Linear plasmids in Klebsiella and other Enterobacteriaceae

• DOI: 10.1099/mgen.0.000807
• Publication Date: 2022-04-13T12:19:33Z
• Authors: Jane Hawkey; Hugh Cottingham; Alex Tokolyi; Ryan R. Wick; Louise M. Judd; Louise Cerdeira; Doroti de Oliveir...; Kelly L. Wyres; Kathryn E. Holt
• Keywords: qu_58.5; qw_630; 0301 basic medicine; 570; Klebsiella pneumoniae; 03 medical and health sciences; wc_260; Klebsiella; Bioresources; beta-Lactamases; Anti-Bacterial Agents; Plasmids

Linear plasmids are extrachromosomal DNA elements that have been found in a small number of bacterial species. To date, the only linear plasmids described in the family

Enterobacteriaceae

belong to

Salmonella

, first found in

Salmonella enterica

Typhi. Here, we describe a collection of 12 isolates of the

Klebsiella pneumoniae

species complex in which we identified linear plasmids. Screening of assembly graphs assembled from public read sets identified linear plasmid structures in a further 13

K

.

pneumoniae

species complex genomes. We used these 25 linear plasmid sequences to query all bacterial genome assemblies in the National Center for Biotechnology Information database, and discovered an additional 61 linear plasmid sequences in a variety of

Enterobacteriaceae

species. Gene content analysis divided these plasmids into five distinct phylogroups, with very few genes shared across more than two phylogroups. The majority of linear plasmid-encoded genes are of unknown function; however, each phylogroup carried its own unique toxin–antitoxin system and genes with homology to those encoding the ParAB plasmid stability system. Passage in vitro of the 12 linear plasmid-carrying

Klebsiella

isolates in our collection (which include representatives of all five phylogroups) indicated that these linear plasmids can be stably maintained, and our data suggest they can transmit between

K. pneumoniae

strains (including members of globally disseminated multidrug-resistant clones) and also between diverse

Enterobacteriaceae

species. The linear plasmid sequences, and representative isolates harbouring them, are made available as a resource to facilitate future studies on the evolution and function of these novel plasmids.