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An insight into the genome of extensively drug-resistant and uropathogenic Citrobacter werkmanii.
J Glob Antimicrob Resist. 2020 Jun 30 [Online ahead of print]JG

Abstract

OBJECTIVE

Carbapenemase producing bacteria poses serious threat to public. This study was performed to understand the emergence and genetic features of NDM-producers in hospital setting.

MATERIALS AND METHODS

Samples were collected from tertiary care hospital. Isolate identification was carried out by 16S rRNA sequencing. The genome of Citrobacter werkmanii (AK-8) was sequenced on Illumina-NextSeq-500 platform. Resistant determinants and pathogenicity islands were determined by ResFinder and PathogenFinder, respectively. MLST, two-component system and transcription factors were identified by P2RP server, while, variant calling and insertion sequences were determined by Galaxy and ISfinder, respectively. AK-8 genome was compared with Escherichia coli (536-UPEC).

RESULTS

It is the first report on whole genome analysis of extensively drug-resistant NDM-6 producing uropathogenic Citrobacter werkmanii, ST-104. Resistance genes for all antibiotics except colistin, fosfomycin, fusidic-acid, nitroimidazole, oxazolidinones, tetracycline and glycopeptides were detected in the isolated strain. The genome analysis of AK-8 led us to identify BaeSR two-component system, regulating the production of multidrug efflux proteins. The virulence was found to be regulated by CpxRA, ZraRS, RstAB, UhpAB, AcrAB, RcsBc, and UvrY whereas, Bar-UvrY was found to control carbon metabolism, flagellum biosynthesis and biofilm formation. AK-8 genome encodes 21 chemoreceptors, helping in colonization and pathogenesis. Fur family transcriptional regulator, cAMP receptor protein and RpoS were found to increase virulence of AK-8. ntBLAST analysis showed 69.60% genetic identity with E. coli 536 as an adaptive feature acquired for survival.

CONCLUSION

The emergence of extensively drug-resistant and pathogenic Citrobacter werkmanii is alarming and it should not be ignored as commensal.

Authors+Show Affiliations

Medical Microbiology and Molecular Biology Lab., Interdisciplinary Biotechnology Unit, A.M.U., Aligarh, 202 002, India; CIF, S. Ramanujan Block, Mujeeb Bagh, JMI, New Delhi, 110 025, India.Medical Microbiology and Molecular Biology Lab., Interdisciplinary Biotechnology Unit, A.M.U., Aligarh, 202 002, India. Electronic address: asad.k@rediffmail.com.MTCC- Microbial Type Culture Collection & Gene Bank, CSIR- Institute of Microbial Technology, Chandigarh, 160 036, India.Aix-Marseille University, CEA, CNRS, LEMiRE, UMR 7265, BIAM, Saint-Paul-lez-Durance, France.Aix-Marseille University, CEA, CNRS, LEMiRE, UMR 7265, BIAM, Saint-Paul-lez-Durance, France.MTCC- Microbial Type Culture Collection & Gene Bank, CSIR- Institute of Microbial Technology, Chandigarh, 160 036, India.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

32619689

Citation

Parvez, Shadab, et al. "An Insight Into the Genome of Extensively Drug-resistant and Uropathogenic Citrobacter Werkmanii." Journal of Global Antimicrobial Resistance, 2020.
Parvez S, Khan AU, Kaur G, et al. An insight into the genome of extensively drug-resistant and uropathogenic Citrobacter werkmanii. J Glob Antimicrob Resist. 2020.
Parvez, S., Khan, A. U., Kaur, G., Barakat, M., Ortet, P., & Mayilraj, S. (2020). An insight into the genome of extensively drug-resistant and uropathogenic Citrobacter werkmanii. Journal of Global Antimicrobial Resistance. https://doi.org/10.1016/j.jgar.2020.06.014
Parvez S, et al. An Insight Into the Genome of Extensively Drug-resistant and Uropathogenic Citrobacter Werkmanii. J Glob Antimicrob Resist. 2020 Jun 30; PubMed PMID: 32619689.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - An insight into the genome of extensively drug-resistant and uropathogenic Citrobacter werkmanii. AU - Parvez,Shadab, AU - Khan,Asad U, AU - Kaur,Gurwinder, AU - Barakat,Mohamed, AU - Ortet,Philippe, AU - Mayilraj,Shanmugam, Y1 - 2020/06/30/ PY - 2020/04/07/received PY - 2020/05/28/revised PY - 2020/06/18/accepted PY - 2020/7/4/entrez PY - 2020/7/4/pubmed PY - 2020/7/4/medline KW - Citrobacterwerkmanii KW - IS30 KW - NDM-6 KW - antimicrobial resistance KW - two-component system KW - uropathogen JF - Journal of global antimicrobial resistance JO - J Glob Antimicrob Resist N2 - OBJECTIVE: Carbapenemase producing bacteria poses serious threat to public. This study was performed to understand the emergence and genetic features of NDM-producers in hospital setting. MATERIALS AND METHODS: Samples were collected from tertiary care hospital. Isolate identification was carried out by 16S rRNA sequencing. The genome of Citrobacter werkmanii (AK-8) was sequenced on Illumina-NextSeq-500 platform. Resistant determinants and pathogenicity islands were determined by ResFinder and PathogenFinder, respectively. MLST, two-component system and transcription factors were identified by P2RP server, while, variant calling and insertion sequences were determined by Galaxy and ISfinder, respectively. AK-8 genome was compared with Escherichia coli (536-UPEC). RESULTS: It is the first report on whole genome analysis of extensively drug-resistant NDM-6 producing uropathogenic Citrobacter werkmanii, ST-104. Resistance genes for all antibiotics except colistin, fosfomycin, fusidic-acid, nitroimidazole, oxazolidinones, tetracycline and glycopeptides were detected in the isolated strain. The genome analysis of AK-8 led us to identify BaeSR two-component system, regulating the production of multidrug efflux proteins. The virulence was found to be regulated by CpxRA, ZraRS, RstAB, UhpAB, AcrAB, RcsBc, and UvrY whereas, Bar-UvrY was found to control carbon metabolism, flagellum biosynthesis and biofilm formation. AK-8 genome encodes 21 chemoreceptors, helping in colonization and pathogenesis. Fur family transcriptional regulator, cAMP receptor protein and RpoS were found to increase virulence of AK-8. ntBLAST analysis showed 69.60% genetic identity with E. coli 536 as an adaptive feature acquired for survival. CONCLUSION: The emergence of extensively drug-resistant and pathogenic Citrobacter werkmanii is alarming and it should not be ignored as commensal. SN - 2213-7173 UR - https://www.unboundmedicine.com/medline/citation/32619689/An_insight_into_the_genome_of_extensively_drug-resistant_and_uropathogenic_Citrobacter_werkmanii L2 - https://linkinghub.elsevier.com/retrieve/pii/S2213-7165(20)30156-9 DB - PRIME DP - Unbound Medicine ER -
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