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Number of items: 93.

2022

Achtman, Mark, Zhou, Zhemin, Charlesworth, Jane and Baxter, Laura (2022) EnteroBase : Hierarchical clustering of 100,000s of bacterial genomes into species/sub-species and populations. Philosophical Transactions of the Royal Society B: Biological Sciences, 377 (1861). 20210240. doi:10.1098/rstb.2021.0240 ISSN 0962-8436.

Holt, Kathryn E., Aanensen, David M. and Achtman, Mark (2022) Genomic population structures of microbial pathogens. Philosophical Transactions of the Royal Society B: Biological Sciences, 377 (1861). 20210230. doi:10.1098/rstb.2021.0230 ISSN 0962-8436.

Achtman, M., Zhou, Zhemin, Charlesworth, Jane and Baxter, Laura (2022) Data for EnteroBase: Hierarchical clustering of 100,000 s of bacterial genomes into species/sub-species and populations. [Dataset]

2021

Zhou, Zhemin, Charlesworth, Jane, Achtman, Mark and Kelso, Janet (2021) HierCC : a multi-level clustering scheme for population assignments based on core genome MLST. Bioinformatics, 37 (20). pp. 3645-3646. doi:10.1093/bioinformatics/btab234 ISSN 1367-4803.

ATCC14028s Study Group (Including: Achtman, Mark, Van den Broeck, Frederik, Cooper, Kerry K., Lemey, Philippe, Parker, Craig T. and Zhou, Zhemin). (2021) Genomic population structure associated with repeated escape of Salmonella enterica ATCC14028s from the laboratory into nature. PLoS Genetics, 17 (9). e1009820. doi:10.1371/journal.pgen.1009820 ISSN 1553-7390.

Luhmann, Nina, Holley, Guillaume and Achtman, Mark (2021) BlastFrost : fast querying of 100,000s of bacterial genomes in Bifrost graphs. Genome Biology, 22 . 30. doi:10.1186/s13059-020-02237-3 ISSN 1474-7596.

2020

Zhou, Zhemin, Charlesworth, Jane and Achtman, Mark (2020) Accurate reconstruction of bacterial pan- and core genomes with PEPPAN. Genome Research, 30 . pp. 1667-1679. doi:10.1101/gr.260828.120 ISSN 1088-9051.

Achtman, Mark and Zhou, Zhemin (2020) Metagenomics of the modern and historical human oral microbiome with phylogenetic studies on Streptococcus mutans and Streptococcus sobrinus. Philosophical Transactions of the Royal Society B: Biological Sciences, 375 (1812). 20190573. doi:10.1098/rstb.2019.0573 ISSN 0962-8436.

Achtman, Mark, Zhou, Zhemin, Alikhan, Nabil-Fareed, Tyne, William, Parkhill, Julian, Cormican, Martin, Chiou, Chien-Shun, Torpdahl, Mia, Litrup, Eva, Prendergast, Deirdre M. et al.

(2020) Genomic diversity of Salmonella enterica - The UoWUCC 10K genomes project. Wellcome Open Research, 5 . 223. doi:10.12688/wellcomeopenres.16291.2 ISSN 2398-502X.

Frentrup, Martinique, Zhou, Zhemin, Steglich, Matthias, Meier-Kolthoff, Jan P., Göker, Markus, Riedel, Thomas, Bunk, Boyke, Spröer, Cathrin, Overmann, Jörg, Blaschitz, Marion et al.

(2020) A publicly accessible database for Clostridioides difficile genome sequences supports tracing of transmission chains and epidemics. Microbial Genomics, 6 (8). doi:10.1099/mgen.0.000410 ISSN 2057-5858.

2019

Agama Study Group (Including: Zhou, Zhemin, Alikhan, Nabil-Fareed, Mohamed, Khaled, Fan, Yulei, Achtman, Mark and Tyne, William). (2019) The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny and Escherichia core genomic diversity. Genome Research . 251678.119. doi:10.1101/gr.251678.119 ISSN 1088-9051.

Zhou, Zhemin, Alikhan, Nabil-Fareed, Mohamed, Khaled, Fan, Yulei and Achtman, Mark (2019) Data for The user’s guide to comparative genomics with EnteroBase. [Dataset]

2018

Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Cátia, Francisco, Alexandre P. , Carriço, João André and Achtman, Mark (2018) GrapeTree : visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Research, 28 (10). pp. 1395-1404. doi:10.1101/gr.232397.117 ISSN 1088-9051.

Zhou, Zhemin, Lundstrøm, Inge, Tran-Dien, Alicia, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, 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. and 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. doi:10.1016/j.cub.2018.05.058 ISSN 0960-9822.

Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Cátia, Francisco, Alexandre P., Carriço, João André and Achtman, Mark (2018) GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Research, 28 (9). pp. 1395-1404. doi:10.1101/gr.232397.117 ISSN 1088-9051.

Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica. Archive package of additional figures, tables and data. [Dataset]

Zhou, Zhemin, Luhmann, Nina, Alikhan, Nabil-Fareed, Quince, Christopher and Achtman, Mark (2018) Accurate reconstruction of microbial strains from metagenomic sequencing using representative reference genomes. In: RECOMB 2018 : International Conference on Research in Computational Molecular Biology, Paris, 21-24 Apr 2018. Published in: Lecture Notes in Computer Science, 10812 pp. 225-240. ISBN 9783319899299. doi:10.1007/978-3-319-89929-9_15 ISSN 0302-9743.

Alikhan, Nabil-Fareed, Zhou, Zhemin, Sergeant, Martin J. and Achtman, Mark (2018) A genomic overview of the population structure of Salmonella. PLoS Genetics, 14 (4). e1007261. doi:10.1371/journal.pgen.1007261 ISSN 1553-7390.

2017

Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Catia, Francisco, Alexandre P., Carrico, Joao Andre and Achtman, Mark (2017) GrapeTree : visualization of core genomic relationships among 100,000 bacterial pathogens. Working Paper. BioRxiv: Cold Spring Harbour.

Zhou, Zhemin, Luhmann, Nina, Alikhan, Nabil-Fareed, Quince, Christopher and Achtman, Mark (2017) Accurate reconstruction of microbial strains using representative reference genomes. Working Paper. BioRxiv: Cold Spring Harbour.

Zhou, Zhemin, Lundstrøm, Inge, Tran-Dien, Alicia, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, 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. and Achtman, Mark (2017) Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica. Working Paper. BioRxiv: Cold Spring Harbour.

2016

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 et al.

(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). e00527-16. doi:10.1128/mBio.00527-16 ISSN 2150-7511.

Achtman, Mark (2016) How old are bacterial pathogens? Proceeding of the Royal Society B, 286 (1836). ISSN 0962-8452.

2015

Achtman, Mark, Zhou, Zhemin and 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. e0134435. doi:10.1371/journal.pone.0134435 ISSN 1932-6203.

Kay, Gemma L., Sergeant, Martin J., Zhou, Zhemin, Chan, Jacqueline, Millard, Andrew D., Quick, Joshua, Szikossy, Ildikó, Pap, Ildikó, Spigelman, Mark, Loman, Nicholas J., Achtman, Mark, Donoghue, Helen D. and 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. Article number 6717. doi:10.1038/ncomms7717 ISSN 2041-1723.

Didelot, Xavier, Pang, Bo, Zhou, Zhemin, McCann, Angela, Ni, Peixiang, Li, Dongfang, Achtman, Mark and 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. Article number e1005072. doi:10.1371/journal.pgen.1005072 ISSN 1553-7390.

2014

Achtman, Mark and Zhou, Zhemin (2014) Distinct genealogies for plasmids and chromosome. PLoS Genetics, Volume 10 (Number 12). Article number e1004874. doi:10.1371/journal.pgen.1004874 ISSN 1553-7390.

Zhou, Zhemin, McCann, A., Weill, F. -X., Blin, C., Nair, S., Wain, J., Dougan, G. and 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. doi:10.1073/pnas.1411012111 ISSN 0027-8424.

Cui, Yujun, Yang, Xianwei, Xiao, Xiao, Anisimov, Andrey P., Li, Dongfang, Yan, Yanfeng, Zhou, Dongsheng, Rajerison, Minoarisoa, Carniel, Elisabeth, Achtman, Mark, Yang, Ruifu and 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. doi:10.1016/j.meegid.2014.05.023 ISSN 1567-1348.

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. et al.

(2014) Parallel independent evolution of pathogenicity within the genus Yersinia. Proceedings of the National Academy of Sciences of the United States of America . doi:10.1073/pnas.1317161111 ISSN 0027-8424.

Haase, Jana K., Didelot, Xavier, Lecuit, Marc, Korkeala, Hannu and 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. doi:10.1111/1462-2920.12342 ISSN 1462-2912.

Malik, Harmit S., Olbermann, Patrick, Josenhans, Christine, Moodley, Yoshan, Uhr, Markus, Stamer, Christiana, Vauterin, Marc, Suerbaum, Sebastian, Achtman, Mark and 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). doi:10.1371/annotation/3597bc55-d182-4838-b360-f739efddcb4e ISSN 1553-7390.

2013

Cui, Y., Yu, C., Yan, Y., Li, D., Li, Y., Jombart, T., Weinert, L. A., Wang, Z., Guo, Z., Xu, L. et al.

(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. doi:10.1073/pnas.1205750110 ISSN 0027-8424.

Nell, Sandra, Eibach, Daniel, Montano, Valeria, Maady, Ayas, Nkwescheu, Armand, Siri, Jose, Elamin, Wael F., Falush, Daniel, Linz, Bodo, Achtman, Mark, Moodley, Yoshan and Suerbaum, Sebastian (2013) Recent acquisition of Helicobacter pylori by Baka Pygmies. PLoS Genetics, 9 (9). e1003775. doi:10.1371/journal.pgen.1003775 ISSN 1553-7390.

Achtman, Mark, Hale, James, Murphy, Ronan A., Boyd, E. Fidelma and 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. doi:10.1016/j.meegid.2013.03.003 ISSN 1567-1348.

Zhou, Zhemin, McCann, Angela, Litrup, Eva, Murphy, Ronan, Cormican, Martin, Fanning, Seamus, Brown, Derek, Guttman, David S., Brisse, Sylvain and Achtman, Mark (2013) Neutral genomic microevolution of a recently emerged pathogen, salmonella enterica serovar agona. PLoS Genetics, 9 (4). e1003471. doi:10.1371/journal.pgen.1003471 ISSN 1553-7390.

PCT/GB2012/051614 (2013) Salmonella detection assay. WO2013007996 [Online]. Available at: https://patentscope.wipo.int/search/en/detail.jsf?....

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. et al.

(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. doi:10.1101/gr.147710.112 ISSN 1088-9051.

2012

Haase, Jana K., Brown, D. J., Weill, F.-X., Mather, H., Foster, G., Brisse, S., Wain, J. and 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. doi:10.1128/AEM.02310-12 ISSN 0099-2240.

Watson, Michael, O’Farrell, Brian, Haase, Jana K., Velayudhan, Vimalkumar, Murphy, Ronan A. and Achtman, Mark (2012) Transforming microbial genotyping : a robotic pipeline for genotyping bacterial strains. PLoS ONE, 7 (10). e48022. doi:10.1371/journal.pone.0048022 ISSN 1932-6203.

Nell, S., Eibach, D., Montano, V., Nkwesheu, A., Maady, A., Linz, B., Moodley, Y., Achtman, Mark and Suerbaum, S. (2012) Population structure of Helicobacter pylori among ethnic groups in Cameroon. In: 64. Jahrestagung der Deutschen Gesellschaft fur Hygiene und Mikrobiologie (DGHM). Published in: International Journal of Medical Microbiology, 302 p. 116. doi:10.1016/j.ijmm.2012.08.001 ISSN 1438-4221.

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. and Brisse, Sylvain (2012) Multilocus sequence typing as a replacement for serotyping in salmonella enterica. PLoS Pathogens, Volume 8 (Number 6). Article number e1002776. doi:10.1371/journal.ppat.1002776 ISSN 1553-7374.

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. and Achtman, Mark (2012) Age of the association between Helicobacter pylori and man. PLoS Pathogens, Volume 8 (Number 5). Article number e1002693. doi:10.1371/journal.ppat.1002693 ISSN 1553-7374.

Clark, G., Paszkiewicz, K., Hale, J., Weston, V., Constantinidou, Chrystala, Penn, C., Achtman, Mark and 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. doi:10.1093/jac/dkr585 ISSN 0305-7453.

Fabre, Laëtitia, Zhang, Jian, Guigon, Ghislaine, Le Hello, Simon, Guibert, Véronique, Accou-Demartin, Marie, de Romans, Saïana, Lim, Catherine, Roux, Chrystelle, Passet, Virginie, Diancourt, Laure, Guibourdenche, Martine, Issenhuth-Jeanjean, Sylvie, Achtman, Mark, Brisse, Sylvain, Sola, Christophe and Weill, François-Xavier (2012) CRISPR typing and subtyping for improved laboratory surveillance of salmonella infections. PLoS One, Volume 7 (Number 5). Article number e36995. doi:10.1371/journal.pone.0036995 ISSN 1932-6203.

Shepard, S. M., Danzeisen, J. L., Isaacson, R. E., Seemann, T., Achtman, Mark and 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. doi:10.1128/JB.06225-11 ISSN 0021-9193.

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. doi:10.1098/rstb.2011.0303 ISSN 0962-8436.

Haase, J. K., Brown, D. J., Weill, F.-X., Mather, H., Foster, G., Brisse, S., Wain, J. and 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. doi:10.1128/AEM.02310-12 ISSN 0099-2240.

2011

Croxall, G., Hale, J., Weston, V., Manning, G., Cheetham, P., Achtman, Mark and McNally, A. (2011) Molecular epidemiology of extraintestinal pathogenic Escherichia coli isolates from a regional cohort of elderly patients highlights the prevalence of ST131 strains with increased antimicrobial resistance in both community and hospital care settings. Journal of Antimicrobial Chemotherapy, Volume 66 (Number 11). pp. 2501-2508. doi:10.1093/jac/dkr349 ISSN 0305-7453.

Vogler, Amy J., Chan, Fabien, Wagner, David M., Roumagnac, Philippe, Lee, Judy, Nera, Roxanne, Eppinger, Mark, Ravel, Jacques, Rahalison, Lila, Rasoamanana, Bruno W., Beckstrom-Sternberg, Stephen M., Achtman, Mark, Chanteau, Suzanne and Keim, Paul (2011) Phylogeography and molecular epidemiology of Yersinia pestis in Madagascar. PLoS Neglected Tropical Diseases, Volume 5 (Number 9). Article number e1319. doi:10.1371/journal.pntd.0001319 ISSN 1935-2727.

Laukkanen-Ninios, Riikka, Didelot, Xavier, Jolley, Keith A., Morelli, Giovanna, Sangal, Vartul, Kristo, Paula, Brehony, Carina, Imori, Priscilla F. M., Fukushima, Hiroshi, Siitonen, Anja, Tseneva, Galina, Voskressenskaya, Ekaterina, Falcao, Juliana P., Korkeala, Hannu, Maiden, Martin C. J., Mazzoni, Camila, Carniel, Elisabeth, Skurnik, Mikael and Achtman, Mark (2011) Population structure of the Yersinia pseudotuberculosis complex according to multilocus sequence typing. Environmental Microbiology, 13 (12). pp. 3114-3127. doi:10.1111/j.1462-2920.2011.02588.x ISSN 1462-2912.

Didelot, Xavier, Bowden, Rory, Street, Teresa, Golubchik, Tanya, Spencer, Chris, McVean, Gil, Sangal, Vartul, Anjum, Muna F., Achtman, Mark, Falush, Daniel and Donnelly, Peter (2011) Recombination and population structure in salmonella enterica. PLoS Genetics, Volume 7 (Number 7). Article number e1002191. doi:10.1371/journal.pgen.1002191 ISSN 1553-7390.

Haase, Jana K., Murphy, Ronan A., Choudhury, Kingshuk Roy and Achtman, Mark (2011) Revival of Seeliger's historical ‘Special Listeria Culture Collection’. Environmental Microbiology, Volume 13 (Number 12). pp. 3163-3171. doi:10.1111/j.1462-2920.2011.02610.x ISSN 1462-2912.

Accou-Demartin, Marie , Gaborieau, Valérie , Song, Yajun , Roumagnac, Philippe , Marchou, Bruno , Achtman, Mark and Weill, François-Xavier (2011) Salmonella enterica serotype typhi with nonclassical quinolone resistance phenotype. Emerging Infectious Diseases , Volume 17 (Number 6). doi:10.3201/eid1706.101242 ISSN 1080-6059.

Achtman, Mark (2011) A broad brush, global overview of bacterial sexuality. PLoS Genetics, Volume 7 (Number 8). Article number e1002255. doi:10.1371/journal.pgen.1002255 ISSN 1553-7390.

2010

Morelli, Giovanna, Didelot, Xavier, Kusecek, Barica, Schwarz, Sandra, Bahlawane, Christelle, Falush, Daniel, Suerbaum, Sebastian and Achtman, Mark (2010) Microevolution of Helicobacter pylori during prolonged infection of single hosts and within families. PL o S Genetics, Vol.6 (No.7). doi:10.1371/journal.pgen.1001036 ISSN 1553-7390.

Latifi-Navid, Saeid, Ghorashi, Seyed Ali, Siavoshi, Farideh, Linz, Bodo, Massarrat, Sadegh, Khegay, Tanya, Salmanian, Ali-Hatef, Shayesteh, Ali Akbar, Masoodi, Mohsen, Ghanadi, Koroush, Ganji, Azita, Suerbaum, Sebastian, Achtman, Mark, Malekzadeh, Reza and Falush, Daniel (2010) Ethnic and geographic differentiation of helicobacter pylori within Iran. PLoS One, Volume 5 (Number 3). Article number e9645. doi:10.1371/journal.pone.0009645 ISSN 1932-6203.

Morelli, Giovanna, Song, Yajun, Mazzoni, Camila J., Eppinger, Mark, Roumagnac, Philippe, Wagner, David M., Feldkamp, Mirjam, Kusecek, Barica, Vogler, Amy J., Li, Yanjun et al.

(2010) Supplementary information to support : 'Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity'. Nature Genetics, 42 (12). pp. 1140-1143. doi:10.1038/ng.705

Morelli, Giovanna, Song, Yajun, Mazzoni, Camila J., Eppinger, Mark, Roumagnac, Philippe, Wagner, David M., Feldkamp, Mirjam, Kusecek, Barica, Vogler, Amy J., Li, Yanjun et al.

(2010) Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity. Nature Genetics, 42 (12). pp. 1140-1143. doi:10.1038/ng.705 ISSN 1061-4036.

Malik, Harmit S., Olbermann, Patrick, Josenhans, Christine, Moodley, Yoshan, Uhr, Markus, Stamer, Christiana, Vauterin, Marc, Suerbaum, Sebastian, Achtman, Mark and Linz, Bodo (2010) A global overview of the genetic and functional diversity in the helicobacter pylori cag pathogenicity island. PLoS Genetics, Volume 6 (Number 8). Article Number e1001069. doi:10.1371/journal.pgen.1001069 ISSN 1553-7390.

2006

Falush, D., Torpdahl, M., Didelot, Xavier, Conrad, D. F., Wilson, D. J. and Achtman, Mark (2006) Mismatch induced speciation in Salmonella : model and data. Philosophical Transactions of the Royal Society B: Biological Sciences, 361 (1475). pp. 2045-2053. doi:10.1098/rstb.2006.1925 ISSN 0962-8436.

Didelot, Xavier, Achtman, Mark, Parkhill, J., Thomson, N. R. and Falush, D. (2006) A bimodal pattern of relatedness between the Salmonella Paratyphi A and Typhi genomes : convergence or divergence by homologous recombination? Genome Research, 17 (1). pp. 61-68. doi:10.1101/gr.5512906 ISSN 1088-9051.

1976

Achtman, Mark (1976) The mating phenomenon in Escherichia Coli. In: Bradshaw, Ralph, (ed.) Surface Membrane Receptors. NATO Advanced Study Institutes Series (11). Springer US, pp. 99-108. ISBN 9781468427745

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