Whole genome sequencing of extended-spectrum β-lactamase producing Klebsiella pneumoniae isolated from a patient in Lebanon

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dc.contributor.author Tokajian, Sima
dc.contributor.author Eisen, Jonathan
dc.contributor.author Jospin, Guillaume
dc.contributor.author Coil, David
dc.date.accessioned 2016-04-05T09:48:39Z
dc.date.available 2016-04-05T09:48:39Z
dc.date.copyright 2015
dc.date.issued 2016-04-05
dc.identifier.issn 2235-2988 en_US
dc.identifier.uri http://hdl.handle.net/10725/3487
dc.description.abstract Objective: The emergence of extended-spectrum β-lactamase (ESBL)-producing bacteria is now a critical concern. The ESBL-producing Klebsiella pneumoniae constitutes one of the most common multidrug-resistant (MDR) groups of gram-negative bacteria involved in nosocomial infections worldwide. In this study we report on the molecular characterization through whole genome sequencing of an ESBL-producing K. pneumoniae strain, LAU-KP1, isolated from a stool sample from a patient admitted for a gastrointestinal procedure/surgery at the Lebanese Amrican University Medical Center-Rizk Hospital (LAUMCRH) in Lebanon. Methods: Illumina paired-end libraries were prepared and sequenced, which resulted in 4,220,969 high-quality reads. All sequence processing and assembly were performed using the A5 assembly pipeline. Results: The initial assembly produced 86 contigs, for which no scaffolding was obtained. The final collection of contigs was submitted to GenBank. The final draft genome sequence consists of a combined 5,632,663 bases with 57% G+C content. Automated annotation was performed using the RAST annotation server. Sequencing analysis revealed that the isolate harbored different β-lactamase genes, including blaoxa−1, blaCTX−M−15, blaSHV−11, and blaTEM−1b. The isolate was also characterized by the concomitant presence of other resistance determinants most notably acc(6′)-lb-cr and qnrb1. The entire plasmid content was also investigated and revealed homology with four major plasmids pKPN-IT, pBS512_2, pRSF1010_SL1344, and pKPN3. Conclusions: The potential role of K. pneumonia as a reservoir for ESBL genes and other resistance determinants is along with the presence of key factors that favor the spread of antimicrobial resistance a clear cause of concern and the problem that Carbapenem-non-susceptible ESBL isolates are posing in hospitals should be reconsidered through systematic exploration and molecular characterization. en_US
dc.language.iso en en_US
dc.title Whole genome sequencing of extended-spectrum β-lactamase producing Klebsiella pneumoniae isolated from a patient in Lebanon en_US
dc.type Article en_US
dc.description.version Published en_US
dc.author Coil, David
dc.author.school SAS en_US
dc.author.idnumber 199736770 en_US
dc.author.idnumber 200804713
dc.author.woa N/A en_US
dc.author.department Natural Sciences en_US
dc.description.embargo N/A en_US
dc.relation.journal Frtontiers in Cellular and Infection Microbiology en_US
dc.journal.volume 5 en_US
dc.article.pages 1-7
dc.keywords ESBL en_US
dc.keywords Klebsiella pneumoniae en_US
dc.keywords Whole genome sequencing en_US
dc.keywords CTX-M-15 en_US
dc.keywords SHV-11 en_US
dc.identifier.doi http://dx.doi.org/10.3389/fcimb.2015.00032 en_US
dc.identifier.ctation Tokajian, S., Eisen, J. A., Jospin, G., Farra, A., & Coil, D. A. (2015). Whole genome sequencing of extended-spectrum β-lactamase producing Klebsiella pneumoniae isolated from a patient in Lebanon. Frontiers in cellular and infection microbiology, 5. en_US
dc.author.email stokjian@lau.edu.lb
dc.author.email anna.farra@lau.edu.lb
dc.identifier.url http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4389573/
dc.orcid.id https://orcid.org/0000-0002-3653-8940

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