J. F. Gogarten, A. Düx, V. J. Schuenemann, K. Nowak, C. Boesch, R. M

Slides:

Advertisements

Similar presentations

Genomic analysis of three African strains of Bacillus anthracis demonstrates that they are part of the clonal expansion of an exclusively pathogenic bacterium.

Advertisements

Models for the organisation of hospital infection control and prevention programmes B. Gordts Clinical Microbiology and Infection Volume 11, Pages

Tracking a hospital outbreak of KPC-producing ST11 Klebsiella pneumoniae with whole genome sequencing Y. Jiang, Z. Wei, Y. Wang, X. Hua, Y. Feng, Y.

Helicobacter pylori infection and gastric carcinoma

Molecular evolution of Mycobacterium tuberculosis

Twelve years of dengue surveillance in Belgian travellers and significant increases in the number of cases in 2010 and 2013 J. Verschueren, L. Cnops,

High prevalence of azithromycin resistance to Treponema pallidum in geographically different areas in China X.-S. Chen, Y.-P. Yin, W.-H. Wei, H.-C. Wang,

Helicobacter pylori infection and gastric carcinoma

Gut bacterial microbiota and obesity

I.J. Schalk Clinical Microbiology and Infection

O.J. Dyar, G. Tebano, C. Pulcini Clinical Microbiology and Infection

D. Khalil, M. Hultin, M.U. Rashid, B. Lund

S. Wagenpfeil, A. Neiss, K. Banz, P. Wutzler

Migrant health—a cause for concern?

A.G. Koek, S.M. Bruisten, M. Dierdorp, A.P. van Dam, K. Templeton

A. Moya, R. Gil, A. Latorre Clinical Microbiology and Infection

A.K. Reddy, P. Garg, I. Kaur Clinical Microbiology and Infection

A guide to interpreting economic studies in infectious diseases

Discrepancies between general practitioners' vaccination recommendations for their patients and practices for their children N. Agrinier, M. Le Maréchal,

R. Cantón Clinical Microbiology and Infection

Genetic evidence of Zika virus in mother's breast milk and body fluids of a newborn with severe congenital defects M. Giovanetti Clinical Microbiology.

E. Cambau, M. Drancourt Clinical Microbiology and Infection

Extended-spectrum β-lactamase/AmpC- and carbapenemase-producing Enterobacteriaceae in animals: a threat for humans? J.-Y. Madec, M. Haenni, P. Nordmann,

An eye-catching acanthocephalan

Increased incidence of nitroimidazole-refractory giardiasis at the Hospital for Tropical Diseases, London: 2008–2013 L.E.B. Nabarro, R.A. Lever, M. Armstrong,

Should standardized susceptibility testing for microbial biofilms be introduced in clinical practice? T. Coenye, D. Goeres, F. Van Bambeke, T. Bjarnsholt

The importance of enterovirus surveillance in a Post-polio world

Surveillance of Legionnaires’ disease in Austria

Tracking human migration patterns through the oral bacterial flora

Vector control: a cornerstone in the malaria elimination campaign

Tracking a hospital outbreak of KPC-producing ST11 Klebsiella pneumoniae with whole genome sequencing Y. Jiang, Z. Wei, Y. Wang, X. Hua, Y. Feng, Y.

L. Dubourg Clinical Microbiology and Infection

Unexpectedly high prevalence of Treponema pallidum infection in the oral cavity of human immunodeficiency virus-infected patients with early syphilis.

Training for the infectious diseases speciality in Norway

First next-generation sequencing full-genome characterization of a hepatitis C virus genotype 7 divergent subtype M. Salmona, A. Caporossi, P. Simmonds,

F. Magurano Clinical Microbiology and Infection

Human infection with H9N2 avian influenza in northern China

Ehrlichia canis phylogenetic analysis of the Borgo (Corsica) strain

S. Moore, N. Thomson, A. Mutreja, R. Piarroux

Metagenomics and probiotics

M. Aires-de-Sousa Clinical Microbiology and Infection

J. F. Gogarten, A. Düx, V. J. Schuenemann, K. Nowak, C. Boesch, R. M

Previously unknown species of Aspergillus

Detection of Wolbachia genes in a patient with non-Hodgkin's lymphoma

Whole genome-based phylogenetic analysis of Rickettsiae

Sexually acquired Zika virus: a systematic review

Systematic review of antibiotic consumption in acute care hospitals

V. Andriantsoanirina, F. Ariey, A. Izri, C. Bernigaud, F. Fang, R

Pandemic lineages of extraintestinal pathogenic Escherichia coli

Accurate hepatitis C virus genotyping and selection of optimal therapy: lessons from a St Petersburg strain infection E. Knops, E. Heger Clinical Microbiology.

Amplification and pyrosequencing of near-full-length hepatitis C virus for typing and monitoring antiviral resistant strains P. Trémeaux, A. Caporossi,

I. Bitar, A. Piazza Clinical Microbiology and Infection

N. Santos, G. S. Mendes, R. C. Silva, G. A. Pena, M. Rojas, A. R

Human metapneumovirus-associated respiratory tract infections in the Republic of Ireland during the influenza season of 2003–2004 M.J. Carr, G.P. McCormack,

Prevalence of CXCR4-tropic viruses in clustered transmission chains at the time of primary HIV-1 infection P. Frange, L. Meyer, J. Ghosn, C. Deveau,

Survival of rhinoviruses on human fingers

Facilitating learning and change in physicians: Implications for a system of continuing medical education in Europe Robert D. Fox Clinical Microbiology.

Virology: a scientific discipline facing new challenges

Modelling during an emergency: the 2009 H1N1 influenza pandemic

R. Khatib, G. Simeunovic, M. Sharma, M. G. Fakih, L. B. Johnson, L

L. Zhang, D. Raoult, P.-E. Fournier

Bloodstream infections due to Peptoniphilus spp.: report of 15 cases

Are we losing the fight against malaria one more time?

J.L. Balcázar Clinical Microbiology and Infection

Molecular history of plague

Great oaks from little acorns grow—21 years of CMI

Impact of antibiotic restrictions: the patient's perspective

Novel West Nile virus lineage 1a full genome sequences from human cases of infection in north-eastern Italy, 2011 L. Barzon Clinical Microbiology and.

CMI readers' survey Clinical Microbiology and Infection

The future of diagnostic bacteriology

Presentation transcript:

Tools for opening new chapters in the book of Treponema pallidum evolutionary history J.F. Gogarten, A. Düx, V.J. Schuenemann, K. Nowak, C. Boesch, R.M. Wittig, J. Krause, S. Calvignac-Spencer, F.H. Leendertz Clinical Microbiology and Infection Volume 22, Issue 11, Pages 916-921 (November 2016) DOI: 10.1016/j.cmi.2016.07.027 Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

Fig. 1 Maximum likelihood phylogeny of Treponema pallidum subspecies and closely related Treponema paraluiscuniculi generated from full genome sequences. Highly variable TPR genes were removed before phylogenetic analysis, as these are under strong positive selection and often recombine, suggesting that these genes may be inappropriate for inferring phylogenetic history. Scale is in substitutions per variable site. Support values were calculated using Shimodaira-Hasegawa-like approximate likelihood ratio tests (SH-like aLRT), and all branches received values above 0.9, with the exception of short branches within Treponema pallidum pertenue clade between CDC2 and Gauthier genomes and between these two genomes and T. p. pertenue Fribourg-Blanc, which received values of 0.422 and 0.098 respectively. Details on how phylogeny was generated are provided in the Supplementary Materials. Clinical Microbiology and Infection 2016 22, 916-921DOI: (10.1016/j.cmi.2016.07.027) Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

Fig. 2 Coverage of Treponema pallidum pertenue Fribourg-Blanc genome. Each point represents coverage at that location on T. p. pertenue Fribourg-Blanc genome for red colobus bone (RC) and two chimpanzee bones (CH) using two different enrichment approaches at Robert Koch Institute (RKI) and Tübingen University (TU). Coverage appears randomly distributed across genome from both approaches and from three samples. Clinical Microbiology and Infection 2016 22, 916-921DOI: (10.1016/j.cmi.2016.07.027) Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions