Draft Genomes Sequences of KPC-2, OXA-1, OXA-9, SHV-28, TEM-1 and CTX-M-15 Producing Klebsiella pneumoniae ST15 and KPC-2, OXA-1, TEM-1 and LEN-2 Producing Klebsiella variicola ST32 from Clinical Samples in Rio de Janeiro, Brazil

Author's: Cristiane Rodrigues Silva^1,3*, Rafael Monção Miller^2,3, Victor Hugo Lima de Medeiros Macedo^2,3, Mara Adriana Oliveira da Silva⁴, Karla Regina Oliveira de Moura Ronchini^4,5, Victor Augustus Marin^1,2,3

Authors' Affiliations

¹Graduate Program in Food and Nutrition (PPGAN), Nutrition School, ²Nutrition School, ³Microbiological Control Laboratory of Nutrition School (LACOMEN), Department of Food Science (DCA), Nutrition School, Federal University of the State of Rio de Janeiro (UNIRIO), Pasteur Avenue, 296, Urca - Rio de Janeiro/RJ - Brazil, 22290-240.⁴Gafrée and Guinle University Hospital, Federal University of the State of Rio de Janeiro (UNIRIO), Mariz e Barros Street Rua Mariz E Barros, 775, Praça da Bandeira, Rio de Janeiro/RJ - Brazil, 20270-004.⁵Internal Medicine Department, School of Medicine, Infectious Disease, Fluminense Federal University, (UFF), Marques do Paraná Avenue, 303, Centro, Niterói/RJ - Brazil, 24033-900.*Corresponding Author: Cristiane Rodrigues Silva;Email:cristiane.silva@unirio.br

Article Type: Research Article Published: Oct. 27, 2020 Pages: 95-101
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Abstract:

KPC-producing bacteria are considered one of the most worrisome multidrug-resistant micro-organisms in nosocomial infections. Here we report the draft genomes sequences of two KPC-2 and CTX-M-15 producing Klebsiella pneumoniae sequence type 15 (ST15) and Klebsiella variicola sequence type 32 (ST32) isolates obtained from clinical samples of patients in Rio de Janeiro. A genomic library was constructed using a Nextera XT Kit. An Illumina platform was used to perform whole-genome sequencing (WGS). WGS of isolates K. pneumoniae and K. variicola resulted in estimated genome sizes of 5 662 554 and 5 868 756 bp, respectively. Resistome analysis of the clinical strains revealed the presence of resistance genes to the following antimicrobials in K. pneumoniae: aminoglycosides [aadA1], [aph (3’)-Ia], [aph(3”)-Ib], [aac(6′)-Ib3], [aadA2] and [aph(6)-Id]; beta lactams (bla_OXA-1, bla_oxa-9, bla_CTX-M-15,bla_TEM-1,andbla_SHV-28); carbapenem (bla_KPC-2); ﬂuoroquinolones [aac(60)-Ib-cr], [oqxA]and [oqxB]; fosfomycin [fosA]; macrolides [mph(A)] and [erm(B)]; phenicols [catB3]; sulfonamides [sul1]; trimethoprim [dfrA12] and tetracycline [tetA] and to K. variicola: aminoglycosides [aadA1], [aph (3)-IIa], [aac(6′)-Ib-cr] and [aph(6)-Id]; beta lactams (bla_OXA-1, bla_CTX-M-15,bla_TEM-1Bandbla_LEN-2); carbapenem (bla_KPC-2); ﬂuoroquinolones [aac(60)-Ib-cr], [qnrB1], [oqxA]and [oqxB]; fosfomycin [fosA]; phenicols [catB3]; sulfonamides [sul2]; trimethoprim [dfrA14] and tetracycline [tetA]. The resistome revealed by this study might be a useful tool to elucidate the dissemination of nosocomial resistance genes in Rio de Janeiro.

Keywords:

Genome, antibiotic resistance, infection, Klebsiella pneumonia, Klebsiella variicola.

Citation:

Silva, C.R., Miller, R.M., Macedo, V.H.L.M., da Silva, M.A.O., Ronchini, K.R.O.M., Marin, V.A., 2020. Draft Genomes Sequences of KPC-2, OXA-1, OXA-9, SHV-28, TEM-1 and CTX-M-15 Producing Klebsiella pneumoniae ST15 and KPC-2, OXA-1, TEM-1 and LEN-2 Producing Klebsiella variicola ST32 from Clinical Samples in Rio de Janeiro, Brazil. PSM Microbiol., 5(4): 95-101.

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