Plasmid metagenome reveals high levels of antibiotic resistance genes and mobile genetic elements in activated sludge
The overuse or misuse of antibiotics has accelerated antibiotic resistance, creating a major challenge for the public health in the world. Sewage treatment plants (STPs) are considered as important reservoirs for antibiotic resistance genes (ARGs) and activated sludge characterized with high microbi...
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| Veröffentlicht in: | PloS one 2011-10, Vol.6 (10), p.e26041 |
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| description | The overuse or misuse of antibiotics has accelerated antibiotic resistance, creating a major challenge for the public health in the world. Sewage treatment plants (STPs) are considered as important reservoirs for antibiotic resistance genes (ARGs) and activated sludge characterized with high microbial density and diversity facilitates ARG horizontal gene transfer (HGT) via mobile genetic elements (MGEs). However, little is known regarding the pool of ARGs and MGEs in sludge microbiome. In this study, the transposon aided capture (TRACA) system was employed to isolate novel plasmids from activated sludge of one STP in Hong Kong, China. We also used Illumina Hiseq 2000 high-throughput sequencing and metagenomics analysis to investigate the plasmid metagenome. Two novel plasmids were acquired from the sludge microbiome by using TRACA system and one novel plasmid was identified through metagenomics analysis. Our results revealed high levels of various ARGs as well as MGEs for HGT, including integrons, transposons and plasmids. The application of the TRACA system to isolate novel plasmids from the environmental metagenome, coupled with subsequent high-throughput sequencing and metagenomic analysis, highlighted the prevalence of ARGs and MGEs in microbial community of STPs. |
| doi_str_mv | 10.1371/journal.pone.0026041 |
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Sewage treatment plants (STPs) are considered as important reservoirs for antibiotic resistance genes (ARGs) and activated sludge characterized with high microbial density and diversity facilitates ARG horizontal gene transfer (HGT) via mobile genetic elements (MGEs). However, little is known regarding the pool of ARGs and MGEs in sludge microbiome. In this study, the transposon aided capture (TRACA) system was employed to isolate novel plasmids from activated sludge of one STP in Hong Kong, China. We also used Illumina Hiseq 2000 high-throughput sequencing and metagenomics analysis to investigate the plasmid metagenome. Two novel plasmids were acquired from the sludge microbiome by using TRACA system and one novel plasmid was identified through metagenomics analysis. Our results revealed high levels of various ARGs as well as MGEs for HGT, including integrons, transposons and plasmids. The application of the TRACA system to isolate novel plasmids from the environmental metagenome, coupled with subsequent high-throughput sequencing and metagenomic analysis, highlighted the prevalence of ARGs and MGEs in microbial community of STPs.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0026041</identifier><identifier>PMID: 22016806</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Activated sludge ; Analysis ; Annotations ; Anti-Bacterial Agents - pharmacology ; Antibiotic resistance ; Antibiotics ; Antimicrobial agents ; Automation ; Bacteria ; Bacteroidetes ; Bioinformatics ; Biology ; Biotechnology ; Civil engineering ; Databases, Genetic ; Deoxyribonucleic acid ; DNA ; Drug resistance ; Drug Resistance, Bacterial - genetics ; Earth Sciences ; Engineering ; Enterobacteriaceae ; Firmicutes ; Gene transfer ; Genes ; Genetic testing ; Genetic Variation - genetics ; Genomes ; Genomics ; High-Throughput Nucleotide Sequencing ; Integrons - genetics ; Interspersed Repetitive Sequences - genetics ; Metagenome - drug effects ; Metagenome - genetics ; Microbial drug resistance ; Microorganisms ; Next-generation sequencing ; Plasmids ; Plasmids - drug effects ; Plasmids - genetics ; Proteobacteria ; Public health ; Sewage - microbiology ; Sewage treatment ; Sewage treatment plants ; Shigella ; Sludge ; Transposons ; Virulence Factors - genetics ; Waste Disposal, Fluid ; Waste treatment ; Wastewater treatment ; Wastewater treatment plants ; Water utilities</subject><ispartof>PloS one, 2011-10, Vol.6 (10), p.e26041</ispartof><rights>COPYRIGHT 2011 Public Library of Science</rights><rights>2011 Zhang et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License: https://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>Zhang et al. 2011</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c691t-e339e56039ef959bf4b79436c90b55c2d960c7c1ac863f286f4c05ac46f0d1643</citedby></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3189950/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3189950/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2095,2914,23846,27903,27904,53769,53771,79346,79347</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22016806$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Gilbert, Jack Anthony</contributor><creatorcontrib>Zhang, Tong</creatorcontrib><creatorcontrib>Zhang, Xu-Xiang</creatorcontrib><creatorcontrib>Ye, Lin</creatorcontrib><title>Plasmid metagenome reveals high levels of antibiotic resistance genes and mobile genetic elements in activated sludge</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>The overuse or misuse of antibiotics has accelerated antibiotic resistance, creating a major challenge for the public health in the world. Sewage treatment plants (STPs) are considered as important reservoirs for antibiotic resistance genes (ARGs) and activated sludge characterized with high microbial density and diversity facilitates ARG horizontal gene transfer (HGT) via mobile genetic elements (MGEs). However, little is known regarding the pool of ARGs and MGEs in sludge microbiome. In this study, the transposon aided capture (TRACA) system was employed to isolate novel plasmids from activated sludge of one STP in Hong Kong, China. We also used Illumina Hiseq 2000 high-throughput sequencing and metagenomics analysis to investigate the plasmid metagenome. Two novel plasmids were acquired from the sludge microbiome by using TRACA system and one novel plasmid was identified through metagenomics analysis. Our results revealed high levels of various ARGs as well as MGEs for HGT, including integrons, transposons and plasmids. The application of the TRACA system to isolate novel plasmids from the environmental metagenome, coupled with subsequent high-throughput sequencing and metagenomic analysis, highlighted the prevalence of ARGs and MGEs in microbial community of STPs.</description><subject>Activated sludge</subject><subject>Analysis</subject><subject>Annotations</subject><subject>Anti-Bacterial Agents - pharmacology</subject><subject>Antibiotic resistance</subject><subject>Antibiotics</subject><subject>Antimicrobial agents</subject><subject>Automation</subject><subject>Bacteria</subject><subject>Bacteroidetes</subject><subject>Bioinformatics</subject><subject>Biology</subject><subject>Biotechnology</subject><subject>Civil engineering</subject><subject>Databases, Genetic</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Drug resistance</subject><subject>Drug Resistance, Bacterial - genetics</subject><subject>Earth Sciences</subject><subject>Engineering</subject><subject>Enterobacteriaceae</subject><subject>Firmicutes</subject><subject>Gene transfer</subject><subject>Genes</subject><subject>Genetic testing</subject><subject>Genetic Variation - 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Sewage treatment plants (STPs) are considered as important reservoirs for antibiotic resistance genes (ARGs) and activated sludge characterized with high microbial density and diversity facilitates ARG horizontal gene transfer (HGT) via mobile genetic elements (MGEs). However, little is known regarding the pool of ARGs and MGEs in sludge microbiome. In this study, the transposon aided capture (TRACA) system was employed to isolate novel plasmids from activated sludge of one STP in Hong Kong, China. We also used Illumina Hiseq 2000 high-throughput sequencing and metagenomics analysis to investigate the plasmid metagenome. Two novel plasmids were acquired from the sludge microbiome by using TRACA system and one novel plasmid was identified through metagenomics analysis. Our results revealed high levels of various ARGs as well as MGEs for HGT, including integrons, transposons and plasmids. The application of the TRACA system to isolate novel plasmids from the environmental metagenome, coupled with subsequent high-throughput sequencing and metagenomic analysis, highlighted the prevalence of ARGs and MGEs in microbial community of STPs.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>22016806</pmid><doi>10.1371/journal.pone.0026041</doi><tpages>e26041</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Activated sludge Analysis Annotations Anti-Bacterial Agents - pharmacology Antibiotic resistance Antibiotics Antimicrobial agents Automation Bacteria Bacteroidetes Bioinformatics Biology Biotechnology Civil engineering Databases, Genetic Deoxyribonucleic acid DNA Drug resistance Drug Resistance, Bacterial - genetics Earth Sciences Engineering Enterobacteriaceae Firmicutes Gene transfer Genes Genetic testing Genetic Variation - genetics Genomes Genomics High-Throughput Nucleotide Sequencing Integrons - genetics Interspersed Repetitive Sequences - genetics Metagenome - drug effects Metagenome - genetics Microbial drug resistance Microorganisms Next-generation sequencing Plasmids Plasmids - drug effects Plasmids - genetics Proteobacteria Public health Sewage - microbiology Sewage treatment Sewage treatment plants Shigella Sludge Transposons Virulence Factors - genetics Waste Disposal, Fluid Waste treatment Wastewater treatment Wastewater treatment plants Water utilities |
| title | Plasmid metagenome reveals high levels of antibiotic resistance genes and mobile genetic elements in activated sludge |
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