Genome-based characterization of two Colombian clinical Providencia rettgeri isolates co-harboring NDM-1, VIM-2, and other β-lactamases.
Anti-Bacterial Agents
/ pharmacology
Bacterial Proteins
/ genetics
Colombia
Drug Resistance, Multiple, Bacterial
/ genetics
Enterobacteriaceae Infections
/ microbiology
Genome, Bacterial
/ genetics
Humans
Male
Microbial Sensitivity Tests
Providencia
/ drug effects
beta-Lactam Resistance
/ genetics
beta-Lactamases
/ genetics
And blaTEM-1
Whole-genome sequencing
blaCMY-2
blaCTX-M-15
blaOXA-10
Journal
BMC microbiology
ISSN: 1471-2180
Titre abrégé: BMC Microbiol
Pays: England
ID NLM: 100966981
Informations de publication
Date de publication:
12 11 2020
12 11 2020
Historique:
received:
28
11
2019
accepted:
02
11
2020
entrez:
13
11
2020
pubmed:
14
11
2020
medline:
4
8
2021
Statut:
epublish
Résumé
Providencia rettgeri is a nosocomial pathogen associated with urinary tract infections and related to Healthcare-Associated Infection (HAI). In recent years isolates producing New Delhi Metallo-β-lactamase (NDM) and other β-lactamases have been reported that reduce the efficiency of clinical antimicrobial treatments. In this study, we analyzed antibiotic resistance, the presence of resistance genes and the clonal relationship of two P. rettgeri isolates obtained from male patients admitted to the same hospital in Bogotá - Colombia, 2015. Antibiotic susceptibility profile evaluated by the Kirby-Bauer method revealed that both isolates were resistant to third-generation carbapenems and cephalosporins. Whole-genome sequencing (Illumina HiSeq) followed by SPAdes assembling, Prokka annotation in combination with an in-house Python program and resistance gene detection by ResFinder identified the same six β-lactamase genes in both isolates: bla We report the coexistence of the carbapenemase genes bla
Sections du résumé
BACKGROUND
Providencia rettgeri is a nosocomial pathogen associated with urinary tract infections and related to Healthcare-Associated Infection (HAI). In recent years isolates producing New Delhi Metallo-β-lactamase (NDM) and other β-lactamases have been reported that reduce the efficiency of clinical antimicrobial treatments. In this study, we analyzed antibiotic resistance, the presence of resistance genes and the clonal relationship of two P. rettgeri isolates obtained from male patients admitted to the same hospital in Bogotá - Colombia, 2015.
RESULTS
Antibiotic susceptibility profile evaluated by the Kirby-Bauer method revealed that both isolates were resistant to third-generation carbapenems and cephalosporins. Whole-genome sequencing (Illumina HiSeq) followed by SPAdes assembling, Prokka annotation in combination with an in-house Python program and resistance gene detection by ResFinder identified the same six β-lactamase genes in both isolates: bla
CONCLUSIONS
We report the coexistence of the carbapenemase genes bla
Identifiants
pubmed: 33183231
doi: 10.1186/s12866-020-02030-z
pii: 10.1186/s12866-020-02030-z
pmc: PMC7664025
doi:
Substances chimiques
Anti-Bacterial Agents
0
Bacterial Proteins
0
beta-Lactamases
EC 3.5.2.6
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
345Subventions
Organisme : COLCIENCIAS
ID : FP44842-155-2015
Organisme : DIEB, Universidad Nacional de Colombia CO)
ID : 35030
Références
J Glob Antimicrob Resist. 2014 Dec;2(4):344-345
pubmed: 27873702
Nucleic Acids Res. 2018 Apr 6;46(6):e35
pubmed: 29346586
J Antimicrob Chemother. 2011 Aug;66(8):1931-2
pubmed: 21609982
Korean J Intern Med. 2015 Mar;30(2):219-25
pubmed: 25750564
Korean J Intern Med. 2015 Mar;30(2):167-9
pubmed: 25750557
J Comput Biol. 2012 May;19(5):455-77
pubmed: 22506599
Antimicrob Agents Chemother. 2019 Apr 25;63(5):
pubmed: 30858212
Exp Ther Med. 2018 Jan;15(1):1143-1149
pubmed: 29399114
Antimicrob Agents Chemother. 2013 Jul;57(7):3348-57
pubmed: 23650175
J Glob Antimicrob Resist. 2015 Dec;3(4):302-303
pubmed: 27842879
Nat Rev Microbiol. 2019 May;17(5):295-306
pubmed: 30837684
Antimicrob Agents Chemother. 2010 Jan;54(1):24-38
pubmed: 19721065
Hawaii J Med Public Health. 2015 Nov;74(11):375-7
pubmed: 26568901
Crit Care Res Pract. 2012;2012:625170
pubmed: 21766013
Antimicrob Agents Chemother. 2019 Jan 29;63(2):
pubmed: 30530605
Mikrobiyol Bul. 2018 Jul;52(3):300-307
pubmed: 30156516
BMC Bioinformatics. 2010 Dec 10;11:595
pubmed: 21143983
Methods Mol Biol. 2014;1079:155-70
pubmed: 24170401
N Z Med J. 2017 Apr 28;130(1454):72-79
pubmed: 28449019
J Antimicrob Chemother. 2013 Dec;68(12):2956-7
pubmed: 23869051
Enferm Infecc Microbiol Clin. 2017 Jun - Jul;35(6):354-358
pubmed: 26130312
BMC Microbiol. 2017 Apr 27;17(1):101
pubmed: 28449650
Bioinformatics. 2015 Nov 15;31(22):3691-3
pubmed: 26198102
PLoS Biol. 2014 Jan 28;12(1):e1001776
pubmed: 24492262
ISME J. 2015 Jan;9(1):207-16
pubmed: 25003965
J Antimicrob Chemother. 2011 Oct;66(10):2288-94
pubmed: 21788293
Genome Biol Evol. 2016 Mar;8(3):723-8
pubmed: 27386606
Ann Clin Microbiol Antimicrob. 2018 May 5;17(1):20
pubmed: 29728111
Genome Announc. 2014 Dec 04;2(6):
pubmed: 25477398
J Med Microbiol. 2011 Jul;60(Pt 7):1050-1052
pubmed: 21459904
J Bacteriol. 2003 Apr;185(8):2432-40
pubmed: 12670966
S Afr Med J. 2016 Dec 21;107(1):31-33
pubmed: 28112086
Clin Microbiol Infect. 2012 Mar;18(3):268-81
pubmed: 21793988
BMC Genomics. 2012 May 23;13:202
pubmed: 22621371
Adv Exp Med Biol. 2008;631:80-110
pubmed: 18792683
Braz J Infect Dis. 2015 Nov-Dec;19(6):675-6
pubmed: 26432948
Antimicrob Agents Chemother. 2017 Aug 24;61(9):
pubmed: 28630192
Microbiology (Reading). 2012 Apr;158(Pt 4):1005-1015
pubmed: 22282518
BMC Genomics. 2012 Nov 13;13:612
pubmed: 23145767
Genome Announc. 2017 Jan 19;5(3):
pubmed: 28104655
Microbiol Resour Announc. 2019 Jan 17;8(3):
pubmed: 30687816
J Antimicrob Chemother. 2013 Aug;68(8):1934-6
pubmed: 23620464
PLoS One. 2012;7(4):e33777
pubmed: 22496764
Enferm Infecc Microbiol Clin. 2014 Dec;32 Suppl 4:17-23
pubmed: 25542048
Clin Microbiol Rev. 2018 Aug 1;31(4):
pubmed: 30068738
Antimicrob Agents Chemother. 2014;58(4):2119-25
pubmed: 24468778
Mem Inst Oswaldo Cruz. 2015 Jun;110(4):580-2
pubmed: 26061151
Int J Antimicrob Agents. 2015 May;45(5):471-6
pubmed: 25631675
J Microbiol. 2007 Jun;45(3):272-4
pubmed: 17618235
Microb Drug Resist. 2017 Apr;23(3):301-307
pubmed: 27459019
Clin Microbiol Rev. 2000 Oct;13(4):534-46
pubmed: 11023955
Genome Res. 2004 Jul;14(7):1394-403
pubmed: 15231754
J Bacteriol. 2003 Mar;185(6):1851-6
pubmed: 12618449
Emerg Infect Dis. 2014 Feb;20(2):340-2
pubmed: 24456600
Med Monatsschr Pharm. 2014 May;37(5):162-72; quiz 173-4
pubmed: 24908928
CMAJ. 2011 Aug 9;183(11):1257-61
pubmed: 21624908
Am J Med Sci. 2013 Aug;346(2):158-9
pubmed: 23811573
Nucleic Acids Res. 2016 Jan 4;44(D1):D694-7
pubmed: 26578559
Clin Microbiol Rev. 2019 Jan 30;32(2):
pubmed: 30700432
Proc Natl Acad Sci U S A. 2009 Nov 10;106(45):19126-31
pubmed: 19855009
BMC Infect Dis. 2014 Feb 03;14:56
pubmed: 24484534
Ophthalmology. 2006 Aug;113(8):1463-6
pubmed: 16797710
J Med Microbiol. 2005 Nov;54(Pt 11):1077-1082
pubmed: 16192440
Pharmacotherapy. 2006 Aug;26(8):1099-110
pubmed: 16863487
Wellcome Open Res. 2018 Sep 24;3:124
pubmed: 30345391
J Antimicrob Chemother. 2011 Sep;66(9):1992-7
pubmed: 21676902
Antimicrob Agents Chemother. 2009 Dec;53(12):5046-54
pubmed: 19770275
Bioinformatics. 2014 Jul 15;30(14):2068-9
pubmed: 24642063
Mol Biol Evol. 2009 Jul;26(7):1641-50
pubmed: 19377059
J Clin Microbiol. 2013 May;51(5):1642-3
pubmed: 23486709
Antimicrob Agents Chemother. 2009 Mar;53(3):1080-7
pubmed: 19104017
J Biotechnol. 2016 Aug 20;232:2-11
pubmed: 26376473