The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa

Dettman, Jeremy R., Sztepanacz, Jacqueline L. and Kassen, Rees (2016) The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa. BMC Genomics, 17 1: . doi:10.1186/s12864-015-2244-3


Author Dettman, Jeremy R.
Sztepanacz, Jacqueline L.
Kassen, Rees
Title The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa
Formatted title
The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa
Journal name BMC Genomics   Check publisher's open access policy
ISSN 1471-2164
Publication date 2016-01-05
Sub-type Article (original research)
DOI 10.1186/s12864-015-2244-3
Open Access Status DOI
Volume 17
Issue 1
Total pages 14
Place of publication London, United Kingdom
Publisher BioMed Central
Language eng
Formatted abstract
Background
Natural genetic variation ultimately arises from the process of mutation. Knowledge of how the raw material for evolution is produced is necessary for a full understanding of several fundamental evolutionary concepts. We performed a mutation accumulation experiment with wild-type and mismatch-repair deficient, mutator lines of the pathogenic bacterium Pseudomonas aeruginosa, and used whole-genome sequencing to reveal the genome-wide rate, spectrum, distribution, leading/lagging bias, and context-dependency of spontaneous mutations.

Results
Wild-type base-pair mutation and indel rates were ~10−10 and ~10−11 per nucleotide per generation, respectively, and deficiencies in the mismatch-repair system caused rates to increase by over two orders of magnitude. A universal bias towards AT was observed in wild-type lines, but was reversed in mutator lines to a bias towards GC. Biases for which types of mutations occurred during replication of the leading versus lagging strand were detected reciprocally in both replichores. The distribution of mutations along the chromosome was non-random, with peaks near the terminus of replication and at positions intermediate to the replication origin and terminus. A similar distribution bias was observed along the chromosome in natural populations of P. aeruginosa. Site-specific mutation rates were higher when the focal nucleotide was immediately flanked by C:G pairings.

Conclusions
Whole-genome sequencing of mutation accumulation lines allowed the comprehensive identification of mutations and revealed what factors of molecular and genomic architecture affect the mutational process. Our study provides a more complete view of how several mechanisms of mutation, mutation repair, and bias act simultaneously to produce the raw material for evolution.
Keyword Genomics
Mismatch repair
Mutation accumulation
Mutation bias
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: HERDC Pre-Audit
School of Biological Sciences Publications
 
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