Emergence of -Carrying K433 Isolated From Patient With Community-Acquired Pneumonia

Overview

Journal Front Microbiol

Specialty Microbiology

Date 2022 Jun 6

PMID 35663877

Authors

Xinhua Luo

Kai Mu

Yujie Zhao

Jin Zhang

Ying Qu

Dakang Hu

Yifan Jia

Piaopiao Dai

Jian Weng

Dongguo Wang

Lianhua Yu

Affiliations

Soon will be listed here.

Abstract

To demonstrate the detailed genetic characteristics of a -carrying multidrug-resistant strain, the complete genome of the strain K433 was sequenced by Illumina HiSeq and Oxford nanopore platforms, and mobile genetic elements associated with antibiotic resistance genes were analyzed by a series of bioinformatics methods. K433 which was determined to produce class B carbapenemase, was resistant to most antibiotics tested except amikacin. The genome of K433 consisted of a chromosome cK433 (6,482-kb length) and two plasmids: pK433-qnrS (7.212-kb length) and pK433-NDM (200.855-kb length), the last being the first investigated -carrying plasmid from spp. By comparison of the backbone and MDR regions from the plasmids studied, they involved a highly homologous sequence structure. This study provides in-depth genetic insights into the plasmids integrated with -carrying genetic elements from spp.

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References

Mojica M, Rossi M, Vila A, Bonomo R . The urgent need for metallo-β-lactamase inhibitors: an unattended global threat. Lancet Infect Dis. 2021; 22(1):e28-e34. PMC: 8266270. DOI: 10.1016/S1473-3099(20)30868-9. View

Boratyn G, Camacho C, Cooper P, Coulouris G, Fong A, Ma N . BLAST: a more efficient report with usability improvements. Nucleic Acids Res. 2013; 41(Web Server issue):W29-33. PMC: 3692093. DOI: 10.1093/nar/gkt282. View

Sekizuka T, Inamine Y, Segawa T, Hashino M, Yatsu K, Kuroda M . Potential KPC-2 carbapenemase reservoir of environmental Aeromonas hydrophila and Aeromonas caviae isolates from the effluent of an urban wastewater treatment plant in Japan. Environ Microbiol Rep. 2019; 11(4):589-597. PMC: 6851574. DOI: 10.1111/1758-2229.12772. View

Delavat F, Miyazaki R, Carraro N, Pradervand N, van der Meer J . The hidden life of integrative and conjugative elements. FEMS Microbiol Rev. 2017; 41(4):512-537. PMC: 5812530. DOI: 10.1093/femsre/fux008. View

Demarta A, Tonolla M, Caminada A, Ruggeri N, Peduzzi R . Signature region within the 16S rDNA sequences of Aeromonas popoffii. FEMS Microbiol Lett. 1999; 172(2):239-46. DOI: 10.1111/j.1574-6968.1999.tb13474.x. View

Bellanger X, Payot S, Leblond-Bourget N, Guedon G . Conjugative and mobilizable genomic islands in bacteria: evolution and diversity. FEMS Microbiol Rev. 2013; 38(4):720-60. DOI: 10.1111/1574-6976.12058. View

Kong L, Xiang R, Wang Y, Wu S, Lei C, Kang Z . Integration of the blaNDM-1 carbapenemase gene into a novel SXT/R391 integrative and conjugative element in Proteus vulgaris. J Antimicrob Chemother. 2020; 75(6):1439-1442. DOI: 10.1093/jac/dkaa068. View

Edgar R . MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics. 2004; 5:113. PMC: 517706. DOI: 10.1186/1471-2105-5-113. View

Siguier P, Perochon J, Lestrade L, Mahillon J, Chandler M . ISfinder: the reference centre for bacterial insertion sequences. Nucleic Acids Res. 2005; 34(Database issue):D32-6. PMC: 1347377. DOI: 10.1093/nar/gkj014. View

10.

Boutet E, Lieberherr D, Tognolli M, Schneider M, Bansal P, Bridge A . UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View. Methods Mol Biol. 2015; 1374:23-54. DOI: 10.1007/978-1-4939-3167-5_2. View

11.

Sakamoto N, Akeda Y, Sugawara Y, Takeuchi D, Motooka D, Yamamoto N . Genomic Characterization of Carbapenemase-Producing Klebsiella pneumoniae with Chromosomally Carried . Antimicrob Agents Chemother. 2018; 62(12). PMC: 6256778. DOI: 10.1128/AAC.01520-18. View

12.

Luo X, Yin Z, Zeng L, Hu L, Jiang X, Jing Y . Chromosomal Integration of Huge and Complex -Carrying Genetic Elements in Enterobacteriaceae. Front Cell Infect Microbiol. 2021; 11:690799. PMC: 8239412. DOI: 10.3389/fcimb.2021.690799. View

13.

Reynolds M, Phan H, George S, Hubbard A, Stoesser N, Maciuca I . Occurrence and characterization of Escherichia coli ST410 co-harbouring blaNDM-5, blaCMY-42 and blaTEM-190 in a dog from the UK. J Antimicrob Chemother. 2019; 74(5):1207-1211. DOI: 10.1093/jac/dkz017. View

14.

Brettin T, Davis J, Disz T, Edwards R, Gerdes S, Olsen G . RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes. Sci Rep. 2015; 5:8365. PMC: 4322359. DOI: 10.1038/srep08365. View

15.

Maravic A, Skocibusic M, Samanic I, Fredotovic Z, Cvjetan S, Jutronic M . Aeromonas spp. simultaneously harbouring bla(CTX-M-15), bla(SHV-12), bla(PER-1) and bla(FOX-2), in wild-growing Mediterranean mussel (Mytilus galloprovincialis) from Adriatic Sea, Croatia. Int J Food Microbiol. 2013; 166(2):301-8. DOI: 10.1016/j.ijfoodmicro.2013.07.010. View

16.

Piotrowska M, Przygodzinska D, Matyjewicz K, Popowska M . Occurrence and Variety of β-Lactamase Genes among spp. Isolated from Urban Wastewater Treatment Plant. Front Microbiol. 2017; 8:863. PMC: 5432545. DOI: 10.3389/fmicb.2017.00863. View

17.

Nguyen F, Starosta A, Arenz S, Sohmen D, Donhofer A, Wilson D . Tetracycline antibiotics and resistance mechanisms. Biol Chem. 2014; 395(5):559-75. DOI: 10.1515/hsz-2013-0292. View

18.

Pournaras S, Zarkotou O, Poulou A, Kristo I, Vrioni G, Themeli-Digalaki K . A combined disk test for direct differentiation of carbapenemase-producing enterobacteriaceae in surveillance rectal swabs. J Clin Microbiol. 2013; 51(9):2986-90. PMC: 3754636. DOI: 10.1128/JCM.00901-13. View

19.

Tsakris A, Poulou A, Pournaras S, Voulgari E, Vrioni G, Themeli-Digalaki K . A simple phenotypic method for the differentiation of metallo-beta-lactamases and class A KPC carbapenemases in Enterobacteriaceae clinical isolates. J Antimicrob Chemother. 2010; 65(8):1664-71. DOI: 10.1093/jac/dkq210. View

20.

Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O . Identification of acquired antimicrobial resistance genes. J Antimicrob Chemother. 2012; 67(11):2640-4. PMC: 3468078. DOI: 10.1093/jac/dks261. View