Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis

Elizabeth B. Burgener*, Johanna M. Sweere, Michelle S. Bach, Patrick R. Secor, Naomi Haddock, Laura K. Jennings, Rasmus Lykke Marvig, Helle Krogh Johansen, Elio Rossi, Xiou Cao, Lu Tian, Laurence Nedelec, Søren Molin, Paul L. Bollyky, Carlos E. Milla

*Corresponding author for this work

Research output: Contribution to journalJournal articleResearchpeer-review

Abstract

Filamentous bacteriophage (Pf phage) contribute to the virulence of Pseudomonas aeruginosa infections in animal models, but their relevance to human disease is unclear. We sought to interrogate the prevalence and clinical relevance of Pf phage in patients with cystic fibrosis (CF) using sputum samples from two well-characterized patient cohorts. Bacterial genomic analysis in a Danish longitudinal cohort of 34 patients with CF revealed that 26.5% (n = 9) were consistently Pf phage positive. In the second cohort, a prospective cross-sectional cohort of 58 patients with CF at Stanford, sputum qPCR analysis showed that 36.2% (n = 21) of patients were Pf phage positive. In both cohorts, patients positive for Pf phage were older, and in the Stanford CF cohort, patients positive for Pf phage were more likely to have chronic P. aeruginosa infection and had greater declines in pulmonary function during exacerbations than patients negative for Pf phage presence in the sputum. Last, P. aeruginosa strains carrying Pf phage exhibited increased resistance to antipseudomonal antibiotics. Mechanistically, in vitro analysis showed that Pf phage sequesters these same antibiotics, suggesting that this mechanism may thereby contribute to the selection of antibiotic resistance over time. These data provide evidence that Pf phage may contribute to clinical outcomes in P. aeruginosa infection in CF.
Original languageEnglish
Article numbereaau9748
JournalScience Translational Medicine
Volume11
Issue number488
Number of pages12
ISSN1946-6234
DOIs
Publication statusPublished - 2019

Cite this

Burgener, E. B., Sweere, J. M., Bach, M. S., Secor, P. R., Haddock, N., Jennings, L. K., ... Milla, C. E. (2019). Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis. Science Translational Medicine, 11(488), [eaau9748]. https://doi.org/10.1126/scitranslmed.aau9748
Burgener, Elizabeth B. ; Sweere, Johanna M. ; Bach, Michelle S. ; Secor, Patrick R. ; Haddock, Naomi ; Jennings, Laura K. ; Marvig, Rasmus Lykke ; Johansen, Helle Krogh ; Rossi, Elio ; Cao, Xiou ; Tian, Lu ; Nedelec, Laurence ; Molin, Søren ; Bollyky, Paul L. ; Milla, Carlos E. / Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis. In: Science Translational Medicine. 2019 ; Vol. 11, No. 488.
@article{25000bd860fd431ebe98f8a7e0fa11bf,
title = "Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis",
abstract = "Filamentous bacteriophage (Pf phage) contribute to the virulence of Pseudomonas aeruginosa infections in animal models, but their relevance to human disease is unclear. We sought to interrogate the prevalence and clinical relevance of Pf phage in patients with cystic fibrosis (CF) using sputum samples from two well-characterized patient cohorts. Bacterial genomic analysis in a Danish longitudinal cohort of 34 patients with CF revealed that 26.5{\%} (n = 9) were consistently Pf phage positive. In the second cohort, a prospective cross-sectional cohort of 58 patients with CF at Stanford, sputum qPCR analysis showed that 36.2{\%} (n = 21) of patients were Pf phage positive. In both cohorts, patients positive for Pf phage were older, and in the Stanford CF cohort, patients positive for Pf phage were more likely to have chronic P. aeruginosa infection and had greater declines in pulmonary function during exacerbations than patients negative for Pf phage presence in the sputum. Last, P. aeruginosa strains carrying Pf phage exhibited increased resistance to antipseudomonal antibiotics. Mechanistically, in vitro analysis showed that Pf phage sequesters these same antibiotics, suggesting that this mechanism may thereby contribute to the selection of antibiotic resistance over time. These data provide evidence that Pf phage may contribute to clinical outcomes in P. aeruginosa infection in CF.",
author = "Burgener, {Elizabeth B.} and Sweere, {Johanna M.} and Bach, {Michelle S.} and Secor, {Patrick R.} and Naomi Haddock and Jennings, {Laura K.} and Marvig, {Rasmus Lykke} and Johansen, {Helle Krogh} and Elio Rossi and Xiou Cao and Lu Tian and Laurence Nedelec and S{\o}ren Molin and Bollyky, {Paul L.} and Milla, {Carlos E.}",
year = "2019",
doi = "10.1126/scitranslmed.aau9748",
language = "English",
volume = "11",
journal = "Science Translational Medicine",
issn = "1946-6234",
publisher = "American Association for the Advancement of Science",
number = "488",

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Burgener, EB, Sweere, JM, Bach, MS, Secor, PR, Haddock, N, Jennings, LK, Marvig, RL, Johansen, HK, Rossi, E, Cao, X, Tian, L, Nedelec, L, Molin, S, Bollyky, PL & Milla, CE 2019, 'Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis', Science Translational Medicine, vol. 11, no. 488, eaau9748. https://doi.org/10.1126/scitranslmed.aau9748

Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis. / Burgener, Elizabeth B.; Sweere, Johanna M.; Bach, Michelle S.; Secor, Patrick R.; Haddock, Naomi; Jennings, Laura K.; Marvig, Rasmus Lykke; Johansen, Helle Krogh; Rossi, Elio; Cao, Xiou; Tian, Lu; Nedelec, Laurence; Molin, Søren; Bollyky, Paul L.; Milla, Carlos E.

In: Science Translational Medicine, Vol. 11, No. 488, eaau9748, 2019.

Research output: Contribution to journalJournal articleResearchpeer-review

TY - JOUR

T1 - Filamentous bacteriophages are associated with chronic Pseudomonas lung infections and antibiotic resistance in cystic fibrosis

AU - Burgener, Elizabeth B.

AU - Sweere, Johanna M.

AU - Bach, Michelle S.

AU - Secor, Patrick R.

AU - Haddock, Naomi

AU - Jennings, Laura K.

AU - Marvig, Rasmus Lykke

AU - Johansen, Helle Krogh

AU - Rossi, Elio

AU - Cao, Xiou

AU - Tian, Lu

AU - Nedelec, Laurence

AU - Molin, Søren

AU - Bollyky, Paul L.

AU - Milla, Carlos E.

PY - 2019

Y1 - 2019

N2 - Filamentous bacteriophage (Pf phage) contribute to the virulence of Pseudomonas aeruginosa infections in animal models, but their relevance to human disease is unclear. We sought to interrogate the prevalence and clinical relevance of Pf phage in patients with cystic fibrosis (CF) using sputum samples from two well-characterized patient cohorts. Bacterial genomic analysis in a Danish longitudinal cohort of 34 patients with CF revealed that 26.5% (n = 9) were consistently Pf phage positive. In the second cohort, a prospective cross-sectional cohort of 58 patients with CF at Stanford, sputum qPCR analysis showed that 36.2% (n = 21) of patients were Pf phage positive. In both cohorts, patients positive for Pf phage were older, and in the Stanford CF cohort, patients positive for Pf phage were more likely to have chronic P. aeruginosa infection and had greater declines in pulmonary function during exacerbations than patients negative for Pf phage presence in the sputum. Last, P. aeruginosa strains carrying Pf phage exhibited increased resistance to antipseudomonal antibiotics. Mechanistically, in vitro analysis showed that Pf phage sequesters these same antibiotics, suggesting that this mechanism may thereby contribute to the selection of antibiotic resistance over time. These data provide evidence that Pf phage may contribute to clinical outcomes in P. aeruginosa infection in CF.

AB - Filamentous bacteriophage (Pf phage) contribute to the virulence of Pseudomonas aeruginosa infections in animal models, but their relevance to human disease is unclear. We sought to interrogate the prevalence and clinical relevance of Pf phage in patients with cystic fibrosis (CF) using sputum samples from two well-characterized patient cohorts. Bacterial genomic analysis in a Danish longitudinal cohort of 34 patients with CF revealed that 26.5% (n = 9) were consistently Pf phage positive. In the second cohort, a prospective cross-sectional cohort of 58 patients with CF at Stanford, sputum qPCR analysis showed that 36.2% (n = 21) of patients were Pf phage positive. In both cohorts, patients positive for Pf phage were older, and in the Stanford CF cohort, patients positive for Pf phage were more likely to have chronic P. aeruginosa infection and had greater declines in pulmonary function during exacerbations than patients negative for Pf phage presence in the sputum. Last, P. aeruginosa strains carrying Pf phage exhibited increased resistance to antipseudomonal antibiotics. Mechanistically, in vitro analysis showed that Pf phage sequesters these same antibiotics, suggesting that this mechanism may thereby contribute to the selection of antibiotic resistance over time. These data provide evidence that Pf phage may contribute to clinical outcomes in P. aeruginosa infection in CF.

U2 - 10.1126/scitranslmed.aau9748

DO - 10.1126/scitranslmed.aau9748

M3 - Journal article

VL - 11

JO - Science Translational Medicine

JF - Science Translational Medicine

SN - 1946-6234

IS - 488

M1 - eaau9748

ER -