Analysis of COMPASS, a New Comprehensive Plasmid Database Revealed Prevalence of Multireplicon and Extensive Diversity of IncF Plasmids
| العنوان: | Analysis of COMPASS, a New Comprehensive Plasmid Database Revealed Prevalence of Multireplicon and Extensive Diversity of IncF Plasmids |
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| المؤلفون: | Michel-Yves Mistou, Arnaud Felten, Ludovic Mallet, Pierre-Emmanuel Douarre, Nicolas Radomski |
| المساهمون: | Laboratoire de sécurité des aliments de Maisons-Alfort (LSAl), Agence nationale de sécurité sanitaire de l'alimentation, de l'environnement et du travail (ANSES), Mathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] (MaIAGE), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), the French Agency for Food, Environmental and Occupational Health and Safety (ANSES), the European Joint Program One Health EJP. This project has received funding from the European Union’s Horizon 2020 Research and Innovation Program (H2020 EJP-AMR3-RaDAR) under Grant Agreement No. 773830, European Project: 773830, H2020-SFS-2017-1 ,One Health EJP(2018), Agence Nationale de la Recherche (ANR), European Project: 773830,H2020-SFS-2017-1,MedVetKlebs (a component of European Joint Programme One Health)(2018) |
| المصدر: | Frontiers in Microbiology Frontiers in Microbiology, 2020, 11, pp.483. ⟨10.3389/fmicb.2020.00483⟩ Frontiers in Microbiology, Vol 11 (2020) Frontiers in Microbiology, 2020, 11 (483), ⟨10.3389/fmicb.2020.00483⟩ |
| سنة النشر: | 2020 |
| مصطلحات موضوعية: | Microbiology (medical), Firmicutes, [SDV]Life Sciences [q-bio], lcsh:QR1-502, host range, computer.software_genre, Microbiology, lcsh:Microbiology, plasmid mobility, 03 medical and health sciences, Antibiotic resistance, Plasmid, multireplicon, MOB typing, Replicon, Typing, Gene, 030304 developmental biology, Original Research, IncF plasmid, 0303 health sciences, Database, biology, 030306 microbiology, [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], replicon typing, biology.organism_classification, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Proteobacteria, computer, Horizontal transmission, plasmid database |
| الوصف: | International audience; Plasmids are genetic elements that enable rapid adaptation and evolution by transferring genes conferring selective advantages to their hosts. Conjugative plasmids are predominantly responsible for the global dissemination of antimicrobial resistance, representing an important threat to global health. As the number of plasmid sequences grows exponentially, it becomes critical to depict the global diversity and decipher the distribution of circulating plasmids in the bacterial community. To this end, we created COMPASS, a novel and comprehensive database compiling 12,084 complete plasmids with associated metadata from 1571 distinct species isolated worldwide over more than 100 years. The curation of the database allowed us to identify identical plasmids across different bacteria revealing mainly intraspecies dissemination and rare cases of horizontal transmission. We outlined and analyzed all relevant features, plasmid properties, host range and characterized their replication and mobilization systems. After an exhaustive comparison of PlasmidFinder and MOB-typer, the MOB-typer-based analysis revealed that the current knowledge embedded in the current typing schemes fails to classify all the plasmid sequences collected in COMPASS. We were able to categorize 6828 and 5229 plasmids by replicon and MOB typing, respectively, mostly associated with Proteobacteria and Firmicutes. We then searched for the presence of multiple core genes involved in replication and propagation. Our results showed that 2403 plasmids carried multiple replicons that were distributed in 206 bacterial species. The co-integration of replicon types from different incompatibility (Inc) groups is an adaptive mechanism, which plays an important role in plasmid survival and dissemination by extending their host range. Our results highlight the crucial role of IncF alleles (present in 56% of all multireplicons) and revealed that IncH, IncR, and IncU replicons were also frequently carried in multireplicons. Here, we provided a comprehensive picture of the different IncF subtypes by identifying 20 different profiles in 849 IncF multireplicons, which were mostly associated with Enterobacteriaceae. These results could provide the basis for a novel IncF plasmid nomenclature based on different allelic profiles. |
| تدمد: | 1664-302X |
| DOI: | 10.3389/fmicb.2020.00483 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::587545b362005e47ef80c8fef1af2238 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....587545b362005e47ef80c8fef1af2238 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 1664302X |
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| DOI: | 10.3389/fmicb.2020.00483 |