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Antimicrobial activity of omadacycline in vitro against bacteria isolated from 2014 to 2017 in China, a multi-center study

Abstract

Background

Omadacycline (ZL-2401) is a semi-synthetic derivative of minocycline. It has a broadspectrum activity against Gram-positive and Gram-negative bacteria, and atypical pathogens. The objective of this study was to evaluate the antibacterial activity of omadacycline against recently collected bacterial isolates from Chinese patients.

Results

Omadacycline showed potent activity against all Gram-positive pathogens: S. aureus MICs were low regardless of susceptibility to methicillin (methicillin-resistant Staphylococcus aureus, MRSA: N = 97, MIC50/90 0.12/0.25 mg/L, 98.5% susceptible; methicillin-sensitive Staphylococcus aureus, MSSA: N = 100, MIC50/90 0.12/0.12 mg/L, 100.0% susceptible). Omadacycline was also very effective against β-haemolytic streptococci (MIC50/90, 0.06/0.12 mg/L), viridans group streptococci (MIC50/90,<0.03/0. 06 mg/L), and enterococci (MIC50/90, 0.03/0.12 mg/L). Against S. pneumoniae, omadacycline was highly active regardless of penicillin-resistance (MIC90 0.06 mg/L) and despite the fact that less than 10.0% of these strains were susceptible to tetracycline. Omadacycline exhibited good in vitro activity against Enterobacterales isolates (MIC50/90, 2/8 mg/L), inhibiting 81.7% of the isolates at ≤4 mg/L. M. catarrhalis isolates (MIC50/90, 0.12/0.25 mg/L) were fully susceptible to omadacycline at ≤0.5 mg/L.

Conclusions

Omadacycline showed potent in vitro activity against most common bacterial pathogens, and even against highly resistant problem pathogens, such as MRSA, penicillin-R and tetracycline-R S. pneumoniae and enterococci. The susceptibility rate of Chinese isolates was similar to those reported in other countries, but the decreased activity against K. pneumoniae isolates in the present study should be noted.

Background

The main bacterial pathogens of acute bacterial skin and skin structure infections (ABSSSIs) include Staphylococcus aureus and coagulase-negative staphylococci, with the former exhibiting high antimicrobial resistance rate and thus requiring highly effective antibiotics for management [1]. Community-acquired bacterial pneumonia (CABP) poses a significant health and economic burden in all regions of the world [1]. The most prevalent pathogens implicated in CABP include Streptococcus pneumoniae, Haemophilus influenzae, Moraxella catarrhalis, Mycoplasma pneumoniae, Chlamydophila pneumoniae, Klebsiella pneumoniae, and Pseudomonas aeruginosa [2, 3]. Among them, penicillin-resistant and multidrug-resistant S. pneumoniae (PRSP) are particularly concerning.

The tetracycline family of antibiotics entered the clinical practice against common infectious diseases in the late 1940s. However, due to the excessive use of antimicrobials in agriculture and veterinary medicine for many years, the resistance rates of several bacterial strains in environmental and animal reservoirs have increased to worrying levels, including the emergence of tetracycline resistant strains [4]. In the past decade, tigecycline has replaced tetracycline as an important therapeutic drug for antimicrobial resistant bacterial strains [5]. However, tigecycline is unavailable in oral form and has been reported to be associated with a high incidence of nausea and vomiting, and is even implicated in elevated all-cause mortality [6, 7].

Omadacycline (ZL-2401) is a novel antibacterial agent approved by the US Food and Drug Administration (FDA) for the treatment of ABSSSIs and CABP [7, 8]. As a semi-synthetic derivative of minocycline, and the first agent of the aminomethylcycline class, it has a broad spectrum activity against a wide range of organisms, including Gram-positive and Gram-negative bacteria [9]. Even against highly resistant bacterial strains such as methicillin-resistant S. aureus (MRSA), vancomycin-resistant enterococci (VRE), and PRSP, good antimicrobial activity has also been observed as per data obtained in the SENTRY antimicrobial surveillance program [10]. However, the prevalence and antimicrobial resistance rates of some bacterial species are different all over the world [11]. The aim of this study was to evaluate the in vitro activity of omadacycline against common bacteria in Mainland China.

Results

Susceptibility of gram-positive isolates to omadacycline

The 1273 bacterial isolates studied and their key resistance phenotypes are listed in Tables 1 and 2. The MIC distributions of Gram-positive isolates against omadacycline are shown in Tables 1 and 3. Omadacycline was tested against S. aureus isolates (98.5% susceptible), using ABSSSI breakpoints with MIC50/90 values of 0.12/0.25 mg/L (Table 1). Of these, 100.0% of MSSA, 96.9% of MRSA, 97.4% of tetracycline-resistant S. aureus, and 100.0% of tigecycline-resistant S. aureus, were susceptible to omadacycline.

Table 1 Antimicrobial activity of omadacycline against Gram-positive cocci organisms
Table 2 Antimicrobial activity of omadacycline against Gram-negative bacilli organisms
Table 3 Activity of omadacycline and comparator agents against a range of bacterial pathogens from 25 teaching hospitals in China

Omadacycline was highly active against enterococci (MIC50/90, 0.03/0.12 mg/L; 100.0% susceptible [ABSSSI breakpoints for Enterococcus faecalis]) isolates, whose resistance rates against tetracycline and minocycline were 76.0 and 52.0%, respectively (Tables 1 and 3). Against E. faecalis, MIC50 of omadacycline was 0.06 mg/L. Only one vancomycin-resistant E. faecium isolate was inhibited by 0.03 mg/L of omadacycline (Table 3).

The MIC50/90 values for all S. pneumoniae isolates, as well as for penicillin-resistant and tetracycline-resistant isolates, against omadacycline, were 0.06/0.06 mg/L (≥90.6% susceptible using CABP breakpoints). For tigecycline-non-susceptible isolates, the highest MIC value of omadacycline was 0.25 mg/L, though the susceptible rate was just 33.3%. Against viridans group streptococci and β-haemolytic streptococci, MIC50/90 values of omadacycline were 0.03/0.12 mg/L and 0.12/0.25 mg/L, respectively. About 86% of tetracycline-resistant S. anginosus group (85.7%), and 100.0% of S. pyogenes, were susceptible to omadacycline.

Susceptibility of gram-negative isolates to omadacycline

The MIC distributions of Gram-negative bacilli isolates against omadacycline are shown in Tables 2 and 3. Omadacycline exhibited good in vitro activity against 651 Enterobacterales isolates studied (MIC50/90, 2/8 mg/L) inhibiting 81.7% of the isolates at ≤4 mg/L (ABSSSI susceptible breakpoint for Enterobacter cloacae and K. pneumoniae). All tigecycline-non-susceptible Enterobacterales isolates showed very high MICs against omadacycline (MIC50/90, 16/32 mg/L; Tables 2 and 3). Of note, omadacycline was significantly more active against E. cloacae (MIC50/90, 2/4 mg/L; 93.3% susceptible) and Escherichia coli (MIC50/90, 1/4 mg/L; 92.3% inhibited at ≤4 mg/L), than against K. pneumoniae (MIC50/90, 2/16 mg/L; 70.5% susceptible). Furthermore, omadacycline showed good activity against ceftazidime-non-susceptible and tetracycline-resistant Enterobacterales (MIC50/90, 2/16 mg/L for both; 76.4 and 72.6% inhibited at ≤4 mg/L, respectively), especially tetracycline-resistant E. coli (MIC50/90, 1/4 mg/L; 91.0% inhibited at ≤4 mg/L), ceftazidime-non-susceptible E. cloacae (MIC50/90, 2/4 mg/L; 93.8% susceptible), tetracycline-resistant E. cloacae (MIC50/90, 4/32 mg/L; 81.8% susceptible) and tetracycline-resistant Citrobacter spp. (MIC50/90, 2/16 mg/L; 81.8% inhibited at ≤4 mg/L). However, omadacycline showed a weaker activity against ceftazidime-non-susceptible (MIC > 4 mg/L) K. pneumoniae and E. coli isolates (62.5 and 86.8% inhibited at ≤4 mg/L, respectively) compared to ceftazidime-susceptible isolates (77.6 and 96.1% inhibited at ≤4 mg/L, respectively). Carbapenemase-producing/extended-spectrum β-lactamase (ESBL) phenotype positive K. pneumoniae isolates were less susceptible to omadacycline (72.3 and 57.6% susceptible at ≤4 mg/L, respectively) compared with ESBL phenotype negative isolates (84.0% susceptible at ≤4 mg/L, respectively).

When tested against non-fermenting bacteria, omadacycline demonstrated moderate activity against Acinetobacter baumannii (MIC50/90, 4/16 mg/L), and good activity against Stenotrophomonas maltophilia (MIC50/90, 2/4 mg/L), but very limited in vitro activity against P. aeruginosa (MIC50/90, 32/32 mg/L) isolates, which also exhibited low susceptibility to most antimicrobials tested (Tables 2 and 3). Furthermore, omadacycline was tested against M. catarrhalis isolates, with MIC50/90 values of 0.12/0.25 mg/L against this organism (Table 2).

Discussion

Tigecycline has been an important option antibiotic for treatment of patients infected with tetracycline-resistant bacterial strains. Tigecycline, however, is available only as an intravenous formulation, while omadacycline is available both as an intravenous and oral formulation. Similar to other tetracyclines, omadacycline binds to 30S subunit of bacterial ribosome for inhibiting protein synthesis. Structure of omadacycline differs significantly from other tetracyclines and this compound represents a new aminomethylcycline subsclass [12]. Omadacycline overcomes the tetracycline efflux and ribosome protection mechanisms of bacterial resistance, due to modification at the C7 and C9 positions, respectively [13].

As the first agent of the aminomethylcycline class, omadacycline has a broad spectrum activity against Gram-positive and Gram-negative bacteria, and atypical pathogens including Mycobacterium abscessus, Mycoplasmas, Ureaplasmas, Legionella spp. and Chlamydia spp. [9, 14, 15]. Even against highly resistant bacterial isolates, such as MRSA, VRE, and PRSP, good activity has been observed for omadacycline [7, 10, 16].

Over the past decades, the incidence of MRSA has been slowly decreasing in the United States of America (USA), the United Kingdom, Australia and China [17,18,19,20,21]. However, it still remains a major issue for skin and skin structure infections [22, 23]. High omadacycline activity rates were observed against MRSA and tetracycline-resistant S. aureus isolates in the present study, with 96.9 and 97.4% susceptible rates, respectively, which is consistent with other reported data from USA and Europe [10]. In addition, the activity of omadacycline against α-hemolytic streptococci was impressive, especially against S. pneumoniae, and even PRSP and tigecycline-non-susceptible S. pneumoniae (100.0% susceptible).

Compared with data in the SENTRY antimicrobial surveillance program, MIC values of omadacycline against Enterobacterales isolates tested in this study, were similar (MIC50/90, 2/8 mg/L vs MIC50/90, 1 ~ 2/8 mg/L) [10, 16]. Omadacycline inhibited 81.7% of Enterobacterales, 92.3% of E. coli and 93.3% of E. cloacae isolates at ≤4 mg/L. Furthermore, omadacycline showed good activity against E. coli and E. cloacae isolates which were carbapenemase and ESBL phenotype positive, ceftazidime susceptible, or tetracycline susceptible (Table 2).

In China, the most common bacterial pathogen causing community acquired pneumonia (CAP) is Mycoplasma pneumoniae, accounting for 32.4% of 1500 children presenting with CAP in some studies [24, 25]. Furthermore, P. aeruginosa, K. pneumoniae, E. coli and Acinetobacter have been reported as significant CAP pathogens for hospitalized adults [24, 25]. According to guidelines of the Infectious Diseases Society of America and the American Thoracic Society, non-fermenting Gram-negative bacilli account for 19% (95% CI, 15–24%) of cases of hospital-acquired pneumonia (HAP), with P. aeruginosa implicated in 13.8% of HAP or ventilator-associated pneumonia (VAP) cases [26]. In the present study, omadacycline showed moderate in vitro activity against K. pneumoniae and A. baumannii, inhibiting 70.5 and 75.8% of the isolates at ≤4 mg/L, respectively (Table 2). It is possible that the A. baumannii and K. pneumoniae isolates tested in the present study may have originated from patients with HAP/VAP. And if that is the case, the higher MIC values of omadacycline seems reasonable. Compared with MIC50/90 values of minocycline (8/32 mg/L) and tigecycline (8/16 mg/L) against P. aeruginosa, MIC50/90 values of omadacycline (32/32 mg/L) were higher. Similar to its initial resistance to tetracycline and tigecycline [27], P. aeruginosa also exhibited low susceptibility to omadacycline.

This study has several limitations. The most obvious being the source of the isolates, as some strains were not isolated from patients with CAP or ABSSSIs. However, just like tigecycline is used in some non-approved clinical indications [28,29,30], we hope that the results of in vitro activity of omadacycline against strains isolated from the other infections can provide references for other clinical uses. Thus for a more comprehensive understanding of the in vitro antibacterial spectrum of omadacycline, we have also included other pathogens apart from those causing CAP and ABSSSIs, such as enterococci.

Conclusions

In summary, omadacycline showed good in vitro activity against Gram-positive organisms and useful activity against most Enterobacterales strains isolated from China. In addition, omadacycline showed potent activity against several antimicrobial-resistant profile pathogens, including MRSA, PRSP, ESBL phenotype positive, and even carbapenemase-producing E. coli. Increased MIC values of omadacycline were observed in K. pneumoniae isolates in the present study, compared with other geographic areas recently studied [10, 16, 31, 32].

Methods

Organisms

A total of 1273 non-duplicate bacterial stains were collected from 25 teaching hospitals in China between January 2014 and December 2017. These isolates came from i) a multicenter surveillance program for CAP, HAP and ABSSSIs in China between 2014 and 2016; ii) a multicenter surveillance program for intra-abdominal infections (IAIs) and urinary tract infections (UTIs) in China from 2015 to 2016; iii) a surveillance program for infections caused by Streptococcus species in China in 2016; and iv) routine isolates causing respiratory tract infections (RTIs) and bloodstream infections (BSIs) in Peking Union Medical College Hospital from 2015 to 2017.

The 25 teaching hospitals are located in eighteen provinces across all the seven geographic regions in China. The strains studied were isolated from different clinical departments in each teaching hospital. According to sample type category, the majority was collected from respiratory tract (39.4%), including sputum (n = 435), broncho-alveolar lavage (n = 60), tracheobronchial aspiration (n = 5), and throat swab (n = 1). Other sources included urinary tract (21.5%), body fluid (19.2%), tissue (9.9%), abscess (6.9%), and others (3.2%). All the isolates were primarily identified at each local laboratory and confirmed in the central laboratory by Matrix-assisted laser desorption ionization time-of-flight mass spectrometer (bioMérieux, Vitek MS, USA) or 16S rDNA sequencing when necessary.

Antimicrobial susceptibility testing

Susceptibility testing (omadacycline, tetracycline, minocycline and tigecycline) was performed by broth microdilution following Clinical and Laboratory Standards Institute (CLSI) documents M7-A9 [33]. Omadacycline powder was provided by Zai laboratory (Shanghai, China). The susceptibility testing of other antimicrobial agents was performed using commercial broth microdilution panels [Sensititre (ThermoFisher Diagnostics)]. S. aureus ATCC 29213, E. faecalis ATCC 29212, S. pneumoniae ATCC 49619, E. coli ATCC 25922, and P. aeruginosa ATCC 27853, were used as quality control strains. Results were interpreted in accordance with CLSI M100 guidelines [27]. Furthermore, the result interpretation of tigecycline was done in accordance with the U.S. FDA and European Committee on Antimicrobial Susceptibility Testing (EUCAST) 2019 guidelines [34]. Omadacycline clinical breakpoints for S. aureus, S. pneumoniae, K. pneumoniae, E. cloacae and E. faecalis, were released by the U.S. FDA on June 2018 [35]. We applied EUCAST clinical breakpoints for colistin (Enterobacterales excluding Proteus spp. and Serratia spp., S ≤ 2 mg/L, R > 2 mg/L; P. aeruginosa, S ≤ 4 mg/L, R > 4 mg/L) [34]. E. coli, K. pneumoniae and Proteus mirabilis isolates were screened for ESBL production using the disk diffusion method as per CLSI document M100-S29, screening criteria for potential ESBL production, i.e., ceftazidime (30 μg), cefotaxime (30 μg), with / without clavulanate (10 μg) [27]. Carbapenemase-producing E. coli and carbapenemase-producing K. pneumoniae were phenotypically resistant to carbapenems but the production of carbapenemase enzymes was not confirmed.

Availability of data and materials

All data generated or analysed during this study are included in this published article.

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Acknowledgments

The co-principal investigators in the 25 hospitals providing 1273 non-duplicate bacterial stains between January 2014 and December 2017 are as follows: (1) Ying-chun Xu, Peking Union Medical College Hospital, Beijing; (2) Chun-xia Yang, Beijing Chao-Yang Hospital, Capital Medical University. Beijing; (3) Qiong Duan, Jilin Province Hospital, Changchun, Jilin Province; (4) Yong Wang, Shandong Provincial Hospital, Qingdao, Shandong Province; (5) Kang Liao, The First Affiliated Hospital of Zhongshan University, Guangzhou, Guangdong Province; (6) Yun-song Yu, Sir Run Run Shaw Hospital, affiliated with the Zhejiang University School of Medicine, Hangzhou, Zhejiang Province; (7) An-hua Wu, Xiangya Hospital Central South University, Changsha, Hunan Province; (8) Hai-shen Kong, The First Affiliated Hospital of the Zhejiang University School of Medicine, Hangzhou, Zhejiang Province; (9) Wei-ping Wang, Jinling Hospital, Nanjing University School of Medicine, Nanjing, Jiangsu Province; (10) Shu-fang Zhang, Haikou people’s Hospital, Central South University Xiangya School of Medicine Affiliated Haikou Hospital, Haikou, Hainan Province; (11) Yu-xing Ni, Shanghai Ruijin Hospital, Shanghai; (12) Bing Shan, First Affiliated Hospital of Kunming Medical University, Kunming, Yunnan Province; (13) Wen-xiang Huang, The First Affiliated Hospital of Chongqing Medical University, Chongqing; (14) Zi-yong Sun, Union Hospital, Tongji Medical College of Huazhong University of Science and Technology, Wuhan, Hubei Province; (15) Xiao-feng Jiang, Fourth Affiliated Hospital of Harbin Medical University, Harbin, Heilongjiang Province; (16) Hua Yu, Sichuan Academy of Medical Sciences and Sichuan Provincial People’s Hospital, Chengdu, Sichuan Province; (17) Xu-lin Chen, Zigui People’s Hospital, Yichang, Hubei Province; (18) Shu-jun Qu, Zunhua People’s Hospital, Tangshan, Hebei Province; (19) Bing-dong Gui, The Second Affiliated Hospital of Nanchang University, Nanchang, Jiangxi Province; (20) Yinchuan Second People’s Hospital, Yinchuan, Ningxia Province; (21) Yun-zhuo Chu, The First Hospital of China Medical University, Shenyang, Liaoning Province; (22) Jian-hong Zhao, The Second Hospital of Hebei Medical University, Shijiazhuang, Hebei Province; (23) Yong Liu, Shengjing Hospital of China Medical University, Shenyang, Liaoning Province; (24) Yong-tong Cao, China-Japan Friendship Hospital, Beijing; (25) Rong Xiang, Xiaolan People’s Hospital of Zhongshan, Zhongshan, Guangdong Province.

The authors are grateful to Zai laboratory (Shanghai, China) for providing Omadacycline (ZL-2401) for this study.

Funding

This work was supported by the National Major Science and Technology Project for the Control and Prevention of Major Infectious Diseases of China (2017ZX10103004) and Tsinghua University-Peking Union Medical College Hospital Initiative Scientific Research Program (PTQH201911583).

The funding bodies had no role in study design, data collection and analysis, interpretation of data, decision to publish, or preparation of the manuscript.

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MX, JJH, YCX designed the studies. GZ, WHY performed MALDI-TOF MS identification, 16S rDNA sequencing identification, and antifungal susceptibility testing. JJH wrote the manuscript with contributions from all authors. MX, FK, and TK revised the manuscript. All authors contributed to data analysis, drafting and critically revising the paper and agree to be accountable for all aspects of the work.

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Correspondence to Ying-chun Xu.

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Xiao, M., Huang, Jj., Zhang, G. et al. Antimicrobial activity of omadacycline in vitro against bacteria isolated from 2014 to 2017 in China, a multi-center study. BMC Microbiol 20, 350 (2020). https://doi.org/10.1186/s12866-020-02019-8

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Keywords

  • Omadacycline
  • Aminomethylcycline
  • Tetracyclines
  • Streptococcus pneumoniae
  • Staphylococcus aureus