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Zhou W, Li W, Chen J, Zhou Y, Wei Z, Gong L. Microbial diversity in full-scale water supply systems through sequencing technology: a review. RSC Adv 2021; 11:25484-25496. [PMID: 35478887 PMCID: PMC9037190 DOI: 10.1039/d1ra03680g] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Accepted: 07/10/2021] [Indexed: 01/07/2023] Open
Abstract
The prevalence of microorganisms in full-scale water supply systems raises concerns about their pathogenicity and threats to public health. Clean tap water is essential for public health safety. The conditions of the water treatment process from the source water to tap water, including source water quality, water treatment processes, the drinking water distribution system (DWDS), and building water supply systems (BWSSs) in buildings, greatly influence the bacterial community in tap water. Given the importance of drinking water biosafety, the study of microbial diversity from source water to tap water is essential. With the development of molecular biology methods and bioinformatics in recent years, sequencing technology has been applied to study bacterial communities in full-scale water supply systems. In this paper, changes in the bacterial community and the influence of each treatment stage on microbial diversity in full-scale water supply systems are classified and analyzed. Microbial traceability analysis and control are discussed, and suggestions for future drinking water biosafety research and its prospects are proposed.
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Affiliation(s)
- Wei Zhou
- College of Environmental Science and Engineering, Tongji University Shanghai 200092 China .,State Key Laboratory of Pollution Control and Resource Reuse, Tongji University Shanghai 200092 China
| | - Weiying Li
- College of Environmental Science and Engineering, Tongji University Shanghai 200092 China .,State Key Laboratory of Pollution Control and Resource Reuse, Tongji University Shanghai 200092 China
| | - Jiping Chen
- College of Environmental Science and Engineering, Tongji University Shanghai 200092 China
| | - Yu Zhou
- College of Environmental Science and Engineering, Tongji University Shanghai 200092 China
| | - Zhongqing Wei
- Fuzhou Water Affairs Investment Development Co., Ltd. Fuzhou 350000 Fujian China
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Liu Q, Wang J, Ren H. Bacterial assembly and succession in the start-up phase of an IFAS metacommunity: The role of AHL-driven quorum sensing. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 777:145870. [PMID: 33689899 DOI: 10.1016/j.scitotenv.2021.145870] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Revised: 02/07/2021] [Accepted: 02/09/2021] [Indexed: 05/06/2023]
Abstract
Quorum sensing (QS) plays an important role in biofilm formation and the start-up of biofilm-based reactors, while its involvement in bacterial assembly throughout biofilm development remains underexplored. We investigated the assembly and succession of the bacterial community in a full-scale integrated fixed-film activated sludge (IFAS) process, with emphasis on N-acylhomoserine lactone (AHL)-driven QS. Biofilm development could be divided into two major periods, (i) young biofilm formation phase and (ii) biofilm maturity and update phase. Mature biofilms exhibited lower levels of AHLs compared with young biofilms (p > 0.05). A structural equation model, constructed to assess the linkages between AHL level and bacterial community composition as well as environmental factors, indicated that pH significantly influenced both bacterial community composition and AHL content. Along with biofilm development, there was a negative correlation between AHL concentration and community composition variation (coefficients of -0.367 and -0.329). Regarding the lower AHL level in mature biofilms, these results were consistent with the phylogenetic molecular ecological networks (pMENs) analysis, indicating that quorum-quenching (QQ) bacteria occur in keystone taxa in mature biofilms. In addition, based on the pMENs results, the proportion of positive interactions increased from 77.64 to 82.39% in mature biofilms compared to young biofilms, indicating that bacterial cooperation was strengthened in mature biofilms. The QS bacteria were predominant in the keystone taxa of pMENs, with proportions being increased to 62% in mature biofilms, which is conducive for biofilm development. Overall, this study improves our understanding of the involvement of AHL-mediated QS in biofilm development.
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Affiliation(s)
- Qiuju Liu
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, Jiangsu, PR China
| | - Jinfeng Wang
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, Jiangsu, PR China
| | - Hongqiang Ren
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023, Jiangsu, PR China.
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Stevens AH, Childers D, Fox-Powell M, Nicholson N, Jhoti E, Cockell CS. Growth, Viability, and Death of Planktonic and Biofilm Sphingomonas desiccabilis in Simulated Martian Brines. ASTROBIOLOGY 2019; 19:87-98. [PMID: 30048150 PMCID: PMC6338574 DOI: 10.1089/ast.2018.1840] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Accepted: 06/12/2018] [Indexed: 05/22/2023]
Abstract
Aqueous solutions on Mars are theorized to contain very different ion compositions than those on Earth. To determine the effect of such solutions on typical environmental micro-organisms, which could be released from robotic spacecraft or human exploration activity, we investigated the resistance of Sphingomonas desiccabilis to brines that simulate the composition of martian aqueous environments. S. desiccabilis is a desiccation-resistant, biofilm-forming microbe found in desert crusts. The viability of cells in both planktonic and biofilm forms was measured after exposure to simulated martian brines. Planktonic cells showed a loss of viability over the course of several hours in almost all of the seven brines tested. Biofilms conferred greater resistance to all the brines, including those with low water activity and pH, but even cells in biofilms showed a complete loss of viability in <6 h in the harsher brines and in <2 days in the less harsh brines. One brine, however, allowed the microbes to maintain viability over several days, despite having a water activity and pH lower and ionic strength higher than brines that reduced viability over the same timescales, suggesting important ion-specific effects. These data show that biofilm-forming cells have a greater capacity to resist martian aqueous extremes, but that evaporative or deliquescent brines are likely to be destructive to many organisms over relatively short timescales, with implications for the habitability of Mars and for micro-organisms dispersed by robotic or human explorers.
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Affiliation(s)
- Adam H. Stevens
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, United Kingdom
| | - Delma Childers
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, United Kingdom
- Aberdeen Fungal Group, Institute of Medical Sciences, MRC Centre for Medical Mycology at the University of Aberdeen, Aberdeen, United Kingdom
| | - Mark Fox-Powell
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, United Kingdom
- School of Earth and Environmental Sciences, University of St. Andrews, St. Andrews, United Kingdom
| | - Natasha Nicholson
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, United Kingdom
| | - Elisha Jhoti
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, United Kingdom
| | - Charles S. Cockell
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, United Kingdom
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Souffreau C, Busschaert P, Denis C, Van Wichelen J, Lievens B, Vyverman W, De Meester L. A comparative hierarchical analysis of bacterioplankton and biofilm metacommunity structure in an interconnected pond system. Environ Microbiol 2018; 20:1271-1282. [PMID: 29441664 DOI: 10.1111/1462-2920.14073] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2016] [Accepted: 02/11/2018] [Indexed: 11/30/2022]
Abstract
It is unknown whether bacterioplankton and biofilm communities are structured by the same ecological processes, and whether they influence each other through continuous dispersal (known as mass effects). Using a hierarchical sampling approach we compared the relative importance of ecological processes structuring the dominant fraction (relative abundance ≥0.1%) of bacterioplankton and biofilm communities from three microhabitats (open water, Nuphar and Phragmites sites) at within- and among-pond scale in a set of 14 interconnected shallow ponds. Our results demonstrate that while bacterioplankton and biofilm communities are highly distinct, a similar hierarchy of ecological processes is acting on them. For both community types, most variation in community composition was determined by pond identity and environmental variables, with no effect of space. The highest β-diversity within each community type was observed among ponds, while microhabitat type (Nuphar, Phragmites, open water) significantly influenced biofilm communities but not bacterioplankton. Mass effects among bacterioplankton and biofilm communities were not detected, as suggested by the absence of within-site covariation of biofilm and bacterioplankton communities. Both biofilm and plankton communities were thus highly structured by environmental factors (i.e., species sorting), with among-lake variation being more important than within-lake variation, whereas dispersal limitation and mass effects were not observed.
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Affiliation(s)
- Caroline Souffreau
- Laboratory of Aquatic Ecology Evolution & Conservation, KU Leuven, Leuven, Belgium
| | - Pieter Busschaert
- Laboratory for Process Microbial Ecology and Bioinspirational Management, KU Leuven, Campus De Nayer, St.-Katelijne-Waver, Belgium
| | - Carla Denis
- Laboratory of Aquatic Ecology Evolution & Conservation, KU Leuven, Leuven, Belgium
| | - Jeroen Van Wichelen
- Laboratory of Protistology and Aquatic Ecology, Ghent University, Gent, Belgium.,Research Institute for Nature and Forest (INBO), Brussels, Belgium
| | - Bart Lievens
- Laboratory for Process Microbial Ecology and Bioinspirational Management, KU Leuven, Campus De Nayer, St.-Katelijne-Waver, Belgium
| | - Wim Vyverman
- Laboratory of Protistology and Aquatic Ecology, Ghent University, Gent, Belgium
| | - Luc De Meester
- Laboratory of Aquatic Ecology Evolution & Conservation, KU Leuven, Leuven, Belgium
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KleinJan H, Jeanthon C, Boyen C, Dittami SM. Exploring the Cultivable Ectocarpus Microbiome. Front Microbiol 2017; 8:2456. [PMID: 29312170 PMCID: PMC5732352 DOI: 10.3389/fmicb.2017.02456] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Accepted: 11/27/2017] [Indexed: 01/08/2023] Open
Abstract
Coastal areas form the major habitat of brown macroalgae, photosynthetic multicellular eukaryotes that have great ecological value and industrial potential. Macroalgal growth, development, and physiology are influenced by the microbial community they accommodate. Studying the algal microbiome should thus increase our fundamental understanding of algal biology and may help to improve culturing efforts. Currently, a freshwater strain of the brown macroalga Ectocarpus subulatus is being developed as a model organism for brown macroalgal physiology and algal microbiome studies. It can grow in high and low salinities depending on which microbes it hosts. However, the molecular mechanisms involved in this process are still unclear. Cultivation of Ectocarpus-associated bacteria is the first step toward the development of a model system for in vitro functional studies of brown macroalgal–bacterial interactions during abiotic stress. The main aim of the present study is thus to provide an extensive collection of cultivable E. subulatus-associated bacteria. To meet the variety of metabolic demands of Ectocarpus-associated bacteria, several isolation techniques were applied, i.e., direct plating and dilution-to-extinction cultivation techniques, each with chemically defined and undefined bacterial growth media. Algal tissue and algal growth media were directly used as inoculum, or they were pretreated with antibiotics, by filtration, or by digestion of algal cell walls. In total, 388 isolates were identified falling into 33 genera (46 distinct strains), of which Halomonas (Gammaproteobacteria), Bosea (Alphaproteobacteria), and Limnobacter (Betaproteobacteria) were the most abundant. Comparisons with 16S rRNA gene metabarcoding data showed that culturability in this study was remarkably high (∼50%), although several cultivable strains were not detected or only present in extremely low abundance in the libraries. These undetected bacteria could be considered as part of the rare biosphere and they may form the basis for the temporal changes in the Ectocarpus microbiome.
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Affiliation(s)
- Hetty KleinJan
- Sorbonne Universités, CNRS-UPMC, Station Biologique de Roscoff, UMR8227, Integrative Biology of Marine Models, Roscoff, France
| | - Christian Jeanthon
- CNRS, Station Biologique de Roscoff, UMR7144, Adaptation et Diversité en Milieu Marin, Roscoff, France.,Sorbonne Universités, UPMC Univ Paris 06, Station Biologique de Roscoff, UMR7144, Adaptation et Diversité en Milieu Marin, Roscoff, France
| | - Catherine Boyen
- Sorbonne Universités, CNRS-UPMC, Station Biologique de Roscoff, UMR8227, Integrative Biology of Marine Models, Roscoff, France
| | - Simon M Dittami
- Sorbonne Universités, CNRS-UPMC, Station Biologique de Roscoff, UMR8227, Integrative Biology of Marine Models, Roscoff, France
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Guo XP, Niu ZS, Lu DP, Feng JN, Chen YR, Tou FY, Liu M, Yang Y. Bacterial community structure in the intertidal biofilm along the Yangtze Estuary, China. MARINE POLLUTION BULLETIN 2017; 124:314-320. [PMID: 28755810 DOI: 10.1016/j.marpolbul.2017.07.051] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2017] [Revised: 07/20/2017] [Accepted: 07/20/2017] [Indexed: 06/07/2023]
Abstract
In this study, the 16S rRNA-based Illumina MiSeq sequencing was used to investigate the bacterial community structure and composition of intertidal biofilm taken along the Yangtze Estuary. The results showed that 680,721 valid sequences of seven samples were assigned to 147,239 operational taxonomic units, which belonged to 49 phyla, 246 family and 314 genera. Compared to other studies on water and sediments in the study area, biofilms showed highest index of bacterial diversity and abundances. At different taxonomic levels, both dominant taxa and their abundances varied among the seven samples, with Proteobacteria as the dominant phylum in general. Principal component analysis and cluster analysis revealed that bacterial communities at WSK differed from those at other sampling sites. Salinity, dissolved oxygen, pH and nutrients were the vital environmental factors to influence the bacterial community structure of biofilms. These results may provide a new insight into the microbial ecology in estuarine environments.
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Affiliation(s)
- Xing-Pan Guo
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Zuo-Shun Niu
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Da-Pei Lu
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Jing-Nan Feng
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Yu-Ru Chen
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Fei-Yun Tou
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Min Liu
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Yi Yang
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographical Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China; State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 3663 North Zhongshan Road, Shanghai 200062, China.
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7
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Corteselli EM, Aitken MD, Singleton DR. Rugosibacter aromaticivorans gen. nov., sp. nov., a bacterium within the family Rhodocyclaceae, isolated from contaminated soil, capable of degrading aromatic compounds. Int J Syst Evol Microbiol 2017; 67:311-318. [PMID: 27902243 DOI: 10.1099/ijsem.0.001622] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A bacterial strain designated Ca6T was isolated from polycyclic aromatic hydrocarbon (PAH)-contaminated soil from the site of a former manufactured gas plant in Charlotte, NC, USA, and linked phylogenetically to the family Rhodocyclaceae of the class Betaproteobacteria. Its 16S rRNA gene sequence was highly similar to globally distributed environmental sequences, including those previously designated 'Pyrene Group 1' demonstrated to grow on the PAHs phenanthrene and pyrene by stable-isotope probing. The most closely related described relative was Sulfuritalea hydrogenivorans strain sk43HT (93.6 % 16S rRNA gene sequence identity). In addition to a limited number of organic acids, Ca6T was capable of growth on the monoaromatic compounds benzene and toluene, and the azaarene carbazole, as sole sources of carbon and energy. Growth on the PAHs phenanthrene and pyrene was also confirmed. Optimal growth was observed aerobically under mesophilic temperature, neutral pH and low salinity conditions. Major fatty acids present included summed feature 3 (C16 : 1ω7c or C16 : 1ω6c) and C16 : 0. The DNA G+C content of the single chromosome was 55.14 mol% as determined by complete genome sequencing. Due to its distinct genetic and physiological properties, strain Ca6T is proposed as a member of a novel genus and species within the family Rhodocyclaceae, for which the name Rugosibacter aromaticivorans gen. nov., sp. nov. is proposed. The type strain of the species is Ca6T (=ATCC TSD-59T=DSM 103039T).
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Affiliation(s)
- Elizabeth M Corteselli
- Department of Environmental Sciences and Engineering, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, NC 27599-7431, USA
| | - Michael D Aitken
- Department of Environmental Sciences and Engineering, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, NC 27599-7431, USA
| | - David R Singleton
- Department of Environmental Sciences and Engineering, Gillings School of Global Public Health, University of North Carolina at Chapel Hill, NC 27599-7431, USA
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Cochero J, Licursi M, Gómez N. Effects of pulse and press additions of salt on biofilms of nutrient-rich streams. THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 579:1496-1503. [PMID: 27916312 DOI: 10.1016/j.scitotenv.2016.11.152] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2016] [Revised: 11/21/2016] [Accepted: 11/21/2016] [Indexed: 06/06/2023]
Abstract
Chronic and pulse increments of salinity can cause different consequences on the aquatic communities, and its effects are related to factors such as the magnitude, frequency and ionic composition, as well as on the baseline salt concentrations in the water. The aim of this study was to explore the responses of the biofilms from a nutrient-rich stream to both pulse and chronic additions of salt, along with their recovery after the stressor had been removed. For this purpose, a microcosm study was conducted exposing biofilms to water enriched with sodium chloride in two treatments (press and pulse), and comparing the changes in the biofilm with control microcosms without salt additions. The experiment lasted 72h, and the variables measured included bacterial density, chlorophyll-a concentration, community composition, total carbohydrate content, oxygen consumption and the percentage of nuclear alterations in diatoms. Both treatments resulted in a decrease in the bacterial density of the biofilm and in oxygen consumption; the chronic treatment in particular also caused an increased percentage of nuclear abnormalities in the diatom assemblage. The biofilm recovered to control levels after the treatments had been discontinued for 72h. We concluded that the biofilms can be altered significantly under both chronic and pulse additions of salt even after a short-term exposure, and that the community can recover if the stressor is withdrawn.
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Affiliation(s)
- Joaquín Cochero
- Instituto de Limnología "Dr. Raúl A. Ringuelet", Facultad de Ciencias Naturales y Museo, Universidad Nacional de La Plata, 1900 La Plata, Argentina; CONICET, Consejo Nacional de Investigaciones Científicas y Tecnológicas, Argentina.
| | - Magdalena Licursi
- Instituto de Limnología "Dr. Raúl A. Ringuelet", Facultad de Ciencias Naturales y Museo, Universidad Nacional de La Plata, 1900 La Plata, Argentina; CONICET, Consejo Nacional de Investigaciones Científicas y Tecnológicas, Argentina; Instituto Nacional de Limnología, Consejo Nacional de Investigaciones Científicas y Técnicas, Universidad Nacional del Litoral, Ciudad Universitaria, Paraje El Pozo s/n, CP 3000 Santa Fe, Argentina
| | - Nora Gómez
- Instituto de Limnología "Dr. Raúl A. Ringuelet", Facultad de Ciencias Naturales y Museo, Universidad Nacional de La Plata, 1900 La Plata, Argentina; CONICET, Consejo Nacional de Investigaciones Científicas y Tecnológicas, Argentina
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