By Professor Ruiting Lan

Journal articles

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

Tominaga A; Lan R; Reeves PR, 2005, 'Evolutionary changes of the flhDC flagellar master operon in Shigella strains', Journal of Bacteriology, 187, pp. 4295 - 4302

Salim A; Lan R; Reeves PR, 2005, 'Vibrio cholerae pathogenic clones', Emerging Infectious Diseases, 11, pp. 1758 - 1760

Rezwan F; Lan R; Reeves PR, 2004, 'Molecular basis of the indole-negative reaction in Shigella strains:extensive damages to the tna operon by insertion sequences', Journal of Bacteriology, 186, pp. 7460 - 7465

Lan R; Alles MC; Donohoe K; Martinez M; Reeves PR, 2004, 'Molecular evolutionary relationships of enteroinvasive Escherichia coli and Shigella spp', Infection and Immunity, 72, pp. 5080 - 5088

Lan R; Davison AM; Reeves PR; Ward LR, 2003, 'AFLP analysis of Salmonella enterica serovar Typhimurium isolates of phage types DT 9 and DT 135: Diversity within phage types and its epidemiological significance', Microbes and Infection, 5, pp. 841 - 850, http://dx.doi.org/10.1016/S1286-4579(03)00174-6

Lan R; Stevenson G; Reeves PR, 2003, 'Comparison of two major forms of the Shigella virulence plasmid pINV: positive selection is a major force driving the divergence', Infection and Immunity, 71, pp. 6298 - 6306

Lan R; Reeves PR, 2002, 'Escherichia coli in disguise: Molecular origins of Shigella', Microbes and Infection, 4, pp. 1125 - 1132, http://dx.doi.org/10.1016/S1286-4579(02)01637-4

Hu H; Lan R; Reeves PR, 2002, 'Fluorescent amplified fragment length polymorphism analysis of Salmonella enterica serovar Typhimurium reveals phage-type-specific markers and potential for microarray typing', Journal of Clinical Microbiology, 40, pp. 3406 - 3415, http://dx.doi.org/10.1128/JCM.40.9.3406-3415.2002

Lan R; Reeves PR, 2002, 'Pandemic spread of cholera: Genetic diversity and relationships within the seventh pandemic clone of Vibrio cholerae determined by amplified fragment length polymorphism', Journal of Clinical Microbiology, 40, pp. 172 - 181, http://dx.doi.org/10.1128/JCM.40.1.172-181.2002

Lan R; Lumb B; Ryan D; Reeves PR, 2001, 'Molecular evolution of large virulence plasmid in Shigella clones and enteroinvasive Escherichia coli', Infection and Immunity, 69, pp. 6303 - 6309, http://dx.doi.org/10.1128/IAI.69.10.6303-6309.2001

Lan R; Reeves PR, 2001, 'When does a clone deserve a name? A perspective on bacterial species based on population genetics', Trends in Microbiology, 9, pp. 419 - 424, http://dx.doi.org/10.1016/S0966-842X(01)02133-3

Karaolis DKR; Lan R; Kaper JB; Reeves PR, 2001, 'Comparison of Vibrio cholerae pathogenicity islands in sixth and seventh pandemic strains', Infection and Immunity, 69, pp. 1947 - 1952, http://dx.doi.org/10.1128/IAI.69.3.1947-1952.2001

Pupo GM; Lan R; Reeves PR; Baverstock PR, 2000, 'Population genetics of Escherichia coli in a natural population of native Australian rats', Environmental Microbiology, 2, pp. 594 - 610, http://dx.doi.org/10.1046/j.1462-2920.2000.00142.x

Stevenson G; Lan R; Reeves PR, 2000, 'The colanic acid gene cluster of Salmonella enterica has a complex history', FEMS Microbiology Letters, 191, pp. 11 - 16, http://dx.doi.org/10.1016/S0378-1097(00)00361-X

Stevenson G, 2000, 'The colanic acid gene cluster of Salmonella enterica has a complex history', FEMS Microbiology Letters, 191, pp. 11 - 16, http://dx.doi.org/10.1016/s0378-1097(00)00361-x

Pupo GM; Lan R; Reeves PR, 2000, 'Multiple independent origins of Shigella clones of Escherichia coli and convergent evolution of many of their characteristics', Proceedings of the National Academy of Sciences of the United States of America, 97, pp. 10567 - 10572, http://dx.doi.org/10.1073/pnas.180094797

Lan R; Reeves PR, 2000, 'Intraspecies variation in bacterial genomes: The need for a species genome concept', Trends in Microbiology, 8, pp. 396 - 401, http://dx.doi.org/10.1016/S0966-842X(00)01791-1

Lan R; Reeves PR, 2000, 'Unique adaptor design for AFLP fingerprinting', BioTechniques, 29, pp. 745 - 750, http://dx.doi.org/10.2144/00294bm14

Byun R; Elbourne LDH; Lan R; Reeves PR, 1999, 'Evolutionary relationships of pathogenic clones of VIbrio cholerae by sequence analysis of four housekeeping genes', Infection and Immunity, 67, pp. 1116 - 1124, http://dx.doi.org/10.1128/iai.67.3.1116-1124.1999

Reeves PR; Lan R, 1998, 'Cholera in the 1990s', British Medical Bulletin, 54, pp. 611 - 623, http://dx.doi.org/10.1093/oxfordjournals.bmb.a011714

Lan R; Reeves PR, 1998, 'Molecular Basis of Ribotype Variation in the Seventh Pandemic Clone and its O139 Variant of Vibrio cholerae', Memorias do Instituto Oswaldo Cruz, 93, pp. 595 - 599, http://dx.doi.org/10.1590/s0074-02761998000500007

Lan R; Reeves PR, 1998, 'Recombination between rRNA operons created most of the ribotype variation observed in the seventh pandemic clone of Vibrio cholerae', Microbiology, 144, pp. 1213 - 1221, http://dx.doi.org/10.1099/00221287-144-5-1213

Pérez Luz S; Rodríguez-Valera F; Lan R; Reeves PR, 1998, 'Variation of the ribosomal operon 16S-23S gene spacer region in representatives of Salmonella enterica subspecies', Journal of Bacteriology, 180, pp. 2144 - 2151, http://dx.doi.org/10.1128/jb.180.8.2144-2151.1998

Pupo GM; Karaolis DKR; Lan R; Reeves PR, 1997, 'Evolutionary relationships among pathogenic and nonpathogenic Escherichia coli strains inferred from multilocus enzyme electrophoresis and mdh sequence studies', Infection and Immunity, 65, pp. 2685 - 2692, http://dx.doi.org/10.1128/iai.65.7.2685-2692.1997

Lan R; Reeves PR, 1996, 'Gene transfer is a major factor in bacterial evolution', Molecular Biology and Evolution, 13, pp. 47 - 55, http://dx.doi.org/10.1093/oxfordjournals.molbev.a025569

Karaolis DKR; Lan R; Reeves PR, 1995, 'The sixth and seventh cholera pandemics are due to independent clones separately derived from environmental, nontoxigenic, non-O1 Vibrio cholerae', Journal of Bacteriology, 177, pp. 3191 - 3198, http://dx.doi.org/10.1128/jb.177.11.3191-3198.1995

Reeves PR; Farnell L; Lan R, 1994, 'Multicomp: A program for preparing sequence data for phylogenetic analysis', Bioinformatics, 10, pp. 281 - 284, http://dx.doi.org/10.1093/bioinformatics/10.3.281

Thampapillai G; Lan R; Reeves PR, 1994, 'Molecular evolution in the gnd locus of Salmonella enterica', Molecular Biology and Evolution, 11, pp. 813 - 828

Karaolis DKR; Lan R; Reeves PR, 1994, 'Molecular evolution of the seventh-pandemic clone of Vibrio cholerae and its relationship to other pandemic and epidemic V. cholerae isolates', Journal of Bacteriology, 176, pp. 6199 - 6206, http://dx.doi.org/10.1128/jb.176.20.6199-6206.1994

Lan R; Greenoak GE; Moran C, 1994, 'PYRIMIDINE DIMER INDUCTION AND REMOVAL IN THE EPIDERMIS OF HAIRLESS MICE: INEFFICIENT REPAIR IN THE GENOME OVERALL AND RAPID REPAIR IN THE H‐ras SEQUENCE', Photochemistry and Photobiology, 59, pp. 356 - 361, http://dx.doi.org/10.1111/j.1751-1097.1994.tb05047.x

Karaolis DKR; Lan R; Reeves PR, 1994, 'Sequence variation in Shigella sonnei (Sonnei), a pathogenic clone of Escherichia coli, over four continents and 41 years', Journal of Clinical Microbiology, 32, pp. 796 - 802, http://dx.doi.org/10.1128/jcm.32.3.796-802.1994

Conference Abstracts

Mahendran V; Lee HY; Tan YS; Riordan SM; Grimm MC; Day AS; Lemberg DA; Octavia S; Lan R; Zhang L, 2013, 'The association between a tight junction toxin gene in Campylobacter concisus and inflammatory bowel disease', in JOURNAL OF GASTROENTEROLOGY AND HEPATOLOGY, WILEY-BLACKWELL, Vol. 28, pp. 14 - 14, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000324106900026&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Preprints

Suyama H; Luu LDW; Zhong L; Raftery MJ; Lan R, 2024, Proteomic comparison of epidemic AustralianBordetella pertussisbiofilm cells, http://dx.doi.org/10.1101/2024.02.19.581093

Kaur S; Payne M; Partridge S; Sintchenko V; Lan R, 2024, A dissection of the genomic antimicrobial resistance epidemiology ofSalmonellaTyphimurium, http://dx.doi.org/10.1101/2024.05.12.593721

Cheney L; Payne M; Kaur S; McKew G; Lan R, 2024, CharacterisingStaphylococcus aureusgenomic epidemiology with Multilevel Genome Typing, http://dx.doi.org/10.1101/2024.05.09.593273

Payne M; Hu D; Wang Q; Sullivan G; Graham R; Rathnayake I; Jennison A; Sintchenko V; Lan R, 2024, DODGE: Automated point source bacterial outbreak detection using cumulative long term genomic surveillance, http://dx.doi.org/10.1101/2024.01.21.24301506

Wang D; Li K; Wang L; Teng Z; Luo X; Sun H; Huang Y; Hu S; Xu X; Lan R; He Z; Xu J, 2023, Dissecting and tracing the gut microbiota of infants with botulism: A cross sectional and longitudinal study, http://dx.doi.org/10.21203/rs.3.rs-3247733/v1

Payne M; Xu Z; Hu D; Kaur S; Octavia S; Sintchenko V; Lan R, 2023, Genomic epidemiology and multilevel genome typing ofBordetella pertussis, http://dx.doi.org/10.1101/2023.04.26.538362

Cheney L; Payne M; Kaur S; Lan R, 2023, SaLTy: a novelStaphylococcus aureusLineage Typer, http://dx.doi.org/10.1101/2023.02.03.527095

Suyama H; Luu LDW; Zhong L; Raftery MJ; Lan R, 2022, Integrating proteomic data with metabolic modelling provides insight into key pathways ofBordetella pertussisbiofilms, http://dx.doi.org/10.1101/2022.05.27.493021

Xu Z; Hu D; Wai Luu LD; Octavia S; Keil A; Sintchenko V; Tanaka M; Mooi F; Robson J; Lan R, 2022, Genomic dissection of the microevolution of Australian epidemic Bordetella pertussis, http://dx.doi.org/10.1101/2022.01.05.475016

Luo L; Payne M; Wang Q; Kaur S; Rathnayake I; Graham R; Gall M; Draper J; Martinez E; Octavia S; Tanaka M; Jennison A; Sintchenko V; Lan R, 2022, Genomic epidemiology and multilevel genome typing of Australian Salmonella enterica serovar Enteritidis, http://dx.doi.org/10.1101/2022.05.18.492204

Kaur S; Payne M; Luo L; Octavia S; Tanaka M; Sintchenko V; Lan R, 2022, MGTdb: A web service and database for studying the global and local genomic epidemiology of bacterial pathogens, http://dx.doi.org/10.1101/2022.06.14.496187

Luo L; Payne M; Kaur S; Hu D; Cheney L; Octavia S; Wang Q; Tanaka M; Sintchenko V; Lan R, 2020, Elucidation of global and local genomic epidemiology of Salmonella enterica serovar Enteritidis through multilevel genome typing, http://dx.doi.org/10.1101/2020.06.30.169953

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