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Le VV, Tran QG, Ko SR, Oh HM, Ahn CY. Insights into cyanobacterial blooms through the lens of omics. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 934:173028. [PMID: 38723963 DOI: 10.1016/j.scitotenv.2024.173028] [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: 12/26/2023] [Revised: 05/04/2024] [Accepted: 05/04/2024] [Indexed: 05/20/2024]
Abstract
Cyanobacteria are oxygen-producing photosynthetic bacteria that convert carbon dioxide into biomass upon exposure to sunlight. However, favorable conditions cause harmful cyanobacterial blooms (HCBs), which are the dense accumulation of biomass at the water surface or subsurface, posing threats to freshwater ecosystems and human health. Understanding the mechanisms underlying cyanobacterial bloom formation is crucial for effective management. In this regard, recent advancements in omics technologies have provided valuable insights into HCBs, which have raised expectations to develop more effective control methods in the near future. This literature review aims to present the genomic architecture, adaptive mechanisms, microbial interactions, and ecological impacts of HCBs through the lens of omics. Genomic analysis indicates that the genome plasticity of cyanobacteria has enabled their resilience and effective adaptation to environmental changes. Transcriptomic investigations have revealed that cyanobacteria use various strategies for adapting to environmental stress. Additionally, metagenomic and metatranscriptomic analyses have emphasized the significant role of the microbial community in regulating HCBs. Finally, we offer perspectives on potential opportunities for further research in this field.
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Affiliation(s)
- Ve Van Le
- Cell factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Republic of Korea
| | | | - So-Ra Ko
- Cell factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Republic of Korea
| | - Hee-Mock Oh
- Cell factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Republic of Korea; Department of Environmental Biotechnology, KRIBB School of Biotechnology, University of Science and Technology, Daejeon 34113, Republic of Korea
| | - Chi-Yong Ahn
- Cell factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, 125 Gwahak-ro, Yuseong-gu, Daejeon 34141, Republic of Korea; Department of Environmental Biotechnology, KRIBB School of Biotechnology, University of Science and Technology, Daejeon 34113, Republic of Korea.
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Shi X, Wang L, Chen A, Yu W, Liu Y, Huang X, Long X, Du Y, Qu D. Enhancing water quality and ecosystems of reclaimed water-replenished river: A case study of Dongsha River, Beijing, China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 926:172024. [PMID: 38547989 DOI: 10.1016/j.scitotenv.2024.172024] [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: 11/14/2023] [Revised: 03/07/2024] [Accepted: 03/25/2024] [Indexed: 04/04/2024]
Abstract
The use of reclaimed water for urban river replenishment has raised concerns regarding its impact on water quality and aquatic ecosystems. This study aims to reveal the improvements seen in an urban river undergoing a practical water eco-remediation after being replenished with reclaimed water. A one-year monitoring of water quality, phytoplankton, and zooplankton was carried out in Dongsha River undergoing eco-remediation in Beijing, China. The results showed that compared to the unrestored river, the concentrations of COD, NH4+-N, TP, and TN decreased by 28.22 ± 7.88 %, 40.24 ± 11.77 %, 44.17 ± 17.29 %, and 28.66 ± 10.39 % in the restoration project area, respectively. The concentration of Chlorophyll-a in the restoration area was maintained below 40 μg/L. During summer, when algal growth is vigorous, the density of Cyanophyta in the unrestored river decreased from 46.84 × 104cells/L to 16.32 × 104cells/L in the restored area, while that of Chlorophyta decreased from 41.61 × 104cells/L to 11.87 × 104cells/L, a reduction of 65.16 % and 71.47 %, respectively. The dominant phytoplankton species were replaced with Bacillariophyta, such as Synedra sp. and Nitzschia sp., indicating that the restoration of aquatic plants reduces the risk of Cyanophyta blooms. Zooplankton species also changed in the restoration area, especially during summer. The density of pollution-tolerant Rotifer and Protozoa decreased by 31.06 % and 27.22 %, while the density of clean water indicating Cladocera increased by 101.19 %. We further calculated the diversity and evenness index of phytoplankton and zooplankton within and outside the restoration area. The results showed that the Shannon-Weaver index for phytoplankton and zooplankton in the restoration area was 2.1 and 1.91, which was higher than those in the river (1.84 and 1.82). This further confirmed that aquatic plant restoration has positive effects. This study can provide a practical reference and theoretical basis for the implementation of water ecological restoration projects in other reclaimed water rivers in China.
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Affiliation(s)
- Xinlei Shi
- Beijing Key Laboratory for Source Control Technology of Water Pollution, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China; Engineering Research Center for Water Pollution Source Control & Eco-remediation, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Liping Wang
- School of Geology and Environment, Xi'an University of Science and Technology, Xi'an 710054, China
| | - Ai Chen
- Beijing Key Laboratory for Source Control Technology of Water Pollution, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China; Engineering Research Center for Water Pollution Source Control & Eco-remediation, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Wenze Yu
- Beijing Key Laboratory for Source Control Technology of Water Pollution, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Yongze Liu
- Beijing Key Laboratory for Source Control Technology of Water Pollution, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China; Engineering Research Center for Water Pollution Source Control & Eco-remediation, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Xueli Huang
- Beijing Shanheyuan Environmental Technology Co., Ltd, Shahe Town, Changping District, Beijing 102206, China
| | - Xiaoyan Long
- Beijing Shanheyuan Environmental Technology Co., Ltd, Shahe Town, Changping District, Beijing 102206, China
| | - Yuqi Du
- Beijing Shanheyuan Environmental Technology Co., Ltd, Shahe Town, Changping District, Beijing 102206, China
| | - Dan Qu
- Beijing Key Laboratory for Source Control Technology of Water Pollution, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China; Engineering Research Center for Water Pollution Source Control & Eco-remediation, College of Environmental Science and Engineering, Beijing Forestry University, 35 Qinghua East Road, Haidian District, Beijing 100083, China.
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Lima NM, Dos Santos GF, da Silva Lima G, Vaz BG. Advances in Mass Spectrometry-Metabolomics Based Approaches. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2023; 1439:101-122. [PMID: 37843807 DOI: 10.1007/978-3-031-41741-2_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/17/2023]
Abstract
Highly selective and sensitive analytical techniques are necessary for microbial metabolomics due to the complexity of the microbial sample matrix. Hence, mass spectrometry (MS) has been successfully applied in microbial metabolomics due to its high precision, versatility, sensitivity, and wide dynamic range. The different analytical tools using MS have been employed in microbial metabolomics investigations and can contribute to the discovery or accelerate the search for bioactive substances. The coupling with chromatographic and electrophoretic separation techniques has resulted in more efficient technologies for the analysis of microbial compounds occurring in trace levels. This book chapter describes the current advances in the application of mass spectrometry-based metabolomics in the search for new biologically active agents from microbial sources; the development of new approaches for in silico annotation of natural products; the different technologies employing mass spectrometry imaging to deliver more comprehensive analysis and elucidate the metabolome involved in ecological interactions as they enable visualization of the spatial dispersion of small molecules. We also describe other ambient ionization techniques applied to the fingerprint of microbial natural products and modern techniques such as ion mobility mass spectrometry used to microbial metabolomic analyses and the dereplication of natural microbial products through MS.
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Banerji A, Benesh K. Incorporating Microbial Species Interaction in Management of Freshwater Toxic Cyanobacteria: A Systems Science Challenge. AQUATIC ECOLOGY 2022; 3:570-587. [PMID: 36643215 PMCID: PMC9836389 DOI: 10.3390/ecologies3040042] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Water resources are critically important, but also pose risks of exposure to toxic and pathogenic microbes. Increasingly, a concern is toxic cyanobacteria, which have been linked to the death and disease of humans, domesticated animals, and wildlife in freshwater systems worldwide. Management approaches successful at reducing cyanobacterial abundance and toxin production have tended to be short-term solutions applied on small scales (e.g., algaecide application) or solutions that entail difficult multifaceted investments (e.g., modification of landscape and land use to reduce nutrient inputs). However, implementation of these approaches can be undermined by microbial species interactions that (a) provide toxic cyanobacteria with protection against the method of control or (b) permit toxic cyanobacteria to be replaced by other significant microbial threats. Understanding these interactions is necessary to avoid such scenarios and can provide a framework for novel strategies to enhance freshwater resource management via systems science (e.g., pairing existing physical and chemical approaches against cyanobacteria with ecological strategies such as manipulation of natural enemies, targeting of facilitators, and reduction of benthic occupancy and recruitment). Here, we review pertinent examples of the interactions and highlight potential applications of what is known.
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Affiliation(s)
- Aabir Banerji
- US Environmental Protection Agency, Office of Research & Development, Duluth, MN 55804, USA
| | - Kasey Benesh
- Oak Ridge Institute for Science & Education, Oak Ridge, TN 37830, USA
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Kong Y, Wang Y, Miao L, Mo S, Li J, Zheng X. Recent Advances in the Research on the Anticyanobacterial Effects and Biodegradation Mechanisms of Microcystis aeruginosa with Microorganisms. Microorganisms 2022; 10:microorganisms10061136. [PMID: 35744654 PMCID: PMC9229865 DOI: 10.3390/microorganisms10061136] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Revised: 05/28/2022] [Accepted: 05/29/2022] [Indexed: 02/04/2023] Open
Abstract
Harmful algal blooms (HABs) have attracted great attention around the world due to the numerous negative effects such as algal organic matters and cyanobacterial toxins in drinking water treatments. As an economic and environmentally friendly technology, microorganisms have been widely used for pollution control and remediation, especially in the inhibition/biodegradation of the toxic cyanobacterium Microcystis aeruginosa in eutrophic water; moreover, some certain anticyanobacterial microorganisms can degrade microcystins at the same time. Therefore, this review aims to provide information regarding the current status of M. aeruginosa inhibition/biodegradation microorganisms and the acute toxicities of anticyanobacterial substances secreted by microorganisms. Based on the available literature, the anticyanobacterial modes and mechanisms, as well as the in situ application of anticyanobacterial microorganisms are elucidated in this review. This review aims to enhance understanding the anticyanobacterial microorganisms and provides a rational approach towards the future applications.
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Affiliation(s)
- Yun Kong
- College of Resources and Environment, Yangtze University, Wuhan 430100, China;
- State Key Laboratory of Eco-Hydraulics in Northwest Arid Region, Xi’an University of Technology, Xi’an 710048, China; (S.M.); (J.L.); (X.Z.)
- Key Laboratory of Water Pollution Control and Environmental Safety of Zhejiang Province, Hangzhou 310058, China
- Correspondence: ; Tel./Fax: +86-27-69111182
| | - Yue Wang
- College of Resources and Environment, Yangtze University, Wuhan 430100, China;
| | - Lihong Miao
- School of Biology and Pharmaceutical Engineering, Wuhan Polytechnic University, Wuhan 430023, China;
| | - Shuhong Mo
- State Key Laboratory of Eco-Hydraulics in Northwest Arid Region, Xi’an University of Technology, Xi’an 710048, China; (S.M.); (J.L.); (X.Z.)
| | - Jiake Li
- State Key Laboratory of Eco-Hydraulics in Northwest Arid Region, Xi’an University of Technology, Xi’an 710048, China; (S.M.); (J.L.); (X.Z.)
| | - Xing Zheng
- State Key Laboratory of Eco-Hydraulics in Northwest Arid Region, Xi’an University of Technology, Xi’an 710048, China; (S.M.); (J.L.); (X.Z.)
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Understanding Interaction Patterns within Deep-Sea Microbial Communities and Their Potential Applications. Mar Drugs 2022; 20:md20020108. [PMID: 35200637 PMCID: PMC8874374 DOI: 10.3390/md20020108] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2021] [Revised: 01/17/2022] [Accepted: 01/21/2022] [Indexed: 11/17/2022] Open
Abstract
Environmental microbes living in communities engage in complex interspecies interactions that are challenging to decipher. Nevertheless, the interactions provide the basis for shaping community structure and functioning, which is crucial for ecosystem service. In addition, microbial interactions facilitate specific adaptation and ecological evolution processes particularly essential for microbial communities dwelling in resource-limiting habitats, such as the deep oceans. Recent technological and knowledge advancements provide an opportunity for the study of interactions within complex microbial communities, such as those inhabiting deep-sea waters and sediments. The microbial interaction studies provide insights into developing new strategies for biotechnical applications. For example, cooperative microbial interactions drive the degradation of complex organic matter such as chitins and celluloses. Such microbiologically-driven biogeochemical processes stimulate creative designs in many applied sciences. Understanding the interaction processes and mechanisms provides the basis for the development of synthetic communities and consequently the achievement of specific community functions. Microbial community engineering has many application potentials, including the production of novel antibiotics, biofuels, and other valuable chemicals and biomaterials. It can also be developed into biotechniques for waste processing and environmental contaminant bioremediation. This review summarizes our current understanding of the microbial interaction mechanisms and emerging techniques for inferring interactions in deep-sea microbial communities, aiding in future biotechnological and therapeutic applications.
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Han J, Yin Y, Xu D, Wang H, Yu S, Han D, Niu Y, Xu R. Growth inhibition and oxidative damage of Microcystis aeruginosa induced by aqueous extract of different submerged macrophytes. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:53224-53238. [PMID: 34023990 DOI: 10.1007/s11356-021-14459-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Accepted: 05/13/2021] [Indexed: 06/12/2023]
Abstract
With the increasing eutrophication of the aquatic environments, cyanobacteria blooms caused certain damage to the animals and plants in the aquatic environments. In this experiment, two species were selected from six species of submerged macrophytes, the experimental conditions were changed to achieve the best inhibitory effect on Microcystis aeruginosa, and oxidative damage analysis was carried out. The experiment results demonstrated that the inhibition rate of Vallisneria natans and Ceratophyllum demersum was nearly 100% at the concentration of 3 g/L after 15 days of anaerobic soaking extract. In addition, the longer the soaking time of the two submerged macrophytes, the weaker the photosynthesis effect, and the lower the chlorophyll fluorescence parameters, the more obvious the inhibition effect on M. aeruginosa. Lipid peroxidation injury of M. aeruginosa could be reflected by malondialdehyde (MDA) concentration. The MDA concentration in the experimental group was significantly higher than the control group. Results showed that V. natans and C. demersum could induce oxidative damage in M. aeruginosa. It was also observed that the secondary metabolites produced by V. natans were mainly fatty acids (e.g., the oxidative acid was 6.92 w/%, and the successful acid was 9.85 w/%) which inhibited M. aeruginosa in gas chromatography-mass spectrometry (GC-MS). The main secondary metabolites in C. demersum were hydroxyl acids (e.g., the 4-hydroxy-3-methoxyphenylacetic acid was 24.33 w/%), which could inhibit the algae through allelopathy. This study provided reference for submerged macrophytes to inhibit M. aeruginosa under different conditions.
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Affiliation(s)
- Jinlong Han
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
| | - Yue Yin
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
- North China University of Science and Technology Affiliated Hospital, Tangshan, 063000, People's Republic of China
| | - Duo Xu
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
| | - Hao Wang
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China.
| | - Shuang Yu
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
| | - Dongyun Han
- College of Chemical Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
| | - Yunxia Niu
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
| | - Runyu Xu
- College of Civil and Architectural Engineering, North China University of Science and Technology, Tangshan, 063000, People's Republic of China
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Gupta G, Ndiaye A, Filteau M. Leveraging Experimental Strategies to Capture Different Dimensions of Microbial Interactions. Front Microbiol 2021; 12:700752. [PMID: 34646243 PMCID: PMC8503676 DOI: 10.3389/fmicb.2021.700752] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Accepted: 08/31/2021] [Indexed: 12/27/2022] Open
Abstract
Microorganisms are a fundamental part of virtually every ecosystem on earth. Understanding how collectively they interact, assemble, and function as communities has become a prevalent topic both in fundamental and applied research. Owing to multiple advances in technology, answering questions at the microbial system or network level is now within our grasp. To map and characterize microbial interaction networks, numerous computational approaches have been developed; however, experimentally validating microbial interactions is no trivial task. Microbial interactions are context-dependent, and their complex nature can result in an array of outcomes, not only in terms of fitness or growth, but also in other relevant functions and phenotypes. Thus, approaches to experimentally capture microbial interactions involve a combination of culture methods and phenotypic or functional characterization methods. Here, through our perspective of food microbiologists, we highlight the breadth of innovative and promising experimental strategies for their potential to capture the different dimensions of microbial interactions and their high-throughput application to answer the question; are microbial interaction patterns or network architecture similar along different contextual scales? We further discuss the experimental approaches used to build various types of networks and study their architecture in the context of cell biology and how they translate at the level of microbial ecosystem.
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Affiliation(s)
- Gunjan Gupta
- Département des Sciences des aliments, Université Laval, Québec, QC, Canada
- Institut sur la Nutrition et les Aliments Fonctionnels (INAF), Québec, QC, Canada
- Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada
| | - Amadou Ndiaye
- Département des Sciences des aliments, Université Laval, Québec, QC, Canada
- Institut sur la Nutrition et les Aliments Fonctionnels (INAF), Québec, QC, Canada
- Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada
| | - Marie Filteau
- Département des Sciences des aliments, Université Laval, Québec, QC, Canada
- Institut sur la Nutrition et les Aliments Fonctionnels (INAF), Québec, QC, Canada
- Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada
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Jegatheesan V, Shu L, Rene ER, Lin TF. Challenges in environmental science/engineering and innovations in pollution prevention and resource recovery for a sustainable future. CHEMOSPHERE 2021; 276:130148. [PMID: 33730608 DOI: 10.1016/j.chemosphere.2021.130148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Affiliation(s)
| | - Li Shu
- LJS Environment, Parkville, VIC, 3052, Australia
| | - Eldon R Rene
- UNESCO-IHE Institute for Water Education, Westvest 7, 2611, AX, Delft, the Netherlands
| | - Tsair-Fuh Lin
- Department of Environmental Engineering, National Cheng Kung University, Tainan, Taiwan
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