By Professor Ruiting Lan

Journal articles

Liu L; Chen D; Liu L; Lan R; Hao S; Jin W; Sun H; Wang Y; Liang Y; Xu J, 2018, 'Genetic diversity, multidrug resistance, and virulence of citrobacter freundii from diarrheal patients and healthy individuals', Frontiers in Cellular and Infection Microbiology, 8, http://dx.doi.org/10.3389/fcimb.2018.00233

Sotomayor C; Wang Q; Arnott A; Howard P; Hope K; Lan R; Sintchenko V, 2018, 'Novel salmonella enterica serovar typhimurium genotype levels as herald of seasonal salmonellosis epidemics', Emerging Infectious Diseases, 24, pp. 1079 - 1082, http://dx.doi.org/10.3201/eid2406.171096

Li H; Wang P; Lan R; Luo L; Cao X; Wang Y; Wang Y; Li H; Zhang L; Ji S; Ye C, 2018, 'Risk factors and level of Listeria monocytogenes contamination of raw pork in retail markets in China', Frontiers in Microbiology, 9, http://dx.doi.org/10.3389/fmicb.2018.01090

Luu LDW; Octavia S; Zhong L; Raftery MJ; Sintchenko V; Lan R, 2018, 'Proteomic Adaptation of Australian Epidemic Bordetella pertussis', Proteomics, 18, http://dx.doi.org/10.1002/pmic.201700237

Fu S; Hiley L; Octavia S; Tanaka MM; Sintchenko V; Lan R, 2017, 'Comparative genomics of Australian and international isolates of Salmonella Typhimurium: Correlation of core genome evolution with CRISPR and prophage profiles', Scientific Reports, 7, pp. 9733, http://dx.doi.org/10.1038/s41598-017-06079-1

Ahlstrom C; Muellner P; Lammers G; Jones M; Octavia S; Lan R; Heller J, 2017, 'Shiga toxin-producing Escherichia coli O157 shedding dynamics in an Australian beef herd', Frontiers in Veterinary Science, 4, http://dx.doi.org/10.3389/fvets.2017.00200

Meng X; Lu S; Wang Y; Lai X-H; Wen Y; Jin D; Yang J; Bai X; Zhang G; Pu J; Lan R; Xu J, 2017, 'Actinomyces vulturis sp. nov., isolated from Gyps himalayensis (vol 67, pg 1720, 2017)', INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 67, pp. 3134 - 3134, http://dx.doi.org/10.1099/ijsem.0.002235

Liu L; Lan R; Liu L; Wang Y; Zhang Y; Wang Y; Xu J, 2017, 'Antimicrobial resistance and cytotoxicity of Citrobacter spp. in Maanshan Anhui Province, China', Frontiers in Microbiology, 8, pp. 1357, http://dx.doi.org/10.3389/fmicb.2017.01357

Octavia S; Wang Q; Tanaka MM; Sintchenko V; Lan R, 2017, 'Genomic heterogeneity of Salmonella enterica serovar Typhimurium bacteriuria from chronic infection', Infection Genetics and Evolution, 51, pp. 17 - 20, http://dx.doi.org/10.1016/j.meegid.2017.03.004

Wang Y; Lu L; Lan R; Salazar JK; Liu J; Xu J; Ye C, 2017, 'Isolation and characterization of Listeria species from rodents in natural environments in China', Emerging Microbes and Infections, 6, pp. 1 - 6, http://dx.doi.org/10.1038/emi.2017.28

Luo L; Zhang Z; Wang H; Wang P; Lan R; Deng J; Miao Y; Wang Y; Wang Y; Xu J; Zhang L; Sun S; Liu X; Zhou Y; Chen X; Li Q; Ye C, 2017, 'A 12-month longitudinal study of Listeria monocytogenes contamination and persistence in pork retail markets in China', Food Control, 76, pp. 66 - 73, http://dx.doi.org/10.1016/j.foodcont.2016.12.037

Meng X; Lu S; Wang Y; Lai XH; Wen Y; Jin D; Yang J; Bai X; Zhang G; Pu J; Lan R; Xu J, 2017, 'Actinomyces vulturis sp. Nov., isolated from gyps himalayensis', International Journal of Systematic and Evolutionary Microbiology, 67, pp. 1720 - 1726, http://dx.doi.org/10.1099/ijsem.0.001851

Jones M; Octavia S; Lammers G; Heller J; Lan R, 2017, 'Population and evolutionary dynamics of Shiga-toxin producing Escherichia coli O157 in a beef herd: A longitudinal study', Environmental Microbiology, 19, pp. 1836 - 1844, http://dx.doi.org/10.1111/1462-2920.13679

Luu LDW; Octavia S; Zhong L; Raftery M; Sintchenko V; Lan R, 2017, 'Characterisation of the Bordetella pertussis secretome under different media', Journal of Proteomics, 158, pp. 43 - 51, http://dx.doi.org/10.1016/j.jprot.2017.02.010

Chung HKL; Tay A; Octavia S; Chen J; Liu F; Ma R; Lan R; Riordan SM; Grimm MC; Zhang L, 2017, 'Erratum: Genome analysis of Campylobacter concisus strains from patients with inflammatory bowel disease and gastroenteritis provides new insights into pathogenicity', Scientific Reports, 7, pp. 41113, http://dx.doi.org/10.1038/srep41113

Bai L; Wang L; Yang X; Wang J; Gan X; Wang W; Xu J; Chen Q; Lan R; Fanning S; Li F, 2017, 'Prevalence and molecular characteristics of extended-spectrum ß-lactamase genes in Escherichia coli isolated from diarrheic patients in China', Frontiers in Microbiology, 8, pp. 144, http://dx.doi.org/10.3389/fmicb.2017.00144

Chen X; Zhao X; Che J; Xiong Y; Xu Y; Zhang L; Lan R; Xia L; Walsh TR; Xu J; Lu J; Li J, 2017, 'Detection and dissemination of the colistin resistance gene, mcr-1, from isolates and faecal samples in China', Journal of Medical Microbiology, 66, pp. 119 - 125, http://dx.doi.org/10.1099/jmm.0.000425

Du P; Zheng H; Zhou J; Lan R; Ye C; Jing H; Jin D; Cui Z; Bai X; Liang J; Liu J; Xu L; Zhang W; Chen C; Xu J, 2017, 'Detection of multiple parallel transmission outbreak of streptococcus suis human infection by use of genome epidemiology, China, 2005', Emerging Infectious Diseases, 23, pp. 204 - 211, http://dx.doi.org/10.3201/eid2302.160297

Niu L; Lu S; Lai XH; Hu S; Chen C; Zhang G; Yang J; Jin D; Wang Y; Lan R; Lu G; Xie Y; Ye C; Xu J, 2017, 'Streptococcus himalayensis sp. Nov., isolated from the respiratory tract of marmota himalayana', International Journal of Systematic and Evolutionary Microbiology, 67, pp. 256 - 261, http://dx.doi.org/10.1099/ijsem.0.001609

Octavia S; Wu SZ; Kaur S; Valinsky L; Marva E; Moran-Gilad J; Lan R, 2017, 'Whole-genome sequencing and comparative genomic analysis of Bordetella pertussis isolates from the 2007–2008 epidemic in Israel', Journal of Infection, 74, pp. 204 - 207, http://dx.doi.org/10.1016/j.jinf.2016.11.012

Carbonetti NH; Wirsing von König CH; Lan R; Jacob-Dubuisson F; Cotter PA; Deora R; Merkel TJ; van Els CA; Locht C; Hozbor D; Rodriguez ME, 2017, 'Erratum for Carbonetti et al., “Highlights of the 11th International Bordetella Symposium: from Basic Biology to Vaccine Development”', mSphere, 24, pp. e00071 - e00017, http://dx.doi.org/10.1128/cvi.00071-17

Lu S; Jin D; Wu S; Yang J; Lan R; Bai X; Liu S; Meng Q; Yuan X; Zhou J; Pu J; Chen Q; Dai H; Hu Y; Xiong Y; Ye C; Xu J, 2016, 'Insights into the evolution of pathogenicity of Escherichia coli from genomic analysis of intestinal E. coli of Marmota himalayana in Qinghai-Tibet plateau of China', Emerging Microbes and Infections, 5, pp. 1 - 9, http://dx.doi.org/10.1038/emi.2016.122

Chung HKL; Tay A; Octavia S; Chen J; Liu F; Ma R; Lan R; Riordan SM; Grimm MC; Zhang L, 2016, 'Genome analysis of Campylobacter concisus strains from patients with inflammatory bowel disease and gastroenteritis provides new insights into pathogenicity', Scientific Reports, 6, http://dx.doi.org/10.1038/srep38442

Chan CHS; Octavia S; Sintchenko V; Lan R, 2016, 'SnpFilt: A pipeline for reference-free assembly-based identification of SNPs in bacterial genomes', Computational Biology and Chemistry, 65, pp. 178 - 184, http://dx.doi.org/10.1016/j.compbiolchem.2016.09.004

Carbonetti NH; Von König CHW; Lan R; Jacob-Dubuisson F; Cotter PA; Deora R; Merkel TJ; Van Els CA; Locht C; Hozbor D; Rodriguez ME, 2016, 'Highlights of the 11th international Bordetella symposium: From basic biology to vaccine development', Clinical and Vaccine Immunology, 23, pp. 842 - 850, http://dx.doi.org/10.1128/CVI.00388-16

Niu L; Lu S; Hu S; Jin D; Lai X; Yangn J; Chen C; Wang Y; Wang Y; Bai X; Lan R; Lv G; Xie Y; Ye C; Xu J, 2016, 'Streptococcus marmotae sp. Nov., isolated from the respiratory tract of marmota himalayana', International Journal of Systematic and Evolutionary Microbiology, 66, pp. 4315 - 4322, http://dx.doi.org/10.1099/ijsem.0.001350

Niu L; Lu S; Hu S; Jin D; Lai X; Yang J; Chen C; Wang Y; Bai X; Lan R; Lv G; Xie Y; Ye C; Xu J, 2016, 'Streptococcus halotolerans sp. nov. isolated from the respiratory tract of Marmota himalayana in Qinghai-Tibet plateau of China', International Journal of Systematic and Evolutionary Microbiology, 66, pp. 4211 - 4217, http://dx.doi.org/10.1099/ijsem.0.001337

Phillips A; Sotomayor C; Wang Q; Holmes N; Furlong C; Ward K; Howard P; Octavia S; Lan R; Sintchenko V, 2016, 'Whole genome sequencing of Salmonella Typhimurium illuminates distinct outbreaks caused by an endemic multi-locus variable number tandem repeat analysis type in Australia, 2014', BMC Microbiology, 16, pp. 211, http://dx.doi.org/10.1186/s12866-016-0831-3

Liu F; Lee H; Lan R; Zhang L, 2016, 'Zonula occludens toxins and their prophages in Campylobacter species', Gut Pathogens, 8, http://dx.doi.org/10.1186/s13099-016-0125-1

Li H; Lan R; Peng N; Sun J; Zhu Y, 2016, 'High resolution melting curve analysis with MATLAB-based program', Measurement Journal of the International Measurement Confederation, 90, pp. 178 - 186, http://dx.doi.org/10.1016/j.measurement.2016.04.057

Safarchi A; Octavia S; Luu LDW; Tay CY; Sintchenko V; Wood N; Marshall H; McIntyre P; Lan R, 2016, 'Better colonisation of newly emerged Bordetella pertussis in the co-infection mouse model study', Vaccine, 34, pp. 3967 - 3971, http://dx.doi.org/10.1016/j.vaccine.2016.06.052

Luo Y; Octavia S; Jin D; Ye J; Miao Z; Jiang T; Xia S; Lan R, 2016, 'US Gulf-like toxigenic O1 Vibrio cholerae causing sporadic cholera outbreaks in China', Journal of Infection, 72, pp. 564 - 572, http://dx.doi.org/10.1016/j.jinf.2016.02.005

Safarchi A; Octavia S; Wu SZ; Kaur S; Sintchenko V; Gilbert GL; Wood N; McIntyre P; Marshall H; Keil AD; Lan R, 2016, 'Genomic dissection of Australian Bordetella pertussis isolates from the 2008-2012 epidemic', Journal of Infection, 72, pp. 468 - 477, http://dx.doi.org/10.1016/j.jinf.2016.01.005

Qin T; Zhang W; Liu W; Zhou H; Ren H; Shao Z; Lan R; Xu J, 2016, 'Population structure and minimum core genome typing of Legionella pneumophila', Scientific Reports, 6, http://dx.doi.org/10.1038/srep21356

Chen D; Gong L; Walsh TR; Lan R; Wang T; Zhang J; Mai W; Ni N; Lu J; Xu J; Li J, 2016, 'Infection by and dissemination of NDM-5-producing Escherichia coli in China', Journal of Antimicrobial Chemotherapy, 71, pp. 563 - 565, http://dx.doi.org/10.1093/jac/dkv352

Clarke M; McIntyre PB; Blyth CC; Wood N; Octavia S; Sintchenko V; Giles L; Quinn H; Hill V; Hanly G; Lan R; Marshall HS, 2016, 'The relationship between Bordetella pertussis genotype and clinical severity in Australian children with pertussis', Journal of Infection, 72, pp. 171 - 178, http://dx.doi.org/10.1016/j.jinf.2015.11.004

Fu S; Octavia S; Wang Q; Tanaka MM; Tay CY; Sintchenko V; Lan R, 2016, 'Evolution of variable number tandem repeats and its relationship with genomic diversity in Salmonella typhimurium', Frontiers in Microbiology, 7, pp. 2002, http://dx.doi.org/10.3389/fmicb.2016.02002

Qiu X; Bai X; Lan R; Zheng H; Xu J, 2016, 'Novel capsular polysaccharide loci and new diagnostic tools for high-throughput capsular gene typing in Streptococcus suis', Applied and Environmental Microbiology, 82, pp. 7102 - 7112, http://dx.doi.org/10.1128/AEM.02102-16

Bai L; Lan R; Zhang X; Cui S; Xu J; Guo Y; Li F; Zhang D, 2015, 'Prevalence of salmonella isolates from chicken and pig slaughterhouses and emergence of ciprofloxacin and cefotaxime co-resistant S. enterica serovar Indiana in Henan, China', Plos One, 10, http://dx.doi.org/10.1371/journal.pone.0144532

Safarchi A; Octavia S; Luu LDW; Tay CY; Sintchenko V; Wood N; Marshall H; McIntyre P; Lan R, 2015, 'Pertactin negative Bordetella pertussis demonstrates higher fitness under vaccine selection pressure in a mixed infection model', Vaccine, 33, pp. 6277 - 6281, http://dx.doi.org/10.1016/j.vaccine.2015.09.064

Octavia S; Wang Q; Tanaka MM; Sintchenko V; Lan R, 2015, 'Genomic variability of serial human isolates of salmonella enterica serovar typhimurium associated with prolonged carriage', Journal of Clinical Microbiology, 53, pp. 3507 - 3514, http://dx.doi.org/10.1128/JCM.01733-15

Fu S; Octavia S; Tanaka MM; Sintchenko V; Lan R, 2015, 'Defining the core genome of salmonella enterica serovar typhimurium for genomic surveillance and epidemiological typing', Journal of Clinical Microbiology, 53, pp. 2530 - 2538, http://dx.doi.org/10.1128/JCM.03407-14

Mahendran V; Octavia S; Demirbas OF; Sabrina S; Ma R; Lan R; Riordan SM; Grimm MC; Zhang L, 2015, 'Delineation of genetic relatedness and population structure of oral and enteric Campylobacter concisus strains by analysis of housekeeping genes', Microbiology United Kingdom, 161, pp. 1600 - 1612, http://dx.doi.org/10.1099/mic.0.000112

Liu S; Jin D; Lan R; Wang Y; Meng Q; Dai H; Lu S; Hu S; Xu J, 2015, 'Escherichia marmotae sp. nov., isolated from faeces of Marmota himalayana', International Journal of Systematic and Evolutionary Microbiology, 65, pp. 2130 - 2134, http://dx.doi.org/10.1099/ijs.0.000228

Wang Y; Wang Y; Lan R; Xu H; Ma A; Li D; Dai H; Yuan X; Xu J; Ye C, 2015, 'Multiple endonuclease restriction real-time loop-mediated isothermal amplification: A novel analytically rapid, sensitive, multiplex loop-mediated isothermal amplification detection technique', Journal of Molecular Diagnostics, 17, pp. 392 - 401, http://dx.doi.org/10.1016/j.jmoldx.2015.03.002

Fu S; Liu Y; Li X; Tu J; Lan R; Tian H, 2015, 'A preliminary stochastic model for managing microorganisms in a recirculating aquaculture system', Annals of Microbiology, 65, pp. 1119 - 1129, http://dx.doi.org/10.1007/s13213-014-0958-0

Octavia S; Sara J; Lan R, 2015, 'Characterization of a large novel phage-like plasmid in Salmonella enterica serovar Typhimurium', FEMS Microbiology Letters, 362, http://dx.doi.org/10.1093/femsle/fnv044

Octavia S; Wang Q; Tanaka MM; Kaur S; Sintchenko V; Lan R, 2015, 'Delineating community outbreaks of Salmonella enterica serovar typhimurium by use of whole-genome sequencing: Insights into genomic variability within an outbreak', Journal of Clinical Microbiology, 53, pp. 1063 - 1071, http://dx.doi.org/10.1128/JCM.03235-14

Bai L; Guo Y; Lan R; Dong Y; Wang W; Hu Y; Gan X; Yan S; Fu P; Pei X; Xu J; Liu X; Li F, 2015, 'Genotypic characterization of Shiga toxin-producing Escherichia coli O157:H7 isolates in food products from china between 2005 and 2010', Food Control, 50, pp. 209 - 214, http://dx.doi.org/10.1016/j.foodcont.2014.08.045

Fung CC; Octavia S; Mooney AM; Lan R, 2015, 'Virulence variations in Shigella and enteroinvasive Escherichia coli using the Caenorhabditis elegans model', FEMS Microbiology Letters, 362, http://dx.doi.org/10.1093/femsle/fnu045

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