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Large-scale genomic analysis reveals significant role of insertion sequences in antimicrobial resistance of Acinetobacter baumannii

by Yang, Jiyong , Li, Song , Duan, Zhimei , Xia, Han , Xie, Fei , Li, Xuming , Xie, Lixin , Wang, Lifeng , Shi, Qiqi , Zhang, Ye , Hu, Long , Wang, Qi , Ye, Kun , Guan, Yuanlin , Wen, Yanhua

in Accuracy / Acinetobacter baumannii / Acinetobacter baumannii - drug effects / Acinetobacter baumannii - genetics / Acinetobacter Infections - microbiology / Anti-Bacterial Agents - pharmacology / Antibiotic resistance / Antibiotics / Antimicrobial agents / Antimicrobial resistance / Bacteria / Bioinformatics / Computational Biology / Conserved sequence / DNA Transposable Elements / Drug resistance / Drug Resistance, Bacterial - genetics / Gene expression / Genetic diversity / Genome, Bacterial / Genomes / Genomic analysis / Genomics / Genotype & phenotype / Global health / High-Throughput Nucleotide Sequencing / Humans / insertion sequence / Insertion sequences / IS-ARG pairs / Learning algorithms / Machine Learning / Microbial Sensitivity Tests / Molecular modelling / Next-generation sequencing / Pathogens / Permeability / Phenotype / Phenotypes / Predictions / Protein synthesis / Proteins / random-forest / Research Article

2025

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Large-scale genomic analysis reveals significant role of insertion sequences in antimicrobial resistance of Acinetobacter baumannii

by Yang, Jiyong , Li, Song , Duan, Zhimei , Xia, Han , Xie, Fei , Li, Xuming , Xie, Lixin , Wang, Lifeng , Shi, Qiqi , Zhang, Ye , Hu, Long , Wang, Qi , Ye, Kun , Guan, Yuanlin , Wen, Yanhua

2025

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Large-scale genomic analysis reveals significant role of insertion sequences in antimicrobial resistance of Acinetobacter baumannii

by Yang, Jiyong , Li, Song , Duan, Zhimei , Xia, Han , Xie, Fei , Li, Xuming , Xie, Lixin , Wang, Lifeng , Shi, Qiqi , Zhang, Ye , Hu, Long , Wang, Qi , Ye, Kun , Guan, Yuanlin , Wen, Yanhua

2025

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Journal Article

Large-scale genomic analysis reveals significant role of insertion sequences in antimicrobial resistance of Acinetobacter baumannii

Yang, Jiyong,

Li, Song,

Duan, Zhimei,

Xia, Han,

Xie, Fei,

Li, Xuming,

Xie, Lixin,

Wang, Lifeng,

Shi, Qiqi,

Zhang, Ye,

Hu, Long,

Wang, Qi,

Ye, Kun,

Guan, Yuanlin,

Wen, Yanhua

2025

Overview

The interplay between insertion sequences (ISs) and antibiotic resistance genes (ARGs) in Acinetobacter baumannii contributes to resistance against specific antibiotics. Conventionally, genetic variations and ARGs have been utilized for predicting resistance phenotypes, with the potential pivotal role of IS elements largely overlooked. Our study advances this approach by integrating both rule-based and machine learning models to predict AMR in A. baumannii . This significantly enhances the accuracy of AMR prediction, emphasizing the pivotal function of IS elements in antibiotic resistance. Notably, we uncover a series of conserved sequence patterns linking IS elements and ARGs, which outperform ARGs alone in phenotypic prediction. Our findings are crucial for bioinformatics strategies aimed at studying and tracking AMR, offering novel insights into combating the escalating AMR challenge.

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Publisher

American Society for Microbiology

Subject

Accuracy

/ Acinetobacter baumannii

/ Acinetobacter baumannii - drug effects

/ Acinetobacter baumannii - genetics

/ Acinetobacter Infections - microbiology

/ Anti-Bacterial Agents - pharmacology

/ Antibiotic resistance