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https://dx.doi.org/10.60692/9c...
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Whole genome sequence of pan drug-resistant clinical isolate of Acinetobacter baumannii ST1890

تسلسل الجينوم الكامل للعزل السريري المقاوم للأدوية في المقلاة للبكتيريا الخاملة البومانية ST1890
Authors: Thanwa Wongsuk; Siriphan Boonsilp; Anchalee Homkaew; Konrawee Thananon; Worrapoj Oonanant;

Whole genome sequence of pan drug-resistant clinical isolate of Acinetobacter baumannii ST1890

Abstract

Acinetobacter baumannii is an opportunistic gram-negative bacteria typically attributed to hospital-associated infection. It could also become multidrug-resistant (MDR), extensively drug-resistant (XDR), and pan drug-resistant (PDR) during a short period. Although A. baumannii has been documented extensively, complete knowledge on the antibiotic-resistant mechanisms and virulence factors responsible for pathogenesis has not been entirely elucidated. This study investigated the drug resistance pattern and characterized the genomic sequence by de novo assembly of PDR A. baumannii strain VJR422, which was isolated from a catheter-sputum specimen. The results showed that the VJR422 strain was resistant to any existing antibiotics. Based on de novo assembly, whole-genome sequences showed a total genome size of 3,924,675-bp. In silico and conventional MLST analysis of sequence type (ST) of this strain was new ST by Oxford MLST scheme and designated as ST1890. Moreover, we found 10,915 genes that could be classified into 45 categories by Gene Ontology (GO) analysis. There were 1,687 genes mapped to 34 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. The statistics from Clusters of Orthologous Genes (COG) annotation identified 3,189 genes of the VJR422 strain. Regarding the existence of virulence factors, a total of 59 virulence factors were identified in the genome of the VJR422 strain by virulence factors of pathogenic bacteria databases (VFDB). The drug-resistant genes were investigated by searching in the Comprehensive Antibiotic Resistance Database (CARD). The strain harbored antibiotic-resistant genes responsible for aminoglycoside, β-lactam-ring-containing drugs, erythromycin, and streptogramin resistance. We also identified resistance-nodulation-cell division (RND) and the major facilitator superfamily (MFS) associated with the antibiotic efflux pump. Overall, this study focused on A. baumannii strain VJR422 at the genomic level data, i.e., GO, COG, and KEGG. The antibiotic-resistant genotype and phenotype as well as the presence of potential virulence associated factors were investigated.

Keywords

Acinetobacter baumannii, Antibiotic resistance, FOS: Basic medicine, Multiple drug resistance, Gene, Antibiotics, Drug Resistance, Multiple, Bacterial, Cross Infection, Genome, Ecology, Virulence, Multidrug-Resistant Bacteria, Q, R, Life Sciences, Anti-Bacterial Agents, Physical Sciences, KEGG, Pseudomonas aeruginosa, Medicine, Molecular Medicine, Research Article, Acinetobacter Infections, Genotype, Virulence Factors, Science, Multilocus sequence typing, Microbial Sensitivity Tests, Microbiology, Global Challenge of Antibiotic Resistance in Bacteria, Bacterial Biofilms and Quorum Sensing Mechanisms, Biochemistry, Genetics and Molecular Biology, Genetics, Humans, Molecular Biology, Biology, Bacteria, Ecology and Evolution of Viruses in Ecosystems, Antimicrobial Resistance Genes, FOS: Biological sciences, Whole genome sequencing, Drug resistance, Environmental Science, Gene expression, Transcriptome, Genome, Bacterial, Multilocus Sequence Typing

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
7
Top 10%
Average
Top 10%
Green
gold