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Selective Sweeps and Parallel Pathoadaptation Drive Pseudomonas aeruginosa Evolution in the Cystic Fibrosis Lung.

Diaz Caballero J, Clark ST, Coburn B, Zhang Y, Wang PW, Donaldson SL, Tullis DE, Yau YC, Waters VJ, Hwang DM, Guttman DS - MBio (2015)

Bottom Line: Our functional analysis of these alleles shows that they provide differential fitness benefits dependent on the antibiotic under selection.Pseudomonas aeruginosa is a bacterial opportunistic pathogen responsible for significant morbidity and mortality in cystic fibrosis (CF) patients.We show that diversity of P. aeruginosa is driven by recurrent clonal emergence and expansion within this patient and identify potential adaptive variants associated with these events.

View Article: PubMed Central - PubMed

Affiliation: Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada.

No MeSH data available.


Related in: MedlinePlus

Antibiotic treatment history and the relative abundance of the two clades over time. (A) Black bars indicate antibiotic administration, and hashed bars indicate intermittent exposure in that time block. The method of antibiotic administration is shown as intravenous (iv), inhaled (inh), or oral (po). Sputum samples were collected at the time points indicated by green lines, which extend to panels B and C. (B) Relative abundance at the genus level is shown as a percentage. (C) Relative abundance of clade A (blue shades) and clade B (red shades) genotypes over time. Genotypes are defined as whole-genome sequences differing by one or more SNPs segregating in at least two isolates. The same color and shading are used to identify specific genotypes across specimens.
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fig1: Antibiotic treatment history and the relative abundance of the two clades over time. (A) Black bars indicate antibiotic administration, and hashed bars indicate intermittent exposure in that time block. The method of antibiotic administration is shown as intravenous (iv), inhaled (inh), or oral (po). Sputum samples were collected at the time points indicated by green lines, which extend to panels B and C. (B) Relative abundance at the genus level is shown as a percentage. (C) Relative abundance of clade A (blue shades) and clade B (red shades) genotypes over time. Genotypes are defined as whole-genome sequences differing by one or more SNPs segregating in at least two isolates. The same color and shading are used to identify specific genotypes across specimens.

Mentions: This study focuses on patient CF67, a 34-year-old female CF patient (of CF transmembrane conductance regulator [CFTR] genotype ΔF508/del2–3) who had been chronically infected with P. aeruginosa for at least 12 years prior to the initial study sample. The patient had advanced lung disease with a forced expiratory volume in 1 s (FEV1) of 21% of the predicted value throughout the course of the study. She provided 12 expectorated sputum specimens for evaluation over an ~1-year period (with the first specimen collected 350 days prior to the last specimen) (Fig. 1). The specimens were not collected uniformly over the course of the study, with 11 being collected within the last 126 days of the study.


Selective Sweeps and Parallel Pathoadaptation Drive Pseudomonas aeruginosa Evolution in the Cystic Fibrosis Lung.

Diaz Caballero J, Clark ST, Coburn B, Zhang Y, Wang PW, Donaldson SL, Tullis DE, Yau YC, Waters VJ, Hwang DM, Guttman DS - MBio (2015)

Antibiotic treatment history and the relative abundance of the two clades over time. (A) Black bars indicate antibiotic administration, and hashed bars indicate intermittent exposure in that time block. The method of antibiotic administration is shown as intravenous (iv), inhaled (inh), or oral (po). Sputum samples were collected at the time points indicated by green lines, which extend to panels B and C. (B) Relative abundance at the genus level is shown as a percentage. (C) Relative abundance of clade A (blue shades) and clade B (red shades) genotypes over time. Genotypes are defined as whole-genome sequences differing by one or more SNPs segregating in at least two isolates. The same color and shading are used to identify specific genotypes across specimens.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4556809&req=5

fig1: Antibiotic treatment history and the relative abundance of the two clades over time. (A) Black bars indicate antibiotic administration, and hashed bars indicate intermittent exposure in that time block. The method of antibiotic administration is shown as intravenous (iv), inhaled (inh), or oral (po). Sputum samples were collected at the time points indicated by green lines, which extend to panels B and C. (B) Relative abundance at the genus level is shown as a percentage. (C) Relative abundance of clade A (blue shades) and clade B (red shades) genotypes over time. Genotypes are defined as whole-genome sequences differing by one or more SNPs segregating in at least two isolates. The same color and shading are used to identify specific genotypes across specimens.
Mentions: This study focuses on patient CF67, a 34-year-old female CF patient (of CF transmembrane conductance regulator [CFTR] genotype ΔF508/del2–3) who had been chronically infected with P. aeruginosa for at least 12 years prior to the initial study sample. The patient had advanced lung disease with a forced expiratory volume in 1 s (FEV1) of 21% of the predicted value throughout the course of the study. She provided 12 expectorated sputum specimens for evaluation over an ~1-year period (with the first specimen collected 350 days prior to the last specimen) (Fig. 1). The specimens were not collected uniformly over the course of the study, with 11 being collected within the last 126 days of the study.

Bottom Line: Our functional analysis of these alleles shows that they provide differential fitness benefits dependent on the antibiotic under selection.Pseudomonas aeruginosa is a bacterial opportunistic pathogen responsible for significant morbidity and mortality in cystic fibrosis (CF) patients.We show that diversity of P. aeruginosa is driven by recurrent clonal emergence and expansion within this patient and identify potential adaptive variants associated with these events.

View Article: PubMed Central - PubMed

Affiliation: Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada.

No MeSH data available.


Related in: MedlinePlus