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Muter O, Gudrā D, Daumova G, Idrisheva Z, Rakhymberdina M, Tabors G, Dirnēna B, Dobkeviča L, Petrova O, Apshikur B, Luņģe M, Fridmanis D, Denissov I, Bekishev Y, Kasparinskis R, Mukulysova Z, Polezhayev S. Impact of Anthropogenic Activities on Microbial Community Structure in Riverbed Sediments of East Kazakhstan. Microorganisms 2024; 12:246. [PMID: 38399650 PMCID: PMC10893015 DOI: 10.3390/microorganisms12020246] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Revised: 01/19/2024] [Accepted: 01/22/2024] [Indexed: 02/25/2024] Open
Abstract
Heavy metal (HMe) pollution in regions with mining and metallurgy activities is known to be a serious environmental problem worldwide. Hydrological processes contribute to the dissemination of HMes (drainage, precipitation, flow rate). The aim of the present study is to investigate the microbial community structure in ten river sediments sampled in different regions of East Kazakhstan, which are contaminated with HMes. The overall degree of sediment contamination with HMes (Cr, Cu, Zn, Pb, and Cd) was assessed using the pollution index Zc, which ranged from 0.43 to 21.6, with the highest in Ridder City (Zc = 21.6) and Ust-Kamenogorsk City, 0.8 km below the dam of the hydroelectric power station (Zc = 19.6). The tested samples considerably differed in organic matter, total carbon, nitrogen, and phosphorus content, as well as in the abundance of HMe-related functional gene families and antibiotic resistance genes. Metagenomic analysis of benthic microorganisms showed the prevalence of Proteobacteria (88.84-97.61%) and Actinobacteria (1.21-5.98%) at the phylum level in all samples. At the class level, Actinobacteria (21.68-57.48%), Betaproteobacteria (19.38-41.17%), and Alphaproteobacteria (10.0-39.78%) were the most common among the classified reads. To the best of our knowledge, this is the first study on the metagenomic characteristics of benthic microbial communities exposed to chronic HMe pressure in different regions of East Kazakhstan.
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Affiliation(s)
- Olga Muter
- Faculty of Biology, University of Latvia, 1 Jelgavas Str., LV-1004 Riga, Latvia;
| | - Dita Gudrā
- Latvian Biomedical Research and Study Centre, 1 Ratsupites Str., LV-1067 Riga, Latvia; (D.G.); (M.L.); (D.F.)
| | - Gulzhan Daumova
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Zhanat Idrisheva
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Marzhan Rakhymberdina
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Guntis Tabors
- Faculty of Biology, University of Latvia, 1 Jelgavas Str., LV-1004 Riga, Latvia;
| | - Baiba Dirnēna
- Faculty of Geography and Earth Sciences, University of Latvia, 1 Jelgavas Str., LV-1004 Riga, Latvia; (B.D.); (L.D.); (R.K.)
| | - Linda Dobkeviča
- Faculty of Geography and Earth Sciences, University of Latvia, 1 Jelgavas Str., LV-1004 Riga, Latvia; (B.D.); (L.D.); (R.K.)
| | - Olga Petrova
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Baitak Apshikur
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Megija Luņģe
- Latvian Biomedical Research and Study Centre, 1 Ratsupites Str., LV-1067 Riga, Latvia; (D.G.); (M.L.); (D.F.)
| | - Dāvids Fridmanis
- Latvian Biomedical Research and Study Centre, 1 Ratsupites Str., LV-1067 Riga, Latvia; (D.G.); (M.L.); (D.F.)
| | - Igor Denissov
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Yerkebulan Bekishev
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Raimonds Kasparinskis
- Faculty of Geography and Earth Sciences, University of Latvia, 1 Jelgavas Str., LV-1004 Riga, Latvia; (B.D.); (L.D.); (R.K.)
| | - Zarina Mukulysova
- School of Geosciences, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan; (G.D.); (Z.I.); (M.R.); (O.P.); (B.A.); (I.D.); (Y.B.); (Z.M.)
| | - Stanislav Polezhayev
- Center of Excellence “Veritas”, D. Serikbayev East Kazakhstan Technical University, 19, Serikbayev Str., Ust-Kamenogorsk 070000, Kazakhstan;
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Periasamy J, Krishnamoorthy S, Nagarethinam B, Sivanandham V. Food wastes as a potential hotspot of antibiotic resistance: synergistic expression of multidrug resistance and ESBL genes confer antibiotic resistance to microbial communities. ENVIRONMENTAL MONITORING AND ASSESSMENT 2023; 195:783. [PMID: 37261634 DOI: 10.1007/s10661-023-11335-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Accepted: 05/03/2023] [Indexed: 06/02/2023]
Abstract
This study investigated antibiotic resistance (ABR) and extended-spectrum ß-lactamases (ESBL) patterns in bacterial isolates collected from the dairy, hotel, meat, and canteen food waste samples. A total of 144 bacterial strains were collected and screened for resistance against 9 standard antibiotics belonging to three generations and ESBL production. The ABR profile of the bacterial isolates was observed against all four major antibiotic groups (aminoglycosides, β-lactams, quinolone, and others), where resistance against cefotaxime (> 70%) and methicillin (> 50%) was high. Though the ABR pattern of strains from dairy waste (> 50%) was high against first-generation antibiotics, the strains from meat waste (> 50%) showed considerable resistance against second- and third-generation antibiotics. ESBL-producing isolates were screened (> 60%, n = 144) through primary identification tests (combined disk test and double disk synergy tests) and further confirmed through Hexa G-minus 23 and 24 and MIC E-stripe following CLSI guidelines. Genes conferring ESBL resistance blaCTX-M, blaSHV, blaOXA, blaTEM, blaKPC genes and multidrug resistance (MDR) mexF gene were detected in the selected isolates with ABR and ESBL traits. Isolates with multidrug ABR and ESBL phenotype were further genotypically identified through 16 s rRNA gene sequencing. The synergy of ABR was detected through the co-expression of ESBL and MDR in isolates with a high occurrence of ABR and ESBL. The results demonstrate the significance of food waste as a natural reservoir of ABR and ESBL-producing pathogens, highlighting the importance of resistance monitoring and its interventions.
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Affiliation(s)
- Jenifer Periasamy
- National Institute of Food Technology Entrepreneurship and Management - Thanjavur (NIFTEM-T), Pudukkottai Road, Thanjavur, Tamil Nadu, 613005, India
| | - Srinivasan Krishnamoorthy
- National Institute of Food Technology Entrepreneurship and Management - Thanjavur (NIFTEM-T), Pudukkottai Road, Thanjavur, Tamil Nadu, 613005, India
| | - Baskaran Nagarethinam
- National Institute of Food Technology Entrepreneurship and Management - Thanjavur (NIFTEM-T), Pudukkottai Road, Thanjavur, Tamil Nadu, 613005, India
| | - Vignesh Sivanandham
- National Institute of Food Technology Entrepreneurship and Management - Thanjavur (NIFTEM-T), Pudukkottai Road, Thanjavur, Tamil Nadu, 613005, India.
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Che J, Wang Z, Song Y, Guan H, Yuan M, Chen X, Zhao X, Xiao Y, Zhang Y, Sha D, Wang C, Feng J, Li J. Emergence of blaIMI-2- and blaIMI-16-Producing Enterobacter asburiae in the Aquaculture Environment of Jiangsu, China. Microbiol Spectr 2023; 11:e0285322. [PMID: 36877062 PMCID: PMC10100371 DOI: 10.1128/spectrum.02853-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Accepted: 02/15/2023] [Indexed: 03/07/2023] Open
Abstract
Carbapenem-resistant Enterobacteriaceae strains have emerged as a serious threat to global public health. In recent years, blaIMI, a carbapenemase gene that drew less attention before, has been increasingly detected in both clinical and environmental settings. However, the environmental distribution and transmission of blaIMI, especially in aquaculture, require systematic investigation. In this study, the blaIMI gene was detected in fish (n = 1), sewage (n = 1), river water (n = 1), and aquaculture pond water samples (n = 17) collected from Jiangsu, China, demonstrating a relatively high sample-positive ratio of 12.4% (20/161). Thirteen blaIMI-2- or blaIMI-16-carrying Enterobacter asburiae strains were isolated from blaIMI-positive samples of aquatic products and aquaculture ponds. We also identified a novel transposon (Tn7441) carrying blaIMI-16 and a conserved region containing several truncated insertion sequence (IS) elements harboring blaIMI-2, all of which may play important roles in blaIMI mobilization. The occurrence of blaIMI-carrying Enterobacter asburiae in aquaculture-related water samples and fish samples highlights the risk of transmission of blaIMI-carrying strains through the food chain and the need for effective measures to prevent further dissemination. IMPORTANCE IMI carbapenemases have been detected in clinical isolates of many bacterial species with systemic infection and cause a further burden on clinical treatment in China, but their source and distribution are still unclear. The study systematically investigated the distribution and transmission of the blaIMI gene in aquaculture-related water bodies and aquatic products in Jiangsu Province, China, which is famous for its rich water resources and developed aquaculture industry. The relatively high prevalence of blaIMI in aquaculture samples and the identification of novel mobile elements harboring blaIMI enhance our knowledge of blaIMI gene distribution and highlight the public health risk and urgency of surveillance of aquaculture water systems in China.
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Affiliation(s)
- Jie Che
- State Key Laboratory for Infectious Diseases Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Zhaoran Wang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Science, University of Chinese Academy of Sciences, Beijing, China
| | - Yuqin Song
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Hongxia Guan
- Wuxi Center for Disease Control and Prevention, Wuxi, China
| | - Min Yuan
- State Key Laboratory for Infectious Diseases Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Xia Chen
- State Key Laboratory for Infectious Diseases Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Xiaofei Zhao
- State Key Laboratory for Infectious Diseases Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Yong Xiao
- Wuxi Center for Disease Control and Prevention, Wuxi, China
| | - Yunfei Zhang
- State Key Laboratory for Infectious Diseases Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Dan Sha
- Wuxi Center for Disease Control and Prevention, Wuxi, China
| | - Chao Wang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Jie Feng
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Juan Li
- State Key Laboratory for Infectious Diseases Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
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