Conserved phylogenetic distribution and limited antibiotic resistance of class 1 integrons revealed by assessing the bacterial genome and plasmid collection

Background Integrons, especially the class 1 integrons, are major contributors to the acquisition and dissemination of antibiotic resistance genes (ARGs). However, comprehensive knowledge of the types, content, and distribution of integrons in bacterial taxa is lacking to evaluate their contribution...

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Veröffentlicht in:Microbiome Jg. 6; H. 1; S. 130 - 14
Hauptverfasser: Zhang, An Ni, Li, Li-Guan, Ma, Liping, Gillings, Michael R., Tiedje, James M., Zhang, Tong
Format: Journal Article
Sprache:Englisch
Veröffentlicht: London BioMed Central 21.07.2018
BioMed Central Ltd
Springer Nature B.V
BMC
Schlagworte:
Analysis
Anopheles
Antibiotic resistance
Antibiotics
Bacteria
Bacterial genetics
Bioinformatics
Biomedical and Life Sciences
Biomedicine
Chromosomes
Class 1 integrons
Database construction
Drug resistance
Drug resistance in microorganisms
Drug Resistance, Bacterial
Evolution, Molecular
Gammaproteobacteria - drug effects
Gammaproteobacteria - genetics
Gene transfer
Gene Transfer, Horizontal
Genes
Genome, Bacterial
Genomes
Genomics
Genotypes
Identification
Integrase
Integrons
Medical Microbiology
Microbial Ecology
Microbial Genetics and Genomics
Microbiology
Nonnative species
Phylogenetics
Phylogeny
Plasmids
Plasmids - genetics
Sequence Analysis, DNA
Software
Spreading
Studies
Virology
Whole genome analysis
Database construction
Class 1 integrons
Bioinformatics
Whole genome analysis
Antibiotic resistance
ISSN:2049-2618, 2049-2618
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Zusammenfassung:Background Integrons, especially the class 1 integrons, are major contributors to the acquisition and dissemination of antibiotic resistance genes (ARGs). However, comprehensive knowledge of the types, content, and distribution of integrons in bacterial taxa is lacking to evaluate their contribution. Results We have constructed a new integrase database and developed a pipeline that provides comprehensive recovery of class 1 integrons. Previous PCR-based techniques might only detect one fourth of the integron-integrases and integrons recovered in this study. By exploring the class 1 integrons in over 73,000 currently available complete and draft bacterial genomes, the contribution of class 1 integrons in spreading and acquiring ARGs was evaluated. Firstly, the host species of class 1 integrons are highly conserved within (96%) in class Gammaproteobacteria , dominated by four pathogenic species of “ESKAPE.” Secondly, more than half of class 1 integrons are embedded in chromosomes with less potential for horizontal gene transfer. Finally, ARGs that have been acquired by these integrons only cover 11% of all the ARG genotypes detected in bacterial genomes. Conclusions The above observations indicated that there are both biological and ecological limitations to class 1 integrons in acquiring and spreading ARGs across different classes of the domain Bacteria .
Bibliographie:ObjectType-Article-1
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ISSN:2049-2618
2049-2618
DOI:10.1186/s40168-018-0516-2