Clade II Candida auris possess genomic structural variations related to an ancestral strain.
Journal
PloS one
ISSN: 1932-6203
Titre abrégé: PLoS One
Pays: United States
ID NLM: 101285081
Informations de publication
Date de publication:
2019
2019
Historique:
received:
18
07
2019
accepted:
20
09
2019
entrez:
10
10
2019
pubmed:
10
10
2019
medline:
10
3
2020
Statut:
epublish
Résumé
Candida auris is an invasive and multidrug-resistant ascomycetous yeast that is under global surveillance. All clinical cases of C. auris infection diagnosed from 1997 to 2019 in Japan were non-invasive and sporadic otitis media cases. In the present study, we performed whole-genome sequencing of seven C. auris strains isolated from patients with otitis media in Japan, all of which belonged to clade II. Comparative genome analysis using the high-quality draft genome sequences JCM 15448T revealed that single nucleotide variations (SNVs), clade-specific accessory genes, and copy number variations (CNVs) were identified in each C. auris clade. A total of 61 genes involved in cell wall and stress response-related functions was absent in clade II, and the pattern of conserved CNVs in each clade was more stable in clade II than in other clades. Our data suggest that the genomic structural diversity is stable in C. auris isolated from each biogeographic location, and Japanese strains isolated from patients with otitis media might belong to an ancestral type of C. auris. One Japanese strain, TWCC 58362, with reduced susceptibility to fluconazole, exhibited no mutation in ergosterol biosynthesis-related genes (ERG). However, TWCC 58362-specific variations, including SNVs, indels, and CNVs were detected, suggesting that gene duplication events in C. auris might contribute to antifungal drug resistance. Taken together, we demonstrated that genomic structural variations in C. auris could correlate to geographical dissemination, epidemiology, lesions in the host, and antifungal resistance.
Identifiants
pubmed: 31596885
doi: 10.1371/journal.pone.0223433
pii: PONE-D-19-20377
pmc: PMC6785063
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e0223433Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
Références
Nucleic Acids Res. 2016 Jul 8;44(W1):W242-5
pubmed: 27095192
N Engl J Med. 2018 Oct 4;379(14):1322-1331
pubmed: 30281988
PLoS One. 2011;6(10):e25909
pubmed: 22028796
Med Mycol. 2008 Feb;46(1):1-15
pubmed: 17852717
FEMS Microbiol Lett. 2012 Apr;329(1):1-8
pubmed: 22112233
Antimicrob Agents Chemother. 2013 Oct;57(10):5026-36
pubmed: 23896475
Emerg Infect Dis. 2013 Oct;19(10):1670-3
pubmed: 24048006
PLoS Comput Biol. 2016 Jun 21;12(6):e1004957
pubmed: 27327495
Infect Drug Resist. 2017 Jun 07;10:155-165
pubmed: 28652784
Clin Infect Dis. 2017 Jan 15;64(2):134-140
pubmed: 27988485
Emerg Microbes Infect. 2018 Mar 29;7(1):43
pubmed: 29593275
Bioinformatics. 2010 Mar 1;26(5):589-95
pubmed: 20080505
Clin Microbiol Rev. 1999 Oct;12(4):501-17
pubmed: 10515900
Genome Biol. 2004;5(2):R12
pubmed: 14759262
Am J Transplant. 2017 Jan;17(1):296-299
pubmed: 28029734
Jpn J Infect Dis. 2018 Mar 22;71(2):174-175
pubmed: 29491246
Bioinformatics. 2014 May 1;30(9):1236-40
pubmed: 24451626
Med Mycol. 2017 Jul 1;55(5):563-567
pubmed: 28204557
Curr Opin Infect Dis. 2018 Aug;31(4):334-340
pubmed: 29878905
J Clin Microbiol. 2011 Sep;49(9):3139-42
pubmed: 21715586
Nucleic Acids Res. 2013 Jul;41(12):e121
pubmed: 23598997
Antimicrob Resist Infect Control. 2016 Oct 19;5:35
pubmed: 27777756
Emerg Infect Dis. 2017 Jan;23(1):162-164
pubmed: 27983941
mSphere. 2019 Jan 2;4(1):
pubmed: 30602527
PLoS One. 2016 Oct 31;11(10):e0165346
pubmed: 27798663
Genome Res. 2017 May;27(5):737-746
pubmed: 28100585
J Clin Microbiol. 2019 Mar 28;57(4):
pubmed: 30728190
PLoS Pathog. 2017 May 18;13(5):e1006290
pubmed: 28542486
Bioinformatics. 2016 Jul 15;32(14):2103-10
pubmed: 27153593
Antimicrob Agents Chemother. 1996 Dec;40(12):2835-41
pubmed: 9124851
J Biol Methods. 2017 Sep 13;4(3):e79
pubmed: 31453233
Indian J Med Microbiol. 2013 Jan-Mar;31(1):90-1
pubmed: 23508441
Front Physiol. 2016 Jul 08;7:275
pubmed: 27458383
Bioinformatics. 2010 Oct 1;26(19):2460-1
pubmed: 20709691
BMC Genomics. 2015 Sep 07;16:686
pubmed: 26346253
J Infect Dis. 2010 Jun 1;201(11):1718-28
pubmed: 20415594
Microbiol Immunol. 2009 Jan;53(1):41-4
pubmed: 19161556
PLoS One. 2015 Feb 23;10(2):e0118770
pubmed: 25706866
Nucleic Acids Res. 2013 Jan;41(Database issue):D387-95
pubmed: 23197656
BMC Genomics. 2015 Oct 21;16:827
pubmed: 26487099
Nucleic Acids Res. 2002 Jan 1;30(1):281-3
pubmed: 11752315
Genome Res. 2017 May;27(5):722-736
pubmed: 28298431
PLoS Genet. 2012 Jun;8(6):e1002787
pubmed: 22761588
Emerg Infect Dis. 2017 Feb;23(1):
pubmed: 28098529
Emerg Infect Dis. 2014 Jul;20(7):1250-1
pubmed: 24963796
Genome Biol. 2015 Dec 29;16:294
pubmed: 26714481
Nat Commun. 2018 Dec 17;9(1):5346
pubmed: 30559369
Genome Res. 2008 Dec;18(12):1979-90
pubmed: 18757608
PLoS One. 2011 Jan 25;6(1):e16218
pubmed: 21283544
Antimicrob Agents Chemother. 2000 Oct;44(10):2693-700
pubmed: 10991846
Nucleic Acids Res. 2004 Jan 02;32(1):11-6
pubmed: 14704338
PLoS One. 2012;7(3):e33362
pubmed: 22428031
Antimicrob Agents Chemother. 2017 Apr 24;61(5):
pubmed: 28223384
mSphere. 2016 Aug 18;1(4):null
pubmed: 27547827
Nucleic Acids Res. 2017 Jan 4;45(D1):D200-D203
pubmed: 27899674
Bioinformatics. 2009 Sep 1;25(17):2283-5
pubmed: 19542151
Bioinformatics. 2006 Nov 1;22(21):2688-90
pubmed: 16928733
PLoS One. 2014 Nov 19;9(11):e112963
pubmed: 25409509
Trends Microbiol. 2001 Apr;9(4):176-80
pubmed: 11286882
Science. 2018 May 18;360(6390):739-742
pubmed: 29773744
Genome Announc. 2015 Jul 16;3(4):null
pubmed: 26184929
Med Mycol. 2011 Jan;49(1):98-102
pubmed: 20560864
Clin Infect Dis. 2002 Nov 1;35(9):1073-80
pubmed: 12384841
Eur J Clin Microbiol Infect Dis. 2014 Jun;33(6):919-26
pubmed: 24357342
Clin Infect Dis. 2009 Mar 15;48(6):e57-61
pubmed: 19193113
J Infect. 2016 Oct;73(4):369-74
pubmed: 27452195
Clin Infect Dis. 2019 Jan 1;68(1):15-21
pubmed: 29788045
Brief Bioinform. 2013 Mar;14(2):178-92
pubmed: 22517427
J Infect Chemother. 2019 Oct;25(10):743-749
pubmed: 31257156
Bioinformatics. 2015 Feb 15;31(4):587-9
pubmed: 25338718