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  • Alikhan, Nabil-Fareed, Zhou, Zhemin, Sergeant, Martin J., Achtman, Mark. 2018. A genomic overview of the population structure of Salmonella. PLoS Genetics, 14 (4), View
  • Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Cátia, Francisco, Alexandre P., Carriço, Jo ão André, Achtman, Mark. 2018. GrapeTree : visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Research, 28 (10), pp. 1395-1404, View
  • Zhou, Zhemin, Lundstrà¸m, Inge, Tran-Dien, Alicia, Duchàªne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenà¸ien, Hans K., Hamre, Stian S., Casjens, Sherwood, Christophersen, Axel, Quince, Christopher, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon Y. W., Gilbert, M. Thomas P., Achtman, Mark. 2018. Pan-genome analysis of ancient and modern Salmonella enterica demonstrates genomic stability of the invasive Para C lineage for millennia. Current Biology, 28 (15), pp. 2420-2428, View
  • Achtman, Mark. 2016. How old are bacterial pathogens?. Proceeding of the Royal Society B, 286 (1836), View
  • Connor, Thomas R., Owen, Sian V., Langridge, Gemma, Connell, Steve, Nair, Satheesh, Reuter, Sandra, Dallman, Timothy J., Corander, Jukka, Tabing, Kristine C., Le Hello, Simon, Fookes, Maria, Doublet, Benoà®t, Zhou, Zhemin, Feltwell, Theresa, Ellington, Matthew J., Herrera, Silvia, Gilmour, Matthew, Cloeckaert, Axel, Achtman, Mark, Parkhill, Julian, Wain, John, De Pinna, Elizabeth, Weill, François-Xavier, Peters, Tansy, Thomson, Nick. 2016. What's in a name? Species-wide whole-genome sequencing resolves invasive and noninvasive lineages of salmonella enterica serotype paratyphi B. mBio, 7 (4), pp. e00527-16, View
  • Kay, Gemma L., Sergeant, Martin J., Zhou, Zhemin, Chan, Jacqueline, Millard, Andrew D., Quick, Joshua, Szikossy, Ildikó, Pap, Ildiko´, Spigelman, Mark, Loman, Nicholas J., Achtman, Mark, Donoghue, Helen D., Pallen, Mark J.. 2015. Eighteenth-century genomes show that mixed infections were common at time of peak tuberculosis in Europe. Nature Communications, Volume 6, pp. 1-9, View
  • Didelot, Xavier, Pang, Bo, Zhou, Zhemin, McCann, Angela, Ni, Peixiang, Li, Dongfang, Achtman, Mark, Kan, Biao. 2015. The role of China in the global spread of the current cholera pandemic. PLoS Genetics, Volume 11 (Number 3), pp. 1-14, View
  • Achtman, Mark, Zhou, Zhemin, Didelot, Xavier. 2015. Formal comment to Pettengill : the time to most recent common ancestor does not (usually) approximate the date of divergence. PLoS One, 10 (8), pp. 1-11, View
  • Malik, Harmit S., Olbermann, Patrick, Josenhans, Christine, Moodley, Yoshan, Uhr, Markus, Stamer, Christiana, Vauterin, Marc, Suerbaum, Sebastian, Achtman, Mark, Linz, Bodo. 2014. Correction : A global overview of the genetic and functional diversity in the helicobacter pylori cag pathogenicity island. PLoS Genetics, Volume 10 (Number 1), View
  • Reuter, S., Connor, T. R., Barquist, L., Walker, D., Feltwell, T., Harris, S. R., Fookes, M., Hall, M. E., Petty, N. K., Fuchs, T. M., Corander, J., Dufour, M., Ringwood, T., Savin, C., Bouchier, C., Martin, L., Miettinen, M., Shubin, M., Riehm, J. M., Laukkanen-Ninios, R., Sihvonen, L. M., Siitonen, A., Skurnik, M., Falcao, J. P., Fukushima, H., Scholz, H. C., Prentice, M. B., Wren, B. W., Parkhill, J., Carniel, E., Achtman, Mark, McNally, A., Thomson, N. R.. 2014. Parallel independent evolution of pathogenicity within the genus Yersinia. Proceedings of the National Academy of Sciences of the United States of America, View
  • Cui, Yujun, Yang, Xianwei, Xiao, Xiao, Anisimov, Andrey P., Li, Dongfang, Yan, Yanfeng, Zhou, Dongsheng, Rajerison, Minoarisoa, Carniel, Elisabeth, Achtman, Mark, Yang, Ruifu, Song, Yajun. 2014. Genetic variations of live attenuated plague vaccine strains (Yersinia pestis EV76 lineage) during laboratory passages in different countries. Infection, Genetics and Evolution, 26, pp. 172-179, View
  • Zhou, Zhemin, McCann, A., Weill, F. -X., Blin, C., Nair, S., Wain, J., Dougan, G., Achtman, Mark. 2014. Transient Darwinian selection in Salmonella enterica serovar Paratyphi A during 450 years of global spread of enteric fever. Proceedings of the National Academy of Sciences of the United States of America, Volume 111 (Number 33), pp. 12199-12204, View
  • Achtman, Mark, Zhou, Zhemin. 2014. Distinct genealogies for plasmids and chromosome. PLoS Genetics, Volume 10 (Number 12), View
  • Haase, Jana K., Didelot, Xavier, Lecuit, Marc, Korkeala, Hannu, Achtman, Mark. 2014. The ubiquitous nature of listeria monocytogenesclones : a large-scale multilocus sequence typing study. Environmental Microbiology, 16 (2), pp. 405-416, View
  • Haase, Jana K., Didelot, Xavier, Lecuit, Marc, Korkeala, Hannu, Achtman, Mark. 2014. The ubiquitous nature of Listeria monocytogenesclones : a large-scale Multilocus Sequence Typing study. Environmental Microbiology, Volume 16 (Number 2), pp. 405-416, View
  • Cui, Y., Yu, C., Yan, Y., Li, D., Li, Y., Jombart, T., Weinert, L. A., Wang, Z., Guo, Z., Xu, L., Zhang, Y., Zheng, H., Qin, N., Xiao, X., Wu, M., Wang, X., Zhou, D., Qi, Z., Du, Z., Wu, H., Yang, X., Cao, H., Wang, H., Wang, J., Yao, S., Rakin, A., Falush, D., Balloux, F., Achtman, Mark, Song, Y., Yang, R.. 2013. Historical variations in mutation rate in an epidemic pathogen, Yersinia pestis. Proceedings of the National Academy of Sciences of the United States of America, 110 (2), pp. 577-582, View
  • Achtman, Mark, Hale, James, Murphy, Ronan A., Boyd, E. Fidelma, Porwollik, Steffen. 2013. Population structures in the SARA and SARB reference collections of Salmonella enterica according to MLST, MLEE and microarray hybridization. Infection, Genetics and Evolution, Volume 16, pp. 314-325, View
  • Holden, M. T. G., Hsu, L.-Y., Kurt, K., Weinert, L. A., Mather, A. E., Harris, S. R., Strommenger, B., Layer, F., Witte, W., de Lencastre, H., Skov, R., Westh, H., Zemlickova, H., Coombs, G., Kearns, A. M., Hill, R. L. R., Edgeworth, J., Gould, I., Gant, V., Cooke, J., Edwards, G. F., McAdam, P. R., Templeton, K. E., McCann, A., Zhou, Z., Castillo-Ramirez, S., Feil, E. J., Hudson, L. O., Enright, M. C., Balloux, F., Aanensen, D. M., Spratt, B. G., Fitzgerald, J. R., Parkhill, J., Achtman, Mark, Bentley, S. D., Nubel, U.. 2013. A genomic portrait of the emergence, evolution, and global spread of a methicillin-resistant Staphylococcus aureus pandemic. Genome Research, 23 (4), pp. 653-664, View
  • Nell, Sandra, Eibach, Daniel, Montano, Valeria, Maady, Ayas, Nkwescheu, Armand, Siri, Jose, Elamin, Wael F., Falush, Daniel, Linz, Bodo, Achtman, Mark, Moodley, Yoshan, Suerbaum, Sebastian. 2013. Recent acquisition of Helicobacter pylori by Baka Pygmies. PLoS Genetics, 9 (9), View
  • Zhou, Zhemin, McCann, Angela, Litrup, Eva, Murphy, Ronan, Cormican, Martin, Fanning, Seamus, Brown, Derek, Guttman, David S., Brisse, Sylvain, Achtman, Mark. 2013. Neutral genomic microevolution of a recently emerged pathogen, salmonella enterica serovar agona. PLoS Genetics, 9 (4), View
  • Moodley, Yoshan, Linz, Bodo, Bond, Robert P., Nieuwoudt, Martin, Soodyall, Himla, Schlebusch, Carina M., Bernhöft, Steffi, Hale, J. (James), Suerbaum, Sebastian, Mugisha, Lawrence, Van der Merwe, Schalk W., Achtman, Mark. 2012. Age of the association between Helicobacter pylori and man. PLoS Pathogens, Volume 8 (Number 5), View
  • Fabre, Laëtitia, Zhang, Jian, Guigon, Ghislaine, Le Hello, Simon, Guibert, Véronique, Accou-Demartin, Marie, de Romans, Saà¯ana, Lim, Catherine, Roux, Chrystelle, Passet, Virginie, Diancourt, Laure, Guibourdenche, Martine, Issenhuth-Jeanjean, Sylvie, Achtman, Mark, Brisse, Sylvain, Sola, Christophe, Weill, François-Xavier. 2012. CRISPR typing and subtyping for improved laboratory surveillance of salmonella infections. PLoS One, Volume 7 (Number 5), View
  • Shepard, S. M., Danzeisen, J. L., Isaacson, R. E., Seemann, T., Achtman, Mark, Johnson, T. J.. 2012. Genome sequences and phylogenetic analysis of K88- and F18-positive porcine enterotoxigenic escherichia coli. Journal of Bacteriology, Volume 194 (Number 2), pp. 395-405, View
  • Achtman, Mark. 2012. Insights from genomic comparisons of genetically monomorphic bacterial pathogens. Philosophical Transactions of the Royal Society B: Biological Sciences, Volume 367 (Number 1590), pp. 860-867, View
  • Clark, G., Paszkiewicz, K., Hale, J., Weston, V., Constantinidou, Chrystala, Penn, C., Achtman, Mark, McNally, A.. 2012. Genomic analysis uncovers a phenotypically diverse but genetically homogeneous Escherichia coli ST131 clone circulating in unrelated urinary tract infections. Journal of Antimicrobial Chemotherapy, Volume 67 (Number 4), pp. 868-877, View
  • Watson, Michael, O'Farrell, Brian, Haase, Jana K., Velayudhan, Vimalkumar, Murphy, Ronan A., Achtman, Mark. 2012. Transforming microbial genotyping : a robotic pipeline for genotyping bacterial strains. PLoS ONE, 7 (10), View
  • Haase, J. K., Brown, D. J., Weill, F.-X., Mather, H., Foster, G., Brisse, S., Wain, J., Achtman, Mark. 2012. Population genetic structure of 4,12:a:- Salmonella enterica strains from harbor porpoises. Applied and Environmental Microbiology, 78 (24), pp. 8829-8833, View
  • Haase, Jana K., Brown, D. J., Weill, F.-X., Mather, H., Foster, G., Brisse, S., Wain, J., Achtman, Mark. 2012. Population genetic structure of 4,12:a :- salmonella enterica strains from harbor porpoises. Applied and Environmental Microbiology, 78 (24), pp. 8829-8833, View
  • Achtman, Mark, Wain, John, Weill, François-Xavier, Nair, Satheesh, Zhou, Zhemin, Sangal, Vartul, Krauland, Mary G., Hale, James L., Harbottle, Heather, Uesbeck, Alexandra, Dougan, Gordon, Harrison, Lee H., Brisse, Sylvain. 2012. Multilocus sequence typing as a replacement for serotyping in salmonella enterica. PLoS Pathogens, Volume 8 (Number 6), View
  • Accou-Demartin, Marie, Gaborieau, Valérie, Song, Yajun, Roumagnac, Philippe, Marchou, Bruno, Achtman, Mark, Weill, François-Xavier. 2011. Salmonella enterica serotype typhi with nonclassical quinolone resistance phenotype. Emerging Infectious Diseases, Volume 17 (Number 6), View


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