Evolution of Ciprofloxacin Resistance-Encoding Genetic Elements in
PMQR genes
Salmonella
ciprofloxacin resistance
evolution
phylogenetic analysis
plasmids
Journal
mSystems
ISSN: 2379-5077
Titre abrégé: mSystems
Pays: United States
ID NLM: 101680636
Informations de publication
Date de publication:
22 Dec 2020
22 Dec 2020
Historique:
entrez:
28
12
2020
pubmed:
29
12
2020
medline:
29
12
2020
Statut:
epublish
Résumé
The incidence of ciprofloxacin resistance in
Identifiants
pubmed: 33361329
pii: 5/6/e01234-20
doi: 10.1128/mSystems.01234-20
pmc: PMC7762800
pii:
doi:
Types de publication
Journal Article
Langues
eng
Commentaires et corrections
Type : ErratumIn
Informations de copyright
Copyright © 2020 Chen et al.
Références
Chlebicz A, Slizewska K. Campylobacteriosis, salmonellosis, yersiniosis, and listeriosis as zoonotic foodborne diseases: a review. Int J Environ Res Public Health. 2018;15:863.
doi: 10.3390/ijerph15050863
Gomez TM, Motarjemi Y, Miyagawa S, Kaferstein FK, Stohr K. Foodborne salmonellosis. World Health Stat Q. 1997;50:81–89.
Crump JA, Sjolund-Karlsson M, Gordon MA, Parry CM. Epidemiology, clinical presentation, laboratory diagnosis, antimicrobial resistance, and antimicrobial management of invasive salmonella infections. Clin Microbiol Rev. 2015;28:901–937.
doi: 10.1128/CMR.00002-15
Tack B, Vanaenrode J, Verbakel JY, Toelen J, Jacobs J. Invasive non-typhoidal Salmonella infections in sub-Saharan Africa: a systematic review on antimicrobial resistance and treatment. BMC Med. 2020;18:212.
doi: 10.1186/s12916-020-01652-4
Arjyal A, Pandit A. Treatment of enteric fever. J Infect Dev Ctries. 2008;2:426–430.
doi: 10.3855/jidc.156
Trivedi NA, Shah PC. A meta-analysis comparing the safety and efficacy of azithromycin over the alternate drugs used for treatment of uncomplicated enteric fever. J Postgrad Med. 2012;58:112–118.
doi: 10.4103/0022-3859.97172
Chen S, Cui S, McDermott PF, Zhao S, White DG, Paulsen I, Meng J. Contribution of target gene mutations and efflux to decreased susceptibility of Salmonella enterica serovar typhimurium to fluoroquinolones and other antimicrobials. Antimicrob Agents Chemother. 2007;51:535–542.
doi: 10.1128/AAC.00600-06
Chen S, Zhao S, White DG, Schroeder CM, Lu R, Yang H, McDermott PF, Ayers S, Meng J. Characterization of multiple-antimicrobial-resistant salmonella serovars isolated from retail meats. Appl Environ Microbiol. 2004;70:1–7.
doi: 10.1128/aem.70.1.1-7.2004
Wong MH, Chen S. First detection of oqxAB in Salmonella spp. isolated from food. Antimicrob Agents Chemother. 2013;57:658–660.
doi: 10.1128/AAC.01144-12
de Toro M, Rodriguez I, Rojo-Bezares B, Helmuth R, Torres C, Guerra B, Saenz Y. pMdT1, a small ColE1-like plasmid mobilizing a new variant of the aac (6')-Ib-cr gene in Salmonella enterica serovar Typhimurium. J Antimicrob Chemother. 2013;68:1277–1280.
doi: 10.1093/jac/dkt001
Ferrari R, Galiana A, Cremades R, Rodriguez JC, Magnani M, Tognim MC, Oliveira TC, Royo G. Plasmid-mediated quinolone resistance by genes qnrA1 and qnrB19 in Salmonella strains isolated in Brazil. J Infect Dev Ctries. 2011;5:496–498.
doi: 10.3855/jidc.1735
Ferrari R, Galiana A, Cremades R, Rodriguez JC, Magnani M, Tognim MC, Oliveira TC, Royo G. Plasmid-mediated quinolone resistance (PMQR) and mutations in the topoisomerase genes of Salmonella enterica strains from Brazil. Braz J Microbiol. 2013;44:651–656.
doi: 10.1590/S1517-83822013000200046
Karczmarczyk M, Stephan R, Hachler H, Fanning S. Complete nucleotide sequence of pVQS1 containing a quinolone resistance determinant from Salmonella enterica serovar Virchow associated with foreign travel. J Antimicrob Chemother. 2012;67:1861–1864.
doi: 10.1093/jac/dks158
Wong MH, Chan EW, Liu LZ, Chen S. PMQR genes oqxAB and aac (6')Ib-cr accelerate the development of fluoroquinolone resistance in Salmonella typhimurium. Front Microbiol. 2014;5:521.
doi: 10.3389/fmicb.2014.00521
Lin D, Chen K, Wai-Chi Chan E, Chen S. Increasing prevalence of ciprofloxacin-resistant food-borne Salmonella strains harboring multiple PMQR elements but not target gene mutations. Sci Rep. 2015;5:14754.
doi: 10.1038/srep14754
Chen K, Chan EWC, Chen S. Evolution and transmission of a conjugative plasmid encoding both ciprofloxacin and ceftriaxone resistance in Salmonella. Emerg Microbes Infect. 2019;8:396–403.
doi: 10.1080/22221751.2019.1585965
Chen K, Dong N, Chan EW, Chen S. Transmission of ciprofloxacin resistance in Salmonella mediated by a novel type of conjugative helper plasmids. Emerg Microbes Infect. 2019;8:857–865.
doi: 10.1080/22221751.2019.1626197
Chen K, Dong N, Zhao S, Liu L, Li R, Xie M, Lin D, Wai-Chi Chan E, Meng J, McDermott PF, Chen S. Identification and characterization of conjugative plasmids that encode ciprofloxacin resistance in Salmonella. Antimicrob Agents Chemother. 2018;62:e00575-18.
doi: 10.1128/AAC.00575-18
Strahilevitz J, Jacoby GA, Hooper DC, Robicsek A. Plasmid-mediated quinolone resistance: a multifaceted threat. Clin Microbiol Rev. 2009;22:664–689.
doi: 10.1128/CMR.00016-09
Carattoli A. Plasmids and the spread of resistance. Int J Med Microbiol. 2013;303:298–304.
doi: 10.1016/j.ijmm.2013.02.001
Akiyama T, Khan AA. Isolation and characterization of small qnrS1-carrying plasmids from imported seafood isolates of Salmonella enterica that are highly similar to plasmids of clinical isolates. FEMS Immunol Med Microbiol. 2012;64:429–432.
doi: 10.1111/j.1574-695X.2011.00921.x
Wu J-J, Ko W-C, Chiou C-S, Chen H-M, Wang L-R, Yan J-J. Emergence of Qnr determinants in human Salmonella isolates in Taiwan. J Antimicrob Chemother. 2008;62:1269–1272.
doi: 10.1093/jac/dkn426
Campos MJ, Palomo G, Hormeño L, Herrera-León S, Domínguez L, Vadillo S, Píriz S, Quesada A. Prevalence of quinolone resistance determinants in non-typhoidal Salmonella isolates from human origin in Extremadura, Spain. Diagn Microbiol Infect Dis. 2014;79:64–69.
doi: 10.1016/j.diagmicrobio.2014.01.010
Pérez-Moreno MO, Estepa V, Sáenz Y, Cortell-Ortolá M, Fort-Gallifa I, Ruiz J, Torres C. Intrahospitalary dissemination of Klebsiella pneumoniae carrying blaDHA-1 and qnrB4 genes within a novel complex class 1 integron. Diagn Microbiol Infect Dis. 2012;73:210–211.
doi: 10.1016/j.diagmicrobio.2012.02.011
Song Q, Xu Z, Gao H, Zhang D. Overview of the development of quinolone resistance in Salmonella species in China, 2005–2016. Infect Drug Resist. 2018;11:267–274.
doi: 10.2147/IDR.S157460
Dong N, Li Y, Zhao J, Ma H, Wang J, Liang B, Du X, Wu F, Xia S, Yang X, Liu H, Yang C, Qiu S, Song H, Jia L, Li Y, Sun Y. The phenotypic and molecular characteristics of antimicrobial resistance of Salmonella enterica subsp. enterica serovar Typhimurium in Henan Province, China. BMC Infect Dis. 2020;20:511.
doi: 10.1186/s12879-020-05203-3
Rushdy AA, Mabrouk MI, Abu-Sef FA, Kheiralla ZH, Mohamed Abdel-All S, Saleh NM. Contribution of different mechanisms to the resistance to fluoroquinolones in clinical isolates of Salmonella enterica. Braz J Infect Dis. 2013;17:431–437.
doi: 10.1016/j.bjid.2012.11.012
Jorgensen JH. Methods for antimicrobial dilution and disk susceptibility testing of infrequently isolated or fastidious bacteria; approved guideline. 2015.
Wong MHY, Yan M, Chan EWC, Biao K, Chen S. Emergence of clinical Salmonella enterica serovar Typhimurium isolates with concurrent resistance to ciprofloxacin, ceftriaxone, and azithromycin. Antimicrob Agents Chemother. 2014;58:3752–3756.
doi: 10.1128/AAC.02770-13
Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 2012;19:455–477.
doi: 10.1089/cmb.2012.0021
Overbeek R, Olson R, Pusch GD, Olsen GJ, Davis JJ, Disz T, Edwards RA, Gerdes S, Parrello B, Shukla M, Vonstein V, Wattam AR, Xia F, Stevens R. The SEED and the rapid annotation of microbial genomes using subsystems technology (RAST). Nucleic Acids Res. 2014;42:D206–D214.
doi: 10.1093/nar/gkt1226
Alikhan N-F, Petty NK, Zakour NLB, Beatson SA. BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons. BMC Genomics. 2011;12:402.
doi: 10.1186/1471-2164-12-402
Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114–2120.
doi: 10.1093/bioinformatics/btu170
Nurk S, Bankevich A, Antipov D, Gurevich AA, Korobeynikov A, Lapidus A, Prjibelski AD, Pyshkin A, Sirotkin A, Sirotkin Y, Stepanauskas R, Clingenpeel SR, Woyke T, McLean JS, Lasken R, Tesler G, Alekseyev MA, Pevzner PA. Assembling single-cell genomes and mini-metagenomes from chimeric MDA products. J Comput Biol. 2013;20:714–737.
doi: 10.1089/cmb.2013.0084
Yoshida CE, Kruczkiewicz P, Laing CR, Lingohr EJ, Gannon VP, Nash JH, Taboada EN. The Salmonella in silico typing resource (SISTR): an open web-accessible tool for rapidly typing and subtyping draft Salmonella genome assemblies. PLoS One. 2016;11:e0147101.
doi: 10.1371/journal.pone.0147101
Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O, Aarestrup FM, Larsen MV. Identification of acquired antimicrobial resistance genes. J Antimicrob Chemother. 2012;67:2640–2644.
doi: 10.1093/jac/dks261
Carattoli A, Zankari E, García-Fernández A, Larsen MV, Lund O, Villa L, Aarestrup FM, Hasman H. In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing. Antimicrob Agents Chemother. 2014;58:3895–3903.
doi: 10.1128/AAC.02412-14
Kwong JC, Mercoulia K, Tomita T, Easton M, Li HY, Bulach DM, Stinear TP, Seemann T, Howden BP. Prospective whole-genome sequencing enhances national surveillance of Listeria monocytogenes. J Clin Microbiol. 2016;54:333–342.
doi: 10.1128/JCM.02344-15
Price MN, Dehal PS, Arkin AP. FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol Biol Evol. 2009;26:1641–1650.
doi: 10.1093/molbev/msp077
Letunic I, Bork P. Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees. Nucleic Acids Res. 2016;44:W242–W245.
doi: 10.1093/nar/gkw290
Cheng L, Connor TR, Sirén J, Aanensen DM, Corander J. Hierarchical and spatially explicit clustering of DNA sequences with BAPS software. Mol Biol Evol. 2013;30:1224–1228.
doi: 10.1093/molbev/mst028