Phenotypic and WGS-derived antimicrobial resistance profiles of clinical and non-clinical Acinetobacter baumannii isolates from Germany and Vietnam

Wareth, Gamal; Linde, Jörg; Hammer, Philipp; Nguyen, Ngoc Huy; Nguyen, Tuan Ngoc; Splettstoesser, Wolf D.; Makarewicz, Oliwia; Neubauer, Heinrich; Sprague, Lisa D.; Pletz, Mathias W.

doi:10.1016/j.ijantimicag.2020.106127

Cited by 26 publications

(27 citation statements)

References 63 publications

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“…The prevalence of MDR/CRAb was very high. The results are in agreement with previous reports: most CRAb strains display resistance to at least one compound in three or more antimicrobial categories and are designated as MDR [ 6 , 7 ]. Resistance against imipenem was seen in 91.6% of XDR A. baumannii strains isolated from patients in three hospitals in southern Vietnam between 2012 and 2014 [ 17 ].…”

Section: Resultssupporting

confidence: 93%

“…Aminoglycosides are broad-spectrum antibiotics used against a wide range of infections caused by Gram-negative bacteria in clinical settings. However, their efficacy has been reduced by resistance development [ 7 , 43 ]. This finding highlights the diversity of aminoglycoside-resistant A. baumannii strains mediated by ANT s, APH s, arm A and AACs of AMEs in Southeast Asian countries.…”

Section: Resultsmentioning

confidence: 99%

“…The treatment of carbapenem-resistant A. baumannii (CRAb) is becoming a global challenge. CRAb is emerging worldwide, and the majority of these isolates often show MDR or XDR patterns [ 6 , 7 ]. They are also associated with an increased length of stay at hospital ICUs [ 8 ].…”

Section: Introductionmentioning

confidence: 99%

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WGS-Based Analysis of Carbapenem-Resistant Acinetobacter baumannii in Vietnam and Molecular Characterization of Antimicrobial Determinants and MLST in Southeast Asia

et al. 2021

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Carbapenem-resistant Acinetobacter baumannii (A. baumannii, CRAb) is an emerging global threat for healthcare systems, particularly in Southeast Asia. Next-generation sequencing (NGS) technology was employed to map genes associated with antimicrobial resistance (AMR) and to identify multilocus sequence types (MLST). Eleven strains isolated from humans in Vietnam were sequenced, and their AMR genes and MLST were compared to published genomes of strains originating from Southeast Asia, i.e., Thailand (n = 49), Myanmar (n = 38), Malaysia (n = 11), Singapore (n = 4) and Taiwan (n = 1). Ten out of eleven Vietnamese strains were CRAb and were susceptible only to colistin. All strains harbored ant(3”)-IIa, armA, aph(6)-Id and aph(3”) genes conferring resistance to aminoglycosides, and blaOXA-51 variants and blaADC-25 conferring resistance to ß-lactams. More than half of the strains harbored genes that confer resistance to tetracyclines, sulfonamides and macrolides. The strains showed high diversity, where six were assigned to sequence type (ST)/2, and two were allocated to two new STs (ST/1411-1412). MLST analyses of 108 strains from Southeast Asia identified 19 sequence types (ST), and ST/2 was the most prevalent found in 62 strains. A broad range of AMR genes was identified mediating resistance to ß-lactams, including cephalosporins and carbapenems (e.g., blaOXA-51-like, blaOXA-23, blaADC-25, blaADC-73, blaTEM-1, blaNDM-1), aminoglycosides (e.g., ant(3”)-IIa, aph(3”)-Ib, aph(6)-Id, armA and aph(3’)-Ia), phenicoles (e.g., catB8), tetracyclines (e.g., tet.B and tet.39), sulfonamides (e.g., sul.1 and sul.2), macrolides and lincosamide (e.g., mph.E, msr.E and abaF). MLST and core genome MLST (cgMLST) showed an extreme diversity among the strains. Several strains isolated from different countries clustered together by cgMLST; however, different clusters shared the same ST. Developing an action plan on AMR, increasing awareness and prohibiting the selling of antibiotics without prescription must be mandatory for this region. Such efforts are critical for enforcing targeted policies on the rational use of carbapenem compounds and controlling AMR dissemination and emergence in general.

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Section: Resultssupporting

confidence: 93%

Section: Resultsmentioning

confidence: 99%

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WGS-Based Analysis of Carbapenem-Resistant Acinetobacter baumannii in Vietnam and Molecular Characterization of Antimicrobial Determinants and MLST in Southeast Asia

et al. 2021

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“…Zeocin is a formulation of phleomycin D1, a glycopeptide antibiotic of the bleomycin family. Resistance to zeocin is linked with phleomycin/bleomycin binding protein Ble-Sh (ble-Sh gene), while resistance to bleomycin is usually conferred by the binding protein Ble-MBL (metallo-beta-lactamase-associated ble gene) [175][176][177].…”

Section: Resistance To Glycopeptide and Lipopetide Antibioticsmentioning

confidence: 99%

Acinetobacter baumannii Antibiotic Resistance Mechanisms

et al. 2021

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Acinetobacter baumannii is a Gram-negative ESKAPE microorganism that poses a threat to public health by causing severe and invasive (mostly nosocomial) infections linked with high mortality rates. During the last years, this pathogen displayed multidrug resistance (MDR), mainly due to extensive antibiotic abuse and poor stewardship. MDR isolates are associated with medical history of long hospitalization stays, presence of catheters, and mechanical ventilation, while immunocompromised and severely ill hosts predispose to invasive infections. Next-generation sequencing techniques have revolutionized diagnosis of severe A. baumannii infections, contributing to timely diagnosis and personalized therapeutic regimens according to the identification of the respective resistance genes. The aim of this review is to describe in detail all current knowledge on the genetic background of A. baumannii resistance mechanisms in humans as regards beta-lactams (penicillins, cephalosporins, carbapenems, monobactams, and beta-lactamase inhibitors), aminoglycosides, tetracyclines, fluoroquinolones, macrolides, lincosamides, streptogramin antibiotics, polymyxins, and others (amphenicols, oxazolidinones, rifamycins, fosfomycin, diaminopyrimidines, sulfonamides, glycopeptide, and lipopeptide antibiotics). Mechanisms of antimicrobial resistance refer mainly to regulation of antibiotic transportation through bacterial membranes, alteration of the antibiotic target site, and enzymatic modifications resulting in antibiotic neutralization. Virulence factors that may affect antibiotic susceptibility profiles and confer drug resistance are also being discussed. Reports from cases of A. baumannii coinfection with SARS-CoV-2 during the COVID-19 pandemic in terms of resistance profiles and MDR genes have been investigated.

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“…The raw reads together with the raw data of the 45 A. butzleri isolates sequenced herein were de novo assembled. For the analyses, we used the WGSBAC pipeline (https://gitlab.com/FLI_Bioinfo/ WGSBAC) as described previously (Garcia-Soto et al, 2020;Wareth et al, 2020). WGSBAC assembled the raw data using shovill version 1.0.4 (https://github.com/tseemann/shovill) after adapter trimming with Trimmomatic (Bolger et al, 2014).…”

Section: Bioinformatic Analysesmentioning

confidence: 99%

Antimicrobial Resistance and in silico Virulence Profiling of Aliarcobacter butzleri Strains From German Water Poultry

et al. 2020

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Aliarcobacter butzleri is an emerging foodborne and zoonotic pathogen that is usually transmitted via contaminated food or water. A. butzleri is not only the most prevalent Aliarcobacter species, it is also closely related to thermophilic Campylobacter, which have shown increasing resistance in recent years. Therefore, it is important to assess its resistance and virulence profiles. In this study, 45 Aliarcobacter butzleri strains from water poultry farms in Thuringia, Germany, were subjected to an antimicrobial susceptibility test using the gradient strip diffusion method and whole-genome sequencing. In the phylogenetic analysis, the genomes of the German strains showed high genetic diversity. Thirty-three isolates formed 11 subgroups containing two to six strains. The antimicrobial susceptibility testing showed that 32 strains were resistant to erythromycin, 26 to doxycycline, and 20 to tetracycline, respectively. Only two strains were resistant to ciprofloxacin, while 39 strains were resistant to streptomycin. The in silico prediction of the antimicrobial resistance profiles identified a large repertoire of potential resistance mechanisms. A strong correlation between a gyrA point mutation (Thr-85-Ile) and ciprofloxacin resistance was found in 11 strains. A partial correlation was observed between the presence of the bla3 gene and ampicillin resistance. In silico virulence profiling revealed a broad spectrum of putative virulence factors, including a complete lipid A cluster in all studied genomes.

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Phenotypic and WGS-derived antimicrobial resistance profiles of clinical and non-clinical Acinetobacter baumannii isolates from Germany and Vietnam

Cited by 26 publications

References 63 publications

WGS-Based Analysis of Carbapenem-Resistant Acinetobacter baumannii in Vietnam and Molecular Characterization of Antimicrobial Determinants and MLST in Southeast Asia

WGS-Based Analysis of Carbapenem-Resistant Acinetobacter baumannii in Vietnam and Molecular Characterization of Antimicrobial Determinants and MLST in Southeast Asia

Acinetobacter baumannii Antibiotic Resistance Mechanisms

Antimicrobial Resistance and in silico Virulence Profiling of Aliarcobacter butzleri Strains From German Water Poultry

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