Combining sequencing approaches to fully resolve a carbapenemase-encoding megaplasmid in a Pseudomonas shirazica clinical strain
| Title: | Combining sequencing approaches to fully resolve a carbapenemase-encoding megaplasmid in a Pseudomonas shirazica clinical strain |
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| Authors: | João Botelho, Cédric Lood, Sally R. Partridge, Vera van Noort, Rob Lavigne, Filipa Grosso, Luísa Peixe |
| Source: | Emerging Microbes and Infections, Vol 8, Iss 1, Pp 1186-1194 (2019) |
| Publisher Information: | Taylor & Francis Group, 2019. |
| Publication Year: | 2019 |
| Collection: | LCC:Infectious and parasitic diseases LCC:Microbiology |
| Subject Terms: | Pseudomonas, megaplasmids, Nanopore, Illumina, antibiotic resistance, Infectious and parasitic diseases, RC109-216, Microbiology, QR1-502 |
| More Details: | Horizontal transfer of plasmids plays a pivotal role in dissemination of antibiotic resistance genes and emergence of multidrug-resistant bacteria. Plasmid sequencing is thus paramount for accurate epidemiological tracking in hospitals and routine surveillance. Combining Nanopore and Illumina sequencing allowed full assembly of a carbapenemase-encoding megaplasmid carried by multidrug-resistant clinical isolate FFUP_PS_41. Average nucleotide identity analyses revealed that FFUP_PS_41 belongs to the recently proposed new species Pseudomonas shirazica, related to the P. putida phylogenetic group. FFUP_PS_41 harbours a 498,516-bp megaplasmid (pJBCL41) with limited similarity to publicly-available plasmids. pJBCL41 contains genes predicted to encode replication, conjugation, partitioning and maintenance functions and heavy metal resistance. The |aacA7|blaVIM-2|aacA4| cassette array (resistance to carbapenems and aminoglycosides) is located within a class 1 integron that is a defective Tn402 derivative. This transposon lies within a 50,273-bp region bound by Tn3-family 38-bp inverted repeats and flanked by 5-bp direct repeats (DR) that composes additional transposon fragments, five insertion sequences and a Tn3-Derived Inverted-Repeat Miniature Element. The hybrid Nanopore/Illumina approach allowed full resolution of a carbapenemase-encoding megaplasmid from P. shirazica. Identification of novel megaplasmids sheds new light on the evolutionary effects of gene transfer and the selective forces driving antibiotic resistance. |
| Document Type: | article |
| File Description: | electronic resource |
| Language: | English |
| ISSN: | 22221751 2222-1751 |
| Relation: | https://doaj.org/toc/2222-1751 |
| DOI: | 10.1080/22221751.2019.1648182 |
| Access URL: | https://doaj.org/article/8d3d14d962e54c879f279e5496f8a384 |
| Accession Number: | edsdoj.8d3d14d962e54c879f279e5496f8a384 |
| Database: | Directory of Open Access Journals |
| ISSN: | 22221751 |
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| DOI: | 10.1080/22221751.2019.1648182 |
| Published in: | Emerging Microbes and Infections |
| Language: | English |