Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments
Autori
Filipić, BrankicaNovović, Katarina
Studholme, David J.
Malešević, Milka
Mirković, Nemanja
Kojić, Milan
Jovčić, Branko
Članak u časopisu (Objavljena verzija)
Metapodaci
Prikaz svih podataka o dokumentuApstrakt
Long-term overuse of antibiotics has driven the propagation and spreading of antibiotic resistance genes (ARGs) such as efflux pumps in the environment, which can be transferred to clinically relevant pathogens. This study explored the abundance and diversity of ARGs and mobile genetic elements within bacterial communities from sediments of three Western Balkans glacial lakes: Plav Lake (high impact of human population), Black Lake (medium impact of human population) and Donje Bare Lake (remote lake, minimal impact of human population) via shotgun metagenomics. Assembled metagenomic sequences revealed that Resistance-Nodulation-Division (RND) efflux pumps genes were most abundant in metagenome from the Plav Lake. The Integron Finder bioinformatics tool detected 38clusters ofattCsiteslackingintegron-integrases (CALIN) elements: 20 from Plav Lake, four from Black Lake and 14 from Donje Bare Lake. A complete integron sequence was recovered only from the assembled metagenome from Plav Lake.... Plasmid contents within the metagenomes were similar, with proportions of contigs being plasmid-related: 1.73% for Plav Lake, 1.59% for Black Lake and 1.64% for Donje Bare Lake. The investigation showed that RNDs and mobile genetic elements content correlated with human population impact.
Ključne reči:
RND efflux pumps / mobile genetic elements / metagenomes / glacial lake sediments / antibiotic resistance genesIzvor:
Journal of Water and Health, 2020, 18, 3, 383-397Izdavač:
- IWA Publishing, London
Finansiranje / projekti:
- FEMS research grant for Early Career Scientists
- Izučavanje gena i molekularnih mehanizama u osnovi probiotičke aktivnosti bakterija mlečne kiseline izolovanih sa područja zapadnog Balkana (RS-MESTD-Basic Research (BR or ON)-173019)
- International Centre for Genetic Engineering and Biotechnology, Trieste, Italy [CRP/SRB15-02]
DOI: 10.2166/wh.2020.227
ISSN: 1477-8920
PubMed: 32589623
WoS: 000546021900009
Scopus: 2-s2.0-85087321170
Institucija/grupa
Institut za molekularnu genetiku i genetičko inženjerstvoTY - JOUR AU - Filipić, Brankica AU - Novović, Katarina AU - Studholme, David J. AU - Malešević, Milka AU - Mirković, Nemanja AU - Kojić, Milan AU - Jovčić, Branko PY - 2020 UR - https://imagine.imgge.bg.ac.rs/handle/123456789/1306 AB - Long-term overuse of antibiotics has driven the propagation and spreading of antibiotic resistance genes (ARGs) such as efflux pumps in the environment, which can be transferred to clinically relevant pathogens. This study explored the abundance and diversity of ARGs and mobile genetic elements within bacterial communities from sediments of three Western Balkans glacial lakes: Plav Lake (high impact of human population), Black Lake (medium impact of human population) and Donje Bare Lake (remote lake, minimal impact of human population) via shotgun metagenomics. Assembled metagenomic sequences revealed that Resistance-Nodulation-Division (RND) efflux pumps genes were most abundant in metagenome from the Plav Lake. The Integron Finder bioinformatics tool detected 38clusters ofattCsiteslackingintegron-integrases (CALIN) elements: 20 from Plav Lake, four from Black Lake and 14 from Donje Bare Lake. A complete integron sequence was recovered only from the assembled metagenome from Plav Lake. Plasmid contents within the metagenomes were similar, with proportions of contigs being plasmid-related: 1.73% for Plav Lake, 1.59% for Black Lake and 1.64% for Donje Bare Lake. The investigation showed that RNDs and mobile genetic elements content correlated with human population impact. PB - IWA Publishing, London T2 - Journal of Water and Health T1 - Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments EP - 397 IS - 3 SP - 383 VL - 18 DO - 10.2166/wh.2020.227 ER -
@article{ author = "Filipić, Brankica and Novović, Katarina and Studholme, David J. and Malešević, Milka and Mirković, Nemanja and Kojić, Milan and Jovčić, Branko", year = "2020", abstract = "Long-term overuse of antibiotics has driven the propagation and spreading of antibiotic resistance genes (ARGs) such as efflux pumps in the environment, which can be transferred to clinically relevant pathogens. This study explored the abundance and diversity of ARGs and mobile genetic elements within bacterial communities from sediments of three Western Balkans glacial lakes: Plav Lake (high impact of human population), Black Lake (medium impact of human population) and Donje Bare Lake (remote lake, minimal impact of human population) via shotgun metagenomics. Assembled metagenomic sequences revealed that Resistance-Nodulation-Division (RND) efflux pumps genes were most abundant in metagenome from the Plav Lake. The Integron Finder bioinformatics tool detected 38clusters ofattCsiteslackingintegron-integrases (CALIN) elements: 20 from Plav Lake, four from Black Lake and 14 from Donje Bare Lake. A complete integron sequence was recovered only from the assembled metagenome from Plav Lake. Plasmid contents within the metagenomes were similar, with proportions of contigs being plasmid-related: 1.73% for Plav Lake, 1.59% for Black Lake and 1.64% for Donje Bare Lake. The investigation showed that RNDs and mobile genetic elements content correlated with human population impact.", publisher = "IWA Publishing, London", journal = "Journal of Water and Health", title = "Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments", pages = "397-383", number = "3", volume = "18", doi = "10.2166/wh.2020.227" }
Filipić, B., Novović, K., Studholme, D. J., Malešević, M., Mirković, N., Kojić, M.,& Jovčić, B.. (2020). Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments. in Journal of Water and Health IWA Publishing, London., 18(3), 383-397. https://doi.org/10.2166/wh.2020.227
Filipić B, Novović K, Studholme DJ, Malešević M, Mirković N, Kojić M, Jovčić B. Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments. in Journal of Water and Health. 2020;18(3):383-397. doi:10.2166/wh.2020.227 .
Filipić, Brankica, Novović, Katarina, Studholme, David J., Malešević, Milka, Mirković, Nemanja, Kojić, Milan, Jovčić, Branko, "Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments" in Journal of Water and Health, 18, no. 3 (2020):383-397, https://doi.org/10.2166/wh.2020.227 . .