Dynamical model of drug accumulation in bacteria: Sensitivity analysis and experimentally testable predictions

PLoS ONE

Volumn 11, Issue 11, 2016, Pages

  Vesselinova, Neda ^a,b   Alexandrov, Boian S ^a   Wall, Michael E ^c  

^a LOS ALAMOS NATIONAL LABORATORY   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c LOS ALAMOS NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

OFLOXACIN; ANTIINFECTIVE AGENT;

ARTICLE; BACTERIUM; BAYES THEOREM; DRUG ACCUMULATION; DRUG DNA BINDING; DRY WEIGHT; EFFLUX RATE CONSTANT; ESCHERICHIA COLI; EXPERIMENTAL STUDY; MATHEMATICAL MODEL; MEMBRANE PERMEABILITY; NONHUMAN; PREDICTION; PROBABILITY; PSEUDOMONAS AERUGINOSA; SENSITIVITY ANALYSIS; STAPHYLOCOCCUS AUREUS; BIOLOGICAL MODEL; CELL MEMBRANE PERMEABILITY; DRUG EFFECTS; METABOLISM;

ANTI-BACTERIAL AGENTS; BACTERIA; BAYES THEOREM; CELL MEMBRANE PERMEABILITY; ESCHERICHIA COLI; MODELS, BIOLOGICAL; PSEUDOMONAS AERUGINOSA; STAPHYLOCOCCUS AUREUS;

EID: 84994666614     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0165899     Document Type: Article

References (29)

1. Li XZ, Nikaido H (2009) Efflux-mediated drug resistance in bacteria: an update. Drugs 69: 1555-1623. doi: 10.2165/11317030-000000000-00000 PMID: 19678712
2. Kourtesi C, Ball AR, Huang YY, Jachak SM, Vera DM, et al. (2013) Microbial efflux systems and inhibitors: approaches to drug discovery and the challenge of clinical implementation. Open Microbiol J 7: 34-52. doi: 10.2174/1874285801307010034 PMID: 23569468
3. Nikaido H, Pages JM (2012) Broad-specificity efflux pumps and their role in multidrug resistance of Gramnegative bacteria. FEMS Microbiol Rev 36: 340-363. doi: 10.1111/j.1574-6976.2011.00290.x PMID: 21707670
4. Nikaido H, Normark S (1987) Sensitivity of Escherichia coli to various beta-lactams is determined by the interplay of outer membrane permeability and degradation by periplasmic beta-lactamases: a quantitative predictive treatment. Mol Microbiol 1: 29-36. PMID: 3330755
5. Nagano K, Nikaido H (2009) Kinetic behavior of the major multidrug efflux pump AcrB of Escherichia coli. Proc Natl Acad Sci U S A 106: 5854-5858. doi: 10.1073/pnas.0901695106 PMID: 19307562
6. Lim SP, Nikaido H (2010) Kinetic parameters of efflux of penicillins by the multidrug efflux transporter AcrAB-TolC of Escherichia coli. Antimicrob Agents Chemother 54: 1800-1806. doi: 10.1128/AAC.01714-09 PMID: 20160052
7. Asuquo AE, Piddock LJ (1993) Accumulation and killing kinetics of fifteen quinolones for Escherichia coli, Staphylococcus aureus and Pseudomonas aeruginosa. J Antimicrob Chemother 31: 865-880. PMID: 8360125
8. Diver JM, Piddock LJ, Wise R (1990) The accumulation of five quinolone antibacterial agents by Escherichia coli. J Antimicrob Chemother 25: 319-333. PMID: 2110938
9. Thanassi DG, Suh GS, Nikaido H (1995) Role of outer membrane barrier in efflux-mediated tetracycline resistance of Escherichia coli. J Bacteriol 177: 998-1007. PMID: 7860612
10. Nikaido H, Thanassi DG (1993) Penetration of lipophilic agents with multiple protonation sites into bacterial cells: tetracyclines and fluoroquinolones as examples. Antimicrob Agents Chemother 37: 1393-1399. PMID: 8363364
11. Demchick P, Koch AL (1996) The permeability of the wall fabric of Escherichia coli and Bacillus subtilis. J Bacteriol 178: 768-773. PMID: 8550511
12. Vazquez-Laslop N, Lee H, Hu R, Neyfakh AA (2001) Molecular sieve mechanism of selective release of cytoplasmic proteins by osmotically shocked Escherichia coli. J Bacteriol 183: 2399-2404. doi: 10.1128/JB.183. 8.2399-2404.2001 PMID: 11274096
13. Brown S, Santa Maria JP Jr., Walker S (2013) Wall teichoic acids of gram-positive bacteria. Annu Rev Microbiol 67: 313-336. doi: 10.1146/annurev-micro-092412-155620 PMID: 24024634
14. Silhavy TJ, Kahne D, Walker S (2010) The bacterial cell envelope. Cold Spring Harb Perspect Biol 2: a000414. doi: 10.1101/cshperspect.a000414 PMID: 20452953
15. Shen LL, Baranowski J, Pernet AG (1989) Mechanism of inhibition of DNA gyrase by quinolone antibacterials: specificity and cooperativity of drug binding to DNA. Biochemistry 28: 3879-3885. PMID: 2546584
16. Neidhardt FC, Umbarger HE (1996) Chemical Composition of Escherichia coli. In: Neidhardt FC, Curtiss R III, Ingraham JL, Lin ECC, Low KB et al., editors. Escherichia coli and Salmonella: Cellular and Molecular Biology. 2 ed. Washington, D. C.: ASM Press.
17. Brown DG, May-Dracka TL, Gagnon MM, Tommasi R (2014) Trends and exceptions of physical properties on antibacterial activity for Gram-positive and Gram-negative pathogens. J Med Chem 57: 10144-10161. doi: 10.1021/jm501552x PMID: 25402200
18. Campos M, Surovtsev IV, Kato S, Paintdakhi A, Beltran B, et al. (2014) A constant size extension drives bacterial cell size homeostasis. Cell 159: 1433-1446. doi: 10.1016/j.cell.2014.11.022 PMID: 25480302
19. Sobol' IM (1990) On sensitivity estimation for nonlinear mathematical models. Matematicheskoe Modelirovanie 2: 112-118.
20. Sobol' IM (1993) Asymmetric convergence of approximations of the Monte Carlo method. Computational mathematics and mathematical physics 33: 1391-1396.
21. Saltelli A, Andres TH, Homma T (1993) Sensitivity Analysis of Model Output-an Investigation of New Techniques. Computational Statistics & Data Analysis 15: 211-238.
22. Saltelli A, Ratto M, Andres T, Campolongo F, Cariboni J, et al. (2008) Global Sensitivity Analysis: The Primer: John Wiley & Sons.
23. Savageau MA (1976) Biochemical systems analysis: a study of function and design in molecular biology. Reading, MA: Addison-Wesley.
24. Savageau MA (2013) System design principles. In: Wall ME, editor. Quantitative Biology: From Molecular to Cellular Systems. Boca Raton: Taylor and Francis. pp. 23-49.
25. Gustafson P, Srinivasan C, Wasserman L (1995) Local sensitivity analysis. Bayesian Statistics 5: 631-640.
26. Oakley JE, O'Hagan A (2004) Probabilistic sensitivity analysis of complex models: a Bayesian approach. J Roy Stat Soc B 66: 751-769.
27. Weiss R (1996) An approach to Bayesian sensitivity analysis. J Roy Stat Soc B 58: 739-750.
28. Vihola M (2012) Robist adaptice Metropolis algorithm with coerced acceptance rate. Stat Comp 22.
29. Bratbak G, Dundas I (1984) Bacterial dry matter content and biomass estimations. Appl Environ Microbiol 48: 755-757. PMID: 6508285