Comparative Genomics of Acinetobacter baumannii Clinical Strains From Brazil Reveals Polyclonal Dissemination and Selective Exchange of Mobile Genetic Elements Associated With Resistance Genes

Leal, Nilma Cintra; Campos, Túlio de Lima; Rezende, Antônio Mauro; Docena, Cássia; Mendes-Marques, Carina Lucena; Cavalcanti, Felipe Lira de Sá; Wallau, Gabriel Luz; Rocha, Igor Vasconcelos; Cavalcanti, Carmelita L. B.; Veras, Dyana Leal; Alves, Lílian Rodrigues; Andrade-Figueiredo, Mariana; Barros, Maria Paloma Silva de; Almeida, Alzira Maria Paiva de; Morais, Márcia Maria Camargo de; Leal-Balbino, Tereza Cristina; Xavier, Danilo Elias; Neto, Osvaldo P. de Melo

doi:10.3389/fmicb.2020.01176

Cited by 31 publications

(28 citation statements)

References 111 publications

(163 reference statements)

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“…2). Previously, it was reported that at least eight MGEs were associated with ARGs in A. baumannii [15]. Our result, however, indicates that there is a more complex relationship between ARGs and ISs.…”

Section: Resultscontrasting

confidence: 67%

“…The results show that the number of ARGs does not correlate with the number of ISs in the four species (Pearson’s R2 < 0.8, Figure 2). Previously, it was reported that at least eight MGEs were detected together with ARGs in A. baumannii (Leal et al, 2020). The plasmids were grouped into three categories based on the DNA transfer machinery: conjugative, mobilizable and nonmobilizable (Smillie et al, 2010).…”

Section: Resultsmentioning

confidence: 99%

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BacAnt: A Combination Annotation Server for Bacterial DNA Sequences to Identify Antibiotic Resistance Genes, Integrons, and Transposable Elements

Hua

Liang

Deng

et al. 2020

Preprint

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Whole genome sequencing (WGS) of bacteria has become a routine method in diagnostic laboratories. One of the most exciting advantages of WGS is the ability to predict antimicrobial resistance genes (ARGs) and mobile genetic elements (MGEs) in a variety of bacteria, which may allow comprehensive investigations of genetic features but also serve for epidemiological studies. A plethora of softwares have been developed for the detailed annotation of DNA sequences, such as RAST (Rapid Annotation using Subsystem Technology), Resfinder, ISfinder, INTEGRALL and The Transposon Registry. Unfortunately, up to now, a reliable annotation tool of the combination of ARGs and MGEs is not available to researchers, and the generation of genbank files requires much manual input. Here, we present a new webserver which allows the annotation of ARGs, ISs, integron, and transposable elements at the same time. The algorithm generates genbank files automatically, which are compatible with easyfig for comparative genomic analysis.

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Section: Resultscontrasting

confidence: 67%

Section: Resultsmentioning

confidence: 99%

BacAnt: A Combination Annotation Server for Bacterial DNA Sequences to Identify Antibiotic Resistance Genes, Integrons, and Transposable Elements

Hua

Liang

Deng

et al. 2020

Preprint

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“…The most prevalent carbapenemase in A. baumannii strains, OXA-23, was detected here in already associated clones as ST1, ST25 and ST79 ( 23 , 30 ). Although this gene was not detected in some ST79 strains from this surveillance, all of them have OXA-65 carbapenemase, as previously reported in a Brazilian surveillance ( 31 ). The single strain from A. baumannii ST848 calls to attention since the occurrence of bla GES−11 , which mediates resistance to β-lactam and reduced susceptibility to carbapenem, has been reported in other continents and clones but neither in America nor in ST848 ( 32 ).…”

Section: Discussionsupporting

confidence: 63%

Genetic Basis of Antimicrobial Resistant Gram-Negative Bacteria Isolated From Bloodstream in Brazil

et al. 2021

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Multidrug-resistant microorganisms are a well-known global problem, and gram-negative bacilli are top-ranking. When these pathogens are associated with bloodstream infections (BSI), outcomes become even worse. Here we applied whole-genome sequencing to access information about clonal distribution, resistance mechanism diversity and other molecular aspects of gram-negative bacilli (GNB) isolated from bloodstream infections in Brazil. It was possible to highlight international high-risk clones circulating in the Brazilian territory, such as CC258 for Klebsiella pneumoniae, ST79 for Acinetobacter baumannii and ST233 for Pseudomonas aeruginosa. Important associations can be made such as a negative correlation between CRISPR-Cas and K. pneumoniae CC258, while the genes blaTEM, blaKPC and blaCTX−M are highly associated with this clone. Specific relationships between A. baumannii clones and blaOXA−51 variants were also observed. All P. aeruginosa ST233 isolates showed the genes blaVIM and blaOXA486. In addition, some trends could be identified, where a new P. aeruginosa MDR clone (ST3079), a novel A. baumannii clonal profile circulating in Brazil (ST848), and important resistance associations in the form of blaVIM−2 and blaIMP−56 being found together in one ST233 strain, stand out. Such findings may help to develop approaches to deal with BSI and even other nosocomial infections caused by these important GNB.

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“…However, there is a second waaaL gene in the A. baumannii was found in some strains, which thought to be required in O-antigen linkage as it does not contain a domain for protein glycosylation [ 69 , 70 ]. In contrast to previous study, recent comparative genomics of A. baumannii in brazil has suggested no waaL was identified in the strains using blastp and Pfam for gene identification, and Artemis compare gene arrangement [ 71 ].…”

Section: The Antibiotic Resistance In a Baumanniimentioning

confidence: 94%

Multidrug-resistant Acinetobacter baumannii as an emerging concern in hospitals

et al. 2021

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Acinetobacter baumannii has become a major concern for scientific attention due to extensive antimicrobial resistance. This resistance causes an increase in mortality rate because strains resistant to antimicrobial agents are a major challenge for physicians and healthcare workers regarding the eradication of either hospital or community-based infections. These strains with emerging resistance are a serious issue for patients in the intensive care unit (ICU). Antibiotic resistance has increased because of the acquirement of mobile genetic elements such as transposons, plasmids, and integrons and causes the prevalence of multidrug resistance strains (MDR). In addition, an increase in carbapenem resistance, which is used as last line antibiotic treatment to eliminate infections with multidrug-resistant Gram-negative bacteria, is a major concern. Carbapenems resistant A. baumannii (CR-Ab) is a worldwide problem. Because these strains are often resistant to all other commonly used antibiotics. Therefore, pathogenic multi-drug resistance A. baumannii (MDR-Ab) associated infections become hard to eradicate. Plasmid-mediated resistance causes outbreaks of extensive drug-resistant . A. baumannii (XDR-Ab). In addition, recent outbreaks relating to livestock and community settings illustrate the existence of large MDR-Ab strain reservoirs within and outside hospital settings. The purpose of this review, proper monitoring, prevention, and treatment are required to control (XDR-Ab) infections. Attachment, the formation of biofilms and the secretion of toxins, and low activation of inflammatory responses are mechanisms used by pathogenic A. baumannii strain. This review will discuss some aspects associated with antibiotics resistance in A. baumannii as well as cover briefly phage therapy as an alternative therapeutic treatment.

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Comparative Genomics of Acinetobacter baumannii Clinical Strains From Brazil Reveals Polyclonal Dissemination and Selective Exchange of Mobile Genetic Elements Associated With Resistance Genes

Cited by 31 publications

References 111 publications

BacAnt: A Combination Annotation Server for Bacterial DNA Sequences to Identify Antibiotic Resistance Genes, Integrons, and Transposable Elements

BacAnt: A Combination Annotation Server for Bacterial DNA Sequences to Identify Antibiotic Resistance Genes, Integrons, and Transposable Elements

Genetic Basis of Antimicrobial Resistant Gram-Negative Bacteria Isolated From Bloodstream in Brazil

Multidrug-resistant Acinetobacter baumannii as an emerging concern in hospitals

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