High frequencies of genome rearrangements in bacterial chromosomes
(English)Manuscript (preprint) (Other academic)
Genome rearrangements have important effects on bacterial phenotypes and influence the evolution of bacterial genomes. Conventional strategies for characterizing rearrangements in bacterial genomes rely on comparisons of sequenced genomes from related species. However, the spectra of spontaneous rearrangements in supposedly homogenous and clonal bacterial populations are still poorly characterized. Here we used 454 pyrosequencing technology and a ‘split mapping’ computational method to identify unique junction sequences caused by spontaneous genome rearrangements in chemostat cultures of Salmonella enterica Var. Typhimurium LT2. We were able to confirm 22 unique junction sequences with a junction homology more than 10bp and this led to an estimation of 51 true junction sequences, of which 28, 12 and 11 were likely to be formed by deletion, duplication and inversion events, respectively. All experimentally confirmed rearrangements had short inverted (inversions) or direct (deletions and duplications) homologous repeat sequences at the endpoints. This study demonstrates the feasibility of genome wide characterization of spontaneous genome rearrangements in bacteria and the high steady-state frequency of rearrangements in bacterial populations.
genome rearrangements, bacteria
Research subject Biology with specialization in Microbiology
IdentifiersURN: urn:nbn:se:uu:diva-172784OAI: oai:DiVA.org:uu-172784DiVA: diva2:515764