Population-based variations of a core resistome revealed by urban sewage metagenome surveillance
Sewage-based surveillance is widely employed to understand the occurrence and distribution of antimicrobial resistance (AMR) in urban community. However, there are limited studies which investigated the sewage of different sources within community. The present study used metagenomics to decipher the...
| Main Authors: | , , , , , , , , , |
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| Other Authors: | |
| Format: | Journal Article |
| Language: | English |
| Published: |
2022
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10356/162621 |
| _version_ | 1826116656984752128 |
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| author | Li, Wenxuan Mao, Feijian Ng, Charmaine Jong, Mui Choo Goh, Shin Giek Charles, Francis Rathinam Ng, Oon Tek Marimuthu, Kalisvar He, Yiliang Gin, Karina Yew-Hoong |
| author2 | Lee Kong Chian School of Medicine (LKCMedicine) |
| author_facet | Lee Kong Chian School of Medicine (LKCMedicine) Li, Wenxuan Mao, Feijian Ng, Charmaine Jong, Mui Choo Goh, Shin Giek Charles, Francis Rathinam Ng, Oon Tek Marimuthu, Kalisvar He, Yiliang Gin, Karina Yew-Hoong |
| author_sort | Li, Wenxuan |
| collection | NTU |
| description | Sewage-based surveillance is widely employed to understand the occurrence and distribution of antimicrobial resistance (AMR) in urban community. However, there are limited studies which investigated the sewage of different sources within community. The present study used metagenomics to decipher the AMR profiles in five sources: local residence's source, animal source, migrant workers' source, clinical source , and urban wastewater treatment plant influent. A core resistome of ARGs was found across all samples, accounting for 81.4%-93.3% of the abundance of total resistome with only 17.3% diversity, irrespective of the sewage sources. Clinically relevant ARGs were identified in the core resistome across all wastewater sources. This included genes conferring resistance to beta-lactams as biomarkers of hospital sewage. The pet center wastewater showed a high abundance of genes encoding resistance to tetracycline, which is a commonly used veterinary antibiotic. The resistome profile of sewage from the migrant workers' dormitories showed a slight variation to that of the local residential population, suggesting possible differences in the human gut resistome of the foreign/migrant population, with biomarkers of genes encoding resistance to fosfomycin, fosmidomycin, kasugamycin, MLS, and polymyxin. The co-localization of ARGs and plasmid, MGEs and integrative and conjugative elements (ICEs) could explain variations in the core resistome, presumably a result of high antibiotic selection pressure. Further analysis showed a specific host-associated resistance pattern, in which core hosts mediated the core resistome profile. The core BMRGs were also co-localized with MGEs/ICEs and carried by core potential bacterial hosts. Local healthy population carried the lowest ARG load (copy number discharged by each person per day) but contributed the highest ARG burden (copy number discharged by the population). This study elucidates population-based variations of a core resistome, and further provides important insights into source tracking and management of AMR in urban environments. |
| first_indexed | 2024-10-01T04:14:56Z |
| format | Journal Article |
| id | ntu-10356/162621 |
| institution | Nanyang Technological University |
| language | English |
| last_indexed | 2024-10-01T04:14:56Z |
| publishDate | 2022 |
| record_format | dspace |
| spelling | ntu-10356/1626212023-03-05T16:51:15Z Population-based variations of a core resistome revealed by urban sewage metagenome surveillance Li, Wenxuan Mao, Feijian Ng, Charmaine Jong, Mui Choo Goh, Shin Giek Charles, Francis Rathinam Ng, Oon Tek Marimuthu, Kalisvar He, Yiliang Gin, Karina Yew-Hoong Lee Kong Chian School of Medicine (LKCMedicine) National Centre for Infectious Diseases, Singapore Tan Tock Seng Hospital Science::Medicine Resistome Sewage Surveillance Sewage-based surveillance is widely employed to understand the occurrence and distribution of antimicrobial resistance (AMR) in urban community. However, there are limited studies which investigated the sewage of different sources within community. The present study used metagenomics to decipher the AMR profiles in five sources: local residence's source, animal source, migrant workers' source, clinical source , and urban wastewater treatment plant influent. A core resistome of ARGs was found across all samples, accounting for 81.4%-93.3% of the abundance of total resistome with only 17.3% diversity, irrespective of the sewage sources. Clinically relevant ARGs were identified in the core resistome across all wastewater sources. This included genes conferring resistance to beta-lactams as biomarkers of hospital sewage. The pet center wastewater showed a high abundance of genes encoding resistance to tetracycline, which is a commonly used veterinary antibiotic. The resistome profile of sewage from the migrant workers' dormitories showed a slight variation to that of the local residential population, suggesting possible differences in the human gut resistome of the foreign/migrant population, with biomarkers of genes encoding resistance to fosfomycin, fosmidomycin, kasugamycin, MLS, and polymyxin. The co-localization of ARGs and plasmid, MGEs and integrative and conjugative elements (ICEs) could explain variations in the core resistome, presumably a result of high antibiotic selection pressure. Further analysis showed a specific host-associated resistance pattern, in which core hosts mediated the core resistome profile. The core BMRGs were also co-localized with MGEs/ICEs and carried by core potential bacterial hosts. Local healthy population carried the lowest ARG load (copy number discharged by each person per day) but contributed the highest ARG burden (copy number discharged by the population). This study elucidates population-based variations of a core resistome, and further provides important insights into source tracking and management of AMR in urban environments. National Medical Research Council (NMRC) National Research Foundation (NRF) Published version This research is supported by the National Research Foundation, Prime Minister’s Office, Singapore under its Campus for Research Excellence and Technological Enterprise (CREATE) programme (E2S2-CREATE project ES-2: Detection, Assessment & Modelling of Emerging Contaminants in the Urban Environment). Dr Ng OT is supported by NMRC Clinician Scientist Award (MOH-000276). 2022-11-01T05:32:11Z 2022-11-01T05:32:11Z 2022 Journal Article Li, W., Mao, F., Ng, C., Jong, M. C., Goh, S. G., Charles, F. R., Ng, O. T., Marimuthu, K., He, Y. & Gin, K. Y. (2022). Population-based variations of a core resistome revealed by urban sewage metagenome surveillance. Environment International, 163, 107185-. https://dx.doi.org/10.1016/j.envint.2022.107185 0160-4120 https://hdl.handle.net/10356/162621 10.1016/j.envint.2022.107185 35306253 2-s2.0-85126568222 163 107185 en MOH-000276 Environment International © 2022 The Authors. Published by Elsevier Ltd. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). application/pdf |
| spellingShingle | Science::Medicine Resistome Sewage Surveillance Li, Wenxuan Mao, Feijian Ng, Charmaine Jong, Mui Choo Goh, Shin Giek Charles, Francis Rathinam Ng, Oon Tek Marimuthu, Kalisvar He, Yiliang Gin, Karina Yew-Hoong Population-based variations of a core resistome revealed by urban sewage metagenome surveillance |
| title | Population-based variations of a core resistome revealed by urban sewage metagenome surveillance |
| title_full | Population-based variations of a core resistome revealed by urban sewage metagenome surveillance |
| title_fullStr | Population-based variations of a core resistome revealed by urban sewage metagenome surveillance |
| title_full_unstemmed | Population-based variations of a core resistome revealed by urban sewage metagenome surveillance |
| title_short | Population-based variations of a core resistome revealed by urban sewage metagenome surveillance |
| title_sort | population based variations of a core resistome revealed by urban sewage metagenome surveillance |
| topic | Science::Medicine Resistome Sewage Surveillance |
| url | https://hdl.handle.net/10356/162621 |
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