Whole-genome single nucleotide polymorphism analysis for typing the pandemic pathogen
F. graminearum complex
Fusarium graminearum sensu stricto
identification
plant pathogen
whole-genome sequencing
Journal
Frontiers in microbiology
ISSN: 1664-302X
Titre abrégé: Front Microbiol
Pays: Switzerland
ID NLM: 101548977
Informations de publication
Date de publication:
2022
2022
Historique:
received:
28
02
2022
accepted:
30
06
2022
entrez:
4
8
2022
pubmed:
5
8
2022
medline:
5
8
2022
Statut:
epublish
Résumé
Recent improvements in microbiology and molecular epidemiology were largely stimulated by whole- genome sequencing (WGS), which provides an unprecedented resolution in discriminating highly related genetic backgrounds. WGS is becoming the method of choice in epidemiology of fungal diseases, but its application is still in a pioneer stage, mainly due to the limited number of available genomes. Fungal pathogens often belong to complexes composed of numerous cryptic species. Detecting cryptic diversity is fundamental to understand the dynamics and the evolutionary relationships underlying disease outbreaks. In this study, we explore the value of whole-genome SNP analyses in identification of the pandemic pathogen
Identifiants
pubmed: 35923405
doi: 10.3389/fmicb.2022.885978
pmc: PMC9339996
doi:
Types de publication
Journal Article
Langues
eng
Pagination
885978Informations de copyright
Copyright © 2022 Kulik, Molcan, Fiedorowicz, van Diepeningen, Stakheev, Treder, Olszewski, Bilska, Beyer, Pasquali and Stenglein.
Déclaration de conflit d'intérêts
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Références
Phytopathology. 2008 Jun;98(6):719-27
pubmed: 18944297
One Health Outlook. 2020 Feb 18;2:3
pubmed: 33829127
Elife. 2019 Jul 16;8:
pubmed: 31307572
Adv Appl Microbiol. 2018;102:37-81
pubmed: 29680126
Mol Ecol. 2014 Feb;23(4):753-73
pubmed: 24341913
BMC Genomics. 2015 Nov 24;16:996
pubmed: 26602546
Front Genet. 2015 Jul 07;6:235
pubmed: 26217378
J Comput Biol. 2013 Oct;20(10):714-37
pubmed: 24093227
BMC Genomics. 2012;13 Suppl 7:S6
pubmed: 23281601
Bioinformatics. 2018 Jul 1;34(13):i142-i150
pubmed: 29949969
BMC Genomics. 2013;14 Suppl 1:S7
pubmed: 23368723
J Bacteriol. 2006 Jan;188(2):759-72
pubmed: 16385065
Genome Biol Evol. 2019 Nov 1;11(11):3106-3122
pubmed: 31609418
Proc Natl Acad Sci U S A. 2012 Jul 3;109(27):E1811; author reply E1812
pubmed: 22715287
J Nat Prod. 2017 Mar 24;80(3):756-770
pubmed: 28199101
Front Microbiol. 2018 Apr 13;9:707
pubmed: 29755421
Toxins (Basel). 2018 Aug 10;10(8):
pubmed: 30103473
Int J Mol Sci. 2020 Apr 10;21(7):
pubmed: 32290169
Curr Opin Microbiol. 2003 Aug;6(4):351-6
pubmed: 12941403
Nucleic Acids Res. 2017 Jan 9;45(1):67-80
pubmed: 27899609
Fungal Genet Biol. 2007 Nov;44(11):1191-204
pubmed: 17451976
Proc Natl Acad Sci U S A. 2002 Jul 9;99(14):9278-83
pubmed: 12080147
Bioinformatics. 2014 Aug 1;30(15):2114-20
pubmed: 24695404
Persoonia. 2015 Dec;35:242-63
pubmed: 26823635
Bioinformatics. 2014 May 1;30(9):1312-3
pubmed: 24451623
Mol Ecol. 2021 Oct;30(20):5164-5178
pubmed: 34398981
Bioinformatics. 2007 Oct 1;23(19):2633-5
pubmed: 17586829
Fungal Genet Biol. 2004 Jun;41(6):600-23
pubmed: 15121083
Fungal Genet Biol. 2011 Dec;48(12):1096-107
pubmed: 22004876
Emerg Infect Dis. 2015 Apr;21(4):585-91
pubmed: 25811284
Bioinformatics. 2015 Oct 1;31(19):3210-2
pubmed: 26059717
F1000Res. 2020 Jul 27;9:
pubmed: 32765832
Clin Genet. 2000 Oct;58(4):250-64
pubmed: 11076050
Environ Microbiol. 2019 Nov;21(11):4233-4240
pubmed: 31430004
Pathogens. 2020 May 01;9(5):
pubmed: 32369942
Proc Natl Acad Sci U S A. 2000 Jul 5;97(14):7905-10
pubmed: 10869425
Proc Biol Sci. 2012 Jul 7;279(1738):2497-509
pubmed: 22492065
Microbiol Spectr. 2017 Jul;5(4):
pubmed: 28820125
J Clin Microbiol. 2020 Mar 25;58(4):
pubmed: 31996441
Sci Rep. 2020 Feb 3;10(1):1723
pubmed: 32015354
Pestic Biochem Physiol. 2020 Mar;164:209-220
pubmed: 32284129
Biol Proced Online. 2015 Apr 02;17:8
pubmed: 25866485
Mol Biol Evol. 2020 May 1;37(5):1530-1534
pubmed: 32011700
Biol Rev Camb Philos Soc. 2020 Oct;95(5):1198-1232
pubmed: 32301582
mBio. 2020 May 5;11(3):
pubmed: 32371596
Commun Biol. 2020 Jan 31;3(1):50
pubmed: 32005944
PeerJ. 2018 Dec 19;6:e5963
pubmed: 30588394
Food Chem Toxicol. 2013 Oct;60:218-37
pubmed: 23907020
Food Chem. 2017 Jan 1;214:383-392
pubmed: 27507489
Bioengineered. 2018 Jan 1;9(1):12-16
pubmed: 28632991
Mol Ecol Resour. 2009 May;9 Suppl s1:83-9
pubmed: 21564968
Int J Microbiol. 2015;2015:376387
pubmed: 25685150
Int J Food Microbiol. 2014 Jul 16;182-183:51-6
pubmed: 24859190
BMC Genomics. 2016 Dec 9;17(1):1014
pubmed: 27938326
Front Microbiol. 2021 Aug 31;12:714651
pubmed: 34531839
Int J Food Microbiol. 2015 Oct 1;210:16-23
pubmed: 26087129
Food Addit Contam Part A Chem Anal Control Expo Risk Assess. 2015;32(4):453-60
pubmed: 25530109
Bioinformatics. 2010 Aug 1;26(15):1899-900
pubmed: 20427515
Biosens Bioelectron. 2017 Jan 15;87:708-723
pubmed: 27649327