Canonical insertion-deletion markers for rapid DNA typing of Francisella tularensis

被引:37
作者
Larsson, Paer
Svensson, Kerstin
Karlsson, Linda
Guala, Dirnitri
Granberg, Malin
Forsman, Mats
Johansson, Anders
机构
[1] Swedish Def Res Agcy, Umea, Sweden
[2] Umea Univ, Umea, Sweden
关键词
D O I
10.3201/eid1311.070603
中图分类号
R392 [医学免疫学]; Q939.91 [免疫学];
学科分类号
100102 ;
摘要
To develop effective and accurate typing of strains of Francisella tularensis, a potent human pathogen and a putative bioterrorist agent, we combined analysis of insertion-deletion (indel) markers with multiple-locus variable-number tandem repeat analysis (MLVA). From 5 representative F tularensis genome sequences, 38 indel markers with canonical properties, i.e., capable of sorting strains into major genetic groups, were selected. To avoid markers with a propensity for homoplasy, we used only those indels with 2 allelic variants and devoid of substantial sequence repeats. MLVA included sequences with much diversity in copy number of tandem repeats. The combined procedure allowed subspecies division, delineation of clades A.I and A.II of subspecies tularensis, differentiation of Japanese strains from other strains of subspecies holarctica, and high-resolution strain typing. The procedure uses limited amounts of killed bacterial preparations and, because only 1 single analytic method is needed, is time- and cost-effective.
引用
收藏
页码:1725 / 1732
页数:8
相关论文
共 37 条
[21]   The complete genome sequence of Francisella tularensis, the causative agent of tularemia [J].
Larsson, P ;
Oyston, PCF ;
Chain, P ;
Chu, MC ;
Duffield, M ;
Fuxelius, HH ;
Garcia, E ;
Hälltorp, G ;
Johansson, D ;
Isherwood, KE ;
Karp, PD ;
Larsson, E ;
Liu, Y ;
Michell, S ;
Prior, J ;
Prior, R ;
Malfatti, S ;
Sjöstedt, A ;
Svensson, K ;
Thompson, N ;
Vergez, L ;
Wagg, JK ;
Wren, BW ;
Lindler, LE ;
Andersson, SGE ;
Forsman, M ;
Titball, RW .
NATURE GENETICS, 2005, 37 (02) :153-159
[22]   SUBSPECIFIC TAXONOMY OF FRANCISELLA-TULARENSIS MCCOY AND CHAPIN 1912 [J].
OLSUFJEV, NG ;
MESHCHERYAKOVA, IS .
INTERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY, 1983, 33 (04) :872-874
[23]   Phylogenetic discovery bias in Bacillus anthracis using single-nucleotide polymorphisms from whole-genome sequencing [J].
Pearson, T ;
Busch, JD ;
Ravel, J ;
Read, TD ;
Rhoton, SD ;
U'Ren, JM ;
Simonson, TS ;
Kachur, SM ;
Leadem, RR ;
Cardon, ML ;
Van Ert, MN ;
Huynh, LY ;
Fraser, CM ;
Keim, P .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (37) :13536-13541
[24]   Tularemia: emergence/re-emergence [J].
Petersen, JM ;
Schriefer, ME .
VETERINARY RESEARCH, 2005, 36 (03) :455-467
[25]  
*R DEV COR TEAM, 2007, LANG ENV STAT COMP V
[26]   Public health assessment of potential biological terrorism agents [J].
Rotz, LD ;
Khan, AS ;
Lillibridge, SR ;
Ostroff, SM ;
Hughes, JM .
EMERGING INFECTIOUS DISEASES, 2002, 8 (02) :225-230
[27]  
Rozen S, 2000, Methods Mol Biol, V132, P365
[28]  
Samrakandi MM, 2004, FEMS MICROBIOL LETT, V237, P9, DOI [10.1111/j.1574-6968.2004.tb09672.x, 10.1016/j.femsle.2004.06.008]
[29]  
SANDSTROM G, 1984, INFECT IMMUN, V45, P101
[30]  
Sjostedt A, 1997, J CLIN MICROBIOL, V35, P1045