By Professor Ruiting Lan

Journal articles

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

Octavia S; Lan R, 2009, 'Multiple-locus variable-number tandem-repeat analysis of Salmonella enterica serovar Typhi', Journal of Clinical Microbiology, 47, pp. 2369 - 2376

Tay CY; Mitchell HM; Dong Q; Goh K; Dawes IW; Lan R, 2009, 'Population structure of Helicobacter pylori among ethnic groups in Malaysia: Recent acquisition of the bacterium by the Malay population', BMC Microbiology, 9, pp. 126, http://dx.doi.org/10.1186/1471-2180-9-126

Lan R; Reeves PR; Octavia S, 2009, 'Population structure, origins and evolution of major Salmonella enterica clones', Infection Genetics and Evolution, 9, pp. 996 - 1005

Chan W; Maharjan RP; Reeves PR; Sintchenko V; Gilbert GL; Lan R, 2009, 'Rapid and accurate typing of Bordetella pertussis targeting genes encoding acellular vaccine antigens using real time PCR and High Resolution Melt analysis', Journal of Microbiological Methods, 77, pp. 326 - 329

Lan R; Reeves PR; Octavia S, 2009, 'WITHDRAWN: Population structure, origins and evolution of major Salmonella enterica clones', Infection, Genetics and Evolution, http://dx.doi.org/10.1016/j.meegid.2009.02.004

Feng L; Reeves PR; Lan R; Ren Y; Gao C; Zhou Z; Ren Y; Cheng J; Weng W; Wang J; Qian WL; Li D; Wang L, 2008, 'A recalibrated molecular clock and independent origins for the cholera pandemic clones', PLoS One, 3, pp. 4053 - 4063

Maharjan RP; Gu C; Reeves PR; Sintchenko V; Gilbert GL; Lan R, 2008, 'Genome-wide analysis of single nucleotide polymorphisms in Bordetella pertussis using comparative genomic sequencing', Research in Microbiology, 159, pp. 602 - 608

Tay CY; Reeves PR; Lan R, 2008, 'Importation of the major pilin TcpA gene and frequent recombination drive the divergence of the Vibrio pathogenicity island in Vibrio cholerae', FEMS Microbiology Letters, 289, pp. 210 - 218

Lan R; Stevenson G; Donohoe K; Ward LA; Reeves PR, 2007, 'Molecular markers with potential to replace phage typing for Salmonella enterica serovar typhimurium', Journal of Microbiological Methods, 68, pp. 145 - 156

Octavia S; Lan R, 2007, 'Single-Nucleotide-Polymorphism Typing and Genetic Relationships of Salmonella enterica Serovar Typhi Isolates', Journal of Clinical Microbiology, 45, pp. 3795 - 3801

Zaghloul L; Tang C; Chin H; Bek EJ; Lan R; Tanaka M, 2007, 'The distribution of insertion sequences in the genome of Shigella flexneri strain 2457T', FEMS Microbiology Letters, 277, pp. 197 - 204

Hu H; Lan R; Reeves PR, 2006, 'Adaptation of multilocus sequencing for studying variation within a major clone: Evolutionary relationships of Salmonella enterica serovar typhimurium', Genetics, 172, pp. 743 - 750

Octavia S; Lan R, 2006, 'Frequent recombination and low level of clonality within Salmonella enterica subspecies I', Microbiology, 152, pp. 1099 - 1108

Wirth T; Falush D; Lan R; Colles F; Mensa P; Wieler L; Karch H; Reeves PR; Maiden M; Ochman H; Achtman M, 2006, 'Sex and virulence in Escherichia coli: an evolutionary perspective', Molecular Microbiology, 60, pp. 1136 - 1151

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