Mobile genetic elements related to carbapenem resistance in Acinetobacter baumannii

Pagano, Mariana; Martins, Andreza Francisco; Barth, Afonso Luís

doi:10.1016/j.bjm.2016.06.005

Cited by 107 publications

(114 citation statements)

References 64 publications

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“…Also, ISAba125 In A. baumannii clinical isolates, the same options when present in the chromosomal regions, the most recently identi ied ISAba125 elements have been detected in the upstream of bla N DM − 1. (Pagano et al, 2016).…”

Section: Resultsmentioning

confidence: 99%

Molecular analysis of multi –drug resistant acintobacter baumannii isolated in baghdad hospital

Ridha¹,

Ali²,

Jassim³

2019

ijrps

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Qurum sense is regulatory systems that enable bacteria to expretion for a specific set of genes by making collective decisions and regulation of virulence factors of pathogenic Acintobacter baumannii, the prevalence of carbapenem resistance among (8) different antibiotic groups pattern. In the MDR index, all isolates showed high MDR, ranged from (6-21) antibiotics. MDR index is between (0.29-1.0).Quantitative biofilm production assay showed that 118/124(95.1%)of isolates were biofilm-formers. Detection of QS genes showed that (97.6%)121/124,(98.3%)122\124 and (4.8%)of isolates carried luxR, rhlI and rhIR genes, respectivelly. All isolates possess rhIR gene are isolated from child meningococcal patients and characterized by the strong biofilm formation. Identification of abaI gene in A.baumannii producing the QS signal molecules detected in124\124(100%). The current study revealed a strong relationship between Q.S genes luxR,rhII,rhIR and oxacillinases presence OXA23, OXA69. While a strong negative correlation between OXA48 and OXA69 with the rhIR gene. All isolates carried Integron I(n=124)(100%) with a significant presence of (luxR, rhII) genes, while INT2,3 had a highly significant level with rhIR. Noteworthy, (n=105) 84.7% of OXA51 positive isolates have carried ISAbal-blaOXA-51, whereas all isolates which have OXA23 carried ISAbal-blaOXA-23(n=65)52.4% most of them revealed IMP&MEM resistance phenotype. Insertion sequence(ISAbal-blaOXA-51) showed significant correlation with luxR, rhII genes, while there was no correlation among ISAbal25, ISAbal, ISAbal25-blaADC and luxR, rhII. Positive correlation recorded with all IS with rhIR, except ISAbal-blaADC.ads-a gene was observed in 77/124(62.1%) of isolates, which associated with aminoglycoside resistance, and included within the 93 XDR isolates. Studied isolates showed the same prevelance rate for ompA, smpA which was122\124(98.4%) of isolates.

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Section: Resultsmentioning

confidence: 99%

Molecular analysis of multi –drug resistant acintobacter baumannii isolated in baghdad hospital

Ridha¹,

Ali²,

Jassim³

2019

ijrps

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“…The right panel is centered around the strA and strB genes in Acinetobacter baumannii JTEC01 assembly. These two genes are known to confer resistance to aminoglycosides, and are located in a well-described resistance island (AbaR), including several other resistance genes acquired by horizontal gene transfer [20]. These genes are present in genomes from several species in the pneumonia RDB and therefore reads could not be specifically assigned to A. baumannii.…”

Section: Pipeline Tbwdm Illustrationmentioning

confidence: 99%

Clinical metagenomics bioinformatics pipeline for the identification of hospital-acquired pneumonia pathogens antibiotic resistance genes from bronchoalveolar lavage samples

Tournoud

Ruppé

Perrin

et al. 2020

Preprint

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Background: Shortening the time-to-result for pathogen detection and identification and antibiotic susceptibility testing for patients with Hospital-Acquired and Ventilator-Associated pneumonia (HAP-VAP) is of great interest. For this purpose, clinical metagenomics is a promising non-hypothesis driven alternative to traditional culture-based solutions: when mature, it would allow direct sequencing all microbial genomes present in a BronchoAlveolar Lavage (BAL) sample with the purpose of simultaneously identifying pathogens and Antibiotic Resistance Genes (ARG). In this study, we describe a new bioinformatics method to detect pathogens and their ARG with good accuracy, both in mono-and polymicrobial samples.Methods: The standard approach (hereafter called TBo), that consists in taxonomic binning of metagenomic reads followed by an assembly step, suffers from lack of sensitivity for ARG detection. Thus, we propose a new bioinformatics approach (called TBwDM) with both models and databases optimized for HAP-VAP, that performs reads mapping against ARG reference database in parallel to taxonomic binning, and joint reads assembly.Results: In in-silico simulated monomicrobial samples, the recall for ARG detection increased from 51% with TBo to 97.3% with TBwDM ; in simulated polymicrobial infections, it increased from 41.8% to 82%. In real sequenced BAL samples (mono and polymicrobial), detected pathogens were also confirmed by traditional culture approaches. Moreover, both recall and precision for ARG detection were higher with TBwDM than with TBo (35 points difference for recall, and 7 points difference for precision).Conclusions: We present a new bioinformatics pipeline to identify pathogens and ARG in BAL samples from patients with HAP-VAP, with higher sensitivity for ARG recovery than standard approaches and the ability to link ARG to their host pathogens.

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“…have innate (chromosomal) resistance mechanisms against multiple antimicrobials but also can acquire new resistance determinants via mobile genetic elements such as plasmids, transposons, integrons, insertion sequences, and resistance islands. [1][2][3]69,[72][73][74] Mechanisms of antimicrobial resistance are numerous and include (1) enzymatic inactivation or modification of antimicrobials; (2) alteration in the bacterial target site(s); (3) permeability barriers to uptake of antimicrobials; (4) active efflux pumps (that extrude antibiotics from bacterial cells); (5) combinations of mechanisms, which may occur as the result of large genomic islands containing multiple resistance genes. [1][2][3]70,72…”

Section: Mechanisms Of Antimicrobial Resistancementioning

confidence: 99%

Infections Due to Acinetobacter baumannii in the ICU: Treatment Options

Lynch

Zhanel

Clark

2017

Semin Respir Crit Care Med

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Bacteria within the genus (principally- complex [ABC]) are gram-negative coccobacilli that may cause nosocomial infections in critically ill or debilitated patients (particularly ventilator-associated pneumonia and infections of the bloodstream, urinary tract, and wounds). Treatment of infections is difficult, as spp. are resistant to multiple antimicrobial agents, and have a remarkable ability to via mechanisms that include plasmids, transposons, integrons, and resistance islands. Since the 1990s, global resistance to antimicrobials has escalated dramatically among ABC. Global spread of multidrug-resistant (MDR)- strains reflects dissemination of a few clones between hospitals, geographic regions, and continents; excessive use of antibiotics amplifies this spread. Many isolates are resistant to all antimicrobials except colistin (polymyxin E) and tigecycline, and some infections are untreatable with existing antimicrobial agents. Antimicrobial resistance poses a serious threat to treat or prevent infections due to ABC. Strategies to curtail environmental colonization with MDR-ABD will require aggressive infection control efforts and cohorting of infected patients. Thoughtful antibiotic strategies are essential to limit the spread of MDR-ABC. Optimal therapy will likely require combination antimicrobial therapy of existing antibiotics as well as development of novel antibiotic classes.

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Mobile genetic elements related to carbapenem resistance in Acinetobacter baumannii

Cited by 107 publications

References 64 publications

Molecular analysis of multi –drug resistant acintobacter baumannii isolated in baghdad hospital

Molecular analysis of multi –drug resistant acintobacter baumannii isolated in baghdad hospital

Clinical metagenomics bioinformatics pipeline for the identification of hospital-acquired pneumonia pathogens antibiotic resistance genes from bronchoalveolar lavage samples

Infections Due to Acinetobacter baumannii in the ICU: Treatment Options

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