By Professor Ruiting Lan

Journal articles

Zhang N; Lan R; Sun Q; Wang J; Wang Y; Zhang J; Yu D; Hu W; Hu S; Dai H; Du P; Wang H; Xu J, 2014, 'Genomic portrait of the evolution and epidemic spread of a recently emerged multidrug-resistant shigella flexneri clone in China', Journal of Clinical Microbiology, 52, pp. 1119 - 1126, http://dx.doi.org/10.1128/JCM.02669-13

Wang J; Knirel YA; Lan R; Senchenkova SN; Luo X; Perepelov AV; Wang Y; Shashkov AS; Xu J; Sun Q, 2014, 'Identification of an O-acyltransferase gene (oacB) that mediates 3-and 4-O-acetylation of Rhamnose III in Shigella flexneri O antigens', Journal of Bacteriology, 196, pp. 1525 - 1531, http://dx.doi.org/10.1128/JB.01393-13

Lam C; Octavia S; Sintchenko V; Gilbert GL; Lan R, 2014, 'Investigating genome reduction of Bordetella pertussis using a multiplex PCR-based reverse line blot assay (mPCR/RLB)', BMC Research Notes, 7, http://dx.doi.org/10.1186/1756-0500-7-727

Lam C; Octavia S; Ricafort L; Sintchenko V; Gilbert GL; Wood N; McIntyre P; Marshall H; Guiso N; Keil AD; Lawrence A; Robson J; Hogg G; Lan R, 2014, 'Rapid increase in pertactin-deficient Bordetella pertussis isolates, Australia', Emerging Infectious Diseases, 20, pp. 626 - 633, http://dx.doi.org/10.3201/eid2004.131478

Wang J; Lan R; Knirel YA; Luo X; Senchenkova SN; Shashkov AS; Xu J; Sun Q, 2014, 'Serological identification and prevalence of a novel o-antigen epitope linked to 3-and 4-o-acetylated rhamnose III of lipopolysaccharide in shigella flexneri', Journal of Clinical Microbiology, 52, pp. 2033 - 2038, http://dx.doi.org/10.1128/JCM.00197-14

Sun Q; Knirel YA; Wang J; Luo X; Senchenkova SN; Lan R; Shashkov AS; Xu J, 2014, 'Serotype-converting bacteriophage SfII encodes an acyltransferase protein that mediates 6-O-acetylation of GlcNAc in Shigella flexneri O-antigens, conferring on the host a novel O-antigen epitope', Journal of Bacteriology, 196, pp. 3656 - 3666, http://dx.doi.org/10.1128/JB.02009-14

Dadigamuwage A, 2014, 'Population structure and virulence content of avian pathogenic Escherichia coli isolated from outbreaks in Sri Lanka', Veterinary Microbiology, 168, pp. 403 - 412, http://dx.doi.org/10.1016/j.vetmic.2013.11.028

Pang S; Octavia S; Feng L; Liu B; Reeves PR; Lan R; Wang L, 2013, 'Genomic diversity and adaptation of Salmonella enterica serovar Typhimurium from analysis of six genomes of different phage types', BMC Genomics, 14, http://dx.doi.org/10.1186/1471-2164-14-718

Mahendran V; Tan YS; Riordan SM; Grimm MC; Day AS; Lemberg DA; Octavia S; Lan R; Zhang L, 2013, 'The Prevalence and Polymorphisms of Zonula Occluden Toxin Gene in Multiple Campylobacter concisus Strains Isolated from Saliva of Patients with Inflammatory Bowel Disease and Controls', Plos One, 8, http://dx.doi.org/10.1371/journal.pone.0075525

Liu Z; Zheng H; Gottschalk M; Bai X; Lan R; Ji S; Liu H; Xu J, 2013, 'Development of Multiplex PCR Assays for the Identification of the 33 Serotypes of Streptococcus suis', Plos One, 8, http://dx.doi.org/10.1371/journal.pone.0072070

Chen C; Zhang W; Zheng H; Lan R; Wang H; Du P; Bai X; Ji S; Meng Q; Jin D; Liu K; Jing H; Ye C; Gao GF; Wang L; Gottschalk M; Xu J, 2013, 'Minimum core genome sequence typing of bacterial pathogens: A unified approach for clinical and public health microbiology', Journal of Clinical Microbiology, 51, pp. 2582 - 2591, http://dx.doi.org/10.1128/JCM.00535-13

Sun Q; Lan R; Wang J; Xia S; Wang Y; Wang Y; Jin D; Yu B; Knirel YA; Xu J, 2013, 'Identification and Characterization of a Novel Shigella flexneri Serotype Yv in China', Plos One, 8, http://dx.doi.org/10.1371/journal.pone.0070238

Octavia S; Salim A; Kurniawan J; Lam C; Leung Q; Ahsan S; Reeves PR; Nair GB; Lan R, 2013, 'Population Structure and Evolution of Non-O1/Non-O139 Vibrio cholerae by Multilocus Sequence Typing', Plos One, 8, http://dx.doi.org/10.1371/journal.pone.0065342

Bai X; Zhao A; Lan R; Xin Y; Xie H; Meng Q; Jin D; Yu B; Sun H; Lu S; Xu J; Xiong Y, 2013, 'Shiga Toxin-Producing Escherichia coli in Yaks (Bos grunniens) from the Qinghai-Tibetan Plateau, China', Plos One, 8, http://dx.doi.org/10.1371/journal.pone.0065537

Meng Q; Xiong Y; Lan R; Ye C; Wang T; Qi T; Wang Y; Wang H; Bai X; Bai X; Ji S; Jin D; Yuan X; Zhao A; Sun H; Jing H; Xu J, 2013, 'SNP genotyping of enterohemorrhagic Escherichia coli O157: H7 isolates from China and genomic identity of the 1999 Xuzhou outbreak', Infection Genetics and Evolution, 16, pp. 275 - 281, http://dx.doi.org/10.1016/j.meegid.2013.02.018

Luo Y; Ye J; Jin D; Ding G; Zhang Z; Mei L; Octavia S; Lan R, 2013, 'Molecular analysis of non-O1/non-O139 Vibrio cholerae isolated from hospitalised patients in China', BMC Microbiology, 13, http://dx.doi.org/10.1186/1471-2180-13-52

Sun Q; Lan R; Wang Y; Wang J; Wang Y; Li P; Du P; Xu J, 2013, 'Isolation and genomic characterization of SfI, a serotype-converting bacteriophage of Shigella flexneri', BMC Microbiology, 13, http://dx.doi.org/10.1186/1471-2180-13-39

Xu YM; Xu XF; Lan R; Xiong Y; Ye C; Ren ZH; Liu L; Zhao A; Wu LF; Xu J, 2013, 'An O Island 172 Encoded RNA Helicase Regulates the Motility of Escherichia coli O157:H7', PLoS ONE, 8, pp. Article number e64211, http://dx.doi.org/10.1371/journal.pone.0064211

Zhao H; Chen C; Xiong Y; Lan R; Wang H; Yao X; Zhang X; Sun H; Zhao A; Bai X; Cheng Q; Ye C; Xu J, 2013, 'Global Transcriptional and Phenotypic Analyses of Escherichia coli O157:H7 Strain Xuzhou21 and Its pO157_Sal Cured Mutant', PLoS ONE, 8, pp. Article numbere65466, http://dx.doi.org/10.1371/journal.pone.0065466

Sun Q; Lan R; Wang Y; Wang J; Xia S; Wang Y; Zhang J; Yu D; Li Z; Jing H; Xu J, 2013, 'Identification of a divergent O-acetyltransferase gene oac1b from Shigella flexneri serotype 1b strains.', Emerging Microbes & Infections, 1, pp. 1 - 7, http://www.nature.com/emi/journal/v1/n9/full/emi201222a.html

Knirel YA; Lan R; Senchenkova SN; Wang J; Shashkov AS; Wang YM; Perepelov AV; Xiong Y; Xu J; Sun QZ, 2013, 'O-antigen structure of Shigella flexneri serotype Yv and effect of the lpt-O gene variation on phosphoethanolamine modification of S. flexneri O-antigens', Glycobiology, 23, pp. 475 - 485, http://dx.doi.org/10.1093/glycob/cws222

Shashkov AS; Senchenkova SN; Sun QZ; Lan R; Wang J; Perepelov AV; Knirel YA; Xu J, 2013, 'Structure of the O-antigen of a novel Shigella flexneri serotype, 1d (I: 7,8)', Carbohydrate Research, 373, pp. 93 - 96, http://dx.doi.org/10.1016/j.carres.2013.03.015

Grubman A; Seeman T; Polekhina G; Walker SK; Tye H; Wilson T; Lan R; Mitchell HM; Sutton P; Ferrero RL, 2012, '618 Gene Polymorphisms in Host-Adapted Helicobacter pylori: Loss of Type Four Secretion Functions Independent of the cag Pathogenicity Island', Gastroenterology, 142, pp. S - 121, http://dx.doi.org/10.1016/s0016-5085(12)60458-2

Xiong Y; Wang P; Lan R; Ye C; Wang H; Ren J; Jing H; Wang Y; Zhou Z; Bai X; Cui Z; Luo X; Zhao A; Wang Y; Zhang S; Sun H; Wang L; Xu J, 2012, 'A novel escherichia coli O157:H7 clone causing a major hemolytic uremic syndrome outbreak in China', PLoS ONE, 7, pp. e36144, http://dx.doi.org/10.1371/journal.pone.0036144

Sun Q; Knirel YA; Lan R; Wang J; Senchenkova SN; Jin D; Shashkov AS; Xia S; Perepelov AV; Chen Q; Wang Y; Wang H; Xu J, 2012, 'A novel plasmid-encoded serotype conversion mechanism through addition of phosphoethanolamine to the O-antigen of shigella flexneri.', PLoS ONE, 7, pp. e46095, http://dx.doi.org/10.1371/journal.pone.0046095

Luo X; Sun Q; Lan R; Wang J; Li Z; Xia S; Zhang J; Wang Y; Jin D; Wang Y; Wang Y; Yu B; Cui Z; Xu J, 2012, 'Emergence of a novel Shigella flexneri serotype 1d in China.', Diagnostic Microbiology and Infectious Disease, 74, pp. 316 - 319, http://dx.doi.org/10.1016/j.diagmicrobio.2012.06.022

Wang Y; Zhao A; Zhu R; Lan R; Jin D; Cui Z; Wang Y; Li Z; Wang Y; Xu J; Ye C, 2012, 'Genetic diversity and molecular typing of Listeria monocytogenes in China.', BMC Microbiology, 12, pp. 1 - 9, http://www.biomedcentral.com/1471-2180/12/119

Pang S; Octavia S; Reeves PR; Wang Q; Gilbert GL; Sintchenko V; Lan R, 2012, 'Genetic relationships of phage types and single nucleotide polymorphism typing of Salmonella enterica serovar Typhimurium', Journal of Clinical Microbiology, 50, pp. 727 - 734, http://dx.doi.org/10.1128/JCM.01284-11

Ismail Y; Mahendran V; Octavia S; Day AS; Riordan S; Grimm M; Lan R; Lemberg DA; Tran TAT; Zhang L, 2012, 'Investigation of the enteric pathogenic potential of oral campylobacter concisus strains isolated from patients with inflammatory bowel disease', PLoS One, 7(5), pp. 1 - 11, http://www.plosone.org/

Bai L; Xia S; Lan R; Liu L; Ye C; Wang Y; Jin D; Cui Z; Jing H; Xiong Y; Bai X; Sun H; Zhang J; Wang L; Xu J, 2012, 'Isolation and characterization of cytotoxic,aggregative Citrobacter freundii.', PLoS One, 7, pp. e33054, http://dx.doi.org/10.1371/journal.pone.0033054

Lam C; Octavia S; Reeves PR; Lan R, 2012, 'Multi-locus variable number tandem repeat analysis of 7th pandemic vibrio cholerae.', BMC Microbiology, 12, pp. 1 - 11, http://www.biomedcentral.com/1471-2180/12/82

Octavia S; Sintchenko V; Gilbert GL; Lawrence AL; Keil AD; Hogg G; Lan R, 2012, 'Newly emerging clones of bordetella pertussis carrying prn2 and ptxP3 alleles implicated in Australian pertussis epidemic in 2008-2010', Journal of Infectious Diseases, 205, pp. 1220 - 1224, http://dx.doi.org/10.1093/infdis/jis178

Lam C; Octavia S; Bahrame Z; Sintchenko V; Gilbert GL; Lan R, 2012, 'Selection and emergence of pertussis toxin promoter ptxP3 allele in the evolution of Bordetella pertussis', Infection Genetics and Evolution, 12, pp. 492 - 495, http://dx.doi.org/10.1016/j.meegid.2012.01.001

Cashmore AW; Lan R; Macartney KK, 2011, 'Bug breakfast in the Bulletin. Pertussis in NSW and its prevention in infants and children.', New South Wales Public Health Bulletin, 22, pp. 236, http://dx.doi.org/10.1071/nb11032

Cashmore AW; Lan R; Macartney K, 2011, 'Bug breakfast in the Bulletin. Pertussis in NSW and its prevention in infants and children.', NSW Public Health Bulletin, 22, pp. 236 - 236

Lin FP; Lan R; Sintchenko V; Kong F; Gilbert GL; Coiera E, 2011, 'Computational genome-wide analysis of phylogenetic profiles reveal potential virulence genes of Streptococcus agalactiae', PLoS One, 6, pp. e17964, http://dx.doi.org/10.1371/journal.pone.0017964

Sun Q; Lan R; Wang Y; Zhao A; Zhang S; Wang J; Wang Y; Xia S; Jin D; Cui Z; Zhao H; Li Z; Ye C; Zhang S; Jing H; Xu J, 2011, 'Development of a multiplex PCR assay targeting O-antigen modification genes for molecular serotyping of Shigella flexneri', Journal of Clinical Microbiology, 49, pp. 3766 - 3770, http://dx.doi.org/10.1128/JCM.01259-11

Sun Q; Lan R; Wang Y; Wang J; Luo X; Zhang S; Li P; Wang Y; Ye C; Jing H; Xu J, 2011, 'Genesis of a novel Shigella flexneri serotype by sequential infection of serotype-converting bacteriophages SfX and SfI', BMC Microbiology, 11, pp. 269, http://dx.doi.org/10.1186/1471-2180-11-269

Zheng X; Zheng H; Lan R; Ye C; Wang Y; Zhang J; Jing H; Chen C; Segura M; Gottschalk M; Xu J, 2011, 'Identification of genes and genomic islands correlated with high pathogenicity in Streptococcus suis using whole genome tiling microarrays', PLoS One, 6, pp. e17987, http://www.plosone.org/article/info%3Adoi/10.1371/journal.pone.0017987

Octavia S; Maharjan RP; Sintchenko V; Stevenson GM; Reeves PR; Gilbert GL; Lan R, 2011, 'Insight into evolution of Bordetella pertussis from comparative genomic analysis: Evidence of vaccine-driven selection', Molecular Biology and Evolution, 28, pp. 707 - 715, http://dx.doi.org/10.1093/molbev/msq245

Wang P; Xiong Y; Lan R; Ye C; Wang H; Ren J; Jing H; Wang Y; Zhou Z; Cui Z; Zhao H; Chen Y; Jin D; Bai X; Zhao A; Wang Y; Zhang S; Sun H; Li J; Wang T; Wang L; Xu J, 2011, 'PO157-Sal, a novel conjugative plasmid detected in outbreak isolates of Escherichia coli O157:H7', Journal of Clinical Microbiology, 49, pp. 1594 - 1597, http://dx.doi.org/10.1128/JCM.02530-10

Octavia S; Ch''ng SL; Xia Q; Duong A; Tanaka M; Fukushima H; Lan R, 2011, 'Population structure and evolution of pathogenicity of Yersinia pseudotuberculosis', Applied and Environmental Microbiology, 77, pp. 768 - 775, http://dx.doi.org/10.1128/AEM.01993-10

Reeves PR; Liu B; Zhou Z; Li D; Guo D; Ren Y; Clabots C; Lan R; Johnson J; Wang L, 2011, 'Rates of mutation and host transmission for an escherichia coli clone over 3 years', PLoS One, 6, pp. Article number e26907, http://dx.doi.org/10.1371/journal.pone.0026907

Lan R, 2010, 'Bordetella pertussis clones identified by multilocus variable-number tandem-repeat analysis', Emerging Infectious Diseases, 16, pp. 297 - 300

Ballouz S; Lan R; Francis AR; Tanaka M, 2010, 'Conditions for the evolution of gene clusters in bacterial genomes.', PLoS Computational Biology, 6, pp. e1000672 - e1000672, http://dx.doi.org/10.1371/journal.pcbi.1000672

Zhou Z; Li X; Liu B; Beutin L; Xu J; Ren Y; Feng L; Lan R; Reeves PR; Wang L, 2010, 'Derivation of Escherichia coli O157:H7 from its O55:H7 precursor', PLoS One, 5, pp. e8700

Ye C; Lan R; Xia S; Zhang J; Sun Q; Zhang S; Jing H; Jing H; Wang L; Li Z; Zhou Z; Zhao A; Cui Z; Cui J; Jin D; Huang L; Wang Y; Luo X; Bai X; Wang Y; Wang P; Xu Q; Xu J, 2010, 'Emergence of a new multidrug-resistant serotype X variant in an epidemic clone of Shigella flexneri', Journal of Clinical Microbiology, 48, pp. 419 - 426

Lam C; Octavia S; Reeves PR; Wang L; Lan R, 2010, 'Evolution of seventh cholera pandemic and origin of 1991 epidemic, Latin America', Emerging Infectious Diseases, 16, pp. 1130 - 1132

Octavia S; Lan R, 2010, 'Single nucleotide polymorphism typing of global Salmonella enterica serovar Typhi isolates by use of a hairpin primer real-time PCR assay', Journal of Clinical Microbiology, 48, pp. 3504 - 3509

Lin FP; Coiera E; Lan R; Sintchenko V, 2009, 'In silico prioritisation of candidate genes for prokaryotic gene function discovery: an application of phylogenetic profiles.', BMC bioinformatics, 10, pp. 86 - 86, http://dx.doi.org/10.1186/1471-2105-10-86

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