Treponema pallidum subsp. pallidum (TPA) is the infectious agent of syphilis, a disease that infects more than 5 million people annually. Since TPA is an uncultivable bacterium, most of the information on TPA genetics comes from genome sequencing and molecular typing studies. This study presents the first complete TPA genome (without sequencing gaps) of clinical isolate (UZ1974), which was obtained directly from clinical material, without multiplication in rabbits. Whole genome sequencing was performed using a newly developed Anti-Treponemal Antibody Enrichment technique combined with previously reported Pooled Segment Genome Sequencing. We identified the UW074B genome, isolated from a sample previously propagated in rabbits, to be the closest relative of the UZ1974 genome and calculated the TPA mutation rate as 2.8 x 10(-10) per site per generation.

1st Dermatovenereological Clinic St Anne´s University Hospital Brno Faculty of Medicine Masaryk University Brno Czech Republic

CEITEC Central European Institute of Technology Masaryk University Brno Czech Republic

Department of Biology Faculty of Medicine Masaryk University Brno Czech Republic

Department of Dermatovenerology University Hospital Brno Brno Czech Republic

Department of Immunology Veterinary Research Institute Brno Czech Republic

Department of Medicine Division of Allergy and Infectious Diseases University of Washington Seattle United States of America

Functional Genomics Center Zurich University of Zurich Zurich Switzerland

National Centre for Biomolecular Research Faculty of Science Masaryk University Brno Czech Republic

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