Genetic diversity of Francisella tularensis subsp. holarctica in Kazakhstan.
Journal
PLoS neglected tropical diseases
ISSN: 1935-2735
Titre abrégé: PLoS Negl Trop Dis
Pays: United States
ID NLM: 101291488
Informations de publication
Date de publication:
05 2021
05 2021
Historique:
received:
23
11
2020
accepted:
29
04
2021
revised:
27
05
2021
pubmed:
18
5
2021
medline:
14
9
2021
entrez:
17
5
2021
Statut:
epublish
Résumé
Tularemia is a highly dangerous zoonotic infection due to the bacteria Francisella tularensis. Low genetic diversity promoted the use of polymorphic tandem repeats (MLVA) as first-line assay for genetic description. Whole genome sequencing (WGS) is becoming increasingly accessible, opening the perspective of a time when WGS might become the universal genotyping assay. The main goal of this study was to describe F. tularensis strains circulating in Kazakhstan based on WGS data and develop a MLVA assay compatible with in vitro and in silico analysis. In vitro MLVA genotyping and WGS were performed for the vaccine strain and for 38 strains isolated in Kazakhstan from natural water bodies, ticks, rodents, carnivores, and from one migratory bird, an Isabellina wheatear captured in a rodent burrow. The two genotyping approaches were congruent and allowed to attribute all strains to two F. tularensis holarctica lineages, B.4 and B.12. The seven tandem repeats polymorphic in the investigated strain collection could be typed in a single multiplex PCR assay. Identical MLVA genotypes were produced by in vitro and in silico analysis, demonstrating full compatibility between the two approaches. The strains from Kazakhstan were compared to all publicly available WGS data of worldwide origin by whole genome SNP (wgSNP) analysis. Genotypes differing at a single SNP position were collected within a time interval of more than fifty years, from locations separated from each other by more than one thousand kilometers, supporting a role for migratory birds in the worldwide spread of the bacteria.
Identifiants
pubmed: 33999916
doi: 10.1371/journal.pntd.0009419
pii: PNTD-D-20-02046
pmc: PMC8158875
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e0009419Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
Références
Genome Biol. 2018 Oct 4;19(1):153
pubmed: 30286803
Front Cell Infect Microbiol. 2019 Nov 06;9:376
pubmed: 31781515
Epidemiol Infect. 2007 Nov;135(8):1256-65
pubmed: 17306050
Emerg Infect Dis. 2002 Feb;8(2):225-30
pubmed: 11897082
Infect Dis (Lond). 2015;47(10):701-6
pubmed: 26004621
PLoS Negl Trop Dis. 2017 Dec 11;11(12):e0006077
pubmed: 29227994
Int J Syst Evol Microbiol. 2010 Aug;60(Pt 8):1717-1718
pubmed: 20688748
Front Cell Infect Microbiol. 2014 Mar 13;4:35
pubmed: 24660164
Food Microbiol. 2018 Oct;75:28-36
pubmed: 30056960
Microb Genom. 2016 Dec 12;2(12):e000100
pubmed: 28348839
Front Microbiol. 2018 Jul 12;9:1545
pubmed: 30050522
Front Cell Infect Microbiol. 2018 Mar 22;8:89
pubmed: 29623260
J Bacteriol. 2004 Sep;186(17):5808-18
pubmed: 15317786
Ticks Tick Borne Dis. 2016 Jul;7(5):865-868
pubmed: 27150591
Nucleic Acids Res. 1999 Jan 15;27(2):573-80
pubmed: 9862982
Emerg Infect Dis. 2014 Jul;20(7):1191-4
pubmed: 24963721
Methods Mol Biol. 2012;799:1-20
pubmed: 21993636
J Med Microbiol. 2003 Sep;52(Pt 9):839-842
pubmed: 12909664
Front Cell Infect Microbiol. 2019 Feb 11;9:11
pubmed: 30805312
Emerg Infect Dis. 2015 Dec;21(12):2213-6
pubmed: 26583383
Bioinformatics. 2016 Oct 1;32(19):3047-8
pubmed: 27312411
Rev Sci Tech. 2013 Apr;32(1):149-62
pubmed: 23837373
PLoS One. 2019 Dec 11;14(12):e0225848
pubmed: 31825986
Eur J Clin Microbiol Infect Dis. 2017 Oct;36(10):1923-1932
pubmed: 28573470
J Comput Biol. 2012 May;19(5):455-77
pubmed: 22506599
Eur J Epidemiol. 1998 Dec;14(8):797-802
pubmed: 9928875
FEMS Microbiol Ecol. 2000 Mar 1;31(3):217-224
pubmed: 10719202
Infect Ecol Epidemiol. 2016 Oct 26;6:32838
pubmed: 27790972
Przegl Epidemiol. 2003;57(4):587-91
pubmed: 15029832
Microb Genom. 2019 Oct;5(10):
pubmed: 31580794
PLoS One. 2015 Apr 09;10(4):e0123298
pubmed: 25856198
Epidemiol Infect. 2010 Mar;138(3):376-9
pubmed: 19664305
PLoS One. 2017 Sep 5;12(9):e0183714
pubmed: 28873421
Front Microbiol. 2020 Mar 04;11:287
pubmed: 32194525
J Bacteriol. 2009 Apr;191(8):2474-84
pubmed: 19251856
Annu Rev Entomol. 2020 Jan 7;65:351-372
pubmed: 31600457
Emerg Microbes Infect. 2019;8(1):1027-1042
pubmed: 31287787
Bioinformatics. 2014 Jun 15;30(12):1762-4
pubmed: 24574113
Front Microbiol. 2011 Jan 28;1:150
pubmed: 21687803
J Clin Microbiol. 1988 Nov;26(11):2465-6
pubmed: 3069867
Front Microbiol. 2019 Aug 13;10:1897
pubmed: 31456793
Infect Genet Evol. 2018 Sep;63:332-345
pubmed: 28943408
Environ Microbiol. 2013 Feb;15(2):634-45
pubmed: 23253075
Emerg Infect Dis. 2014 May;20(5):754-61
pubmed: 24750848
Emerg Infect Dis. 2012 Feb;18(2):290-3
pubmed: 22305204
Lett Appl Microbiol. 2009 Jan;48(1):140-4
pubmed: 19018964
PLoS One. 2007 May 23;2(5):e461
pubmed: 17520020
FEMS Microbiol Lett. 2005 Mar 1;244(1):199-205
pubmed: 15727841
Mikrobiologiia. 2016 Jan-Feb;85(1):50-5
pubmed: 27301128
Euro Surveill. 2017 Jun 8;22(23):
pubmed: 28662764
PLoS One. 2012;7(12):e52841
pubmed: 23300794
FEMS Microbiol Lett. 2004 Aug 1;237(1):9-17
pubmed: 15268932
Clin Infect Dis. 2014 Dec 1;59(11):1546-53
pubmed: 25097081