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

Botelho, J., Lood, C., Partridge, S. R., van Noort, V., Lavigne, R., Grosso, F., et al. (2019). Combining sequencing approaches to fully resolve a carbapenemase-encoding megaplasmid in a Pseudomonas shirazica clinical strain. Emerging Microbes & Infections, 8(1), 1186-1194. doi:10.1080/22221751.2019.1648182.

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Combining sequencing approaches to fully resolve a carbapenemase encoding megaplasmid in a Pseudomonas shirazica clinical strain.pdf (Publisher version), 3MB
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Combining sequencing approaches to fully resolve a carbapenemase encoding megaplasmid in a Pseudomonas shirazica clinical strain.pdf
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Pseudomonas, megaplasmids, Nanopore, Illumina, antibiotic resistance
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https://doi.org/10.1080/22221751.2019.1648182 (Publisher version)
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 Creators:
Botelho, João1, Author           
Lood, Cédric, Author
Partridge, Sally R., Author
van Noort, Vera, Author
Lavigne, Rob, Author
Grosso, Filipa, Author
Peixe, Luísa, Author
Affiliations:
1Max Planck Fellow Group Antibiotic Resistance Evolution, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_2600692              

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Free keywords: Pseudomonas, megaplasmids, Nanopore, Illumina, antibiotic resistance
 Abstract: ABSTRACTHorizontal 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.

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Language(s): eng - English
 Dates: 2019-03-282019-07-192019-08-052019
 Publication Status: Published in print
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 Rev. Type: -
 Identifiers: DOI: 10.1080/22221751.2019.1648182
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Title: Emerging Microbes & Infections
Source Genre: Journal
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Publ. Info: London : Taylor & Francis Open
Pages: - Volume / Issue: 8 (1) Sequence Number: - Start / End Page: 1186 - 1194 Identifier: Other: 2222-1751
CoNE: https://pure.mpg.de/cone/journals/resource/2222-1751