High throughput analysis of integron gene cassettes in wastewater environments
| Autor: | Damiano Cacace, Christophe Merlin, Carsten Ulrich Schwermer, Joao Gatica, Despo Fatta-Kassinos, Edouard Jurkevitch, Stefan J. Green, Luigi Rizzo, Hemda Garelick, Thomas U. Berendonk, Thomas Schwartz, Eddie Cytryn, Norbert Kreuzinger, Vijay Tripathi, Célia M. Manaia |
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| Přispěvatelé: | Institute of Soil, Water and Environmental Sciences, Agricultural Research Organization - the Volcani Center, The Hebrew University of Jerusalem (HUJ), University of Illinois [Chicago] (UIC), University of Illinois System, Centro de Biotecnologia e Química Fina, Escola Superior de Biotecnologia, Universidade Católica Portuguesa [Porto], Institute for Hydrobiology, Technische Universität Dresden = Dresden University of Technology (TU Dresden), Institut für Hydrobiologie, Laboratoire de Chimie Physique et Microbiologie pour les Matériaux et l'Environnement (LCPME), Institut de Chimie du CNRS (INC)-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS), Vienna University of Technology, Karlsruhe Institute of Technology (KIT), University of Cyprus [Nicosia], Università degli Studi di Salerno (UNISA), Norwegian Institute for Water Research (NIVA), Middlesex University [London], Veritati - Repositório Institucional da Universidade Católica Portuguesa |
| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
0301 basic medicine
Sequence analysis Molecular Sequence Data 030106 microbiology DIVERSITY Microbial Sensitivity Tests Wastewater 010501 environmental sciences Biology Integron 01 natural sciences complex mixtures beta-Lactam Resistance beta-Lactamases Integrons 03 medical and health sciences ENTEROBACTERIACEAE Environmental Chemistry TREATMENT-PLANT Gene CLASS-A ComputingMilieux_MISCELLANEOUS 0105 earth and related environmental sciences Genetics [SDV.EE]Life Sciences [q-bio]/Ecology environment METAL RESISTANCE ANTIBIOTIC-RESISTANCE GENES Sequence Analysis DNA General Chemistry biochemical phenomena metabolism and nutrition [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology 6. Clean water Anti-Bacterial Agents High throughput analysis SPECTRUM BETA-LACTAMASES CLASS-1 INTEGRON BACTERIAL COMMUNITIES MUNICIPAL Gene cassette biology.protein Amplicon sequencing Antibiotic resistance genes |
| Zdroj: | Repositório Científico de Acesso Aberto de Portugal Repositório Científico de Acesso Aberto de Portugal (RCAAP) instacron:RCAAP Environmental Science and Technology Environmental Science and Technology, American Chemical Society, 2016, 50 (21), pp.11825-11836. ⟨10.1021/acs.est.6b03188⟩ |
| ISSN: | 0013-936X 1520-5851 |
| Popis: | Integrons are extensively targeted as a proxy for anthropogenic impact in the environment. We developed a novel high-throughput amplicon sequencing pipeline that enables characterization of thousands of integron gene cassette-associated reads, and applied it to acquire a comprehensive overview of gene cassette composition in effluents from wastewater treatment facilities across Europe. Between 38 100 and 172 995 reads per-sample were generated and functionally characterized by screening against nr, SEED, ARDB and β-lactamase databases. Over 75% of the reads were characterized as hypothetical, but thousands were associated with toxin-antitoxin systems, DNA repair, cell membrane function, detoxification and aminoglycoside and β-lactam resistance. Among the reads characterized as β-lactamases, the carbapenemase blaOXA was dominant in most of the effluents, except for Cyprus and Israel where blaGES was also abundant. Quantitative PCR assessment of blaOXA and blaGES genes in the European effluents revealed similar trends to those displayed in the integron amplicon sequencing pipeline described above, corroborating the robustness of this method and suggesting that these integron-associated genes may be excellent targets for source tracking of effluents in downstream environments. Further application of the above analyses revealed several order-of-magnitude reductions in effluent-associated β-lactamase genes in effluent-saturated soils, suggesting marginal persistence in the soil microbiome. |
| Databáze: | OpenAIRE |
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