TY  - JOUR
A1  - Hadfield, James
A1  - Harris, Simon R.
A1  - Seth-Smith, Helena M.B.
A1  - Parmar, Surendra
A1  - Andersson, Patiyan
A1  - Giffard, Philip M.
A1  - Schachter, Julius
A1  - Moncada, Jeanne
A1  - Ellison, Louise
A1  - Vaulet, María Lucía Gallo
A1  - Fermepin, Marcelo Rodríguez
A1  - Radebe, Frans
A1  - Mendoza, Suyapa
A1  - Ouburg, Sander
A1  - Morré, Servaas A.
A1  - Sachse, Konrad
A1  - Puolakkainen, Mirja
A1  - Korhonen, Suvi J.
A1  - Sonnex, Chris
A1  - Wiggins, Rebecca
A1  - Jalal, Hamid
A1  - Brunelli, Tamara
A1  - Casprini, Patrizia
A1  - Pitt, Rachel
A1  - Ison, Cathy
A1  - Savicheva, Alevtina
A1  - Shipitsyna, Elena
A1  - Hadad, Ronza
A1  - Kari, Laszlo
A1  - Burton, Matthew J.
A1  - Mabey, David
A1  - Solomon, Anthony W.
A1  - Lewis, David
A1  - Marsh, Peter
A1  - Unemo, Magnus
A1  - Clarke, Ian N.
A1  - Parkhill, Julian
A1  - Thomson, Nicholas R.
T1  - Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion
Y1  - 2017/07/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1220 
EP  - 1229 
DO  - 10.1101/gr.212647.116 
VL  - 27 
IS  - 7 
UR  - http://genome.cshlp.org/content/27/7/1220.abstract 
N2  - 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. 
ER  -