1
|
Liu J, Zhao R, Feng J, Fu W, Cao L, Zhang J, Lei Y, Liang J, Lin L, Li X, Li B. Bacterial assembly and succession patterns in conventional and advanced drinking water systems: From source to tap. JOURNAL OF HAZARDOUS MATERIALS 2024; 473:134613. [PMID: 38788571 DOI: 10.1016/j.jhazmat.2024.134613] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Revised: 05/01/2024] [Accepted: 05/11/2024] [Indexed: 05/26/2024]
Abstract
Bacteria are pivotal to drinking water treatment and public health. However, the mechanisms of bacterial assembly and their impact on species coexistence remain largely unexplored. This study explored the assembly and succession of bacterial communities in two full-scale drinking water systems over one year. We observed a decline in bacterial biomass, diversity, and co-occurrence network complexity along the treatment processes, except for the biological activated carbon filtration stage. The conventional plant showed higher bacterial diversity than the advanced plant, despite similar bacterial concentrations and better removal efficiency. The biological activated carbon filter exhibited high phylogenetic diversity, indicating enhanced bacterial metabolic functionality for organic matter removal. Chlorination inactivated most bacteria but favored some chlorination-resistant and potentially pathogenic species, such as Burkholderia, Bosea, Brevundimonas, and Acinetobacter. Moreover, the spatiotemporal dynamics of the bacterial continuum were primarily driven by stochastic processes, explaining more than 78% of the relative importance. The advanced plant's bacterial community was less influenced by dispersal limitation and more by homogeneous selection. The stochastic process regulated bacterial diversity and influenced the complexity of the species co-occurrence network. These findings deepen our understanding of microbial ecological mechanisms and species interactions, offering insights for enhancing hygienic safety in drinking water systems.
Collapse
Affiliation(s)
- Jie Liu
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, Center for Grassland Microbiome, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Renxin Zhao
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China; School of Ecology and Environment, Inner Mongolia University, Hohhot, China
| | - Jie Feng
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Wenjie Fu
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Lijia Cao
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Jiayu Zhang
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Yusha Lei
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Jiajin Liang
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Lin Lin
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Xiaoyan Li
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China
| | - Bing Li
- State Environmental Protection Key Laboratory of Microorganism Application and Risk Control, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, China.
| |
Collapse
|
2
|
Bandeira L, Faria C, Cavalcante F, Mesquita A, Martins C, Martins S. Metabarcoding expands knowledge on diversity and ecology of rare actinobacteria in the Brazilian Cerrado. Folia Microbiol (Praha) 2024:10.1007/s12223-024-01184-x. [PMID: 38961050 DOI: 10.1007/s12223-024-01184-x] [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: 12/12/2023] [Accepted: 06/17/2024] [Indexed: 07/05/2024]
Abstract
Rare and unknown actinobacteria from unexplored environments have the potential to produce new bioactive molecules. This study aimed to use 16 s rRNA metabarcoding to determine the composition of the actinobacterial community, particularly focusing on rare and undescribed species, in a nature reserve within the Brazilian Cerrado called Sete Cidades National Park. Since this is an inaccessible area without due legal authorization, it is understudied, and, therefore, its diversity and biotechnological potential are not yet fully understood, and it may harbor species with groundbreaking genetic potential. In total, 543 operational taxonomic units (OTUs) across 14 phyla were detected, with Actinobacteria (41.2%), Proteobacteria (26.5%), and Acidobacteria (14.3%) being the most abundant. Within Actinobacteria, 107 OTUs were found, primarily from the families Mycobacteriaceae, Pseudonocardiaceae, and Streptomycetaceae. Mycobacterium and Streptomyces were the predominant genera across all samples. Seventeen rare OTUs with relative abundance < 0.1% were identified, with 82.3% found in only one sample yet 25.5% detected in all units. Notable rare and transient genera included Salinibacterium, Nocardia, Actinomycetospora_01, Saccharopolyspora, Sporichthya, and Nonomuraea. The high diversity and distribution of Actinobacteria OTUs indicate the area's potential for discovering new rare species. Intensified prospection on underexplored environments and characterization of their actinobacterial diversity could lead to the discovery of new species capable of generating innovative natural products.
Collapse
Affiliation(s)
- Leonardo Bandeira
- Ecology and Natural Resources, Federal University of Ceará, Fortaleza, Brazil.
- Graduate Course of Ecology and Natural Resources, Department of Biology, Campus of Pici, Federal University of Ceará, Fortaleza, 60440-900, Brazil.
| | | | - Fernando Cavalcante
- Ecology and Natural Resources, Federal University of Ceará, Fortaleza, Brazil
| | - Ariel Mesquita
- Biotechnology of Natural Resources, Federal University of Ceará, Fortaleza, Brazil
| | - Claudia Martins
- Graduate Course of Ecology and Natural Resources, Department of Biology, Campus of Pici, Federal University of Ceará, Fortaleza, 60440-900, Brazil
| | - Suzana Martins
- Graduate Course of Ecology and Natural Resources, Department of Biology, Campus of Pici, Federal University of Ceará, Fortaleza, 60440-900, Brazil
| |
Collapse
|
3
|
Saygin H, Tilkili B, Karniyarik S, Baysal A. Culture dependent analysis of bacterial activity, biofilm-formation and oxidative stress of seawater with the contamination of microplastics under climate change consideration. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 922:171103. [PMID: 38402970 DOI: 10.1016/j.scitotenv.2024.171103] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Revised: 02/03/2024] [Accepted: 02/18/2024] [Indexed: 02/27/2024]
Abstract
Temperature changes due to climate change and microplastic contamination are worldwide concerns, creating various problems in the marine environment. Therefore, this study was carried out to discover the impact of different temperatures of seawater exposed to different types of plastic materials on culture dependent bacterial responses and oxidative characteristics. Seawater was exposed to microplastics obtained from various plastic materials at different temperature (-18, +4, +20, and +35 °C) for seven days. Then microplastics were removed from the suspension and microplastic-exposed seawater samples were analyzed for bacterial activity, biofilm formation and oxidative characteristics (antioxidant, catalase, glutathione, and superoxide dismutase) using Gram-negative Pseudomonas aeruginosa and Gram-positive Staphylococcus aureus. The results showed that the activity and biofilm formation of Pseudomonas aeruginosa and Staphylococcus aureus were affected through oxidative stress by catalase, glutathione, and superoxide dismutase due to the microplastic deformation by temperature changes. This study confirms that temperature changes as a result of climate change might influence microplastic degradation and their contamination impact in seawater in terms of bacterial metabolic and oxidation reactions.
Collapse
Affiliation(s)
- Hasan Saygin
- Application and Research Center for Advanced Studies, Istanbul Aydin University, Sefakoy Kucukcekmece, 34295 Istanbul, Turkey
| | - Batuhan Tilkili
- Health Services Vocational School of Higher Education, Istanbul Aydin University, Sefakoy Kucukcekmece, 34295 Istanbul, Turkey
| | - Sinem Karniyarik
- Department of Environmental Engineering, Faculty of Civil Engineering, Istanbul Technical University, Maslak, Sariyer, Istanbul, Turkey
| | - Asli Baysal
- Department of Chemistry, Faculty of Science and Letters, Istanbul Technical University, Maslak, Sariyer, Istanbul, Turkey.
| |
Collapse
|
4
|
Kim J, Lee KK. Seasonal effects on hydrochemistry, microbial diversity, and human health risks in radon-contaminated groundwater areas. ENVIRONMENT INTERNATIONAL 2023; 178:108098. [PMID: 37467531 DOI: 10.1016/j.envint.2023.108098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Revised: 06/12/2023] [Accepted: 07/12/2023] [Indexed: 07/21/2023]
Abstract
Groundwater is an important human resource. Daejeon in South Korea faces severe water quality issues, including radon, uranium, and fluoride pollution, all of which pose health risks to humans. With climate change, threats to potable water, such as heavy rain and typhoons, have become common. Therefore, examining the seasonal effects on groundwater quality and resultant health risks is important for understanding the mechanisms of different hydroclimatological conditions to enable the implementation of sustainable management plans in radon-contaminated groundwater areas. However, this issue has not yet been studied. To bridge this gap, in this study, major ions and microbial community structures were employed and groundwater quality index (GWQI) were calculated with hazard index based on limits set by the World Health Organization (WHO) to investigate the hydrochemical characterization and to assess pollution levels. The results showed that the rainy season had distinct hydrochemical characteristics with high correlations between radon and fluoride, and most groundwater samples collected after the typhoon had characteristics similar to those collected during the dry season, owing to the flow path. Furthermore, the microbial diversity and hazard quotient (HQ) values of fluoride revealed that pollution worsened during the dry season. All of the calculated effective dose values of radon exceeded the threshold limit set by the WHO, despite the low GWQI. Infants and children were particularly susceptible to radon-contaminated groundwater. The statistical results of self-organizing map (SOM) suggested that radon analysis was sufficient for public health intervention in the rainy season; however, in the dry season, combined analyses of radon, fluoride, and microbial diversity played important roles in health risk assessment. Our study presents a comprehensive understanding of radon-contaminated groundwater characteristics under seasonal effects and can serve as a reference for other similar zones to provide significant insights into the effective management of radon contamination.
Collapse
Affiliation(s)
- Jaeyeon Kim
- School of Earth and Environmental Sciences, Seoul National University, Seoul 08826, Republic of Korea
| | - Kang-Kun Lee
- School of Earth and Environmental Sciences, Seoul National University, Seoul 08826, Republic of Korea.
| |
Collapse
|
5
|
Lee HW, Yoon SR, Dang YM, Yun JH, Jeong H, Kim KN, Bae JW, Ha JH. Metatranscriptomic and metataxonomic insights into the ultra-small microbiome of the Korean fermented vegetable, kimchi. Front Microbiol 2022; 13:1026513. [PMID: 36274711 PMCID: PMC9581167 DOI: 10.3389/fmicb.2022.1026513] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2022] [Accepted: 09/20/2022] [Indexed: 11/13/2022] Open
Abstract
Presently, pertinent information on the ultra-small microbiome (USM) in fermented vegetables is still lacking. This study analyzed the metatranscriptome and metataxonome for the USM of kimchi. Tangential flow filtration was used to obtain a USM with a size of 0.2 μm or less from kimchi. The microbial diversity in the USM was compared with that of the normal microbiome (NM). Alpha diversity was higher in the USM than in NM, and the diversity of bacterial members of the NM was higher than that of the USM. At the phylum level, both USM and NM were dominated by Firmicutes. At the genus level, the USM and NM were dominated by Lactobacillus, Leuconostoc, and Weissella, belonging to lactic acid bacteria. However, as alpha diversity is higher in the USM than in the NM, the genus Akkermansia, belonging to the phylum Verrucomicrobia, was detected only in the USM. Compared to the NM, the USM showed a relatively higher ratio of transcripts related to “protein metabolism,” and the USM was suspected to be involved with the viable-but-nonculturable (VBNC) state. When comparing the sub-transcripts related to the “cell wall and capsule” of USM and NM, USM showed a proportion of transcripts suspected of being VBNC. In addition, the RNA virome was also identified, and both the USM and NM were confirmed to be dominated by pepper mild mottle virus (PMMoV). Additionally, the correlation between metataxonome and metatranscriptome identified USM and NM was estimated, however, only limited correlations between metataxonome and metatranscriptome were estimated. This study provided insights into the relationship between the potential metabolic activities of the USM of kimchi and the NM.
Collapse
Affiliation(s)
- Hae-Won Lee
- Hygienic Safety Packaging Research Group, World Institute of Kimchi, Gwangju, South Korea
- Department of Biology, Kyung Hee University, Seoul, South Korea
- Department of Life and Nanopharmaceutical Sciences, Kyung Hee University, Seoul, South Korea
| | - So-Ra Yoon
- Hygienic Safety Packaging Research Group, World Institute of Kimchi, Gwangju, South Korea
| | - Yun-Mi Dang
- Hygienic Safety Packaging Research Group, World Institute of Kimchi, Gwangju, South Korea
| | - Ji-Hyun Yun
- Department of Biology, Kyung Hee University, Seoul, South Korea
- Department of Life and Nanopharmaceutical Sciences, Kyung Hee University, Seoul, South Korea
| | - Hoibin Jeong
- Chuncheon Center, Korea Basic Science Institute (KBSI), Chuncheon, South Korea
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, South Korea
| | - Kil-Nam Kim
- Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, South Korea
| | - Jin-Woo Bae
- Department of Biology, Kyung Hee University, Seoul, South Korea
- Department of Life and Nanopharmaceutical Sciences, Kyung Hee University, Seoul, South Korea
- *Correspondence: Jin-Woo Bae,
| | - Ji-Hyoung Ha
- Hygienic Safety Packaging Research Group, World Institute of Kimchi, Gwangju, South Korea
- Ji-Hyoung Ha,
| |
Collapse
|
6
|
Hiller CX, Schwaller C, Wurzbacher C, Drewes JE. Removal of antibiotic microbial resistance by micro- and ultrafiltration of secondary wastewater effluents at pilot scale. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 838:156052. [PMID: 35598662 DOI: 10.1016/j.scitotenv.2022.156052] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2022] [Revised: 05/04/2022] [Accepted: 05/15/2022] [Indexed: 05/09/2023]
Abstract
Low-pressure membrane filtration was investigated at pilot scale with regard to its removal of antimicrobial resistance genes (ARGs) in conventional secondary treated wastewater plant effluents. While operating microfiltration (MF) and ultrafiltration (UF) membranes, key operational parameters for antimicrobial resistance (AMR) studies and key factors influencing AMR removal efficiencies of low-pressure membrane filtration processes were examined. The main factor for AMR removal was the pore size of the membrane. The formation of the fouling layer on capillary membranes had only a small additive effect on intra- and extrachromosomal ARG removal and a significant additive effect on mobile ARG removal. Using feeds with different ARGs abundances revealed that higher ARG abundance in the feed resulted in higher ARG abundance in the filtrate. Live-Dead cell counting in UF filtrate showed intact bacteria breaking through the UF membrane. Strong correlations between 16S rRNA genes (as surrogate for bacteria quantification) and the sul1 gene in UF filtrate indicated ARBs likely breaking through UF membranes.
Collapse
Affiliation(s)
- Christian X Hiller
- Chair of Urban Water Systems Engineering, Technical University of Munich, Germany
| | - Christoph Schwaller
- Chair of Urban Water Systems Engineering, Technical University of Munich, Germany
| | - Christian Wurzbacher
- Chair of Urban Water Systems Engineering, Technical University of Munich, Germany
| | - Jörg E Drewes
- Chair of Urban Water Systems Engineering, Technical University of Munich, Germany.
| |
Collapse
|
7
|
Hu W, Zhang H, Lin X, Liu R, Bartlam M, Wang Y. Characteristics, Biodiversity, and Cultivation Strategy of Low Nucleic Acid Content Bacteria. Front Microbiol 2022; 13:900669. [PMID: 35783413 PMCID: PMC9240426 DOI: 10.3389/fmicb.2022.900669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Accepted: 05/24/2022] [Indexed: 11/13/2022] Open
Abstract
Low nucleic acid content (LNA) bacteria are ubiquitous and estimated to constitute 20%–90% of the total bacterial community in marine and freshwater environment. LNA bacteria with unique physiological characteristics, including small cell size and small genomes, can pass through 0.45-μm filtration. The researchers came up with different terminologies for low nucleic acid content bacteria based on different research backgrounds, such as: filterable bacteria, oligotrophic bacteria, and low-DNA bacteria. LNA bacteria have an extremely high level of genetic diversity and play an important role in material circulation in oligotrophic environment. However, the majority of LNA bacteria in the environment remain uncultivated. Thus, an important challenge now is to isolate more LNA bacteria from oligotrophic environments and gain insights into their unique metabolic mechanisms and ecological functions. Here, we reviewed LNA bacteria in aquatic environments, focusing on their characteristics, community structure and diversity, functions, and cultivation strategies. Exciting future prospects for LNA bacteria are also discussed.
Collapse
Affiliation(s)
- Wei Hu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai International Advanced Research Institute (Shenzhen Futian), Nankai University, Tianjin, China
| | - Hui Zhang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai International Advanced Research Institute (Shenzhen Futian), Nankai University, Tianjin, China
| | - Xiaowen Lin
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai International Advanced Research Institute (Shenzhen Futian), Nankai University, Tianjin, China
| | - Ruidan Liu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai International Advanced Research Institute (Shenzhen Futian), Nankai University, Tianjin, China
| | - Mark Bartlam
- State Key Laboratory of Medicinal Chemical Biology, College of Life Sciences, Nankai International Advanced Research Institute (Shenzhen Futian), Nankai University, Tianjin, China
| | - Yingying Wang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education), Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai International Advanced Research Institute (Shenzhen Futian), Nankai University, Tianjin, China
- *Correspondence: Yingying Wang,
| |
Collapse
|
8
|
Santos AA, Keim CN, Magalhães VF, Pacheco ABF. Microcystin drives the composition of small-sized bacterioplankton communities from a coastal lagoon. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:33411-33426. [PMID: 35029819 DOI: 10.1007/s11356-022-18613-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Accepted: 01/07/2022] [Indexed: 06/14/2023]
Abstract
Cyanobacterial blooms affect biotic interactions in aquatic ecosystems, including those involving heterotrophic bacteria. Ultra-small microbial communities are found in both surface water and groundwater and include diverse heterotrophic bacteria. Although the taxonomic composition of these communities has been described in some environments, the involvement of these small cells in the fate of environmentally relevant molecules has not been investigated. Here, we aimed to test if small-sized microbial fractions from a polluted urban lagoon were able to degrade the cyanotoxin microcystin (MC). We obtained cells after filtration through 0.45 as well as 0.22 μm membranes and characterized the morphology and taxonomic composition of bacteria before and after incubation with and without microcystin-LR (MC-LR). Communities from different size fractions (< 0.22 and < 0.45 μm) were able to remove the dissolved MC-LR. The originally small-sized cells grew during incubation, as shown by transmission electron microscopy, and changed in both cell size and morphology. The analysis of 16S rDNA sequences revealed that communities originated from < 0.22 and < 0.45 μm fractions diverged in taxonomic composition although they shared certain bacterial taxa. The presence of MC-LR shifted the structure of < 0.45 μm communities in comparison to those maintained without toxin. Actinobacteria was initially dominant and after incubation with MC-LR Proteobacteria predominated. There was a clear enhancement of taxa already known to degrade MC-LR such as Methylophilaceae. Small-sized bacteria constitute a diverse and underestimated fraction of microbial communities, which participate in the dynamics of MC-LR in natural environments.
Collapse
Affiliation(s)
- Allan A Santos
- Laboratory of Ecophysiology and Toxicology of Cyanobacteria, Carlos Chagas Filho Biophysics Institute, Federal University of Rio de Janeiro, Rio de Janeiro, RJ, Brazil.
| | - Carolina N Keim
- Laboratory of Geomicrobiology, Institute of Microbiology Paulo de Goés, Federal University of Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| | - Valéria F Magalhães
- Laboratory of Ecophysiology and Toxicology of Cyanobacteria, Carlos Chagas Filho Biophysics Institute, Federal University of Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| | - Ana Beatriz F Pacheco
- Laboratory of Biological Physics, Carlos Chagas Filho Biophysics Institute, Federal University of Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| |
Collapse
|
9
|
Soler P, Moreno-Mesonero L, Zornoza A, Macián VJ, Moreno Y. Characterization of eukaryotic microbiome and associated bacteria communities in a drinking water treatment plant. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 797:149070. [PMID: 34303230 DOI: 10.1016/j.scitotenv.2021.149070] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Revised: 07/12/2021] [Accepted: 07/12/2021] [Indexed: 06/13/2023]
Abstract
The effectiveness of drinking water treatment is critical to achieve an optimal and safe drinking water. Disinfection is one of the most important steps to eliminate the health concern caused by the microbial population in this type of water. However, no study has evaluated the changes in its microbiome, specially the eukaryotic microbiome, and the fates of opportunistic pathogens generated by UV disinfection with medium-pressure mercury lamps in drinking water treatment plants (DWTPs). In this work, the eukaryotic community composition of a DWTP with UV disinfection was evaluated before and after a UV disinfection treatment by means of Illumina 18S rRNA amplicon-based sequencing. Among the physicochemical parameters analysed, flow and nitrate appeared to be related with the changes in the eukaryotic microbiome shape. Public health concern eukaryotic organisms such as Blastocystis, Entamoeba, Acanthamoeba, Hartmannella, Naegleria, Microsporidium or Caenorhabditis were identified. Additionally, the relation between the occurrence of some human bacterial pathogens and the presence of some eukaryotic organisms has been studied. The presence of some human bacterial pathogens such as Arcobacter, Mycobacterium, Pseudomonas and Parachlamydia were statistically correlated with the presence of some eukaryotic carriers showing the public health risk due to the bacterial pathogens they could shelter.
Collapse
Affiliation(s)
- Patricia Soler
- Empresa Mixta Valenciana de Aguas, S.A. (EMIVASA), Av. del Regne de València, 28, 46005, Valencia, Spain.
| | - Laura Moreno-Mesonero
- Research Institute of Water and Environmental Engineering (IIAMA), Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain.
| | - Andrés Zornoza
- Research Institute of Water and Environmental Engineering (IIAMA), Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain; H2OCITIES, SL. Arte Mayor de la Seda, 15, 46950 Xirivella, Valencia, Spain.
| | - V Javier Macián
- Empresa Mixta Valenciana de Aguas, S.A. (EMIVASA), Av. del Regne de València, 28, 46005, Valencia, Spain; Research Institute of Water and Environmental Engineering (IIAMA), Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain.
| | - Yolanda Moreno
- Research Institute of Water and Environmental Engineering (IIAMA), Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain.
| |
Collapse
|
10
|
Alanin KWS, Junco LMF, Jørgensen JB, Nielsen TK, Rasmussen MA, Kot W, Hansen LH. Metaviromes Reveal the Dynamics of Pseudomonas Host-Specific Phages Cultured and Uncultured by Plaque Assay. Viruses 2021; 13:959. [PMID: 34064231 PMCID: PMC8224292 DOI: 10.3390/v13060959] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 05/14/2021] [Accepted: 05/18/2021] [Indexed: 12/17/2022] Open
Abstract
Isolating single phages using plaque assays is a laborious and time-consuming process. Whether single isolated phages are the most lyse-effective, the most abundant in viromes, or those with the highest ability to make plaques in solid media is not well known. With the increasing accessibility of high-throughput sequencing, metaviromics is often used to describe viruses in environmental samples. By extracting and sequencing metaviromes from organic waste with and without exposure to a host-of-interest, we show a host-related phage community's shift, as well as identify the most enriched phages. Moreover, we isolated plaque-forming single phages using the same virome-host matrix to observe how enrichments in liquid media correspond to the metaviromic data. In this study, we observed a significant shift (p = 0.015) of the 47 identified putative Pseudomonas phages with a minimum twofold change above zero in read abundance when adding a Pseudomonas syringae DC3000 host. Surprisingly, it appears that only two out of five plaque-forming phages from the same organic waste sample, targeting the Pseudomonas strain, were highly abundant in the metavirome, while the other three were almost absent despite host exposure. Lastly, our sequencing results highlight how long reads from Oxford Nanopore elevates the assembly quality of metaviromes, compared to short reads alone.
Collapse
Affiliation(s)
- Katrine Wacenius Skov Alanin
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg C, Denmark; (K.W.S.A.); (L.M.F.J.); (J.B.J.); (T.K.N.)
- Department of Environmental Science, Aarhus University, 4000 Roskilde, Denmark
| | - Laura Milena Forero Junco
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg C, Denmark; (K.W.S.A.); (L.M.F.J.); (J.B.J.); (T.K.N.)
| | - Jacob Bruun Jørgensen
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg C, Denmark; (K.W.S.A.); (L.M.F.J.); (J.B.J.); (T.K.N.)
| | - Tue Kjærgaard Nielsen
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg C, Denmark; (K.W.S.A.); (L.M.F.J.); (J.B.J.); (T.K.N.)
| | - Morten Arendt Rasmussen
- Department of Food Science, University of Copenhagen, 1958 Frederiksberg C, Denmark;
- COPSAC, Copenhagen Prospective Studies on Asthma in Childhood, Herlev and Gentofte Hospital, University of Copenhagen, 2820 Gentofte, Denmark
| | - Witold Kot
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg C, Denmark; (K.W.S.A.); (L.M.F.J.); (J.B.J.); (T.K.N.)
| | - Lars Hestbjerg Hansen
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg C, Denmark; (K.W.S.A.); (L.M.F.J.); (J.B.J.); (T.K.N.)
| |
Collapse
|
11
|
Sułowicz S, Bondarczuk K, Ignatiuk D, Jania JA, Piotrowska-Seget Z. Microbial communities from subglacial water of naled ice bodies in the forefield of Werenskioldbreen, Svalbard. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 723:138025. [PMID: 32213417 DOI: 10.1016/j.scitotenv.2020.138025] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2019] [Revised: 03/16/2020] [Accepted: 03/16/2020] [Indexed: 06/10/2023]
Abstract
We assessed the structure of microbial communities in the subglacial drainage system of the Werenskioldbreen glacier, Svalbard, which consists of three independent channels. Dome-shaped naled ice bodies that had been forming and releasing subglacial water in the glacial forefield during accumulations season were used to study glacial microbiome. We tested the hypothesis that the properties of the water transported by these channels are site-dependent and influence bacterial diversity. We therefore established the phylogenetic structure of the subglacial microbial communities using next generation sequencing (NGS) of the 16S rRNA gene and performed bioinformatics analyses. A total of 1409 OTUs (operational taxonomic units) belonged to 40 phyla; mostly Proteobacteria, Gracilibacteria, Bacteroidetes, Actinobacteria and Parcubacteria were identified. Sites located on the edge of Werenskioldbreen forefield (Angell, Kvisla) were mainly dominated by Betaproteobacteria. In the central site (Dusan) domination of Epsilonproteobacteria class was observed. Gracilibacteria (GN02) and Gammaproteobacteria represented the dominant taxa only in the sample Kvisla 2. Principal Coordinate Analysis (PCoA) of beta diversity revealed that phylogenetic profiles grouped in three different clusters according to the sampling site. Moreover, higher similarity of bacterial communities from Angell and Kvisla compared to Dusan was confirmed by cluster analysis and Venn diagrams. The highest alpha index values was measured in Dusan. Richness and phylogenetic diversity indices were significantly (p < .05) and positively correlated with pH values of subglacial water and negatively with concentration of Cl-, Br-, and NO3- anions. These anions negatively impacted the values of richness indices but positively correlated with abundance of some microbial phyla. Our results indicated that subglacial water from naled ice bodies offer the possibility to study the glacial microbiome. In the studied subglacial water, the microbial community structure was sampling site specific and dependent on the water properties, which in turn were probably influenced by the local bedrock composition.
Collapse
Affiliation(s)
- Sławomir Sułowicz
- University of Silesia in Katowice, Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, Jagiellonska 28, 40-032 Katowice, Poland.
| | - Kinga Bondarczuk
- Medical University of Bialystok, Centre for Bioinformatics and Data Analysis, Waszyngtona 13a, 15-269 Bialystok, Poland
| | - Dariusz Ignatiuk
- University of Silesia in Katowice, Faculty of Natural Sciences, Institute of Earth Sciences, Bedzinska 60, 41-205 Sosnowiec, Poland; Svalbard Integrated Arctic Earth Observing System (SIOS), SIOS Knowledge Centre, Svalbard Science Centre, P.O. Box 156, N-9171 Longyearbyen, Svalbard, Norway
| | - Jacek A Jania
- University of Silesia in Katowice, Faculty of Natural Sciences, Institute of Earth Sciences, Bedzinska 60, 41-205 Sosnowiec, Poland
| | - Zofia Piotrowska-Seget
- University of Silesia in Katowice, Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, Jagiellonska 28, 40-032 Katowice, Poland
| |
Collapse
|