Antimicrobial resistance genes in microbiota associated with sediments and water from the Akaki river in Ethiopia.


Journal

Environmental science and pollution research international
ISSN: 1614-7499
Titre abrégé: Environ Sci Pollut Res Int
Pays: Germany
ID NLM: 9441769

Informations de publication

Date de publication:
Oct 2022
Historique:
received: 29 10 2021
accepted: 03 05 2022
pubmed: 19 5 2022
medline: 28 9 2022
entrez: 18 5 2022
Statut: ppublish

Résumé

The spread of antimicrobial-resistant pathogens is a global health concern. Most studies report high levels of antimicrobial resistance genes (ARGs) in the aquatic environment; however, levels associated with sediments are limited. This study aimed to investigate the distribution of ARGs in the sediments and water of the Akaki river in Addis Ababa, Ethiopia. The diversity and abundance of 84 ARGs and 116 clinically important bacteria were evaluated from the sediments and water collected from five sites in the Akaki river. Most of the ARGs were found in the city close to anthropogenic activities. Water samples collected in the middle catchment of the river contained 71-75% of targeted ARGs, with genes encoding aminoglycoside acetyltransferase (aac(6)-Ib-cr), aminoglycoside adenylyl transferase (aadA1), β-lactamase (bla

Identifiants

pubmed: 35583762
doi: 10.1007/s11356-022-20684-2
pii: 10.1007/s11356-022-20684-2
pmc: PMC9512891
doi:

Substances chimiques

Aminoglycosides 0
Anti-Bacterial Agents 0
Macrolides 0
Quinolones 0
Water 059QF0KO0R
beta-Lactamases EC 3.5.2.6

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

70040-70055

Subventions

Organisme : Svenska Forskningsrådet Formas
ID : 219-2014-837

Informations de copyright

© 2022. The Author(s).

Références

Abdul-Mutakabbir JC, Kebriaei R, Jorgensen SCJ et al (2019) Teaching an old class new tricks: a novel semi-synthetic aminoglycoside, plazomicin. Infect Dis Ther 8:155–170. https://doi.org/10.1007/s40121-019-0239-0
doi: 10.1007/s40121-019-0239-0
Adachi F, Yamamoto A, Takakura K et al (2013) Occurrence of fluoroquinolones and fluoroquinolone-resistance genes in the aquatic environment. Sci Total Environ 444:508–514. https://doi.org/10.1016/j.scitotenv.2012.11.077
doi: 10.1016/j.scitotenv.2012.11.077
Allen HK, Donato J, Wang HH et al (2010) Call of the wild: antibiotic resistance genes in natural environments. Nat Rev Microbiol 8:251–259. https://doi.org/10.1038/nrmicro2312
doi: 10.1038/nrmicro2312
Anderson KF, Lonsway DR, Rasheed JK et al (2007) Evaluation of methods to identify the Klebsiella pneumoniae carbapenemase in Enterobacteriaceae. J Clin Microbiol 45:2723–2725. https://doi.org/10.1128/jcm.00015-07
doi: 10.1128/jcm.00015-07
Bacanl M, Başaran N (2019) Importance of antibiotic residues in animal food. Food Chem Toxicol 125:462–466. https://doi.org/10.1016/j.fct.2019.01.033
doi: 10.1016/j.fct.2019.01.033
Baker-Austin C, Wright MS, Stepanauskas R et al (2006) Co-selection of antibiotic and metal resistance. Trends Microbiol 14:176–182. https://doi.org/10.1016/j.tim.2006.02.006
doi: 10.1016/j.tim.2006.02.006
Berglund B, Fick J, Lindgren P-E (2015) Urban wastewater effluent increases antibiotic resistance gene concentrations in a receiving northern European river. 34, 192-196.  https://doi.org/10.1002/etc.2784
Brandt J, Albertsen M (2018) Investigation of detection limits and the influence of DNA extraction and primer choice on the observed microbial communities in drinking water samples using 16S rRNA gene amplicon sequencing, 9.   https://doi.org/10.3389/fmicb.2018.02140 .
Braschi I, Blasioli S, Fellet C et al (2013) Persistence and degradation of new β-lactam antibiotics in the soil and water environment. Chemosphere 93:152–159. https://doi.org/10.1016/j.chemosphere.2013.05.016
doi: 10.1016/j.chemosphere.2013.05.016
Calero-Cáceres W, Méndez J, Martín-Díaz J et al (2017) The occurrence of antibiotic resistance genes in a Mediterranean river and their persistence in the riverbed sediment. Environ Pollut 223:384–394. https://doi.org/10.1016/j.envpol.2017.01.035
doi: 10.1016/j.envpol.2017.01.035
Cassini A, Högberg LD, Plachouras D et al (2019) Attributable deaths and disability-adjusted life-years caused by infections with antibiotic-resistant bacteria in the EU and the European Economic Area in 2015: a population-level modelling analysis. Lancet Infect Dis 19:56–66. https://doi.org/10.1016/S1473-3099(18)30605-4
doi: 10.1016/S1473-3099(18)30605-4
Ceccarelli D, Kant A, van Essen-Zandbergen A, et al (2019) Diversity of plasmids and genes encoding resistance to extended spectrum cephalosporins in commensal Escherichia coli From Dutch Livestock in 2007–2017. Front Microbiol, 10.  https://doi.org/10.3389/fmicb.2019.00076
Dandachi I, Sokhn ES, Dahdouh EA et al (2018) Prevalence and characterization of multi-drug-resistant gram-negative bacilli isolated from lebanese poultry: a nationwide study. Front Microbiol 9:550–550. https://doi.org/10.3389/fmicb.2018.00550
doi: 10.3389/fmicb.2018.00550
Darwich L, Vidal A, Seminati C et al (2019) High prevalence and diversity of extended-spectrum β-lactamase and emergence of OXA-48 producing Enterobacterales in wildlife in Catalonia. PLoS ONE 14:e0210686. https://doi.org/10.1371/journal.pone.0210686
doi: 10.1371/journal.pone.0210686
Devarajan N, Laffite A, Mulaji CK et al (2016) Occurrence of antibiotic resistance genes and bacterial markers in a tropical river receiving hospital and urban wastewaters. PLoS ONE 11:e0149211–e0149211. https://doi.org/10.1371/journal.pone.0149211
doi: 10.1371/journal.pone.0149211
Dineen SM, Aranda IV R, Anders DL, et al. 2010. An evaluation of commercial DNA extraction kits for the isolation of bacterial spore DNA from soil, 109: 1886-1896. https://doi.org/10.1111/j.1365-2672.2010.04816.x
Ding C, He J (2010) Effect of antibiotics in the environment on microbial populations. Appl Microbiol Biotechnol 87:925–941. https://doi.org/10.1007/s00253-010-2649-5
doi: 10.1007/s00253-010-2649-5
EPHI (2017) Ethiopian Public Health Instititute - Pollution status of Akaki river and its contamination effect on surrounding environment and agricultural products: technical report. https://www.ephi.gov.et/images/pictures/download2010/Akaki%20River%20Technical%20Report_2017.pdf
Fair RJ, Tor Y (2014) Antibiotics and Bacterial Resistance in the 21st Century. PMC 6:S14459. https://doi.org/10.4137/PMC.S14459
Gullberg E, Cao S, Berg OG et al (2011) Selection of resistant bacteria at very low antibiotic concentrations. PLoS Pathog 7:e1002158–e1002158. https://doi.org/10.1371/journal.ppat.1002158
doi: 10.1371/journal.ppat.1002158
Guo X-p, Zhao S, Chen Y-r et al (2020) Antibiotic resistance genes in sediments of the Yangtze Estuary: from 2007 to 2019. Sci Total Environ 744:140713. https://doi.org/10.1016/j.scitotenv.2020.140713
doi: 10.1016/j.scitotenv.2020.140713
Harrower J, McNaughtan M, Hunter C et al (2021) Chemical fate and partitioning behavior of antibiotics in the aquatic environment-a review. Environ Toxicol Chem 40:3275–3298. https://doi.org/10.1002/etc.5191
doi: 10.1002/etc.5191
Hiruy AM, Mohammed J, Haileselassie MM, Acharya K, Butte G, Haile AT, Walsh C, Werner D (2022) Spatiotemporal variation in urban wastewater pollution impacts on river microbiomes and associated hazards in the Akaki catchment Addis Ababa Ethiopia Sci Total Environ 826153912. https://doi.org/10.1016/j.scitotenv.2022.153912
https://doi.org/10.1093/femsec/fiy128
Islam MA, Islam M, Hasan R et al (2017) Environmental spread of New Delhi metallo-β-lactamase-1-producing multidrug-resistant bacteria in Dhaka, Bangladesh. Appl Environ Microbiol 83:e00793-e817. https://doi.org/10.1128/AEM.00793-17
doi: 10.1128/AEM.00793-17
Jiang H, Zhou R, Yang Y et al (2018) Characterizing the antibiotic resistance genes in a river catchment: influence of anthropogenic activities. J Environ Sci 69:125–132. https://doi.org/10.1016/j.jes.2017.08.009
doi: 10.1016/j.jes.2017.08.009
Kariuki S, Dougan G (2014) Antibacterial resistance in sub-Saharan Africa: an underestimated emergency. Ann N Y Acad Sci 1323:43–55. https://doi.org/10.1111/nyas.12380
doi: 10.1111/nyas.12380
Karkman A, Pärnänen K, Larsson DGJ (2019) Fecal pollution can explain antibiotic resistance gene abundances in anthropogenically impacted environments. Nat Commun 10:80. https://doi.org/10.1038/s41467-018-07992-3
doi: 10.1038/s41467-018-07992-3
Kerrigan JF, Sandberg KD, Engstrom DR et al (2018) Sedimentary record of antibiotic accumulation in Minnesota Lakes. Sci Total Environ 621:970–979. https://doi.org/10.1016/j.scitotenv.2017.10.130
doi: 10.1016/j.scitotenv.2017.10.130
Khan FA, Söderquist B, Jass J (2019) Prevalence and diversity of antibiotic resistance genes in Swedish aquatic environments impacted by household and hospital wastewater. Front Microbiol, 10. https://doi.org/10.3389/fmicb.2019.00688
Khoshnood S, Eslami G, Hashemi A et al (2017) Distribution of aminoglycoside resistance genes among Acinetobacter baumannii strains isolated from burn patients in Tehran. Iran Arch Pediatr Infect Dis 5:e57263. https://doi.org/10.5812/pedinfect.57263
doi: 10.5812/pedinfect.57263
Kraemer SA, Ramachandran A, Perron GG (2019) Antibiotic pollution in the environment: from microbial ecology to public policy. Microorganisms, 7. https://doi.org/10.3390/microorganisms7060180
Leung E, Weil DE, Raviglione M et al (2011) The WHO policy package to combat antimicrobial resistance. Bull World Health Organ 89:390–392. https://doi.org/10.2471/BLT.11.088435
doi: 10.2471/BLT.11.088435
Liao X, Yang R-S, Xia J et al (2019) High colonization rate of a novel carbapenem-resistant Klebsiella lineage among migratory birds at Qinghai Lake, China. J Antimicrob Chemother 74:2895–2903. https://doi.org/10.1093/jac/dkz268
doi: 10.1093/jac/dkz268
Luo Y, Mao D, Rysz M et al (2010) Trends in antibiotic resistance genes occurrence in the Haihe River. China 44:7220–7225
Manchanda V, Sanchaita S, Singh N (2010) Multidrug resistant acinetobacter. Journal of Global Infectious Diseases 2:291–304. https://doi.org/10.4103/0974-777X.68538
doi: 10.4103/0974-777X.68538
Mao D, Luo Y, Mathieu J et al (2014) Persistence of extracellular DNA in river sediment facilitates antibiotic resistance gene propagation. Environ Sci Technol 48:71–78. https://doi.org/10.1021/es404280v
doi: 10.1021/es404280v
Martinez JL (2009) Environmental pollution by antibiotics and by antibiotic resistance determinants. Environ Pollut 157:2893–2902. https://doi.org/10.1016/j.envpol.2009.05.051
doi: 10.1016/j.envpol.2009.05.051
Maurya AP, Dhar D, Basumatary MK et al (2017) Expansion of highly stable blaOXA-10 β-lactamase family within diverse host range among nosocomial isolates of Gram-negative bacilli within a tertiary referral hospital of Northeast India. BMC Res Notes 10:145. https://doi.org/10.1186/s13104-017-2467-2
doi: 10.1186/s13104-017-2467-2
Moges F, Endris M, Mulu A et al (2014) The growing challenges of antibacterial drug resistance in Ethiopia. Journal of Global Antimicrobial Resistance 2:148–154. https://doi.org/10.1016/j.jgar.2014.02.004
doi: 10.1016/j.jgar.2014.02.004
Munir M, Wong K, Xagoraraki I (2011) Release of antibiotic resistant bacteria and genes in the effluent and biosolids of five wastewater utilities in Michigan. Water Res 45:681–693. https://doi.org/10.1016/j.watres.2010.08.033
doi: 10.1016/j.watres.2010.08.033
Na G, Zhang K, Gao H et al (2021) Occurrence and distribution characteristics of antibiotic resistance genes in sediments between urban and rural of the Liaohe River Basin, China. Environ Sci Pollut Res 28:54002–54014. https://doi.org/10.1007/s11356-021-13560-y
doi: 10.1007/s11356-021-13560-y
Naas T, Poirel L, Nordmann P (2008) Minor extended-spectrum β-lactamases. Clin Microbiol Infect 14:42–52. https://doi.org/10.1111/j.1469-0691.2007.01861.x
doi: 10.1111/j.1469-0691.2007.01861.x
Newton RJ, Bootsma MJ, Morrison HG et al (2013) A microbial signature approach to identify fecal pollution in the waters off an urbanized coast of Lake Michigan. Microb Ecol 65:1011–1023. https://doi.org/10.1007/s00248-013-0200-9
doi: 10.1007/s00248-013-0200-9
Osinska A, Harnisz M, Korzeniewska E (2016) Prevalence of plasmid-mediated multidrug resistance determinants in fluoroquinolone-resistant bacteria isolated from sewage and surface water. Environ Sci Pollut Res Int 23:10818–10831. https://doi.org/10.1007/s11356-016-6221-4
doi: 10.1007/s11356-016-6221-4
Poirel L, Cattoir V, Nordmann P (2012) Plasmid-mediated quinolone resistance; interactions between human, animal, and environmental ecologies, 3. https://doi.org/10.3389/fmicb.2012.00024 .
Ramakrishnan B, Venkateswarlu K, Sethunathan N et al (2019) Local applications but global implications: can pesticides drive microorganisms to develop antimicrobial resistance? Sci Total Environ 654:177–189. https://doi.org/10.1016/j.scitotenv.2018.11.041
doi: 10.1016/j.scitotenv.2018.11.041
Ranjan VK, Mukherjee S, Basak C et al (2021) Abundance of New Delhi metallo-β-lactamase-producing Acinetobacter, Escherichia, Proteus, and Pseudomonas spp. in Mahananda and Karala Rivers of India. Microb Drug Resist 27:1603–1615. https://doi.org/10.1089/mdr.2019.0449
doi: 10.1089/mdr.2019.0449
Redgrave LS, Sutton SB, Webber MA et al (2014) Fluoroquinolone resistance: mechanisms, impact on bacteria, and role in evolutionary success. Trends Microbiol 22:438–445. https://doi.org/10.1016/j.tim.2014.04.007
doi: 10.1016/j.tim.2014.04.007
https://doi.org/10.1007/978-3-319-46718-4_16
Sisay M, Weldegebreal F, Tesfa T et al (2018) Resistance profile of clinically relevant bacterial isolates against fluoroquinolone in Ethiopia: a systematic review and meta-analysis. BMC Pharmacol Toxicol 19:86. https://doi.org/10.1186/s40360-018-0274-6
doi: 10.1186/s40360-018-0274-6
Smillie CS, Smith MB, Friedman J et al (2011) Ecology drives a global network of gene exchange connecting the human microbiome. Nature 480:241–244. https://doi.org/10.1038/nature10571
doi: 10.1038/nature10571
Soriano-Moreno DR, Yareta J, Rojas-Cosi AF et al (2021) Hospital effluents as a reservoir of beta-lactamase- and carbapenemase-producing enterobacteriaceae. Rev Peru Med Exp Salud Publica 38:302–307. https://doi.org/10.17843/rpmesp.2021.382.6202
doi: 10.17843/rpmesp.2021.382.6202
Wang MY, Lu X, Kan B et al (2021) Research progress on bacterial resistance and gene carrying resistance in migratory birds. Zhonghua Yu Fang Yi Xue Za Zhi 55:271–276. https://doi.org/10.3760/cma.j.cn112150-20200914-01199
doi: 10.3760/cma.j.cn112150-20200914-01199
Wang X, Lin Z, Lu J (2018) One Health strategy to prevent and control antibiotic resistance. Sheng Wu Gong Cheng Xue Bao 34:1361–1367. https://doi.org/10.13345/j.cjb.180249
doi: 10.13345/j.cjb.180249
Worku F, Tewahido D (2018) Retrospective assessment of antibiotics prescribing at public primary healthcare facilities in Addis Ababa Ethiopia. Interdiscip Perspect Infect Dis 2018:4323769. https://doi.org/10.1155/2018/4323769
doi: 10.1155/2018/4323769
Xie WY, Wang YT, Yuan J et al (2022) Prevalent and highly mobile antibiotic resistance genes in commercial organic fertilizers. Environ Int 162:107157. https://doi.org/10.1016/j.envint.2022.107157
doi: 10.1016/j.envint.2022.107157
Yang Y, Liu Z, Xing S et al (2019) The correlation between antibiotic resistance gene abundance and microbial community resistance in pig farm wastewater and surrounding rivers. Ecotoxicol Environ Saf 182:109452. https://doi.org/10.1016/j.ecoenv.2019.109452
doi: 10.1016/j.ecoenv.2019.109452
Yang Y, Song W, Lin H et al (2018) Antibiotics and antibiotic resistance genes in global lakes: a review and meta-analysis. Environ Int 116:60–73. https://doi.org/10.1016/j.envint.2018.04.011
doi: 10.1016/j.envint.2018.04.011
Zhang L, Zhang C, Lian K et al (2021) Effects of chronic exposure of antibiotics on microbial community structure and functions in hyporheic zone sediments. J Hazard Mater 416:126141. https://doi.org/10.1016/j.jhazmat.2021.126141
doi: 10.1016/j.jhazmat.2021.126141
Zhang XX, Zhang T, Fang HH (2009) Antibiotic resistance genes in water environment. Appl Microbiol Biotechnol 82:397–414. https://doi.org/10.1007/s00253-008-1829-z
doi: 10.1007/s00253-008-1829-z
Zhou ZC, Zheng J, Wei YY et al (2017) Antibiotic resistance genes in an urban river as impacted by bacterial community and physicochemical parameters. Environ Sci Pollut Res Int 24:23753–23762. https://doi.org/10.1007/s11356-017-0032-0
doi: 10.1007/s11356-017-0032-0
Zhu Y-G, Zhao Y, Li B et al (2017) Continental-scale pollution of estuaries with antibiotic resistance genes. Nat Microbiol 2:16270. https://doi.org/10.1038/nmicrobiol.2016.270
doi: 10.1038/nmicrobiol.2016.270

Auteurs

Berhanu Yitayew (B)

College of Health Sciences, School of Medicine, Addis Ababa University, Addis Ababa, Ethiopia.
School of Science and Technology, The Life Science Center - Biology, Örebro University, 701 82, Örebro, Sweden.

Yimtubezinash Woldeamanuel (Y)

College of Health Sciences, School of Medicine, Addis Ababa University, Addis Ababa, Ethiopia.

Daniel Asrat (D)

College of Health Sciences, School of Medicine, Addis Ababa University, Addis Ababa, Ethiopia.

Aminur Rahman (A)

School of Science and Technology, The Life Science Center - Biology, Örebro University, 701 82, Örebro, Sweden.

Adane Mihret (A)

College of Health Sciences, School of Medicine, Addis Ababa University, Addis Ababa, Ethiopia.
Armauer Hansen Research Institute, Addis Ababa, Ethiopia.

Abraham Aseffa (A)

Armauer Hansen Research Institute, Addis Ababa, Ethiopia.

Per-Erik Olsson (PE)

School of Science and Technology, The Life Science Center - Biology, Örebro University, 701 82, Örebro, Sweden.

Jana Jass (J)

School of Science and Technology, The Life Science Center - Biology, Örebro University, 701 82, Örebro, Sweden. jana.jass@oru.se.

Articles similaires

Vancomycin-associated DRESS demonstrates delay in AST abnormalities.

Ahmed Hussein, Kateri L Schoettinger, Jourdan Hydol-Smith et al.
1.00
Humans Drug Hypersensitivity Syndrome Vancomycin Female Male
Humans Arthroplasty, Replacement, Elbow Prosthesis-Related Infections Debridement Anti-Bacterial Agents
Populus Soil Microbiology Soil Microbiota Fungi
Aerosols Humans Decontamination Air Microbiology Masks

Classifications MeSH