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© Research
Publication : Nature communications

Pathways for horizontal gene transfer in bacteria revealed by a global map of their plasmids.

Scientific Fields
Diseases
Organisms
Applications
Technique

Published in Nature communications - 17 Jul 2020

Redondo-Salvo S, Fernández-López R, Ruiz R, Vielva L, de Toro M, Rocha EPC, Garcillán-Barcia MP, de la Cruz F,

Link to Pubmed [PMID] – 32681114

Link to DOI [DOI] – 10.1038/s41467-020-17278-2

Nat Commun 2020 07; 11(1): 3602

Plasmids can mediate horizontal gene transfer of antibiotic resistance, virulence genes, and other adaptive factors across bacterial populations. Here, we analyze genomic composition and pairwise sequence identity for over 10,000 reference plasmids to obtain a global map of the prokaryotic plasmidome. Plasmids in this map organize into discrete clusters, which we call plasmid taxonomic units (PTUs), with high average nucleotide identity between its members. We identify 83 PTUs in the order Enterobacterales, 28 of them corresponding to previously described archetypes. Furthermore, we develop an automated algorithm for PTU identification, and validate its performance using stochastic blockmodeling. The algorithm reveals a total of 276 PTUs in the bacterial domain. Each PTU exhibits a characteristic host distribution, organized into a six-grade scale (I-VI), ranging from plasmids restricted to a single host species (grade I) to plasmids able to colonize species from different phyla (grade VI). More than 60% of the plasmids in the global map are in groups with host ranges beyond the species barrier.

https://pubmed.ncbi.nlm.nih.gov/32681114