriae isolates from Australia identifies differences in the Pan-genomes between respiratory and cutaneous strains.

Timms VJ, Nguyen T, Crighton T, Yuen M, Sintchenko V.

BMC Genomics. 2018 Dec 4;19(1):869. doi: 10.1186/s12864-018-5147-2.

6.

Genome-wide analysis of Streptococcus pneumoniae serogroup 19 in the decade after the introduction of pneumococcal conjugate vaccines in Australia.

Rockett RJ, Oftadeh S, Bachmann NL, Timms VJ, Kong F, Gilbert GL, Sintchenko V.

Sci Rep. 2018 Nov 16;8(1):16969. doi: 10.1038/s41598-018-35270-1.

7.

Mycobacterium tuberculosis Drug Resistance and Transmission among Human Immunodeficiency Virus-Infected Patients in Ho Chi Minh City, Vietnam.

Mai TQ, Martinez E, Menon R, Van Anh NT, Hien NT, Marais BJ, Sintchenko V.

Am J Trop Med Hyg. 2018 Dec;99(6):1397-1406. doi: 10.4269/ajtmh.18-0185.

PMID:
30382014
8.

Burkholderia lata Infections from Intrinsically Contaminated Chlorhexidine Mouthwash, Australia, 2016.

Leong LEX, Lagana D, Carter GP, Wang Q, Smith K, Stinear TP, Shaw D, Sintchenko V, Wesselingh SL, Bastian I, Rogers GB.

Emerg Infect Dis. 2018 Nov;24(11):2109-2111. doi: 10.3201/eid2411.171929.

9.

Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.

CRyPTIC Consortium and the 100,000 Genomes Project, Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, Golubchik T, Gonzalo X, Grandjean L, He G, Guthrie JL, Hoosdally S, Hunt M, Iqbal Z, Ismail N, Johnston J, Khanzada FM, Khor CC, Kohl TA, Kong C, Lipworth S, Liu Q, Maphalala G, Martinez E, Mathys V, Merker M, Miotto P, Mistry N, Moore DAJ, Murray M, Niemann S, Omar SV, Ong RT, Peto TEA, Posey JE, Prammananan T, Pym A, Rodrigues C, Rodrigues M, Rodwell T, Rossolini GM, Sánchez Padilla E, Schito M, Shen X, Shendure J, Sintchenko V, Sloutsky A, Smith EG, Snyder M, Soetaert K, Starks AM, Supply P, Suriyapol P, Tahseen S, Tang P, Teo YY, Thuong TNT, Thwaites G, Tortoli E, van Soolingen D, Walker AS, Walker TM, Wilcox M, Wilson DJ, Wyllie D, Yang Y, Zhang H, Zhao Y, Zhu B.

N Engl J Med. 2018 Oct 11;379(15):1403-1415. doi: 10.1056/NEJMoa1800474. Epub 2018 Sep 26.

10.

Whole-genome sequencing reveals genetic signature of bedaquiline resistance in a clinical isolate of Mycobacterium tuberculosis.

Chawla K, Martinez E, Kumar A, Shenoy VP, Sintchenko V.

J Glob Antimicrob Resist. 2018 Dec;15:103-104. doi: 10.1016/j.jgar.2018.09.006. Epub 2018 Sep 21.

PMID:
30248414
11.

Retrospective use of whole genome sequencing to better understand an outbreak of Salmonella enterica serovar Mbandaka in New South Wales, Australia.

Lindsay C, Flint J, Lilly K, Hope K, Wang Q, Howard P, Sintchenko V, Durrheim DN.

Western Pac Surveill Response J. 2018 Apr 23;9(2):20-25. doi: 10.5365/wpsar.2017.8.4.008. eCollection 2018 Apr-Jun.

12.

Mutations associated with in vitro resistance to bedaquiline in Mycobacterium tuberculosis isolates in Australia.

Martinez E, Hennessy D, Jelfs P, Crighton T, Chen SC, Sintchenko V.

Tuberculosis (Edinb). 2018 Jul;111:31-34. doi: 10.1016/j.tube.2018.04.007. Epub 2018 Apr 25.

PMID:
30029911
13.

Novel multiplex PCR assay for identification and subtyping of enteroinvasive Escherichia coli and differentiation from Shigella based on target genes selected by comparative genomics.

Dhakal R, Wang Q, Lan R, Howard P, Sintchenko V.

J Med Microbiol. 2018 Sep;67(9):1257-1264. doi: 10.1099/jmm.0.000784. Epub 2018 Jul 3.

PMID:
29969087
14.

Recurrence of tuberculosis in a low-incidence setting: a retrospective cross-sectional study augmented by whole genome sequencing.

Parvaresh L, Crighton T, Martinez E, Bustamante A, Chen S, Sintchenko V.

BMC Infect Dis. 2018 Jun 7;18(1):265. doi: 10.1186/s12879-018-3164-z.

15.

Novel Salmonella enterica Serovar Typhimurium Genotype Levels as Herald of Seasonal Salmonellosis Epidemics.

Sotomayor C, Wang Q, Arnott A, Howard P, Hope K, Lan R, Sintchenko V.

Emerg Infect Dis. 2018 Jun;24(6):1079-1082. doi: 10.3201/eid2406.171096.

16.

Seven Salmonella Typhimurium Outbreaks in Australia Linked by Trace-Back and Whole Genome Sequencing.

Ford L, Wang Q, Stafford R, Ressler KA, Norton S, Shadbolt C, Hope K, Franklin N, Krsteski R, Carswell A, Carter GP, Seemann T, Howard P, Valcanis M, Castillo CFS, Bates J, Glass K, Williamson DA, Sintchenko V, Howden BP, Kirk MD.

Foodborne Pathog Dis. 2018 May;15(5):285-292. doi: 10.1089/fpd.2017.2353. Epub 2018 Mar 20.

PMID:
29638170
17.

Relentless spread and adaptation of non-typeable vanA vancomycin-resistant Enterococcus faecium: a genome-wide investigation.

van Hal SJ, Beukers AG, Timms VJ, Ellem JA, Taylor P, Maley MW, Newton PJ, Ferguson JK, Lee A, Chen SC, Sintchenko V.

J Antimicrob Chemother. 2018 Jun 1;73(6):1487-1491. doi: 10.1093/jac/dky074.

PMID:
29566173
18.

Multidrug-Resistant Salmonella enterica 4,[5],12:i:- Sequence Type 34, New South Wales, Australia, 2016-2017.

Arnott A, Wang Q, Bachmann N, Sadsad R, Biswas C, Sotomayor C, Howard P, Rockett R, Wiklendt A, Iredell JR, Sintchenko V.

Emerg Infect Dis. 2018 Apr;24(4):751-753. doi: 10.3201/eid2404.171619.

19.

Proteomic Adaptation of Australian Epidemic Bordetella pertussis.

Luu LDW, Octavia S, Zhong L, Raftery MJ, Sintchenko V, Lan R.

Proteomics. 2018 Apr;18(8):e1700237. doi: 10.1002/pmic.201700237.

PMID:
29464899
20.

Detection and incidence of Bordetella holmesii in respiratory specimens from patients with pertussis-like symptoms in New South Wales, Australia.

Fong W, Timms V, Holmes N, Sintchenko V.

Pathology. 2018 Apr;50(3):322-326. doi: 10.1016/j.pathol.2017.10.014. Epub 2018 Feb 15.

PMID:
29455870
21.

Whole Genome Sequencing of Candida glabrata for Detection of Markers of Antifungal Drug Resistance.

Biswas C, Chen SC, Halliday C, Martinez E, Rockett RJ, Wang Q, Timms VJ, Dhakal R, Sadsad R, Kennedy KJ, Playford G, Marriott DJ, Slavin MA, Sorrell TC, Sintchenko V.

J Vis Exp. 2017 Dec 28;(130). doi: 10.3791/56714.

PMID:
29364212
22.

Incorporating Whole-Genome Sequencing into Public Health Surveillance: Lessons from Prospective Sequencing of Salmonella Typhimurium in Australia.

Ford L, Carter GP, Wang Q, Seemann T, Sintchenko V, Glass K, Williamson DA, Howard P, Valcanis M, Castillo CFS, Sait M, Howden BP, Kirk MD.

Foodborne Pathog Dis. 2018 Mar;15(3):161-167. doi: 10.1089/fpd.2017.2352. Epub 2018 Jan 16.

PMID:
29336594
23.

Genome Sequencing Links Persistent Outbreak of Legionellosis in Sydney (New South Wales, Australia) to an Emerging Clone of Legionella pneumophila Sequence Type 211.

Timms VJ, Rockett R, Bachmann NL, Martinez E, Wang Q, Chen SC, Jeoffreys N, Howard PJ, Smith A, Adamson S, Gilmour R, Sheppeard V, Sintchenko V.

Appl Environ Microbiol. 2018 Feb 14;84(5). pii: e02020-17. doi: 10.1128/AEM.02020-17. Print 2018 Mar 1.

24.

Aiming for zero tuberculosis transmission in low-burden countries.

Marais BJ, Walker TM, Cirillo DM, Raviglione M, Abubakar I, van der Werf MJ, Boehme C, Niemann S, Castro KG, Zumla A, Sintchenko V, Crook DW.

Lancet Respir Med. 2017 Nov;5(11):846-848. doi: 10.1016/S2213-2600(17)30382-X. Epub 2017 Oct 13. No abstract available.

PMID:
29033268
25.

Comparative genomics of Australian and international isolates of Salmonella Typhimurium: correlation of core genome evolution with CRISPR and prophage profiles.

Fu S, Hiley L, Octavia S, Tanaka MM, Sintchenko V, Lan R.

Sci Rep. 2017 Aug 29;7(1):9733. doi: 10.1038/s41598-017-06079-1.

26.

Drug resistance and Mycobacterium tuberculosis strain diversity in TB/HIV co-infected patients in Ho Chi Minh city, Vietnam.

Mai TQ, Van Anh NT, Hien NT, Lan NH, Giang DC, Hang PTT, Lan NTN, Marais BJ, Sintchenko V.

J Glob Antimicrob Resist. 2017 Sep;10:154-160. doi: 10.1016/j.jgar.2017.07.003. Epub 2017 Jul 22.

PMID:
28743648
27.

Francisella tularensis ssp. holarctica in Ringtail Possums, Australia.

Eden JS, Rose K, Ng J, Shi M, Wang Q, Sintchenko V, Holmes EC.

Emerg Infect Dis. 2017 Jul;23(7):1198-1201. doi: 10.3201/eid2307.161863.

28.

Epidemiology and whole genome sequencing of an ongoing point-source Salmonella Agona outbreak associated with sushi consumption in western Sydney, Australia 2015.

Thompson CK, Wang Q, Bag SK, Franklin N, Shadbolt CT, Howard P, Fearnley EJ, Quinn HE, Sintchenko V, Hope KG.

Epidemiol Infect. 2017 Jul;145(10):2062-2071. doi: 10.1017/S0950268817000693. Epub 2017 May 2.

PMID:
28462733
29.

Pooling sputum samples to improve the feasibility of Xpert® MTB/RIF in systematic screening for tuberculosis.

Ho J, Jelfs P, Nguyen PT, Sintchenko V, Fox GJ, Marks GB.

Int J Tuberc Lung Dis. 2017 May 1;21(5):503-508. doi: 10.5588/ijtld.16.0846.

PMID:
28399964
30.

Identification of genetic markers of resistance to echinocandins, azoles and 5-fluorocytosine in Candida glabrata by next-generation sequencing: a feasibility study.

Biswas C, Chen SC, Halliday C, Kennedy K, Playford EG, Marriott DJ, Slavin MA, Sorrell TC, Sintchenko V.

Clin Microbiol Infect. 2017 Sep;23(9):676.e7-676.e10. doi: 10.1016/j.cmi.2017.03.014. Epub 2017 Mar 23.

31.

Genomic heterogeneity of Salmonella enterica serovar Typhimurium bacteriuria from chronic infection.

Octavia S, Wang Q, Tanaka MM, Sintchenko V, Lan R.

Infect Genet Evol. 2017 Jul;51:17-20. doi: 10.1016/j.meegid.2017.03.004. Epub 2017 Mar 7.

PMID:
28279807
32.

Characterisation of the Bordetella pertussis secretome under different media.

Luu LDW, Octavia S, Zhong L, Raftery M, Sintchenko V, Lan R.

J Proteomics. 2017 Mar 31;158:43-51. doi: 10.1016/j.jprot.2017.02.010. Epub 2017 Feb 24.

PMID:
28242451
33.

Evolution of Variable Number Tandem Repeats and Its Relationship with Genomic Diversity in Salmonella Typhimurium.

Fu S, Octavia S, Wang Q, Tanaka MM, Tay CY, Sintchenko V, Lan R.

Front Microbiol. 2016 Dec 26;7:2002. doi: 10.3389/fmicb.2016.02002. eCollection 2016.

34.

Epidemic spread of multidrug-resistant tuberculosis in China.

Marais BJ, Sintchenko V.

Lancet Infect Dis. 2017 Mar;17(3):238-239. doi: 10.1016/S1473-3099(16)30526-6. Epub 2016 Dec 3. No abstract available.

PMID:
27919642
35.

Transmission of multi-drug resistant tuberculosis in Mongolia is driven by Beijing strains of Mycobacterium tuberculosis resistant to all first-line drugs.

Gurjav U, Erkhembayar B, Burneebaatar B, Narmandakh E, Tumenbayar O, Hill-Cawthorne GA, Marais BJ, Sintchenko V.

Tuberculosis (Edinb). 2016 Dec;101:49-53. doi: 10.1016/j.tube.2016.07.010. Epub 2016 Jul 26.

PMID:
27865397
36.
37.

Whole Genome Sequencing Demonstrates Limited Transmission within Identified Mycobacterium tuberculosis Clusters in New South Wales, Australia.

Gurjav U, Outhred AC, Jelfs P, McCallum N, Wang Q, Hill-Cawthorne GA, Marais BJ, Sintchenko V.

PLoS One. 2016 Oct 13;11(10):e0163612. doi: 10.1371/journal.pone.0163612. eCollection 2016.

38.

SnpFilt: A pipeline for reference-free assembly-based identification of SNPs in bacterial genomes.

Chan CHS, Octavia S, Sintchenko V, Lan R.

Comput Biol Chem. 2016 Dec;65:178-184. doi: 10.1016/j.compbiolchem.2016.09.004. Epub 2016 Sep 9.

PMID:
27647159
39.

Whole genome sequencing of Salmonella Typhimurium illuminates distinct outbreaks caused by an endemic multi-locus variable number tandem repeat analysis type in Australia, 2014.

Phillips A, Sotomayor C, Wang Q, Holmes N, Furlong C, Ward K, Howard P, Octavia S, Lan R, Sintchenko V.

BMC Microbiol. 2016 Sep 15;16:211. doi: 10.1186/s12866-016-0831-3.

40.

Better colonisation of newly emerged Bordetella pertussis in the co-infection mouse model study.

Safarchi A, Octavia S, Luu LD, Tay CY, Sintchenko V, Wood N, Marshall H, McIntyre P, Lan R.

Vaccine. 2016 Jul 25;34(34):3967-71. doi: 10.1016/j.vaccine.2016.06.052. Epub 2016 Jun 23.

PMID:
27346304
41.

Whole-genome sequencing of Mycobacterium tuberculosis for rapid diagnostics: feasibility of a decentralised model.

Martinez E, Bustamante A, Menon R, Wang Q, Jelfs P, Marais B, Chen SC, Sintchenko V.

Lancet Respir Med. 2016 Apr;4(4):e13-4. doi: 10.1016/S2213-2600(16)00092-8. Epub 2016 Apr 4. No abstract available.

PMID:
27304367
42.

Nontoxic Metal-Cyclam Complexes, a New Class of Compounds with Potency against Drug-Resistant Mycobacterium tuberculosis.

Yu M, Nagalingam G, Ellis S, Martinez E, Sintchenko V, Spain M, Rutledge PJ, Todd MH, Triccas JA.

J Med Chem. 2016 Jun 23;59(12):5917-21. doi: 10.1021/acs.jmedchem.6b00432. Epub 2016 Jun 7.

PMID:
27214150
43.

Tuberculosis and HIV co-infection in Vietnam.

Trinh QM, Nguyen HL, Do TN, Nguyen VN, Nguyen BH, Nguyen TV, Sintchenko V, Marais BJ.

Int J Infect Dis. 2016 May;46:56-60. doi: 10.1016/j.ijid.2016.03.021. Epub 2016 Mar 29.

44.

dfrA thyA Double Deletion in para-Aminosalicylic Acid-Resistant Mycobacterium tuberculosis Beijing Strains.

Moradigaravand D, Grandjean L, Martinez E, Li H, Zheng J, Coronel J, Moore D, Török ME, Sintchenko V, Huang H, Javid B, Parkhill J, Peacock SJ, Köser CU.

Antimicrob Agents Chemother. 2016 May 23;60(6):3864-7. doi: 10.1128/AAC.00253-16. Print 2016 Jun. No abstract available.

45.

Concordance of four commercial enzyme immunoassay and three immunoblot formats for the detection of Lyme borreliosis antibodies in human serum: the two-tier approach remains.

Dickeson DJ, Chen SC, Sintchenko VG.

Pathology. 2016 Apr;48(3):251-6. doi: 10.1016/j.pathol.2016.02.004. Epub 2016 Mar 5.

PMID:
27020501
46.

Identifying Likely Transmission Pathways within a 10-Year Community Outbreak of Tuberculosis by High-Depth Whole Genome Sequencing.

Outhred AC, Holmes N, Sadsad R, Martinez E, Jelfs P, Hill-Cawthorne GA, Gilbert GL, Marais BJ, Sintchenko V.

PLoS One. 2016 Mar 3;11(3):e0150550. doi: 10.1371/journal.pone.0150550. eCollection 2016.

47.

Genomic dissection of Australian Bordetella pertussis isolates from the 2008-2012 epidemic.

Safarchi A, Octavia S, Wu SZ, Kaur S, Sintchenko V, Gilbert GL, Wood N, McIntyre P, Marshall H, Keil AD, Lan R.

J Infect. 2016 Apr;72(4):468-77. doi: 10.1016/j.jinf.2016.01.005. Epub 2016 Jan 27.

PMID:
26826518
48.

The relationship between Bordetella pertussis genotype and clinical severity in Australian children with pertussis.

Clarke M, McIntyre PB, Blyth CC, Wood N, Octavia S, Sintchenko V, Giles L, Quinn H, Hill V, Hanly G, Lan R, Marshall HS.

J Infect. 2016 Feb;72(2):171-8. doi: 10.1016/j.jinf.2015.11.004. Epub 2015 Dec 8.

PMID:
26675318
49.

Antibiotic susceptibility of diverse Mycobacterium abscessus complex strains in New South Wales, Australia.

Chua KY, Bustamante A, Jelfs P, Chen SC, Sintchenko V.

Pathology. 2015 Dec;47(7):678-82. doi: 10.1097/PAT.0000000000000327.

PMID:
26517625
50.

Spatiotemporal evidence for cross-border spread of MDR-TB along the Trans-Siberian Railway line.

Gurjav U, Burneebaatar B, Narmandakh E, Tumenbayar O, Ochirbat B, Hill-Cawthorne GA, Marais BJ, Sintchenko V.

Int J Tuberc Lung Dis. 2015 Nov;19(11):1376-82. doi: 10.5588/ijtld.15.0361.

PMID:
26467591

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