MRC National Institute for Medical Research, London

Sebastien Gagneux Publications

• Kato-Maeda, M; Ho, C; Passarelli, B; Banaei, N; Grinsdale, J; Flores, L; Anderson, J; Murray, M; Rose, G; Kawamura, LM; Pourmand, N; Tariq, MA; Gagneux, S and Hopewell, PC (2013)
  Use of whole genome sequencing to determine the microevolution of Mycobacterium tuberculosis during an outbreak.
  PLOS ONE 8, e58235 PubMed abstract
• Müller, B; Borrell, S; Rose, G and Gagneux, S (2013)
  The heterogeneous evolution of multidrug-resistant Mycobacterium tuberculosis.
  Trends in Genetics 29, 160-169 PubMed abstract
• Osório, NS; Rodrigues, F; Gagneux, S; Pedrosa, J; Pinto-Carbó, M; Castro, AG; Young, D; Comas, I and Saraiva, M (2013)
  Evidence for diversifying selection in a set of Mycobacterium tuberculosis genes in response to antibiotic and non-antibiotic related pressure.
  Molecular Biology and Evolution [Epub ahead of print] PubMed abstract
• Bentley, SD; Comas, I; Bryant, JM; Walker, D; Smith, NH; Harris, SR; Thurston, S; Gagneux, S; Wood, J; Antonio, M; Quail, MA; Gehre, F; Adegbola, RA; Parkhill, J and de Jong, BC (2012)
  The genome of Mycobacterium africanum West African 2 reveals a lineage-specific locus and genome erosion common to the M. tuberculosis complex.
  PLoS Neglected Tropical Diseases 6, e1552
• Comas, I; Borrell, S; Roetzer, A; Rose, G; Malla, B; Kato-Maeda, M; Galagan, J; Niemann, S and Gagneux, S (2012)
  Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes.
  Nature Genetics 44, 106-110 PubMed abstract
• McEvoy, CRE; Cloete, R; Müller, B; Schürch, AC; van Helden, PD; Gagneux, S; Warren, RM and Gey van Pittius, NC (2012)
  Comparative analysis of Mycobacterium tuberculosis pe and ppe genes reveals high sequence variation and an apparent absence of selective constraints.
  PLOS ONE 7, e30593 PubMed abstract
• Stucki, D; Malla, B; Hostettler, S; Huna, T; Feldmann, J; Yeboah-Manu, D; Borrell, S; Fenner, L; Comas, I; Coscollà, M and Gagneux, S (2012)
  Two new rapid SNP-typing methods for classifying Mycobacterium tuberculosis complex into the main phylogenetic lineages.
  PLOS ONE 7, e41253 PubMed abstract
• Weiner, B; Gomez, J; Victor, TC; Warren, RM; Sloutsky, A; Plikaytis, BB; Posey, JE; van Helden, PD; Gey van Pittius, NC; Koehrsen, M; Sisk, P; Stolte, C; White, J; Gagneux, S; Birren, B; Hung, D; Murray, M and Galagan, J (2012)
  Independent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic region.
  PLOS ONE 7, e26038 PubMed abstract
• Comas, I and Gagneux, S (2011)
  A role for systems epidemiology in tuberculosis research.
  Trends in Microbiology 19, 492-500 PubMed abstract
• Fenner, L; Malla, B; Ninet, B; Dubuis, O; Stucki, D; Borrell, S; Huna, T; Bodmer, T; Egger, M and Gagneux, S (2011)
  "Pseudo-Beijing": evidence for convergent evolution in the direct repeat region of Mycobacterium tuberculosis.
  PLOS ONE 6, e24737 PubMed abstract
• Kato-Maeda, M; Gagneux, S; Flores, LL; Kim, EY; Small, PM; Desmond, EP and Hopewell, PC (2011)
  Strain classification of Mycobacterium tuberculosis: congruence between large sequence polymorphisms and spoligotypes.
  International Journal of Tuberculosis and Lung Disease 15, 131-133 PubMed abstract
• Portevin, D; Gagneux, S; Comas, I and Young, D (2011)
  Human macrophage responses to clinical isolates from the Mycobacterium tuberculosis complex discriminate between ancient and modern lineages.
  PLOS Pathogens 7, e1001307 PubMed abstract
• Yeboah-Manu, D; Asante-Poku, A; Bodmer, T; Stucki, D; Koram, K; Bonsu, F; Pluschke, G and Gagneux, S (2011)
  Genotypic diversity and drug susceptibility patterns among M. tuberculosis complex isolates from South-Western Ghana.
  PLOS ONE 6, e21906 PubMed abstract
• Comas, I; Chakravartti, J; Small, PM; Galagan, J; Niemann, S; Kremer, K; Ernst, JD and Gagneux, S (2010)
  Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved.
  Nature Genetics 42, 498-503 PubMed abstract
• Coscolla, M and Gagneux, S (2010)
  Does M. tuberculosis genomic diversity explain disease diversity?
  Drug Discovery Today: Disease Mechanisms 7, e43-e59 PubMed abstract
• de Jong, BC; Antonio, M and Gagneux, S (2010)
  Mycobacterium africanum--review of an important cause of human tuberculosis in West Africa.
  PLoS Neglected Tropical Diseases 4, e744 PubMed abstract
• Nahid, P; Bliven, EE; Kim, EY; Mac Kenzie, WR; Stout, JE; Diem, L; Johnson, JL; Gagneux, S; Hopewell, PC; Kato-Maeda, M and The Tuberculosis Trials Consortium (2010)
  Influence of M. tuberculosis lineage variability within a clinical trial for pulmonary tuberculosis.
  PLOS ONE 5, e10753 PubMed abstract
• Borrell, S and Gagneux, S (2009)
  Infectiousness, reproductive fitness and evolution of drug-resistant Mycobacterium tuberculosis.
  International Journal of Tuberculosis and Lung Disease 13, 1456-1466 PubMed abstract
• Comas, I and Gagneux, S (2009)
  The past and future of tuberculosis research.
  PLOS Pathogens 5, e1000600 PubMed abstract
• Comas, I; Homolka, S; Niemann, S and Gagneux, S (2009)
  Genotyping of genetically monomorphic bacteria: DNA sequencing in Mycobacterium tuberculosis highlights the limitations of current methodologies.
  PLOS ONE 4, e7815 PubMed abstract
• de Jong, BC; Antonio, M; Awine, T; Ogungbemi, K; de Jong, YP; Gagneux, S; DeRiemer, K; Zozio, T; Rastogi, N; Borgdorff, M; Hill, PC and Adegbola, RA (2009)
  Use of spoligotyping and large-sequence polymorphisms to study the population structure of the Mycobacterium tuberculosis complex in a cohort study of consecutive smear positive tuberculosis cases in the Gambia.
  Journal of Clinical Microbiology 47, 994-1001 PubMed abstract
• Fenner, L; Egger, M and Gagneux, S (2009)
  Annie Darwin's death, the evolution of tuberculosis and the need for systems epidemiology.
  International Journal of Epidemiology 38, 1425-1428 PubMed abstract
• Gagneux, S (2009)
  Fitness cost of drug resistance in Mycobacterium tuberculosis.
  Clinical Microbiology and Infection 15, 66-68 PubMed abstract
• Gagneux, S (2009)
  Strain variation and evolution.
  In: Mycobacterium: Genomics and Molecular Biology. Edited by Brown, A and Parish, T.
  Norwich, Caister Academic Press, 2009. 1-19.
• Niemann, S; Köser, CU; Gagneux, S; Plinke, C; Homolka, S; Bignell, H; Carter, RJ; Cheetham, RK; Cox, A; Gormley, NA; Kokko-Gonzales, P; Murray, LJ; Rigatti, R; Smith, VP; Arends, FPM; Cox, HS; Smith, G and Archer, JAC (2009)
  Genomic diversity among drug sensitive and multidrug resistant isolates of Mycobacterium tuberculosis with identical DNA fingerprints.
  PLOS ONE 4, e7407 PubMed abstract
• Xu, P; Li, X; Zhao, M; Gui, X; DeRiemer, K; Gagneux, S; Mei, J and Gao, Q (2009)
  Prevalence of fluoroquinolone resistance among tuberculosis patients in Shanghai, China.
  Antimicrobial Agents and Chemotherapy 53, 3170-3172 PubMed abstract
• Caws, M; Thwaites, G; Dunstan, S; Hawn, TR; Thi Ngoc Lane, N; Thuong, NTT; Stepniewska, K; Huyen, MNT; Bang, ND; Huu Loc, T; Gagneux, S; van Soolingen, D; Kremer, K; van der Sande, M; Small, P; Thi Hoang Anh, P; Chinh, NT; Thi Quy, H; Thi Hong Duyen, N; Quang Tho, D; Hieu, NT; Torok, E; Hien, TT; Dung, NH; Thi Quynh Nhu, N; Duy, PM; van Vinh Chau, N and Farrar, J (2008)
  The influence of host and bacterial genotype on the development of disseminated disease with Mycobacterium tuberculosis.
  PLOS Pathogens 4, e1000034 PubMed abstract
• de Jong, BC; Hill, PC; Aiken, A; Awine, T; Antonio, M; Adetifa, IM; Jackson-Sillah, DJ; Fox, A; DeRiemer, K; Gagneux, S; Borgdorff, MW; McAdam, KPWJ; Corrah, T; Small, PM and Adegbola, RA (2008)
  Progression to active tuberculosis, but not transmission, varies by Mycobacterium tuberculosis lineage in The Gambia.
  Journal of Infectious Diseases 198, 1037-1043 PubMed abstract
• Gagneux, S and Small, PM (2008)
  Molecular evolution of mycobacteria.
  In: Handbook of Tuberculosis: Molecular Biology and Biochemistry. Edited by Rubin, E and Kaufmann, SHE.
  Weinheim, Wiley-VCH, 2008. 1, 393-416.
• Hershberg, R; Lipatov, M; Small, PM; Sheffer, H; Niemann, S; Homolka, S; Roach, JC; Kremer, K; Petrov, DA; Feldman, MW and Gagneux, S (2008)
  High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography.
  PLOS Biology 6, 2658-2671 e2311 PubMed abstract
• Narayanan, S; Gagneux, S; Hari, L; Tsolaki, AG; Rajasekhar, S; Narayanan, PR; Small, PM; Holmes, S and DeRiemer, K (2008)
  Genomic interrogation of ancestral Mycobacterium tuberculosis from south India.
  Infection, Genetics and Evolution 8, 474-483 PubMed abstract
• Thwaites, G; Caws, M; Chau, TTH; D'Sa, A; Lan, NTN; Huyen, MNT; Gagneux, S; Anh, PTH; Tho, DQ; Torok, E; Nhu, NTQ; Duyen, NTH; Duy, PM; Richenberg, J; Simmons, C; Hien, TT and Farrar, J (2008)
  Relationship between Mycobacterium tuberculosis genotype and the clinical phenotype of pulmonary and meningeal tuberculosis.
  Journal of Clinical Microbiology 46, 1363-1368 PubMed abstract

[Page last updated 1 May 2013]