@article{Hadfield01072017,
author = {Hadfield, James and Harris, Simon R. and Seth-Smith, Helena M.B. and Parmar, Surendra and Andersson, Patiyan and Giffard, Philip M. and Schachter, Julius and Moncada, Jeanne and Ellison, Louise and Vaulet, María Lucía Gallo and Fermepin, Marcelo Rodríguez and Radebe, Frans and Mendoza, Suyapa and Ouburg, Sander and Morré, Servaas A. and Sachse, Konrad and Puolakkainen, Mirja and Korhonen, Suvi J. and Sonnex, Chris and Wiggins, Rebecca and Jalal, Hamid and Brunelli, Tamara and Casprini, Patrizia and Pitt, Rachel and Ison, Cathy and Savicheva, Alevtina and Shipitsyna, Elena and Hadad, Ronza and Kari, Laszlo and Burton, Matthew J. and Mabey, David and Solomon, Anthony W. and Lewis, David and Marsh, Peter and Unemo, Magnus and Clarke, Ian N. and Parkhill, Julian and Thomson, Nicholas R.}, 
title = {Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion},
volume = {27}, 
number = {7}, 
pages = {1220-1229}, 
year = {2017}, 
doi = {10.1101/gr.212647.116}, 
abstract ={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.}, 
URL = {http://genome.cshlp.org/content/27/7/1220.abstract}, 
eprint = {http://genome.cshlp.org/content/27/7/1220.full.pdf+html}, 
journal = {Genome Research} 
}