J Antimicrob Chemother 2015; 70: 3267 – 3272 doi:10.1093/jac/dkv251 Advance Access publication 25 August 2015 Gradual increase in antibiotic concentration affects persistence of Klebsiella pneumoniae Huan Ren1†, Xin He1†, Xiaoli Zou1, Guoqing Wang1, Shuhua Li2 and Yanxia Wu1* 1 Department of Public Health Laboratory Sciences, West China School of Public Health, Sichuan University, Chengdu, Sichuan, China; 2 No.4 West China Teaching Hospital, West China School of Public Health, Sichuan University, Chengdu, Sichuan, China *Corresponding author. Tel: +86-28-85502097; E-mail: [email protected] †These authors contributed equally to this study. Received 17 February 2015; returned 19 April 2015; revised 1 June 2015; accepted 21 July 2015 Objectives: Sublethal bactericidal antibiotics promote the formation of multidrug-tolerant persisters. Clinically, serum drug concentration increases gradually and reaches the peak level with high killing efficiency some time after administration. This study aimed to investigate if the initial low antibiotic concentration would promote persister formation in Klebsiella pneumoniae, an increasingly important nosocomial pathogen. Methods: Time-dependent killings of K. pneumoniae by different types of bactericidal antibiotics were conducted to determine the existence of multidrug-tolerant K. pneumoniae persisters. Killing experiments with antibiotic gradient feeding were then conducted for a K. pneumoniae laboratory strain (ATCC 10031) and a clinical isolate (YWSCU-03) by adding antibiotics step by step until the drug peak serum concentration was attained. Results: Multidrug-tolerant persisters indeed existed in K. pneumoniae and the persistence decreased with increasing drug concentrations or prolonged treatments. Antibiotic gradient feeding, to simulate a gradual increase in serum drug concentration, not only significantly elevated the persistence of ATCC 10031 and YWSCU-03, but also increased the frequency of drug-resistant mutant formation in YWSCU-03. Conclusions: After administration, the initial low serum drug concentration could promote the formation of multidrug-tolerant bacterial persisters, which could survive the lethal drug concentrations attained later and potentially render the antibiotic treatment fruitless. Therefore, antibiotic treatments should be based on the comprehensive analysis of, not only drug pharmacokinetics, but also the synergistic effect between pharmacokinetics and persister formation. Introduction Persisters are a subpopulation of susceptible bacteria that survive lethal doses of antibiotics due to their inactive physiological state. Distinct from drug-resistant mutants with genetic modification, persisters do not replicate in the presence of antibiotics. However, once the drugs are removed, they resume growth and form a population equally susceptible to the antibiotics as the parental population. Due to such a transient trait of multidrug tolerance, they play an important role in the relapse of microbial infections, especially those associated with biofilms, which usually harbour a high level of persisters.1,2 Until now, persister cells have been described in many microbial species, but never in Klebsiella pneumoniae, which is an important nosocomial pathogen gaining growing clinical concerns and frequently found in biofilm-associated chronic infections, both invasive device and non-device related. The use of antibiotics is frequently seen to be insufficient to eradicate infections by K. pneumoniae. This is usually attributed to the development of drug resistance and the possible role of K. pneumoniae persisters has never been reported. Increasing evidence suggests that various intracellular stress responses, such as SOS response,3 – 5 oxidative stress response6,7 and stringent response,8 can turn some cells in a bacterial population into multidrug-tolerant persisters. Pretreatment with fluoroquinolones around the MIC elevates the persistence of Escherichia coli by .1000-fold through a complicated process involving the repair of DNA double-strand breaks (DSBs), collapsed replication forks, stalled transcription complexes3 – 5 and the dissipation of proton motive force (PMF).4 In E. coli, oxidative stress response governed by OxyR and SoxRS regulons, which control the responses to hydrogen peroxide and superoxide, respectively, is also involved in the formation of persisters.6,7,9 Bactericidal antibiotics generate reactive oxygen species (ROS) including superoxide, hydrogen peroxide and hydroxyl radicals in bacterial cells, which damage macromolecules such as DNA, lipids and proteins, subsequently inducing bacterial stress responses including SOS # The Author 2015. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved. For Permissions, please e-mail: [email protected] 3267 Ren et al. response and oxidative stress response.10,11 In K. pneumoniae, sub-MIC aminoglycosides significantly generate ROS and induce SOS response,12 while paraquat and hydrogen peroxide induce oxidative stress response regulated by RpoS, SoxRS and YjcC.13 These findings together suggest that antibiotic treatments may induce the formation of persisters in K. pneumoniae. ROS generation is usually stronger at relatively low antibiotic concentrations.14 Bactericidal antibiotics far below clinical concentrations significantly up-regulate oxyR and soxRS.11 Fluoroquinolones and hydrogen peroxide at sublethal concentrations promote persister formation more efficiently.3,7 During clinical antibiotic treatment, drug serum concentration increases gradually and peaks some time after administration. It would therefore be particularly interesting and clinically relevant to investigate if the initial low concentration of antibiotic would promote the formation of K. pneumoniae persisters, which would survive the lethal concentration later and consequently reduce the efficacy of treatments. For this purpose, this study utilizes antibiotic gradient feeding for a laboratory strain and a clinical strain of K. pneumoniae, where antibiotic concentration was increased step by step until the drug serum peak concentration was reached and maintained in order to test if persisters induced by the initial low antibiotic concentration would endure the lethal concentrations. sterile 1% NaCl. The suspension was then serially diluted 10-fold and spotted onto LB agar for colony counting. The detection limit was 10 cfu/mL. Persistence was evaluated by the number of surviving cells on the plateau of killing curves. For the killing experiments with antibiotic gradient feeding, antibiotics were added step by step until the maximum concentration was reached at 2 h, as listed in Table 1. The parameters of antibiotic gradient feeding were determined according to the pharmacokinetics of specific antibiotics (Table 2). Killings with the initial low concentration and the final maximum concentration were conducted simultaneously as controls. Inheritability of drug tolerance An exponentially growing population of ATCC 10031 was challenged with 4 mg/L ciprofloxacin (200× MIC) for 3 h, 50 mg/L kanamycin (33× MIC) for 6 h or 5 mg/L ceftriaxone (100× MIC) for 6 h. At designated timepoints, samples were withdrawn for cfu counting. The survivors at the end of treatment were washed three times and then cultured in fresh LB medium overnight. The overnight culture was then diluted 1: 1000 in LB broth and grown to exponential phase when the population was challenged again as described above. The cycle was repeated for three consecutive days. Results Persisters exist in the K. pneumoniae population Materials and methods Bacterial strains and antibiotics K. pneumoniae laboratory strain ATCC 10031 and a recently isolated clinical strain YWSCU-03 were used in this study. LB broth was used throughout the study except that Mueller – Hinton broth was used for MIC measurement. The antibiotics used in this study were ciprofloxacin (Sigma – Aldrich, USA), kanamycin (Amresco, USA) and ceftriaxone (Sichuan Pharmaceutical Preparation Co., China). The purity of ceftriaxone was measured to be 82.6% by HPLC and ceftriaxone concentration was adjusted accordingly in all related experiments. Measurement of persistence Persistence of K. pneumoniae was measured by time-dependent killing experiments. An overnight culture was diluted 1 : 1000 in LB broth and incubated at 378C (180 rpm) for 3 h. The culture was then divided into aliquots for a 24 h challenge by ciprofloxacin, kanamycin or ceftriaxone at different concentrations, with three replicates for each condition. At designated timepoints of antibiotic treatment, a 0.5 mL sample from each aliquot was withdrawn and then washed twice with and resuspended in Ciprofloxacin, kanamycin and ceftriaxone are commonly used for clinical treatment of infections caused by K. pneumoniae. Ciprofloxacin is a fluoroquinolone damaging DNA. Kanamycin is an aminoglycoside inhibiting protein synthesis. Ceftriaxone is a b-lactam antibiotic that disrupts synthesis of the peptidoglycan layer of the bacterial cell wall. The time-dependent killing curves of the three antibiotics at different concentrations not only displayed antibiotic-specific characteristics, but also shared common patterns. The killing curves all presented the typical biphasic pattern: a rapid killing phase was followed by a slow phase, which is the plateau representing the level of persistence. The only exception was the killing by 0.1 mg/L ciprofloxacin, where the number of survivors decreased in the first 5 h and then elevated quickly (Figure 1a), indicating the generation of drug-resistant mutants that can replicate in the presence of ciprofloxacin. Given ciprofloxacin mean serum concentrations 12 h after dosing with 250, 500 or 750 mg are 0.1, 0.2 and 0.4 mg/L, respectively,15 this result suggests low ciprofloxacin serum concentrations between doses may accelerate the development of bacterial drug resistance. Table 1. Parameters for the gradient feeding of antibiotics Drug concentration (mg/L) Antibiotic 0h 0.5 h 1.0 h 1.5 h 2.0 h MIC (mg/L) 0.5 0.75 2.0 3.0 4.0 5.0 0.02 0.03 Ciprofloxacin ATCC 10031 YWSCU-03 0.02 0.03 0.2 0.3 Kanamycin ATCC 10031 YWSCU-03 2.0 4.0 3.0 6.0 8.0 15.0 16.0 28.0 20.0 35.0 1.5 3.0 Ceftriaxone ATCC 10031 YWSCU-03 0.1 0.1 1.0 1.0 5.0 5.0 25.0 25.0 80.0 80.0 0.05 0.06 3268 JAC Antibiotic pharmacokinetics and bacterial persistence Table 2. Pharmacokinetics of bactericidal antibiotics used in this study Antibiotic Ciprofloxacin Kanamycin Ceftriaxone Administration Peak serum concentration (mg/L) Peak time (h) Usage Reference oral muscle injection muscle injection 4 20 80 2 1 –2 2 –3 0.75 g/12 h 0.5 g/12 h 1.0 g/24 h 15 16,18 19 10 9 8 7 6 5 4 3 2 1 0 Log10 cfu/mL Log10 cfu/mL CIP 0.1 CIP 0.25 CIP 0.5 CIP 1.0 10 KAN 15.0 KAN 50.0 8 6 4 2 0 4 8 12 16 Time (h) 20 0 24 0 4 8 0 4 8 12 16 Time (h) 20 24 2 3 Time (h) 9 8 7 6 5 4 3 2 4 24 Day 1 Day 2 Day 3 0 1 2 3 Ceftriaxone (f) Day 1 Day 2 Day 3 1 20 Time (h) Kanamycin 0 16 12 Time (h) Ciprofloxacin (d) CRO 0.5 CRO 1.0 CRO 2.5 CRO 5.0 (e) 9 8 7 6 5 4 3 2 1 0 KAN 5.0 KAN 25.0 KAN 100.0 12 Log10 cfu/mL Log10 cfu/mL (c) (b) 10 9 8 7 6 5 4 3 2 5 6 Log10 cfu/mL Log10 cfu/mL (a) 9 8 7 6 5 4 3 2 1 0 Day 1 Day 2 Day 3 0 2 4 6 Time (h) Figure 1. Killing curves of K. pneumoniae. (a) Ciprofloxacin at 0.1, 0.25, 0.5 and 1.0 mg/L. (b) Kanamycin at 5, 15, 25, 50 and 100 mg/L. (c) Ceftriaxone at 0.5, 1.0, 2.5 and 5.0 mg/L. CIP, ciprofloxacin; KAN, kanamycin; CRO, ceftriaxone. From the results of (a) – (c), the inheritability of the tolerance of K. pneumoniae was tested with (d) 4.0 mg/L ciprofloxacin, (e) 50.0 mg/L kanamycin and (f) 5.0 mg/L ceftriaxone. Besides the biphasic pattern, the persistence to all three antibiotics decreased with increasing drug concentration. Persistence to ciprofloxacin decreased from 106 to 104 cfu/mL with an increase in the ciprofloxacin concentration from 0.25 to 1.0 mg/L (Figure 1a), presumably because the level of DSBs went beyond the rescuing capability of the SOS response. Interestingly, the plateau of killing curves gradually collapsed between 5 and 24 h and converged to 10 3 – 10 4 cfu/mL by 24 h, indicating that the persister population consisted of both ‘fragile’ and ‘robust’ persister cells. Persistence to kanamycin decreased from 106 to 10 – 100 cfu/mL when the kanamycin concentration increased from 5 to 50 mg/L (Figure 1b). Persistence to ceftriaxone at 24 h decreased from 104 cfu/mL to a level below the detection limit (10 cfu/mL) when the 3269 Ren et al. ceftriaxone concentration increased from 0.5 to 5.0 mg/L (Figure 1c). Clinically, ceftriaxone serum concentration is usually .5 mg/L within 24 h after injection, 19 thus this result implies that the clinical persistence of K. pneumoniae ATCC 10031 to ceftriaxone could be very low. The inheritability of the multidrug tolerance of persisters illustrated in Figure 1(a –c) was tested and the results are shown in Figure 1(d – f). Persister cells that survived the treatment by high concentration antibiotics on day 1 were regrown into a population on day 2, of which the majority of bacterial cells were killed rapidly by the same concentration of antibiotics and again a similar level of persisters survived. The same pattern repeated on day 3. This result demonstrated that the multidrug tolerance of these survivors was transient and not inheritable, confirming these cells as persisters, in contrast to drug-resistant mutants that carry inheritable drug resistance mutations. 0 4 8 12 16 Time (h) 20 CIP 0.03 CIP gradient CIP 5.0 6 4 0 24 0 4 8 (d) 12 16 Time (h) 20 24 YWSCU–03 12 10 KAN 2.0 KAN gradient KAN 20.0 Log10 cfu/mL Log10 cfu/mL 8 2 8 6 KAN 4.0 KAN gradient KAN 35.0 4 2 0 4 8 (e) 12 16 Time (h) 20 0 24 (f) ATCC 10031 9 8 7 6 5 4 3 2 1 0 Log10 cfu/mL CIP 0.02 CIP gradient CIP 4.0 ATCC 10031 10 9 8 7 6 5 4 3 2 1 0 YWSCU–03 10 (c) Log10 cfu/mL (b) ATCC 10031 10 9 8 7 6 5 4 3 2 Clinically, it takes hours for the serum drug concentration to reach a lethal level, especially when administered orally or intramuscularly. To test if the initial low antibiotic concentration would elevate bacterial persistence for the reasons stated earlier, we conducted time-dependent killing experiments with gradient feeding of antibiotics, with the parameters listed in Table 1. In contrast to the clinical setting where the drug concentration decreases gradually after the peak time, in this study the drug concentration was maintained at the peak level afterwards to test if persisters resulting from the initial low drug concentrations could survive lethal antibiotic concentrations. As shown in Figure 2(a), ATCC 10031 culture challenged by ciprofloxacin at the MIC (the low concentration control) grew to 0 4 8 12 16 Time (h) 20 24 YWSCU–03 9 8 CRO 0.1 CRO gradient CRO 80.0 Log10 cfu/mL Log10 cfu/mL (a) Gradient feeding of different types of bactericidal antibiotics elevates the persistence of K. pneumoniae 7 CRO 0.1 CRO gradient CRO 80.0 6 5 4 3 0 4 8 12 16 Time (h) 20 24 2 0 4 8 12 16 Time (h) 20 24 Figure 2. Effect of gradient feeding of antibiotics on the persistence of K. pneumoniae laboratory strain ATCC 10031 and clinical strain YWSCU-03. (a) ATCC 10031, ciprofloxacin. (b) YWSCU-03, ciprofloxacin. (c) ATCC 10031, kanamycin. (d) YWSCU-03, kanamycin. (e) ATCC 10031, ceftriaxone. (f) YWSCU-03, ceftriaxone. Filled diamonds, antibiotic low concentration control for ATCC 10031; opens diamonds, antibiotic low concentration control for YWSCU-03; filled circles, gradient antibiotic feeding for ATCC 10031; open circles, gradient antibiotic feeding for YWSCU-03; crosses, antibiotic high concentration control. CIP, ciprofloxacin; KAN, kanamycin; CRO, ceftriaxone. 3270 JAC Antibiotic pharmacokinetics and bacterial persistence stationary phase after a slight killing phase, demonstrating an adaptive process with the generation of drug-resistant mutants. In contrast, 4.0 mg/L ciprofloxacin (the high concentration control) killed the bacteria efficiently and the number of survivors reached the plateau of 3 log that lasted until the end of the treatment. During the challenge with antibiotic gradient feeding, the initial low drug concentration enabled some cells to adapt and resulted in 10-fold more persisters compared with the killing by 4.0 mg/L ciprofloxacin alone. The same experiment was conducted for the clinical isolate YWSCU-03. The persistence, however, could not be determined since drug-resistant mutants arose under all killing conditions in this experiment (Figure S1a, available as Supplementary data at JAC Online). The peak serum concentration of ciprofloxacin at a 1000 mg oral dose is 5.4 mg/L;15 therefore, we set the maximum concentration at 5.0 mg/L and adjusted the parameters for ciprofloxacin gradient feeding accordingly as in Table 1. The results shown in Figure 2(b) confirmed that ciprofloxacin gradient feeding similarly elevated the persistence of YWSCU-03 by 10-fold and the persisters endured the peak concentration for ≥22 h. Similarly, in comparison with 20.0 mg/L kanamycin, the gradient feeding of kanamycin resulted in .10-fold more survivors in ATCC 10031 during the treatment (Figure 2c). Kanamycin is usually administrated intramuscularly every 12 h. For 20.0 mg/L kanamycin, there were 100 cfu/mL persisters by 12 h and nearly no survivors by 24 h. For kanamycin gradient feeding, the persistence was .1000 cfu/mL by 12 h and .10 cfu/mL by 24 h. The same experiment conducted for YWSCU-03 exhibited 2 log more persisters to the killing by gradient feeding than the killing by 20.0 mg/L kanamycin by 6 h, while drug-resistant mutants were generated during both killings (Figure S1b). Due to the potential ototoxicity and nephrotoxicity of kanamycin, clinically the concentrations prior to the next dose should not exceed 5 –10 mg/L, desirable kanamycin serum peak concentrations are generally 15 – 30 mg/L and prolonged kanamycin peak concentrations .35 mg/L should be avoided.16 We therefore increased the maximum concentration from 20.0 to 35.0 mg/L and adjusted the concentration at each timepoint accordingly as listed in Table 1 for the experiment with YWSCU-03. Persistence to 35.0 mg/L kanamycin was steady at 100 cfu/mL after 6 h. The number of survivors to kanamycin gradient feeding was higher than that to 35.0 mg/L kanamycin before 6 h, but was hard to evaluate after 6 h owing to the emergence of drug-resistant cells (Figure 2d). The peak serum concentration of ceftriaxone (80.0 mg/L) was .1000-fold higher than the MICs for ATCC 10031 and YWSCU-03. Ceftriaxone at such an unusually high concentration reduced the number of ATCC 10031 survivors below the detection limit by 6 h (Figure 2e), but .1000 cfu/mLYWSCU-03 cells persisted through the treatment (Figure 2f). For ceftriaxone gradient feeding, the persistence of ATCC 10031 was ,100 cfu/mL at 6 h and decreased to the detection limit by 24 h. Persistence of YWSCU-03 to ceftriaxone gradient feeding was .104 cfu/mL at 6 h, after which it was hard to evaluate due to the replicating drug-resistant mutants. Taken together, in comparison with the high concentration control, antibiotic gradient feeding elevated the persistence of the laboratory strain and the clinical isolate of K. pneumoniae used in this study and tended to increase the frequency of drug resistance mutations in the clinical strain, indicating that clinically a gradual increase in serum drug concentration may reduce the efficacy of antibiotic treatment. Discussion In this work, we demonstrated the existence of persisters in populations of K. pneumoniae laboratory strain ATCC 10031 and clinical isolate YWSCU-03, characterized the persistence by the killing curves to different bactericidal antibiotics commonly used for clinical treatment of infections by K. pneumoniae and further examined the effect of the gradual increase in drug concentration on the persistence of both strains. Overall, the persistence varies with drug concentration, treatment duration and specific antibiotics. The persistence of K. pneumoniae decreased with increasing antibiotic concentrations and prolonged antibiotic treatment. This phenomenon is not unique to K. pneumoniae, but ubiquitous to many types of bacteria. Fluoroquinolone antibiotics induce the formation of E. coli persister cells through LexA-regulated SOS response in a concentration-dependent manner.3,6 Induction of the SOS response up-regulates the expression of DNA repair-related proteins to rescue cells and promote persister formation. TisB, a peptide toxin induced upon strong SOS induction, forms pores in the outer membrane of E. coli and turns the cell into deeply inactive persisters by depleting PMF.3,4 However, with increasing fluoroquinolone concentration, more cells die due to DNA damage beyond their repair capability. With prolonged fluoroquinolone treatment, persisters that lost the balance between DNA damage and DNA repair will gradually die. Persisters formed through the TisB pathway would be robust since they are in a deeply inactive state. Although the SOS response and DNA repair are widely conserved in various species, the pathway of SOS in K. pneumoniae has not been elucidated so far. The mechanism of persister formation through SOS response described above was elucidated in E. coli. If it is similar in K. pneumoniae, it would be reasonable to speculate that DNA repair played the key role in the concentration-dependent manner of K. pneumoniae persistence to ciprofloxacin (as shown in Figure 1a), and that the converged persistence at 24 h in Figure 1(a) and the steady-flat plateaus of killing curves by high concentration ciprofloxacin in Figure 2(a, b) represented the robust and deeply inactive K. pneumoniae persister cells since they were not affected by drug concentrations and treatment durations. Until now, the microbial killing mechanisms of aminoglycosides and b-lactams have not been reported to be involved in persister formation, but these antibiotics can generate ROS that induce the bacterial SOS response and oxidative stress response. Oxidative stress response induces persister formation with the involvement of SOS response;6 therefore, ROS may promote persister formation ultimately through DNA repair. This is consistent with our observation that persistence to kanamycin or ceftriaxone gradually decreased during prolonged treatment or with increasing drug concentrations. For the experiments with antibiotic gradient feeding in this study, antibiotic concentration was increased step by step to attain the serum peak concentration and maintained at the peak value afterwards. The number of ATCC 100131 persisters to antibiotic gradient feeding gradually decreased to a low level at the end of the 24 h treatment. However, clinically the number of survivors to one dose of antibiotics should be much higher since drug serum concentration will decrease after peak time. For example, the interval of drug administration is 12 h for ciprofloxacin and kanamycin and their elimination half-life is 6 h. The persistence of ATCC 10031 prior to the next dose would therefore be 3271 Ren et al. .104 cfu/mL for ciprofloxacin and .103 cfu/mL for kanamycin (Figure 2a and c). Compared with the laboratory strain, the negative effect of a gradual increase in antibiotic concentration on clinical strains would be more significant. In this study, the number of YWSCU-03 survivors was significantly higher than ATCC 10031 in all cases under the same killing conditions. The antibiotic gradient feeding not only significantly promoted persister formation in YWSCU-03, but obviously increased the frequency of drug resistance mutations. Sublethal concentrations of bactericidal antibiotics could induce mutagenesis and cause heterogeneous increases in the MICs of a range of antibiotics through ROS generation.17 Repeated antibiotic treatment of patients has been reported to select high-persister (hip) mutants.2 Therefore, the initial low serum antibiotic concentration could potentially facilitate the development of hip mutants and drug-resistant mutants, and the results of YWSCU-03 experiments described above may serve as strong evidence for this. In clinical reality, the host environment is much more complicated than this in vitro study. For example, the drug concentration in infection sites might be much lower than serum drug concentrations, the killing power of antibiotics might be compromised by various host substances and local physical factors such as pH. In addition, the clinical pathogens are usually much less susceptible than the strains used in this study. Therefore, the actual effect of such a gradual increase in drug serum concentration on bacterial persistence would potentially be more significant. The optimization of antibiotic therapeutics should be based not only on the pharmacokinetics of drugs, but also on the synergistic effect of pharmacokinetics and bacterial persistence as found in this study. Funding This work was supported by the Starting Research Fund to Talents from Overseas to Y. W. provided by Sichuan University (China) (Grant No. 2082204184001; Project No. YJ201350) and the Science Foundation to Returned Overseas Chinese Scholars provided by the State Education Ministry of China (Grant No. 2014-1685-11-8). Transparency declarations None to declare. Supplementary data Figure S1 is available as Supplementary data at JAC Online (http://jac. oxfordjournals.org/). 3272 References 1 Lewis K. Persister cells and the riddle of biofilm survival. Biochemistry (Mosc) 2005; 70: 267– 74. 2 Mulcahy LR, Burns JL, Lory S et al. 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