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The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa

Overview of attention for article published in BMC Genomics, January 2016
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Title
The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa
Published in
BMC Genomics, January 2016
DOI 10.1186/s12864-015-2244-3
Pubmed ID
Authors

Jeremy R. Dettman, Jacqueline L. Sztepanacz, Rees Kassen

Abstract

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. 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. 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.

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 108 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Spain 1 <1%
United States 1 <1%
Russia 1 <1%
Belgium 1 <1%
Unknown 104 96%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 30 28%
Researcher 17 16%
Student > Master 15 14%
Student > Bachelor 15 14%
Student > Doctoral Student 7 6%
Other 12 11%
Unknown 12 11%
Readers by discipline Count As %
Agricultural and Biological Sciences 40 37%
Biochemistry, Genetics and Molecular Biology 28 26%
Immunology and Microbiology 12 11%
Pharmacology, Toxicology and Pharmaceutical Science 3 3%
Medicine and Dentistry 3 3%
Other 8 7%
Unknown 14 13%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 07 January 2016.
All research outputs
#14,831,413
of 22,837,982 outputs
Outputs from BMC Genomics
#6,142
of 10,655 outputs
Outputs of similar age
#218,599
of 393,343 outputs
Outputs of similar age from BMC Genomics
#185
of 264 outputs
Altmetric has tracked 22,837,982 research outputs across all sources so far. This one is in the 32nd percentile – i.e., 32% of other outputs scored the same or lower than it.
So far Altmetric has tracked 10,655 research outputs from this source. They receive a mean Attention Score of 4.7. This one is in the 37th percentile – i.e., 37% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 393,343 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 41st percentile – i.e., 41% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 264 others from the same source and published within six weeks on either side of this one. This one is in the 25th percentile – i.e., 25% of its contemporaries scored the same or lower than it.