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  • Hadfield, JamesPathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom (author)

Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion

  • Article/chapterEnglish2017

Publisher, publication year, extent ...

  • 2017-06-06
  • Cold Spring Harbor Laboratory Press,2017
  • electronicrdacarrier

Numbers

  • LIBRIS-ID:oai:DiVA.org:oru-61654
  • https://urn.kb.se/resolve?urn=urn:nbn:se:oru:diva-61654URI
  • https://doi.org/10.1101/gr.212647.116DOI

Supplementary language notes

  • Language:English
  • Summary in:English

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Classification

  • Subject category:ref swepub-contenttype
  • Subject category:art swepub-publicationtype

Notes

  • Funding agencies:Sanger Institute through the Wellcome Trust 098051 Australian National Health and Medical Research Council 1060768 
  • Chlamydia trachomatis is the world's most prevalent bacterial sexually transmitted infection and leading infectious cause of blindness, yet it is one of the least understood human pathogens, in part due to the difficulties of in vitro culturing and the lack of available tools for genetic manipulation. Genome sequencing has reinvigorated this field, shedding light on the contemporary history of this pathogen. Here, we analyze 563 full genomes, 455 of which are novel, to show that the history of the species comprises two phases, and conclude that the currently circulating lineages are the result of evolution in different genomic ecotypes. Temporal analysis indicates these lineages have recently expanded in the space of thousands of years, rather than the millions of years as previously thought, a finding that dramatically changes our understanding of this pathogen's history. Finally, at a time when almost every pathogen is becoming increasingly resistant to antimicrobials, we show that there is no evidence of circulating genomic resistance in C. trachomatis.

Subject headings and genre

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  • Harris, Simon RPathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom (author)
  • Seth-Smith, Helena M BPathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom; Applied Microbiology Research, Department of Biomedicine, University of Basel, Basel, Switzerland; Clinical Microbiology, University Hospital Basel, Basel, Switzerland (author)
  • Parmar, SurendraPublic Health England, Public Health Laboratory Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom (author)
  • Andersson, PatiyanMenzies School of Health Research, Darwin NT, Australia (author)
  • Giffard, Philip M.Menzies School of Health Research, Darwin NT, Australia; School of Psychological and Clinical Sciences, Charles Darwin University, Darwin, Australia (author)
  • Schachter, JuliusDepartment of Laboratory Medicine, University of California, San Francisco CA, USA (author)
  • Moncada, JeanneDepartment of Laboratory Medicine, University of Californiao, San Francisco CA, USA (author)
  • Ellison, LouisePathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom (author)
  • Vaulet, María Lucía GalloFacultad de Farmacia y Bioquímica, Departamento de Bioquímica Clínica, Microbiología Clínica, Universidad de Buenos Aires, Buenos Aires, Argentina (author)
  • Fermepin, Marcelo RodríguezFacultad de Farmacia y Bioquímica, Departamento de Bioquímica Clínica, Microbiología Clínica, Universidad de Buenos Aires, Buenos Aires, Argentina (author)
  • Radebe, FransCentre for HIV and Sexually Transmitted Infections, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South Africa (author)
  • Mendoza, SuyapaJefe Laboratorio de ITS, Laboratorio Nacional de Vigilancia, Honduras (author)
  • Ouburg, SanderDepartment of Medical Microbiology and Infection Control, Laboratory of Immunogenetics, Vrije University Medical Center, Amsterdam, The Netherlands (author)
  • Morré, Servaas ADepartment of Medical Microbiology and Infection Control, Laboratory of Immunogenetics, Vrije University Medical Center, Amsterdam, The Netherlands; Department of Genetics and Cell Biology, Institute of Public Health Genomics, School for Oncology & Developmental Biology (GROW), Faculty of Health, Medicine and Life Sciences, University of Maastricht, Maastricht, The Netherlands (author)
  • Sachse, KonradInstitute of Molecular Pathogenesis, Friedrich-Loeffler-Institut (Federal Research Institute for Animal Health), Jena, Germany (author)
  • Puolakkainen, MirjaDepartment of Virology, Helsinki University Hospital, University of Helsinki, Helsinki, Finland (author)
  • Korhonen, Suvi JDepartment of Virology, Helsinki University Hospital, University of Helsinki, Helsinki, Finland (author)
  • Sonnex, ChrisPublic Health England, Public Health Laboratory Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom (author)
  • Wiggins, RebeccaDepartment of Biology, University of York, York, United Kingdom (author)
  • Jalal, HamidPublic Health England, Public Health Laboratory Cambridge, Addenbrooke's Hospital, Cambridge, United Kingdom (author)
  • Brunelli, TamaraClinical Chemistry and Microbiology Laboratory, Santo Stefano Hospital, Prato, Italy (author)
  • Casprini, PatriziaClinical Chemistry and Microbiology Laboratory, Santo Stefano Hospital, Prato, Italy (author)
  • Pitt, RachelSexually Transmitted Bacteria Reference Unit, Microbiological Services, Public Health England, London, United Kingdom (author)
  • Ison, CathySexually Transmitted Bacteria Reference Unit, Microbiological Services, Public Health England, London, United Kingdom (author)
  • Savicheva, AlevtinaLaboratory of Microbiology, D.O. Ott Research Institute of Obstetrics and Gynecology, St. Petersburg, Russia (author)
  • Shipitsyna, ElenaLaboratory of Microbiology, D.O. Ott Research Institute of Obstetrics and Gynecology, St. Petersburg, Russia; WHO Collaborating Centre for Gonorrhoea and other STIs, Faculty of Medicine and Health, Örebro University Hospital, Örebro, Sweden (author)
  • Hadad, Ronza,1984-Örebro universitet,Institutionen för naturvetenskap och teknik,WHO Collaborating Centre for Gonorrhoea and other STIs, Örebro University Hospital, Örebro, Sweden(Swepub:oru)rahd (author)
  • Kari, LaszloLaboratory of Intracellular Parasites, Rocky Mountain Laboratories, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Hamilton Montana, USA (author)
  • Burton, Matthew JClinical Research Department, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, United Kingdom (author)
  • Mabey, DavidCentre for Infectious Diseases and Microbiology, Sydney, Australia; Marie Bashir Institute for Infectious Diseases and Biosecurity, Westmead Clinical School, University of Sydney, Sydney, Australia (author)
  • Solomon, Anthony WCentre for Infectious Diseases and Microbiology, Sydney, Australia; Marie Bashir Institute for Infectious Diseases and Biosecurity, Westmead Clinical School, University of Sydney, Sydney, Australia (author)
  • Lewis, DavidCentre for HIV and Sexually Transmitted Infections, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South Africa; Centre for Infectious Diseases and Microbiology, Sydney, Australia; Marie Bashir Institute for Infectious Diseases and Biosecurity, Westmead Clinical School, University of Sydney, Sydney, Australia (author)
  • Marsh, PeterPublic Health England, Public Health Laboratory Southampton, Southampton General Hospital, Southampton, United Kingdom (author)
  • Unemo, Magnus,1970-Örebro University, School of Medical Sciences; WHO Collaborating Centre for Gonorrhoea and other STIs, Örebro University Hospital, Örebro, Sweden(Swepub:oru)muo (author)
  • Clarke, Ian NMolecular Microbiology Group, University Medical School, Southampton General Hospital, Southampton, United Kingdom (author)
  • Parkhill, JulianPathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom (author)
  • Thomson, Nicholas R.Pathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom; Department of Pathogen Molecular Biology, The London School of Hygiene and Tropical Medicine, London, United Kingdom (author)
  • Pathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United KingdomPathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom; Applied Microbiology Research, Department of Biomedicine, University of Basel, Basel, Switzerland; Clinical Microbiology, University Hospital Basel, Basel, Switzerland (creator_code:org_t)

Related titles

  • In:Genome Research: Cold Spring Harbor Laboratory Press27:7, s. 1220-12291088-90511549-5469

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