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

TitleConserved phylogenetic distribution and limited antibiotic resistance of class 1 integrons revealed by assessing the bacterial genome and plasmid collection
Authors
KeywordsClass 1 integrons
Antibiotic resistance
Whole genome analysis
Bioinformatics
Database construction
Issue Date2018
PublisherBioMed Central Ltd. The Journal's web site is located at http://www.microbiomejournal.com/
Citation
Microbiome, 2018, v. 6 n. 1, article no. 130 How to Cite?
AbstractBackground: 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.
Persistent Identifierhttp://hdl.handle.net/10722/293746
ISSN
2021 Impact Factor: 16.837
2020 SCImago Journal Rankings: 5.297
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorZhang, AN-
dc.contributor.authorLi, LG-
dc.contributor.authorMa, L-
dc.contributor.authorGillings, MR-
dc.contributor.authorTiedje, JM-
dc.contributor.authorZhang, T-
dc.date.accessioned2020-11-23T08:21:12Z-
dc.date.available2020-11-23T08:21:12Z-
dc.date.issued2018-
dc.identifier.citationMicrobiome, 2018, v. 6 n. 1, article no. 130-
dc.identifier.issn2049-2618-
dc.identifier.urihttp://hdl.handle.net/10722/293746-
dc.description.abstractBackground: 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.-
dc.languageeng-
dc.publisherBioMed Central Ltd. The Journal's web site is located at http://www.microbiomejournal.com/-
dc.relation.ispartofMicrobiome-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.subjectClass 1 integrons-
dc.subjectAntibiotic resistance-
dc.subjectWhole genome analysis-
dc.subjectBioinformatics-
dc.subjectDatabase construction-
dc.titleConserved phylogenetic distribution and limited antibiotic resistance of class 1 integrons revealed by assessing the bacterial genome and plasmid collection-
dc.typeArticle-
dc.identifier.emailLi, LG: liliguan@hku.hk-
dc.identifier.emailZhang, T: zhangt@hkucc.hku.hk-
dc.identifier.authorityZhang, T=rp00211-
dc.description.naturepublished_or_final_version-
dc.identifier.doi10.1186/s40168-018-0516-2-
dc.identifier.pmid30031405-
dc.identifier.pmcidPMC6054849-
dc.identifier.scopuseid_2-s2.0-85050313170-
dc.identifier.hkuros319357-
dc.identifier.volume6-
dc.identifier.issue1-
dc.identifier.spagearticle no. 130-
dc.identifier.epagearticle no. 130-
dc.identifier.isiWOS:000439369000001-
dc.publisher.placeUnited Kingdom-
dc.identifier.issnl2049-2618-

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