By Professor Mark Tanaka

Journal articles

Hamblin S; Tanaka MM, 2013, 'Behavioural manipulation of insect hosts by Baculoviridae as a process of niche construction', BMC Evolutionary Biology, 13, pp. 170, http://dx.doi.org/10.1186/1471-2148-13-170

Eden J-S; Tanaka M; Boni MF; Rawlinson WD; White PA, 2013, 'Recombination within the pandemic norovirus GII.4 lineage', Journal of Virology, 87, pp. 6270 - 6282, http://dx.doi.org/10.1128/JVI.03464-12

Regoes RR; Hamblin S; Tanaka M, 2013, 'Viral mutation rates: Modelling the roles of within-host viral dynamics and the trade-off between replication fidelity and speed', Proceedings of the Royal Society of London Series B - Biological Sciences, 280, pp. 1 - 9, http://dx.doi.org/10.1098/rspb.2012.2047

Aandahl R; Reyes JF; Sisson SA; Tanaka M, 2012, 'A model-based Bayesian estimation of the rate of evolution of VNTR loci in Mycobacterium tuberculosis', PLoS Computational Biology, 8, pp. e1002573, http://dx.doi.org/10.1371/journal.pcbi.1002573

Francis AR; Tanaka M, 2012, 'Evolution of variation in presence and absence of genes in bacterial pathways', BMC Evolutionary Biology, 12, pp. 1 - 11, http://dx.doi.org/10.1186/1471-2148-12-55

Reyes JF; Chan C; Tanaka M, 2012, 'Impact of homoplasy on variable numbers of tandem repeats and spoligotypes in Mycobacterium tuberculosis', Infection Genetics and Evolution, 12, pp. 811 - 818, http://dx.doi.org/10.1016/j.meegid.2011.05.018

Kidd M; Chen Z; Wang Y; Jackson KJ; Zhang L; Boyd SD; Fire AZ; Tanaka M; Gaeta BA; Collins AM, 2012, 'The inference of phased haplotypes for the immunoglobulin H chain V region gene loci by analysis of VDJ gene rearrangements', The Journal Of Immunology, 188, pp. 1333 - 1340, http://dx.doi.org/10.4049/jimmunol.1102097

Tanaka M; Valckenborgh F, 2011, 'Escaping an evolutionary lobster trap: Drug resistance and compensatory mutation in a fluctuating environment', Evolution, 65, pp. 1376 - 1387, http://dx.doi.org/10.1111/j.1558-5646.2011.01223.x

Leshchyns'ka I; Tanaka M; Schachner M; Sytnyk V, 2011, 'Immobilized pool of NCAM180 in the postsynaptic membrane is homeostatically replenished by the flux of NCAM180 from extrasynaptic regions', The Journal of Biological Chemistry, 286, pp. 23397 - 23406, http://dx.doi.org/10.1074/jbc.M111.252098

Tanaka M; Reyes JF, 2011, 'Mutation rate of VNTR loci in Mycobacterium tuberculosis: Response to Supply et al.', Infection Genetics and Evolution, 11, pp. 1189 - 1190, http://dx.doi.org/10.1016/j.meegid.2011.01.014

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

Tanaka M; Reyes JF, 2011, 'VNTR mutation in Mycobacterium tuberculosis: Lower rates for less variable loci', Infection Genetics and Evolution, 11, pp. 1192 - 1192, http://dx.doi.org/10.1016/j.meegid.2011.03.013

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

Reyes JF; Tanaka M, 2010, 'Mutation rates of spoligotypes and variable numbers of tandem repeat loci in Mycobacterium tuberculosis', Infection Genetics and Evolution, 10, pp. 1046 - 1051, http://dx.doi.org/10.1016/j.meegid.2010.06.016

Mclean A; Luciani F; Tanaka M, 2010, 'Trade-offs in resource allocation in the intracellular life-cycle of hepatitis C virus', Journal of Theoretical Biology, 267, pp. 565 - 572, http://dx.doi.org/10.1016/j.jtbi.2010.09.031

Sisson SA; Fan Y; Tanaka MM, 2009, 'Sequential Monte Carlo without likelihoods (Proceedings of the National Academy of Sciences of the United States of America (2007) 104, 6, (1760-1765) DOI:10.1073/pnas.0607208104)', Proceedings of the National Academy of Sciences of the United States of America, 106, pp. 16889, http://dx.doi.org/10.1073/pnas.0908847106

Tanaka M; Cristescu R; Cooper DW, 2009, 'Effective population size of koala populations under different population management regimes including contraception', Wildlife Research, 36, pp. 601 - 609

Tanaka M; Kendal J; Laland K, 2009, 'From traditional medicine to witchcraft: Why medical treatments are not always efficacious', PLoS One, 4

Tanaka M; Sisson SA; King GC, 2009, 'High affinity extremes in combinatorial libraries and repertoires', Journal of Theoretical Biology, 261, pp. 260 - 265

Luciani F; Sisson SA; Jiang H; Francis AR; Tanaka M, 2009, 'The epidemiological fitness cost of drug resistance in Mycobacterium tuberculosis', Proceedings of the National Academy of Sciences of the United States of America, 106, pp. 14711 - 14715, http://dx.doi.org/10.1073/pnas.0902437106

Luciani F; Francis AR; Tanaka M, 2008, 'Interpreting genotype cluster sizes of Mycobacterium tuberculosis isolates typed with IS6110 and spoligotyping', Infection Genetics and Evolution, 8, pp. 182 - 190, http://dx.doi.org/10.1016/j.meegid.2007.12.004

Venturi V; Kedzierska K; Tanaka MM; Turner SJ; Doherty PC; Davenport MP, 2008, 'Method for assessing the similarity between subsets of the T cell receptor repertoire', Journal of Immunological Methods, 329, pp. 67 - 80, http://dx.doi.org/10.1016/j.jim.2007.09.016

Reyes JF; Francis AR; Tanaka M, 2008, 'Models of deletion for visualizing bacterial variation: an application to tuberculosis spoligotypes', BMC bioinformatics, 9, pp. 496 - 511

Tang C; Reyes JF; Luciani F; Francis AR; Tanaka M, 2008, 'spolTools: online utilities for analyzing spoligotypes of the Mycobacterium tuberculosis complex', Bioinformatics, 24, pp. 2414 - 2415, http://dx.doi.org/10.1093/bioinformatics/btn434

Bull RA; Tanaka M; White PA, 2007, 'Norovirus recombination', Journal of General Virology, 88, pp. 3347 - 3359

Sisson SA; Fan Y; Tanaka M, 2007, 'Sequential Monte Carlo without likelihoods', Proceedings of the National Academy of Sciences of the United States of America, 104, pp. 1760 - 1765

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

Tanaka M; Phong R; Francis AR, 2006, 'An evaluation of indices for quantifying tuberculosis transmission using genotypes of pathogen isolates', BMC Infectious Diseases, 6

Tanaka M; Francis AR, 2006, 'Detecting emerging strains of tuberculosis by using spoligotypes', Proceedings of the National Academy of Sciences of the United States of America, 103, pp. 15266 - 15271

Tanaka M; Francis AR; Luciani F; Sisson SA, 2006, 'Using approximate Bayesian computation to estimate tuberculosis transmission parameters from genotype data', Genetics, 173, pp. 1511 - 1520, http://dx.doi.org/10.1534/genetics.106.055574

Tanaka M; Francis AR, 2005, 'Methods of quantifying and visualising outbreaks of tuberculosis using genotypic information', Infection Genetics and Evolution, 5, pp. 35 - 43

Bull RA; Hansman G; Clancy LE; Tanaka M; Rawlinson WD; White PA, 2005, 'Norovirus recombination in ORF1/ORF2 overlap', Emerging Infectious Diseases, 11, pp. 1079 - 1085, http://dx.doi.org/10.3201/eid1107.041273

Regoes R; Crotty S; Antia R; Tanaka M, 2005, 'Optimal replication of poliovirus within cells', American Naturalist, 165, pp. 364 - 373

Tanaka M, 2004, 'Evidence for positive selection on Mycobacterium tuberculosis within patients', BMC Evolutionary Biology, 4, pp. 31 - 31, http://www.sciencedirect.com/science/article/B6WVB-4DDXPVK-1DJ/2/f334506a35b611ad027df1d4402c8566

Tanaka M; Rosenberg NA; Small P, 2004, 'The control of copy number of IS6110 in Mycobacterium tuberculosis', Molecular Biology and Evolution, 21, pp. 2195 - 2201

Rosenberg NA; Tsolaki AG; Tanaka M, 2003, 'Estimating change rates of genetic markers suing serial samples: applications to the transposon IS6110 in Mycobacterium tuberculosis', Theoretical Population Biology, 63, pp. 347 - 363

Cotsapas C; Chan EK; Kirk MF; Tanaka M; Little PF, 2003, 'Genetic variation and the control of transcription', Cold Spring Harbor Symposia on Quantitative Biology, 68, pp. 109 - 114

Tanaka M; Bergstrom CT; Levin B, 2003, 'The Evolution of Mutator Genes in Bacterial Populations: The Roles of Environmental Change and Timing', Genetics, 164, pp. 843 - 854

Tanaka MM; Kumm J; Feldman MW, 2002, 'Coevolution of Pathogens and Cultural Practices: A New Look at Behavioral Heterogeneity in Epidemics', Theoretical Population Biology, 62, pp. 111 - 119, http://dx.doi.org/10.1006/tpbi.2002.1585

Tanaka MM; Rosenberg NA, 2001, 'Optimal estimation of transposition rates of insertion sequences for molecular epidemiology', Statistics in Medicine, 20, pp. 2409 - 2420, http://dx.doi.org/10.1002/sim.910

Rhee JT; Tanaka MM; Behr MA; Agasino CB; Paz EA; Hopewell PC; Small PM, 2000, 'Use of multiple markers in population-based molecular epidemiologic studies of tuberculosis', International Journal of Tuberculosis and Lung Disease, 4, pp. 1111 - 1119

Tanaka MM; Small PM; Salamon H; Feldman MW, 2000, 'The dynamics of repeated elements: Applications to the epidemiology of tuberculosis', Proceedings of the National Academy of Sciences of the United States of America, 97, pp. 3532 - 3537, http://dx.doi.org/10.1073/pnas.97.7.3532

Tanaka MM; Feldman MW, 1999, 'Theoretical considerations of cross-immunity, recombination and the evolution of new parasitic strains', Journal of Theoretical Biology, 198, pp. 145 - 163, http://dx.doi.org/10.1006/jtbi.1999.0906

Field D; Magnasco MO; Moxon ER; Metzgar D; Tanaka MM; Wills C; Thaler DS, 1999, 'Contingency loci, mutator alleles, and their interactions. Synergistic strategies for microbial evolution and adaptation in pathogenesis', Annals of the New York Academy of Sciences, 870, pp. 378 - 381, http://dx.doi.org/10.1111/j.1749-6632.1999.tb08907.x

Tanaka MM; Liang XM; Gray YHM; Sved JA, 1997, 'The accumulation of P-element-induced recombinants in the germline of male Drosophila melanogaster', Genetics, 147, pp. 1769 - 1782

Gray YHM; Tanaka MM; Sved JA, 1996, 'P-element-induced recombination in Drosophila melanogaster: Hybrid element insertion', Genetics, 144, pp. 1601 - 1610

Preprints

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

Zhang E; Czechowski P; Terauds A; Wong SY; Chelliah DS; Raven M; Tanaka MM; Ferrari BC, 2021, Tracing boundaries in Eastern Antarctica: Multi-scale drivers of soil microbial communities across the hyperarid Vestfold Hills, http://dx.doi.org/10.1101/2021.09.22.461446

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