Combining sequencing approaches to fully resolve a carbapenemase-encoding megaplasmid in a pseudomonas shirazica clinical strain

• Type: Article in International Scientific Journal
• Date: 2019

Authors

Botelho, J (Author) Other; Lood, C (Author) Other; Partridge, SR (Author) Other; van Noort, V (Author) Other; Lavigne, R (Author) Other; Grosso, F (Author) Other; Luisa Peixe (Author) FFUP

Journal

The Journal is awaiting validation by the Administrative Services.

Title: EMERGING MICROBES & INFECTIONS

Vol. 8

Pages: 1186-1194

ISSN: 2222-1751

Indexing

ISI Web of Knowledge - 2 Citations

Scopus - 7 Citations

Other information

Authenticus ID: P-00Q-XZM

DOI: 10.1080/22221751.2019.1648182

Abstract (EN): 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 vertical bar aacA7 vertical bar blaVIM-2 vertical bar aacA4 vertical bar 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.

Language: English

Type (Professor's evaluation): Scientific

No. of pages: 9