Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography
A global survey was performed with 122 aquatic metagenomic DNA datasets (92 lake water and 30 seawater) obtained from the Sequence Read Archive (SRA). Antibiotic resistance genes (ARGs) and metal resistance genes (MRGs) were derived from the dataset sequences via bioinformatic analysis. The relative...
Published in: | Environment International |
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Main Authors: | , , , , , , , , , , |
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2019
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Online Access: | https://discovery.dundee.ac.uk/en/publications/c2e727fc-f115-4c59-982b-fd436786efad https://doi.org/10.1016/j.envint.2019.03.062 https://discovery.dundee.ac.uk/ws/files/32158511/1_s2.0_S0160412018332161_main.pdf http://www.scopus.com/inward/record.url?scp=85063758269&partnerID=8YFLogxK |
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ftunivdundeepure:oai:discovery.dundee.ac.uk:publications/c2e727fc-f115-4c59-982b-fd436786efad 2024-09-09T19:10:08+00:00 Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography Yang, Yuyi Li, Zan Song, Wenjuan Du, Linna Ye, Chen Zhao, Bo Liu, Wenzhi Deng, Danli Pan, Yongtai Lin, Hui Cao, Xinhua 2019-06 application/pdf https://discovery.dundee.ac.uk/en/publications/c2e727fc-f115-4c59-982b-fd436786efad https://doi.org/10.1016/j.envint.2019.03.062 https://discovery.dundee.ac.uk/ws/files/32158511/1_s2.0_S0160412018332161_main.pdf http://www.scopus.com/inward/record.url?scp=85063758269&partnerID=8YFLogxK eng eng https://discovery.dundee.ac.uk/en/publications/c2e727fc-f115-4c59-982b-fd436786efad info:eu-repo/semantics/openAccess Yang , Y , Li , Z , Song , W , Du , L , Ye , C , Zhao , B , Liu , W , Deng , D , Pan , Y , Lin , H & Cao , X 2019 , ' Metagenomic insights into the abundance and composition of resistance genes in aquatic environments : Influence of stratification and geography ' , Environment International , vol. 127 , pp. 371-380 . https://doi.org/10.1016/j.envint.2019.03.062 Bacitracin resistance genes Mercury resistance genes Metagenomic analysis Principal coordinates analysis Stratification /dk/atira/pure/subjectarea/asjc/2300/2300 name=General Environmental Science article 2019 ftunivdundeepure https://doi.org/10.1016/j.envint.2019.03.062 2024-06-18T14:50:11Z A global survey was performed with 122 aquatic metagenomic DNA datasets (92 lake water and 30 seawater) obtained from the Sequence Read Archive (SRA). Antibiotic resistance genes (ARGs) and metal resistance genes (MRGs) were derived from the dataset sequences via bioinformatic analysis. The relative abundances of ARGs and MRGs in lake samples were in the ranges ND (not detected)–1.34 × 10 0 and 1.22 × 10 −3 –1.98 × 10 −1 copies per 16S rRNA, which were higher than those in seawater samples. Among ARGs, multidrug resistance genes and bacitracin resistance genes had high relative abundances in both lake and sea water samples. Multi-metal resistance genes, mercury resistance genes and copper resistance genes had the greatest relative abundance for MRGs. No significant difference was found between epilimnion and hypolimnion in abundance or the Shannon diversity index for ARGs and MRGs. Principal coordinates analysis and permutational multivariate analysis of variance (PERMANOVA) test showed that stratification and geography had significant influence on the composition of ARGs and MRGs in lakes (p < 0.05, PERMANOVA). Coastal seawater samples had significantly greater relative abundance and a higher Shannon index for both ARGs and MRGs than deep ocean and Antarctic seawater samples (p < 0.05, Kruskal-Wallis one-way ANOVA), suggesting that human activity may exert more selective pressure on ARGs and MRGs in coastal areas than those in deep ocean and Antarctic seawater. Article in Journal/Newspaper Antarc* Antarctic Discovery - University of Dundee Online Publications Antarctic Environment International 127 371 380 |
institution |
Open Polar |
collection |
Discovery - University of Dundee Online Publications |
op_collection_id |
ftunivdundeepure |
language |
English |
topic |
Bacitracin resistance genes Mercury resistance genes Metagenomic analysis Principal coordinates analysis Stratification /dk/atira/pure/subjectarea/asjc/2300/2300 name=General Environmental Science |
spellingShingle |
Bacitracin resistance genes Mercury resistance genes Metagenomic analysis Principal coordinates analysis Stratification /dk/atira/pure/subjectarea/asjc/2300/2300 name=General Environmental Science Yang, Yuyi Li, Zan Song, Wenjuan Du, Linna Ye, Chen Zhao, Bo Liu, Wenzhi Deng, Danli Pan, Yongtai Lin, Hui Cao, Xinhua Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography |
topic_facet |
Bacitracin resistance genes Mercury resistance genes Metagenomic analysis Principal coordinates analysis Stratification /dk/atira/pure/subjectarea/asjc/2300/2300 name=General Environmental Science |
description |
A global survey was performed with 122 aquatic metagenomic DNA datasets (92 lake water and 30 seawater) obtained from the Sequence Read Archive (SRA). Antibiotic resistance genes (ARGs) and metal resistance genes (MRGs) were derived from the dataset sequences via bioinformatic analysis. The relative abundances of ARGs and MRGs in lake samples were in the ranges ND (not detected)–1.34 × 10 0 and 1.22 × 10 −3 –1.98 × 10 −1 copies per 16S rRNA, which were higher than those in seawater samples. Among ARGs, multidrug resistance genes and bacitracin resistance genes had high relative abundances in both lake and sea water samples. Multi-metal resistance genes, mercury resistance genes and copper resistance genes had the greatest relative abundance for MRGs. No significant difference was found between epilimnion and hypolimnion in abundance or the Shannon diversity index for ARGs and MRGs. Principal coordinates analysis and permutational multivariate analysis of variance (PERMANOVA) test showed that stratification and geography had significant influence on the composition of ARGs and MRGs in lakes (p < 0.05, PERMANOVA). Coastal seawater samples had significantly greater relative abundance and a higher Shannon index for both ARGs and MRGs than deep ocean and Antarctic seawater samples (p < 0.05, Kruskal-Wallis one-way ANOVA), suggesting that human activity may exert more selective pressure on ARGs and MRGs in coastal areas than those in deep ocean and Antarctic seawater. |
format |
Article in Journal/Newspaper |
author |
Yang, Yuyi Li, Zan Song, Wenjuan Du, Linna Ye, Chen Zhao, Bo Liu, Wenzhi Deng, Danli Pan, Yongtai Lin, Hui Cao, Xinhua |
author_facet |
Yang, Yuyi Li, Zan Song, Wenjuan Du, Linna Ye, Chen Zhao, Bo Liu, Wenzhi Deng, Danli Pan, Yongtai Lin, Hui Cao, Xinhua |
author_sort |
Yang, Yuyi |
title |
Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography |
title_short |
Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography |
title_full |
Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography |
title_fullStr |
Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography |
title_full_unstemmed |
Metagenomic insights into the abundance and composition of resistance genes in aquatic environments:Influence of stratification and geography |
title_sort |
metagenomic insights into the abundance and composition of resistance genes in aquatic environments:influence of stratification and geography |
publishDate |
2019 |
url |
https://discovery.dundee.ac.uk/en/publications/c2e727fc-f115-4c59-982b-fd436786efad https://doi.org/10.1016/j.envint.2019.03.062 https://discovery.dundee.ac.uk/ws/files/32158511/1_s2.0_S0160412018332161_main.pdf http://www.scopus.com/inward/record.url?scp=85063758269&partnerID=8YFLogxK |
geographic |
Antarctic |
geographic_facet |
Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_source |
Yang , Y , Li , Z , Song , W , Du , L , Ye , C , Zhao , B , Liu , W , Deng , D , Pan , Y , Lin , H & Cao , X 2019 , ' Metagenomic insights into the abundance and composition of resistance genes in aquatic environments : Influence of stratification and geography ' , Environment International , vol. 127 , pp. 371-380 . https://doi.org/10.1016/j.envint.2019.03.062 |
op_relation |
https://discovery.dundee.ac.uk/en/publications/c2e727fc-f115-4c59-982b-fd436786efad |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1016/j.envint.2019.03.062 |
container_title |
Environment International |
container_volume |
127 |
container_start_page |
371 |
op_container_end_page |
380 |
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1809824652660310016 |