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Zubov I, Shpanov D, Ponomareva T, Aksenov A. Bog bacterial community: data from north-western Russia. Biodivers Data J 2024; 12:e118448. [PMID: 39210961 PMCID: PMC11358614 DOI: 10.3897/bdj.12.e118448] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2024] [Accepted: 07/29/2024] [Indexed: 09/04/2024] Open
Abstract
Wetlands occupy up to 35% of the boreal biome in Russia, according to various estimates. Boreal bogs are global carbon sinks, accounting for more than 65% of the soil carbon stored in the wetland ecosystems of the world. The decomposition of plant residues is one of the most important components of the carbon cycle in wetland systems, while the violation of their fragile balance due to climate change increases the rate of mineralisation of organic matter and releases large amounts of carbon to the atmosphere. The biochemical processes occurring in a peat deposit determine the intensity of the destruction of organic matter and gas exchange. However, the microbial communities of the boreal ombrotrophic bogs, regulating those processes, are poorly studied. Hence, a study of the prokaryote communities of the peat deposits of the southern White Sea coastal ombrotrophic bogs (mostly spread in north-western Russia) was carried out. The taxonomic composition of archaea and bacteria sampled from the deposit's depth of 0-310 cm was studied using high-throughput sequencing of V4 sites of 16S rRNA gene by Illumina technology. As a result, 105 species belonging to 19 phylums were identified. The dominant specific phyla were Pseudomonadota, Acidobacteriota and Verrucomicrobiota, the non-specific phylum being Desulfobacterota. Various groups of methanogenic, methylotrophic and nitrogen-fixing microorganisms were identified. Shannon's biodiversity ranged from 3.5 to 4.6 and ChaO1 - from 232 to 351, decreasing within the depth.
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Affiliation(s)
- Ivan Zubov
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, RussiaN. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of SciencesArkhangelskRussia
| | - Dmitrij Shpanov
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, RussiaN. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of SciencesArkhangelskRussia
| | - Tamara Ponomareva
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, RussiaN. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of SciencesArkhangelskRussia
| | - Andrey Aksenov
- Northern (Arctic) Federal University named after M.V. Lomonosov, Arkhangelsk, RussiaNorthern (Arctic) Federal University named after M.V. LomonosovArkhangelskRussia
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Woo H, Chhetri G, Kim I, So Y, Park S, Jung Y, Seo T. Roseateles subflavus sp. nov. and Roseateles aquae sp. nov., isolated from artificial pond water and Roseateles violae sp. nov., isolated from a Viola mandshurica root. Int J Syst Evol Microbiol 2024; 74. [PMID: 38869492 DOI: 10.1099/ijsem.0.006426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2024] Open
Abstract
Two novel strains, designated APW6T and APW11T, were isolated from artificial pond water, and one novel strain, designated PFR6T, was isolated from a Viola mandshurica root. These strains were found to be Gram-negative, rod-shaped, motile by means of flagella, and oxidase-positive. Growth conditions of the type strains were as follows: APW6T, 15-43 °C (optimum, 28 °C), pH 6.0-12.0 (optimum, pH 7.0), with no salinity; APW11T, 4-35 °C (optimum, 25 °C), pH 6.0-11.0 (optimum, pH 9.0), with 0-1 % NaCl (w/v, optimum 0 %); PFR6T, 10-38 °C (optimum 28 °C), pH 6.0-12.0 (optimum, pH 7.0), with 0-2 % NaCl (w/v; optimum, 0 %). Strains APW6T, APW11T, and PFR6T belonged to the genus Roseateles, having the most 16S rRNA gene sequence similarity to Roseateles saccharophilus DSM 654T (98.1 %), Roseateles oligotrophus CHU3T (98.7 %), and Roseateles puraquae CCUG 52769T (98.1 %). The estimated genome sizes of APW6T, APW11T, and PFR6T were 50 50 473, 56 70 008, and 52 16 869 bp, respectively and the G+C contents were 69.5, 66, and 68.5 mol%. The digital DNA-DNA hybridization, average amino acid identity, and average nucleotide identity values among the novel strains and related taxa were all lower than 22.4, 74.7, and 78.9 %, respectively. The predominant cellular fatty acids (>10 %) of all strains were summed feature 3 (comprising C16 : 1 ω6c and/or C16 : 1 ω7c) and C16 : 0. PFR6T also had summed feature 8 (comprising C18 : 1 ω7c and/or C18 : 1 ω6c) as a major fatty acid. The polar lipid profile of all strains contained phosphatidylethanolamine, phosphoaminoglycolipid, and phosphoglycolipid. The distinct phylogenetic, physiological, and chemotaxonomic features reported in this study indicate that strains APW6T, APW11T, and PFR6T represent novel species within the genus Roseateles, for which the names Roseateles subflavus sp. nov., with the type strain APW6T (=KACC 22877T=TBRC 16606T), Roseateles aquae sp. nov., with the type strain APW11T (=KACC 22878T=TBRC 16607T), and Roseateles violae sp. nov (=KACC 23257T=TBRC 17653T) are respectively proposed.
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Affiliation(s)
- Haejin Woo
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Geeta Chhetri
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Inhyup Kim
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Yoonseop So
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Sunho Park
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Yonghee Jung
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Taegun Seo
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
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Jung JY, Lee MH, Nam YH, Kang HK, Jeon JH, Kim JS, Kim EJ. Paucibacter sediminis sp. nov., isolated from sediment in a freshwater pond. Int J Syst Evol Microbiol 2024; 74. [PMID: 38656473 DOI: 10.1099/ijsem.0.006312] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2024] Open
Abstract
A Gram-stain-negative, aerobic, oxidase-positive, weakly catalase-positive, motile by means of a single polar flagellum, rod-shaped bacterium designated as strain S2-9T was isolated from sediment sampled in Wiyang pond, Republic of Korea. Growth of this strain was observed at 10-40 °C (optimum, 35 °C) and pH 5.5-9.5 (optimum, pH 7.0-8.0) and in the presence of 0-0.5 % NaCl in Reasoner's 2A broth. The major fatty acids (>10 %) of strain S2-9T were C16 : 0 and summed feature 3 (comprising a mixture of C16 : 1 ω7c and/or C16 : 1 ω6c). Ubiquinone-8 was detected as the respiratory quinone. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. Strain S2-9T showed the highest 16S rRNA gene sequence similarity to Paucibacter oligotrophus CHU3T (98.7 %), followed by 'Paucibacter aquatile' CR182 (98.4 %), all type strains of Pelomonas species (98.1-98.3 %), Mitsuaria chitosanitabida NBRC 102408T (97.9 %), Kinneretia asaccharophila KIN192T (97.8 %), Mitsuaria chitinivorans HWN-4T (97.4 %), and Paucibacter toxinivorans 2C20T (97.4 %). Phylogenetic trees based on the 16S rRNA gene and whole-genome sequences showed that strain S2-9T formed a tight phylogenetic lineage with Paucibacter species (CHU3T, CR182, and 2C20T). Average nucleotide identity and digital DNA-DNA hybridization values between strain S2-9T and Paucibacter strains were 76.6-79.3% and 19.5-21.5 %, respectively. The genomic DNA G+C content of strain S2-9T was 68.3 mol%. Notably, genes responsible for both sulphur oxidation and reduction and denitrification were found in the genome of strain S2-9T, suggesting that strain S2-9T is involved in the nitrogen and sulphur cycles in pond ecosystems. Based on the polyphasic taxonomic results, strain S2-9T represents a novel species of the genus Paucibacter, for which the name Paucibacter sediminis sp. nov. is proposed. The type strain is S2-9T (= KACC 22267T= JCM 34541T).
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Affiliation(s)
- Ji Young Jung
- Biological Resources Research Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Mi Hwa Lee
- Diversity Conservation Research Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Young Ho Nam
- Using Technology Development Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Hye-Kyeong Kang
- Biological Resources Research Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Ju Hyung Jeon
- Biological Resources Research Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Jun Sung Kim
- Biological Resources Research Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
| | - Eui Jin Kim
- Using Technology Development Department, Nakdonggang National Institute of Biological Resources, Gyeongsangbuk-do 37242, Republic of Korea
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Redouane EM, Núñez A, Achouak W, Barakat M, Alex A, Martins JC, Tazart Z, Mugani R, Zerrifi SEA, Haida M, García AM, Campos A, Lahrouni M, Oufdou K, Vasconcelos V, Oudra B. Microcystin influence on soil-plant microbiota: Unraveling microbiota modulations and assembly processes in the rhizosphere of Vicia faba. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 918:170634. [PMID: 38325456 DOI: 10.1016/j.scitotenv.2024.170634] [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: 12/27/2023] [Revised: 01/30/2024] [Accepted: 01/31/2024] [Indexed: 02/09/2024]
Abstract
Microcystins (MCs) are frequently detected in cyanobacterial bloom-impacted waterbodies and introduced into agroecosystems via irrigation water. They are widely known as phytotoxic cyanotoxins, which impair the growth and physiological functions of crop plants. However, their impact on the plant-associated microbiota is scarcely tackled and poorly understood. Therefore, we aimed to investigate the effect of MCs on microbiota-inhabiting bulk soil (BS), root adhering soil (RAS), and root tissue (RT) of Vicia faba when exposed to 100 μg L-1 MCs in a greenhouse pot experiment. Under MC exposure, the structure, co-occurrence network, and assembly processes of the bacterial microbiota were modulated with the greatest impact on RT-inhabiting bacteria, followed by BS and, to a lesser extent, RAS. The analyses revealed a significant decrease in the abundances of several Actinobacteriota-related taxa within the RT microbiota, including the most abundant and known genus of Streptomyces. Furthermore, MCs significantly increased the abundance of methylotrophic bacteria (Methylobacillus, Methylotenera) and other Proteobacteria-affiliated genera (e.g., Paucibacter), which are supposed to degrade MCs. The co-occurrence network of the bacterial community in the presence of MCs was less complex than the control network. In MC-exposed RT, the turnover in community composition was more strongly driven by deterministic processes, as proven by the beta-nearest taxon index. Whereas in MC-treated BS and RAS, both deterministic and stochastic processes can influence community assembly to some extent, with a relative dominance of deterministic processes. Altogether, these results suggest that MCs may reshape the structure of the microbiota in the soil-plant system by reducing bacterial taxa with potential phytobeneficial traits and increasing other taxa with the potential capacity to degrade MCs.
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Affiliation(s)
- El Mahdi Redouane
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco; CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros do Porto de Leixões, Matosinhos 4450-208, Portugal
| | - Andrés Núñez
- Escuela Técnica Superior de Ingenieros Industriales, Universidad Politécnica de Madrid (ETSII-UPM), Madrid 28006, Spain; Departamento de Genética y Microbiología, Facultad de Biología, Universidad de Murcia, Campus de Espinardo, Murcia 30100, Spain
| | - Wafa Achouak
- Aix Marseille University, CEA, CNRS, BIAM, Lab of Microbial Ecology of the Rhizosphere, (LEMiRE), Saint Paul Lez Durance 13115, France.
| | - Mohamed Barakat
- Aix Marseille University, CEA, CNRS, BIAM, Lab of Microbial Ecology of the Rhizosphere, (LEMiRE), Saint Paul Lez Durance 13115, France
| | - Anoop Alex
- CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros do Porto de Leixões, Matosinhos 4450-208, Portugal; Department of Biology, Faculty of Sciences, University of Porto, Porto 4169-007, Portugal
| | - José Carlos Martins
- CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros do Porto de Leixões, Matosinhos 4450-208, Portugal
| | - Zakaria Tazart
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco; AgroBioSciences, Plant Stress Physiology Laboratory, Mohammed VI Polytechnic University, Benguerir 43150, Morocco
| | - Richard Mugani
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco
| | - Soukaina El Amrani Zerrifi
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco; Higher Institute of Nurses Professions and Health Techniques of Guelmim, Guelmim 81000, Morocco
| | - Mohammed Haida
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco
| | - Ana M García
- Escuela Técnica Superior de Ingenieros Industriales, Universidad Politécnica de Madrid (ETSII-UPM), Madrid 28006, Spain
| | - Alexandre Campos
- CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros do Porto de Leixões, Matosinhos 4450-208, Portugal
| | - Majida Lahrouni
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco
| | - Khalid Oufdou
- Laboratory of Microbial Biotechnologies, Agrosciences, and Environment (BioMAgE), Labeled Research Unit-CNRST N°4, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco
| | - Vitor Vasconcelos
- CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, Terminal de Cruzeiros do Porto de Leixões, Matosinhos 4450-208, Portugal; Department of Biology, Faculty of Sciences, University of Porto, Porto 4169-007, Portugal
| | - Brahim Oudra
- Water, Biodiversity and Climate Change Laboratory, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech 40000, Morocco
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Liu T, Kurogo N, Kodato M, Fujimoto N, Itayama T, Okano K, Utsumi M, Zhang Z, Lei Z, Yuan T, Maseda H, Sugiura N, Shimizu K. MlrA, an Essential Enzyme for Microcystins and Nodularin on First Step Biodegradation in Microcystin-Degrading Bacteria. Chem Res Toxicol 2024; 37:212-215. [PMID: 38252020 DOI: 10.1021/acs.chemrestox.3c00341] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2024]
Abstract
Microcystin-degrading bacteria first degrade microcystins by microcystinase A (MlrA) to cleave the cyclic structure of microcystins at the Adda-Arg site of microcystin-LR, microcystin-RR, and microcystin-YR, but the cleavage of the other microcystins was not clear. In our study, the microcystin-degrading bacterium Sphingopyxis sp. C-1 as wild type and that of mlrA-disrupting mutant, Sphingopyxis sp. CMS01 were used for microcystins biodegradation. The results showed MlrA degraded microcystin-LA, microcystin-LW, microcystin-LY, microcystin-LF, and nodularin. MlrA could cleave the Adda-L-amino acid site.
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Affiliation(s)
- Tianxiao Liu
- Graduate School of Science and Technology, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
| | - Narumi Kurogo
- Faculty of Life Sciences, Toyo University, 1-1-1 Izumino Itakura Oura-gun, Gunma 374-0193, Japan
| | - Miwa Kodato
- Faculty of Life Sciences, Toyo University, 1-1-1 Izumino Itakura Oura-gun, Gunma 374-0193, Japan
| | - Naoshi Fujimoto
- Faculty of Applied Bioscience, Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, Tokyo 156-8502, Japan
| | | | - Kunihiro Okano
- Graduate School of Bioresource Science Akita Prefectural University, 241-438 Kaidobata-Nishi, Nakano Shimoshinjo, Akita 010-0195, Japan
| | - Motoo Utsumi
- Institute of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8572, Japan
- Micobiology Research Center for Sustainability, University of Tsukuba, Tsukuba, Ibaraki 305-8572, Japan
| | - Zhenya Zhang
- Institute of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8572, Japan
| | - Zhongfang Lei
- Institute of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8572, Japan
| | - Tian Yuan
- Institute of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8572, Japan
| | - Hideaki Maseda
- Institute of Technology and Science, Tokushima University, Minami jiosanjima-cho 2-1, Tokushima 770-8506, Japan
| | - Norio Sugiura
- Institute of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8572, Japan
| | - Kazuya Shimizu
- Faculty of Life Sciences, Toyo University, 1-1-1 Izumino Itakura Oura-gun, Gunma 374-0193, Japan
- Institute of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8572, Japan
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Le VV, Ko SR, Oh HM, Ahn CY. Genomic Insights into Paucibacter aquatile DH15, a Cyanobactericidal Bacterium, and Comparative Genomics of the Genus Paucibacter. J Microbiol Biotechnol 2023; 33:1615-1624. [PMID: 37811910 PMCID: PMC10772561 DOI: 10.4014/jmb.2307.07008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Revised: 09/08/2023] [Accepted: 09/14/2023] [Indexed: 10/10/2023]
Abstract
Microcystis blooms threaten ecosystem function and cause substantial economic losses. Microorganism-based methods, mainly using cyanobactericidal bacteria, are considered one of the most ecologically sound methods to control Microcystis blooms. This study focused on gaining genomic insights into Paucibacter aquatile DH15 that exhibited excellent cyanobactericidal effects against Microcystis. Additionally, a pan-genome analysis of the genus Paucibacter was conducted to enhance our understanding of the ecophysiological significance of this genus. Based on phylogenomic analyses, strain DH15 was classified as a member of the species Paucibacter aquatile. The genome analysis supported that strain DH15 can effectively destroy Microcystis, possibly due to the specific genes involved in the flagellar synthesis, cell wall degradation, and the production of cyanobactericidal compounds. The pan-genome analysis revealed the diversity and adaptability of the genus Paucibacter, highlighting its potential to absorb external genetic elements. Paucibacter species were anticipated to play a vital role in the ecosystem by potentially providing essential nutrients, such as vitamins B7, B12, and heme, to auxotrophic microbial groups. Overall, our findings contribute to understanding the molecular mechanisms underlying the action of cyanobactericidal bacteria against Microcystis and shed light on the ecological significance of the genus Paucibacter.
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Affiliation(s)
- Ve Van Le
- Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, Daejeon 34141, Republic of Korea
| | - So-Ra Ko
- Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, Daejeon 34141, Republic of Korea
| | - Hee-Mock Oh
- Cell Factory Research Centre, Korea Research Institute of Bioscience & Biotechnology, 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, 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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Brar B, Kumar R, Sharma D, Sharma AK, Thakur K, Mahajan D, Kumar R. Metagenomic analysis reveals diverse microbial community and potential functional roles in Baner rivulet, India. J Genet Eng Biotechnol 2023; 21:147. [PMID: 38015339 PMCID: PMC10684477 DOI: 10.1186/s43141-023-00601-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Accepted: 11/14/2023] [Indexed: 11/29/2023]
Abstract
BACKGROUND The health index of any population is directly correlated with the water quality, which in turn depends upon physicochemical characteristics and the microbiome of that aquatic source. For maintaining the water quality, knowledge of microbial diversity is a must. The present investigation attempts to evaluate the microflora of Baner. Metagenomics has been proven to be the technique for examining the genetic diversity of unculturable microbiota without using traditional culturing techniques. The microbial profile of Baner is analyzed using metagenomics for the first time to the best of our knowledge. RESULTS To explore the microbial diversity of Baner, metagenomics analysis from 3 different sites was done. Data analysis identified 29 phyla, 62 classes, 131 orders, 268 families, and 741 genera. Proteobacteria was found to be the most abundant phylum in all the sampling sites, with the highest abundance at S3 sampling site (94%). Bacteroidetes phylum was found to be second abundant in S1 and S2 site, whereas Actinobacteria was second dominant in sampling site S3. Enterobacteriaceae family was dominant in site S1, whereas Comamonadaceae and Pseudomonadaceae was abundant in sites S2 and S3 respectively. The Baner possesses an abundant bacterial profile that holds great promise for developing bioremediation tactics against a variety of harmful substances. CONCLUSION Baner river's metagenomic analysis offers the first insight into the microbial profile of this hilly stream. Proteobacteria was found to be the most abundant phylum in all the sampling sites indicating anthropogenic interference and sewage contamination. The highest abundance of proteobacteria at S3 reveals it to be the most polluted site, as it is the last sampling site downstream of the area under investigation, and falls after crossing the main city, so more human intervention and pollution were observed. Despite some pathogens, a rich profile of bacteria involved in bioremediation, xenobiotic degradation, and beneficial fish probiotics was observed, reflecting their potential applications for improving water quality and establishing a healthy aquaculture and fishery section.
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Affiliation(s)
- Bhavna Brar
- Department of Animal Sciences, School of Life Sciences, Central University of Himachal Pradesh, Kangra, Himachal Pradesh, India
| | - Ravi Kumar
- Department of Microbiology, Dr. Rajendra Prasad Government Medical College & Hospital, Tanda, Kangra, Himachal Pradesh, India
| | - Dixit Sharma
- Department of Animal Sciences, School of Life Sciences, Central University of Himachal Pradesh, Kangra, Himachal Pradesh, India
| | - Amit Kumar Sharma
- Department of Animal Sciences, School of Life Sciences, Central University of Himachal Pradesh, Kangra, Himachal Pradesh, India
| | - Kushal Thakur
- Department of Animal Sciences, School of Life Sciences, Central University of Himachal Pradesh, Kangra, Himachal Pradesh, India
| | - Danish Mahajan
- Department of Animal Sciences, School of Life Sciences, Central University of Himachal Pradesh, Kangra, Himachal Pradesh, India
| | - Rakesh Kumar
- Department of Animal Sciences, School of Life Sciences, Central University of Himachal Pradesh, Kangra, Himachal Pradesh, India.
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Guliayeva D, Akhremchuk A, Sikolenko M, Evdokimova O, Valentovich L, Sidarenka A. Roseateles amylovorans sp. nov., isolated from freshwater. Int J Syst Evol Microbiol 2023; 73. [PMID: 37917535 DOI: 10.1099/ijsem.0.006133] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2023] Open
Abstract
A Gram-stain-negative, rod-shaped, amylolytic bacterial strain, designated as bsSlp3-1T, was isolated from the Slepian water system, a freshwater reservoir. Strain bsSlp3-1T was found to be aerobic, oxidase-positive and catalase-negative, grew at 5-37 °C (optimum, 28 °C), pH 5.0-9.5 (optimum, pH 7.0) and low NaCl concentration (up to 1.0 %). Comparative analysis of 16S rRNA gene sequence similarity revealed that strain bsSlp3-1T clustered with Roseateles species and is closely related to Roseateles depolymerans KCTC 42856T (98.7 %) and Roseateles terrae CCUG 52222T (98.6 %). Whole-genome comparisons using average nucleotide identity and digital DNA-DNA hybridization values suggested that strain bsSlp3-1T represents a novel species within the genus Roseateles and is most closely related to Roseateles aquatilis CCUG 48205T (81.2 and 25.6 %, respectively). The genome of strain bsSlp3-1T consisted of a single circular chromosome with size 6 289 366 bp and DNA G+C content of 66.8 mol%. The predominant cellular fatty acids of bsSlp3-1T were cis-9-hexadecanoic and hexadecenoic acids. According to the data obtained in this work, strain bsSlp3-1T represents a novel Roseateles species for which the name Roseateles amylovorans sp. nov. is proposed. The type strain is bsSlp3-1T (=BIM B-1768T=NBIMCC 9098T=VKM B-3671T).
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Affiliation(s)
- Darya Guliayeva
- The Institute of Microbiology of the National Academy of Sciences of Belarus, Kuprevich Str., 2, 220084, Minsk, Belarus
| | - Artur Akhremchuk
- The Institute of Microbiology of the National Academy of Sciences of Belarus, Kuprevich Str., 2, 220084, Minsk, Belarus
| | - Maxim Sikolenko
- The Institute of Microbiology of the National Academy of Sciences of Belarus, Kuprevich Str., 2, 220084, Minsk, Belarus
| | - Olesya Evdokimova
- The Institute of Microbiology of the National Academy of Sciences of Belarus, Kuprevich Str., 2, 220084, Minsk, Belarus
| | - Leonid Valentovich
- The Institute of Microbiology of the National Academy of Sciences of Belarus, Kuprevich Str., 2, 220084, Minsk, Belarus
| | - Anastasiya Sidarenka
- The Institute of Microbiology of the National Academy of Sciences of Belarus, Kuprevich Str., 2, 220084, Minsk, Belarus
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Park S, Kim I, Chhetri G, So Y, Jung Y, Woo H, Seo T. Roseateles albus sp. nov., Roseateles koreensis sp. nov. and Janthinobacterium fluminis sp. nov., isolated from freshwater at Jucheon River, and emended description of Roseateles aquaticus comb. nov. Int J Syst Evol Microbiol 2023; 73. [PMID: 37750754 DOI: 10.1099/ijsem.0.006043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/27/2023] Open
Abstract
Three Gram-stain-negative, facultatively anaerobic, rod-shaped, catalase-positive, oxidase-negative bacterial strains were designated as hw1T, hw8T and hw3T. Strains hw1T, hw8T and hw3T grew at 15-28 °C (optimum, 25 °C), 15-35 °C (optimum, 30 °C) and 4-28 °C (optimum, 20 °C), respectively, and at pH 7.0-12.0 (optimum, pH 9.0), pH 6.0-11.0 (optimum, pH 9.0) and 5.0-12.0 (optimum, pH 7.0), respectively. Additionally, strains hw1T and hw8T only grew when the NaCl concentration was 0 %, while strain hw3T grew at between 0 and 0.5 % (w/v; optimum, 0 %). The average nucleotide identity (ANI) values between strains hw1T, hw8T and the Roseateles type strains ranged from 73.8 to 84.2 %, while the digital DNA-DNA hybridization (dDDH) values ranged from 19.7 to 27.5 %. The ANI values between strain hw3T and the Janthinobacterium type strains ranged from 78.7 to 80.7 %, while dDDH values ranged from 22.3 to 23.0 %. The draft genomes of strains hw1T, hw8T and hw3T consisted of 5.5, 4.4 and 5.9 Mbp, with DNA G+C contents of 61.7, 61.8 and 66.0 mol%, respectively. The results of the dDDH, ANI, phylogenetic, biochemical and physiological analyses indicated that the novel strains were distinct from other members of their genera. Thus, we proposed the names Roseateles albus sp. nov. (type strain hw1T= KACC 22887T= TBRC 16613T), Roseateles koreensis sp. nov. (type strain hw8T= KACC 22885T= TBRC 16614T) and Janthinobacterium fluminis sp. nov. (type strain hw3T= KACC 22886T= TBRC 16615T).
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Affiliation(s)
- Sunho Park
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Inhyup Kim
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Geeta Chhetri
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Yoonseop So
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Yonghee Jung
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Haejin Woo
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
| | - Taegun Seo
- Department of Life Science, Dongguk University-Seoul, Goyang 10326, Republic of Korea
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Monteiro FAC, Bezerra SGDS, Castro LGZD, Oliveira FADS, Normando LRO, Melo VMM, Hissa DC. Neotropical Frog Foam Nest’s Microbiomes. Microorganisms 2023; 11:microorganisms11040900. [PMID: 37110323 PMCID: PMC10146838 DOI: 10.3390/microorganisms11040900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Revised: 03/23/2023] [Accepted: 03/27/2023] [Indexed: 04/03/2023] Open
Abstract
Amphibian foam nests are unique microenvironments that play a crucial role in the development of tadpoles. They contain high levels of proteins and carbohydrates, yet little is known about the impact of their microbiomes on tadpole health. This study provides a first characterization of the microbiome of foam nests from three species of Leptodactylids (Adenomera hylaedactyla, Leptodactylus vastus, and Physalaemus cuvieri) by investigating the DNA extracted from foam nests, adult tissues, soil, and water samples, analyzed via 16S rRNA gene amplicon sequencing to gain insight into the factors driving its composition. The results showed that the dominant phyla were proteobacteria, bacteroidetes, and firmicutes, with the most abundant genera being Pseudomonas, Sphingobacterium, and Paenibacillus. The foam nest microbiomes of A. hylaedactyla and P. cuvieri were more similar to each other than to that of L. vastus, despite their phylogenetic distance. The foam nests demonstrated a distinct microbiome that clustered together and separated from the microbiomes of the environment and adult tissue samples. This suggests that the peculiar foam nest composition shapes its microbiome, rather than vertical or horizontal transference forces. We expanded this knowledge into amphibian foam nest microbiomes, highlighting the importance of preserving healthy foam nests for amphibian conservation.
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11
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Bogdan DF, Baricz AI, Chiciudean I, Bulzu PA, Cristea A, Năstase-Bucur R, Levei EA, Cadar O, Sitar C, Banciu HL, Moldovan OT. Diversity, distribution and organic substrates preferences of microbial communities of a low anthropic activity cave in North-Western Romania. Front Microbiol 2023; 14:962452. [PMID: 36825091 PMCID: PMC9941645 DOI: 10.3389/fmicb.2023.962452] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2022] [Accepted: 01/17/2023] [Indexed: 02/10/2023] Open
Abstract
Introduction Karst caves are characterized by relatively constant temperature, lack of light, high humidity, and low nutrients availability. The diversity and functionality of the microorganisms dwelling in caves micro-habitats are yet underexplored. Therefore, in-depth investigations of these ecosystems aid in enlarging our understanding of the microbial interactions and microbially driven biogeochemical cycles. Here, we aimed at evaluating the diversity, abundance, distribution, and organic substrate preferences of microbial communities from Peștera cu Apă din Valea Leșului (Leșu Cave) located in the Apuseni Mountains (North-Western Romania). Materials and Methods To achieve this goal, we employed 16S rRNA gene amplicon sequencing and community-level physiological profiling (CLPP) paralleled by the assessment of environmental parameters of cave sediments and water. Results and Discussion Pseudomonadota (synonym Proteobacteria) was the most prevalent phylum detected across all samples whereas the abundance detected at order level varied among sites and between water and sediment samples. Despite the general similarity at the phylum-level in Leșu Cave across the sampled area, the results obtained in this study suggest that specific sites drive bacterial community at the order-level, perhaps sustaining the enrichment of unique bacterial populations due to microenvironmental conditions. For most of the dominant orders the distribution pattern showed a positive correlation with C-sources such as putrescine, γ-amino butyric acid, and D-malic acid, while particular cases were positively correlated with polymers (Tween 40, Tween 80 and α-cyclodextrin), carbohydrates (α-D-lactose, i-erythritol, D-mannitol) and most of the carboxylic and ketonic acids. Physicochemical analysis reveals that sediments are geochemically distinct, with increased concentration of Ca, Fe, Al, Mg, Na and K, whereas water showed low nitrate concentration. Our PCA indicated the clustering of different dominant orders with Mg, As, P, Fe, and Cr. This information serves as a starting point for further studies in elucidating the links between the taxonomic and functional diversity of subterranean microbial communities.
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Affiliation(s)
- Diana Felicia Bogdan
- Doctoral School of Integrative Biology, Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania,Institute for Research, Development and Innovation in Applied Natural Sciences, Cluj-Napoca, Romania,*Correspondence: Diana Felicia Bogdan, ✉
| | - Andreea Ionela Baricz
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania
| | - Iulia Chiciudean
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania
| | - Paul-Adrian Bulzu
- Biology Centre CAS, Institute of Hydrobiology, Department of Aquatic Microbial Ecology, Laboratory of Microbial Ecology and Evolution, Ceske Budejovice, Czechia
| | - Adorján Cristea
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania
| | - Ruxandra Năstase-Bucur
- Emil Racovita Institute of Speleology, Cluj-Napoca Department, Cluj-Napoca, Romania,Romanian Institute of Science and Technology, Cluj-Napoca, Romania
| | - Erika Andrea Levei
- INCDO-INOE 2000, Research Institute for Analytical Instrumentation, Cluj-Napoca, Romania
| | - Oana Cadar
- INCDO-INOE 2000, Research Institute for Analytical Instrumentation, Cluj-Napoca, Romania
| | - Cristian Sitar
- Romanian Institute of Science and Technology, Cluj-Napoca, Romania,Zoological Museum, Babeș-Bolyai University, Cluj-Napoca, Romania
| | - Horia Leonard Banciu
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania,Centre for Systems Biology, Biodiversity and Bioresources, Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania,Horia Leonard Banciu, ✉
| | - Oana Teodora Moldovan
- Emil Racovita Institute of Speleology, Cluj-Napoca Department, Cluj-Napoca, Romania,Romanian Institute of Science and Technology, Cluj-Napoca, Romania,Centro Nacional de Investigación sobre la Evolución Humana, CENIEH, Burgos, Spain
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12
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Jeon Y, Baranwal P, Li L, Piezer K, Seo Y. Review: Current understanding on biological filtration for the removal of microcystins. CHEMOSPHERE 2023; 313:137160. [PMID: 36356807 DOI: 10.1016/j.chemosphere.2022.137160] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Revised: 10/10/2022] [Accepted: 10/30/2022] [Indexed: 06/16/2023]
Abstract
Harmful algal blooms (HABs) have become a global problem not only in aquatic habitats but also in public health and safety due to the production of cyanotoxins as their secondary metabolites. Among the various identified cyanotoxin groups, microcystins (MCs) are one of the most prevalent cyanotoxin detected during HABs. Different strategies including advanced physical and chemical treatment processes have been developed to mitigate the threat of cyanotoxins in water utilities, but these have revealed certain limitations in terms of high operational costs, low removal efficacy, and harmful by-products formation. Recently, biological filtration systems (BFS) have gained attention for safe drinking water production as they can treat various natural organic matter (NOM) and emerging contaminants through a highly efficient and environmentally sustainable process. However, limited attention has been given to understand the current research progress, research challenges, and knowledge gaps for the successful implementation of BFS for MC removal. Therefore, in this review, currently identified MC biodegradation pathways and MC-degrading microorganisms with their degradation rates are summarized, which may be pivotal for studying bioaugmented BFS to enhance the MC removal during HABs. Moreover, both laboratory and field studies on BFS for MC removal are reviewed, followed by a discussion of current challenges and future research needs for the practical application of BFS.
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Affiliation(s)
- Youchul Jeon
- Department of Civil and Environmental Engineering, University of Toledo, Mail Stop 307, 3006 Nitschke Hall, Toledo, OH, 43606, United States
| | - Parul Baranwal
- Department of Civil and Environmental Engineering, University of Toledo, Mail Stop 307, 3006 Nitschke Hall, Toledo, OH, 43606, United States
| | - Lei Li
- Department of Civil and Environmental Engineering, University of Toledo, Mail Stop 307, 3006 Nitschke Hall, Toledo, OH, 43606, United States
| | - Kayla Piezer
- Department of Civil and Environmental Engineering, University of Toledo, Mail Stop 307, 3006 Nitschke Hall, Toledo, OH, 43606, United States; Department of Chemical Engineering, University of Toledo, Mail Stop 307, 3048 Nitschke Hall, Toledo, OH, 43606, United States
| | - Youngwoo Seo
- Department of Civil and Environmental Engineering, University of Toledo, Mail Stop 307, 3006 Nitschke Hall, Toledo, OH, 43606, United States; Department of Chemical Engineering, University of Toledo, Mail Stop 307, 3048 Nitschke Hall, Toledo, OH, 43606, United States.
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13
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Stallforth P, Mittag M, Brakhage AA, Hertweck C, Hellmich UA. Functional modulation of chemical mediators in microbial communities. Trends Biochem Sci 2023; 48:71-81. [PMID: 35981931 DOI: 10.1016/j.tibs.2022.07.006] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Revised: 07/14/2022] [Accepted: 07/20/2022] [Indexed: 12/27/2022]
Abstract
Interactions between microorganisms are often mediated by specialized metabolites. Although the structures and biosynthesis of these compounds may have been elucidated, microbes exist within complex microbiomes and chemical signals can thus also be subject to community-dependent modifications. Increasingly powerful chemical and biological tools allow to shed light on this poorly understood aspect of chemical ecology. We provide an overview of loss-of-function and gain-of-function chemical mediator (CM) modifications within microbial multipartner relationships. Although loss-of-function modifications are abundant in the literature, few gain-of-function modifications have been described despite their important role in microbial interactions. Research in this field holds great potential for our understanding of microbial interactions and may also provide novel tools for targeted interference with microbial signaling.
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Affiliation(s)
- Pierre Stallforth
- Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll Institute, Beutenbergstrasse 11a, 07745 Jena, Germany; Friedrich Schiller University Jena, Faculty of Chemistry and Earth Sciences, Institute of Organic Chemistry and Macromolecular Chemistry, Humboldtstrasse 10, 07743 Jena, Germany.
| | - Maria Mittag
- Matthias Schleiden Institute of Genetics, Bioinformatics and Molecular Botany, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Axel A Brakhage
- Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll Institute, Beutenbergstrasse 11a, 07745 Jena, Germany; Institute of Microbiology, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Christian Hertweck
- Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll Institute, Beutenbergstrasse 11a, 07745 Jena, Germany; Institute of Microbiology, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Ute A Hellmich
- Friedrich Schiller University Jena, Faculty of Chemistry and Earth Sciences, Institute of Organic Chemistry and Macromolecular Chemistry, Humboldtstrasse 10, 07743 Jena, Germany; Centre for Biomolecular Magnetic Resonance (BMRZ), Goethe-University Frankfurt, Max-von-Laue-Strasse 9, 60438 Frankfurt, Germany.
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14
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Genome-based taxonomic classification of the closest-to-Comamonadaceae group supports a new family Sphaerotilaceae fam. nov. and taxonomic revisions. Syst Appl Microbiol 2022; 45:126352. [DOI: 10.1016/j.syapm.2022.126352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 07/06/2022] [Accepted: 08/09/2022] [Indexed: 11/23/2022]
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15
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Le VV, Ko SR, Kang M, Park CY, Lee SA, Oh HM, Ahn CY. The cyanobactericidal bacterium Paucibacter aquatile DH15 caused the decline of Microcystis and aquatic microbial community succession: A mesocosm study. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 311:119849. [PMID: 35952989 DOI: 10.1016/j.envpol.2022.119849] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Revised: 07/08/2022] [Accepted: 07/21/2022] [Indexed: 06/15/2023]
Abstract
Microcystis blooms pose a major threat to the quality of drinking water. Cyanobactericidal bacteria have attracted much attention in the research community as a vehicle for controlling Microcystis blooms because of their ecological safety. Nonetheless, most studies on cyanobactericidal bacteria have been conducted on a laboratory scale but have not been scaled-up as field experiments. Thus, our understanding of the microbial response to cyanobactericidal bacteria in natural ecosystems remains elusive. Herein, we applied Paucibacter aquatile DH15 to control Microcystis blooms in a 1000 L mesocosm experiment and demonstrated its potential with the following results: (1) DH15 reduced Microcystis cell density by 90.7% within two days; (2) microcystins released by Microcystis death decreased to the control level in four days; (3) during the cyanobactericidal processes, the physicochemical parameters of water quality remained safe for other aquatic organisms; and (4) the cyanobactericidal processes promoted the growth of eukaryotic microalgae, replacing cyanobacteria. The cyanobactericidal processes accelerated turnover rates, decreased stability, and altered the functional profile of the microbial community. Network analysis demonstrated that this process resulted in more complex interactions between microbes. Overall, our findings suggest that strain DH15 could be considered a promising candidate for controlling Microcystis blooms in an eco-friendly manner.
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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; Department of Environmental Biotechnology, KRIBB School of Biotechnology, University of Science and Technology, Daejeon 34113, 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
| | - Mingyeong Kang
- 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
| | - Chan-Yeong Park
- 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
| | - Sang-Ah Lee
- 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; Environmental Safety Groups, Korea Institute of Science and Technology (KIST) Europe, Saarbrücken 66123, Germany
| | - 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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16
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Le VV, Ko SR, Kang M, Lee SA, Oh HM, Ahn CY. Algicide capacity of Paucibacter aquatile DH15 on Microcystis aeruginosa by attachment and non-attachment effects. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 302:119079. [PMID: 35245623 DOI: 10.1016/j.envpol.2022.119079] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Revised: 02/23/2022] [Accepted: 02/27/2022] [Indexed: 06/14/2023]
Abstract
The excessive proliferation of Microcystis aeruginosa can lead to ecological damage, economic losses, and threaten animal and human health. For controlling Microcystis blooms, microorganism-based methods have attracted much attention from researchers because of their eco-friendliness and species-specificity. Herein, we first found that a Paucibacter strain exhibits algicidal activity against M. aeruginosa and microcystin degradation capability. The algicidal activity of DH15 (2.1 × 104 CFU/ml) against M. aeruginosa (2 × 106 cells/ml) was 94.9% within 36 h of exposure. DH15 also degraded microcystin (1.6 mg/L) up to 62.5% after 72 h. We demonstrated that the algicidal activity of DH15 against M. aeruginosa can be mediated by physical attachment and indirect attack: (1) Both washed cells and cell-free supernatant could kill M. aeruginosa efficiently; (2) Treatment with DH15 cell-free supernatants caused oxidative stress, altered the fatty acid profile, and damaged photosynthetic system, carbohydrate, and protein metabolism in M. aeruginosa. The combination of direct and indirect attacks supported that strain DH15 exerts high algicidal activity against M. aeruginosa. The expression of most key genes responsible for photosynthesis, antioxidant activity, microcystin synthesis, and other metabolic pathways in M. aeruginosa was downregulated. Strain DH15, with its microcystin degradation capacity, can overcome the trade-off between controlling Microcystis blooms and increasing microcystin concentration. Our findings suggest that strain DH15 possesses great potential to control outbreaks of Microcystis blooms.
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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; Department of Environmental Biotechnology, KRIBB School of Biotechnology, University of Science and Technology, Daejeon, 34113, 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
| | - Mingyeong Kang
- 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
| | - Sang-Ah Lee
- 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
| | - 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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Genomic Analysis of Sphingopyxis sp. USTB-05 for Biodegrading Cyanobacterial Hepatotoxins. Toxins (Basel) 2022; 14:toxins14050333. [PMID: 35622580 PMCID: PMC9144602 DOI: 10.3390/toxins14050333] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2022] [Revised: 04/21/2022] [Accepted: 04/28/2022] [Indexed: 12/04/2022] Open
Abstract
Sphingopyxis sp. USTB-05, which we previously identified and examined, is a well-known bacterial strain for biodegrading cyanobacterial hepatotoxins of both nodularins (NODs) and microcystins (MCs). Although the pathways for biodegrading the different types of [D-Asp1] NOD, MC-YR, MC-LR and MC-RR by Sphingopyxis sp. USTB-05 were suggested, and several biodegradation genes were successfully cloned and expressed, the comprehensive genomic analysis of Sphingopyxis sp. USTB-05 was not reported. Here, based on second and third generation sequencing technology, we analyzed the whole genome of Sphingopyxis sp. USTB-05, which is 4,679,489 bp and contains 4,312 protein coding genes. There are 88 protein-coding genes related to the NODs and MCs biodegradation, of which 16 genes (bioA, hmgL, hypdh, speE, nspC, phy, spuC, murD, glsA, ansA, ocd, crnA, ald, gdhA, murC and murI) are unique. These genes for the transformation of phenylacetic acid CoA (PA-CoA) to CO2 were also found in Sphingopyxis sp. USTB-05. This study expands the understanding of the pathway for complete biodegradation of cyanobacterial hepatotoxins by Sphingopyxis sp. USTB-05.
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18
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Hu C, Zuo Y, Peng L, Gan N, Song L. Widespread Distribution and Adaptive Degradation of Microcystin Degrader ( mlr-Genotype) in Lake Taihu, China. Toxins (Basel) 2021; 13:toxins13120864. [PMID: 34941702 PMCID: PMC8705652 DOI: 10.3390/toxins13120864] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Revised: 11/30/2021] [Accepted: 12/01/2021] [Indexed: 11/16/2022] Open
Abstract
Microbial degradation is an important route for removing environmental microcystins (MCs). Here, we investigated the ecological distribution of microcystin degraders (mlr-genotype), and the relationship between the substrate specificity of the microcystin degrader and the profile of microcystin congener production in the habitat. We showed that microcystin degraders were widely distributed and closely associated with Microcystis abundance in Lake Taihu, China. We characterized an indigenous degrader, Sphingopyxis N5 in the northern Lake Taihu, and it metabolized six microcystin congeners in increasing order (RR > LR > YR > LA > LF and LW). Such a substrate-specificity pattern was congruent to the order of the dominance levels of these congeners in northern Lake Taihu. Furthermore, a meta-analysis on global microcystin degraders revealed that the substrate-specificity patterns varied geographically, but generally matched the profiles of microcystin congener production in the degrader habitats, and the indigenous degrader typically metabolized well the dominant MC congeners, but not the rare congeners in the habitat. This highlighted the phenotypic congruence between microcystin production and degradation in natural environments. We theorize that such congruence resulted from the metabolic adaptation of the indigenous degrader to the local microcystin congeners. Under the nutrient microcystin selection, the degraders might have evolved to better exploit the locally dominant congeners. This study provided the novel insight into the ecological distribution and adaptive degradation of microcystin degraders.
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Affiliation(s)
- Chenlin Hu
- State Key Laboratory of Fresh Water Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China; (C.H.); (Y.Z.); (L.P.)
- Graduate School of Chinese Academy of Sciences, Beijing 100049, China
- College of Pharmacy, University of Houston, Houston, TX 77204, USA
| | - Yanxia Zuo
- State Key Laboratory of Fresh Water Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China; (C.H.); (Y.Z.); (L.P.)
- Graduate School of Chinese Academy of Sciences, Beijing 100049, China
| | - Liang Peng
- State Key Laboratory of Fresh Water Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China; (C.H.); (Y.Z.); (L.P.)
- Graduate School of Chinese Academy of Sciences, Beijing 100049, China
- Institute of Hydrobiology, Jinan University, Guangzhou 510632, China
| | - Nanqin Gan
- State Key Laboratory of Fresh Water Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China; (C.H.); (Y.Z.); (L.P.)
- Correspondence: (N.G.); (L.S.)
| | - Lirong Song
- State Key Laboratory of Fresh Water Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China; (C.H.); (Y.Z.); (L.P.)
- Correspondence: (N.G.); (L.S.)
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19
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Biodegradation of Nodularin by a Microcystin-Degrading Bacterium: Performance, Degradation Pathway, and Potential Application. Toxins (Basel) 2021; 13:toxins13110813. [PMID: 34822597 PMCID: PMC8618024 DOI: 10.3390/toxins13110813] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 11/15/2021] [Accepted: 11/15/2021] [Indexed: 01/19/2023] Open
Abstract
Currently, studies worldwide have comprehensively recognized the importance of Sphingomonadaceae bacteria and the mlrCABD gene cluster in microcystin (MC) degradation. However, knowledge about their degradation of nodularin (NOD) is still unclear. In this study, the degradation mechanism of NOD by Sphingopyxis sp. m6, an efficient MC degrader isolated from Lake Taihu, was investigated in several aspects, including degradation ability, degradation products, and potential application. The strain degraded NOD of 0.50 mg/L with a zero-order rate constant of 0.1656 mg/L/d and a half-life of 36 h. The average degradation rate of NOD was significantly influenced by the temperature, pH, and initial toxin concentrations. Moreover, four different biodegradation products, linear NOD, tetrapeptide H-Glu-Mdhb-MeAsp-Arg-OH, tripeptide H-Mdhb-MeAsp-Arg-OH, and dipeptide H-MeAsp-Arg-OH, were identified, of which the latter two are the first reported. Furthermore, the four mlr genes were upregulated during NOD degradation. The microcystinase MlrA encoded by the mlrA gene hydrolyzes the Arg-Adda bond to generate linear NOD as the first step of NOD biodegradation. Notably, recombinant MlrA showed higher degradation activity and stronger environmental adaptability than the wild strain, suggesting future applications in NOD pollution remediation. This research proposes a relatively complete NOD microbial degradation pathway, which lays a foundation for exploring the mechanisms of NOD degradation by MC-degrading bacteria.
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Bauer J, Jung-Schroers V, Teitge F, Adamek M, Steinhagen D. Association of the alga Cladogonium sp. with a multifactorial disease outbreak in dwarf shrimp (Neocaridina davidi). DISEASES OF AQUATIC ORGANISMS 2021; 146:107-115. [PMID: 34617516 DOI: 10.3354/dao03625] [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] [Indexed: 06/13/2023]
Abstract
This study outlines a multifactorial disease outbreak in a population of the freshwater shrimp Neocaridina davidi, with the focus on a rarely described parasitic alga. Within this multifactorial disease outbreak, low but consistent mortality was observed. During microscopic examination, an infection of the shrimp with bacterial and fungal-like agents was diagnosed. Furthermore, the green alga Cladogonium sp. was found in pleopodal regions. The alga compromised the body surface of the shrimp, and its rhizoids penetrated the chitin shell and reached into the subcutaneous tissue. This might be a first indication of a parasitic lifestyle. In addition to a morphological description, sequencing data are presented which allow the taxonomic classification of the organism within the order Trentepohliales.
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Affiliation(s)
- Julia Bauer
- University of Veterinary Medicine Hannover, Fish Disease Research Unit, Bünteweg 17, 30559 Hannover, Germany
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Role of Rhizospheric Microbiota as a Bioremediation Tool for the Protection of Soil-Plant Systems from Microcystins Phytotoxicity and Mitigating Toxin-Related Health Risk. Microorganisms 2021; 9:microorganisms9081747. [PMID: 34442826 PMCID: PMC8402104 DOI: 10.3390/microorganisms9081747] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Revised: 08/03/2021] [Accepted: 08/13/2021] [Indexed: 11/16/2022] Open
Abstract
Frequent toxic cyanoblooms in eutrophic freshwaters produce various cyanotoxins such as the monocyclic heptapeptides microcystins (MCs), known as deleterious compounds to plant growth and human health. Recently, MCs are a recurrent worldwide sanitary problem in irrigation waters and farmland soils due to their transfer and accumulation in the edible tissues of vegetable produce. In such cases, studies about the persistence and removal of MCs in soil are scarce and not fully investigated. In this study, we carried out a greenhouse trial on two crop species: faba bean (Vicia faba var. Alfia 321) and common wheat (Triticum aestivum var. Achtar) that were grown in sterile (microorganism-free soil) and non-sterile (microorganism-rich soil) soils and subjected to MC-induced stress at 100 µg equivalent MC-LR L−1. The experimentation aimed to assess the prominent role of native rhizospheric microbiota in mitigating the phytotoxic impact of MCs on plant growth and reducing their accumulation in both soils and plant tissues. Moreover, we attempted to evaluate the health risk related to the consumption of MC-polluted plants for humans and cattle by determining the estimated daily intake (EDI) and health risk quotient (RQ) of MCs in these plants. Biodegradation was liable to be the main removal pathway of the toxin in the soil; and therefore, bulk soil (unplanted soil), as well as rhizospheric soil (planted soil), were used in this experiment to evaluate the accumulation of MCs in the presence and absence of microorganisms (sterile and non-sterile soils). The data obtained in this study showed that MCs had no significant effects on growth indicators of faba bean and common wheat plants in non-sterile soil as compared to the control group. In contrast, plants grown in sterile soil showed a significant decrease in growth parameters as compared to the control. These results suggest that MCs were highly bioavailable to the plants, resulting in severe growth impairments in the absence of native rhizospheric microbiota. Likewise, MCs were more accumulated in sterile soil and more bioconcentrated in root and shoot tissues of plants grown within when compared to non-sterile soil. Thereby, the EDI of MCs in plants grown in sterile soil was more beyond the tolerable daily intake recommended for both humans and cattle. The risk level was more pronounced in plants from the sterile soil than those from the non-sterile one. These findings suggest that microbial activity, eventually MC-biodegradation, is a crucial bioremediation tool to remove and prevent MCs from entering the agricultural food chain.
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Pal M, Purohit HJ, Qureshi A. Genomic insight for algicidal activity in Rhizobium strain AQ_MP. Arch Microbiol 2021; 203:5193-5203. [PMID: 34341843 DOI: 10.1007/s00203-021-02496-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2021] [Revised: 07/14/2021] [Accepted: 07/15/2021] [Indexed: 11/28/2022]
Abstract
Occurrence of Harmful Algal Blooms (HABs) creates a threat to aquatic ecosystem affecting the existing flora and fauna. Hence, the mitigation of HABs through an eco-friendly approach remains a challenge for environmentalists. The present study provides the genomic insights of Rhizobium strain AQ_MP, an environmental isolate that showed the capability of degrading Microcystis aeruginosa (Cyanobacteria) through lytic mechanisms. Genome sequence analysis of Rhizobium strain AQ_MP unraveled the algal lytic features and toxin degradative pathways in it. Functional genes of CAZymes such as glycosyltransferases (GT), glycoside hydrolases (GH), polysaccharide lyases (PL) which supports algal polysaccharide degradation (lysis) were present in Rhizobium strain AQ_MP. Genome analysis also clarified the presence of the glutathione metabolic pathway, which is the biological detoxification pathway responsible for toxin degradation. The conserved region mlrC, a microcystin toxin-degrading gene was also annotated in the genome. The study illustrated that Rhizobium strain AQ_MP harbored a wide range of mechanisms for the lysis of Microcystis aeruginosa cells and its toxin degradation. In future, this study finds promiscuity for employing Rhizobium strain AQ_MP species for bioremediation, based on its physiological and genomic analysis.
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Affiliation(s)
- Mili Pal
- Environmental Biotechnology and Genomics Division, CSIR- National Environmental Engineering Research Institute (NEERI), Nehru Marg, Nagpur, 440 020, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Hemant J Purohit
- Environmental Biotechnology and Genomics Division, CSIR- National Environmental Engineering Research Institute (NEERI), Nehru Marg, Nagpur, 440 020, India
| | - Asifa Qureshi
- Environmental Biotechnology and Genomics Division, CSIR- National Environmental Engineering Research Institute (NEERI), Nehru Marg, Nagpur, 440 020, India. .,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
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Santos AA, Soldatou S, de Magalhães VF, Azevedo SMFO, Camacho-Muñoz D, Lawton LA, Edwards C. Degradation of Multiple Peptides by Microcystin-Degrader Paucibacter toxinivorans (2C20). Toxins (Basel) 2021; 13:265. [PMID: 33917728 PMCID: PMC8068134 DOI: 10.3390/toxins13040265] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2021] [Revised: 04/03/2021] [Accepted: 04/04/2021] [Indexed: 11/16/2022] Open
Abstract
Since conventional drinking water treatments applied in different countries are inefficient at eliminating potentially toxic cyanobacterial peptides, a number of bacteria have been studied as an alternative to biological filters for the removal of microcystins (MCs). Here, we evaluated the degradation of not only MCs variants (-LR/DM-LR/-RR/-LF/-YR), but also non-MCs peptides (anabaenopeptins A/B, aerucyclamides A/D) by Paucibactertoxinivorans over 7 days. We also evaluated the degradation rate of MC-LR in a peptide mix, with all peptides tested, and in the presence of M. aeruginosa crude extract. Furthermore, biodegradation was assessed for non-cyanobacterial peptides with different chemical structures, such as cyclosporin A, (Glu1)-fibrinopeptide-B, leucine-enkephalin, and oxytocin. When cyanopeptides were individually added, P. toxinivorans degraded them (99%) over 7 days, except for MC-LR and -RR, which decreased by about 85 and 90%, respectively. The degradation rate of MC-LR decreased in the peptide mix compared to an individual compound, however, in the presence of the Microcystis extract, it was degraded considerably faster (3 days). It was noted that biodegradation rates decreased in the mix for all MCs while non-MCs peptides were immediately degraded. UPLC-QTOF-MS/MS allowed us to identify two linear biodegradation products for MC-LR and MC-YR, and one for MC-LF. Furthermore, P. toxinivorans demonstrated complete degradation of non-cyanobacterial peptides, with the exception of oxytocin, where around 50% remained after 7 days. Thus, although P. toxinivorans was previously identified as a MC-degrader, it also degrades a wide range of peptides under a range of conditions, which could be optimized as a potential biological tool for water treatment.
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Affiliation(s)
- Allan A. Santos
- Biophysics Institute, Federal University of Rio de Janeiro, 373 Avenida Carlos Chagas Filho, Ilha do Fundão, Rio de Janeiro 21941-901, Brazil; (V.F.d.M.); (S.M.F.O.A.)
- School of Pharmacy and Life Sciences, Robert Gordon University, The Sir Ian Wood Building, Garthdee Road, Aberdeen AB10 7GJ, UK; (S.S.); (D.C.-M.); (L.A.L.); (C.E.)
| | - Sylvia Soldatou
- School of Pharmacy and Life Sciences, Robert Gordon University, The Sir Ian Wood Building, Garthdee Road, Aberdeen AB10 7GJ, UK; (S.S.); (D.C.-M.); (L.A.L.); (C.E.)
| | - Valeria Freitas de Magalhães
- Biophysics Institute, Federal University of Rio de Janeiro, 373 Avenida Carlos Chagas Filho, Ilha do Fundão, Rio de Janeiro 21941-901, Brazil; (V.F.d.M.); (S.M.F.O.A.)
| | - Sandra M. F. O. Azevedo
- Biophysics Institute, Federal University of Rio de Janeiro, 373 Avenida Carlos Chagas Filho, Ilha do Fundão, Rio de Janeiro 21941-901, Brazil; (V.F.d.M.); (S.M.F.O.A.)
| | - Dolores Camacho-Muñoz
- School of Pharmacy and Life Sciences, Robert Gordon University, The Sir Ian Wood Building, Garthdee Road, Aberdeen AB10 7GJ, UK; (S.S.); (D.C.-M.); (L.A.L.); (C.E.)
| | - Linda A. Lawton
- School of Pharmacy and Life Sciences, Robert Gordon University, The Sir Ian Wood Building, Garthdee Road, Aberdeen AB10 7GJ, UK; (S.S.); (D.C.-M.); (L.A.L.); (C.E.)
| | - Christine Edwards
- School of Pharmacy and Life Sciences, Robert Gordon University, The Sir Ian Wood Building, Garthdee Road, Aberdeen AB10 7GJ, UK; (S.S.); (D.C.-M.); (L.A.L.); (C.E.)
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Chen G, Wang L, Wang M, Hu T. Comprehensive insights into the occurrence and toxicological issues of nodularins. MARINE POLLUTION BULLETIN 2021; 162:111884. [PMID: 33307402 DOI: 10.1016/j.marpolbul.2020.111884] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Revised: 11/01/2020] [Accepted: 11/23/2020] [Indexed: 06/12/2023]
Abstract
The occurrence of cyanobacterial toxins is being increasingly reported. Nodularins (NODs) are one of the cyanotoxins group mainly produced by Nodularia spumigena throughout the world. NODs may exert adverse effects on animal and human health, and NOD-R variant is the most widely investigated. However, research focused on them is still limited. In order to understand the realistic risk well, the aim of this review is to compile the available information in the scientific literature regarding NODs, including their sources, distribution, structural characteristics, physicochemical properties, biosynthesis and degradation, adverse effects in vitro and vivo, and toxicokinetics. More data is urgently needed to integrate the cumulative or synergistic effects of NODs on different species and various cells to better understand, anticipate and aggressively manage their potential toxicity after both short- and long-term exposure in ecosystem, and to minimize or prevent the adverse effects on human health, environment and the economy.
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Affiliation(s)
- Guoliang Chen
- Key Laboratory of Biorheological Science and Technology (Chongqing University), Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing 400030, China
| | - Linping Wang
- Key Laboratory of Biorheological Science and Technology (Chongqing University), Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing 400030, China
| | - Mingxing Wang
- Key Laboratory of Biorheological Science and Technology (Chongqing University), Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing 400030, China
| | - Tingzhang Hu
- Key Laboratory of Biorheological Science and Technology (Chongqing University), Ministry of Education, State and Local Joint Engineering Laboratory for Vascular Implants, Bioengineering College of Chongqing University, Chongqing 400030, China.
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Morón-López J, Nieto-Reyes L, Molina S, Lezcano MÁ. Exploring microcystin-degrading bacteria thriving on recycled membranes during a cyanobacterial bloom. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 736:139672. [PMID: 32502787 DOI: 10.1016/j.scitotenv.2020.139672] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2020] [Revised: 05/22/2020] [Accepted: 05/22/2020] [Indexed: 06/11/2023]
Abstract
Microcystins (MC) are highly toxic secondary metabolites produced by cyanobacterial blooms in many freshwater ecosystems used for recreational and drinking water purposes. So far, biological processes remain to be optimized for an efficient cyanotoxin removal, and new approaches are necessary to compete with physical-chemical treatments. In previous studies we provided a new concept of membrane biofilm reactor made of recycled material, in which a single MC-degrading bacterial strain was inoculated. The present study evaluates the capacity of bacterial consortia associated with freshwater cyanobacterial blooms to form biofilms on recycled membranes and remove MC. Three different discarded reverse osmosis (RO) membranes, previously used in desalination plants after treating brackish water (BWd), seawater (SWd) and brackish water but transformed into nanofiltration (BWt-NF), were exposed to a cyanobacterial bloom in San Juan reservoir (central Spain). Results showed that the three recycled membranes developed a bacterial community with MC removal capacity. Little differences in bacterial coverage and MC removal efficiency between membranes were observed after their exposure in the reservoir. High-throughput sequencing of 16S rRNA gene analysis showed similar bacterial community composition at the phylum level but dissimilar at the order level between the three membranes. This suggests possible surface selectivity on the attached bacterial community. The mlr- candidates such as Burkholderiales and Methylophilales were highly abundant in BWt-NF and BWd, respectively, while mlr+ candidates (e.g. Sphingomonadales) were low abundant in all membranes. Analysis of mlrA and mlrB genes used as markers for MC degradation following mlr-pathway confirmed the presence of this pathway in all membranes. These results suggest the co-existence of both genotypes in membrane-attached native biofilms. Therefore, this study confirms that recycled membranes are suitable support for many MC-degrading bacteria, thus giving value to discarded membranes for eco-friendly and low-cost biological filters.
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Affiliation(s)
- Jesús Morón-López
- IMDEA Water Institute, Punto Com. n° 2, 28805 Alcalá de Henares, Madrid, Spain.; Chemical Engineering Department, University of Alcalá, Ctra. Madrid-Barcelona Km 33,600, 28871 Alcalá de Henares, Madrid, Spain..
| | - Lucía Nieto-Reyes
- IMDEA Water Institute, Punto Com. n° 2, 28805 Alcalá de Henares, Madrid, Spain
| | - Serena Molina
- IMDEA Water Institute, Punto Com. n° 2, 28805 Alcalá de Henares, Madrid, Spain..
| | - María Ángeles Lezcano
- Department of Molecular Evolution, Centro de Astrobiología (CSIC-INTA), 28850 Torrejón de Ardoz, Madrid, Spain
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Krishnan A, Zhang Y, Balaban M, Seo Y, Mou X. Taxonomic and Genotypical Heterogeneity of Microcystin degrading Bacterioplankton in Western Lake Erie. HARMFUL ALGAE 2020; 98:101895. [PMID: 33129453 DOI: 10.1016/j.hal.2020.101895] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Revised: 08/20/2020] [Accepted: 08/22/2020] [Indexed: 06/11/2023]
Abstract
Microcystins (MCs) are among the predominant cyanotoxins that are primarily degraded by heterotrophic bacteria in various freshwater environments, including Lake Erie, a Laurentian Great Lake. However, despite the prevalence of MCs in Lake Erie basins, our knowledge about the taxonomic diversity of local MC-degrading bacteria is largely limited. The current study obtained thirty-four MC-degrading bacterial pure isolates from Lake Erie surface water and characterized their taxonomical and phenotypic identities as well as their MC-degradation rates under different pH, temperature, availability of organic substrates and with other MC-degrading isolates. Obtained MC-degrading isolates included both Gram-positive (18 isolates of Actinobacteria and Firmicutes) and Gram-negative bacteria (16 isolates of Gamma-proteobacteria); and 7 of these isolates were motile, and 13 had the capacity to form biofilms. In general, MC-degradation rates of the isolates were impacted by temperature and pH but insensitive to the presence of cyanobacterial exudates. At the optimal temperature (30-35°C) and pH (7-8), individual isolates degraded MC-LR, the most abundant MC isomer, at an average of 0.20 µg/mL/hr. With additions of cyanobacterial exudates, only Pseudomonas sp. LEw-2029, a non-motile biofilm maker, showed increased MC degradation (0.25 µg/mL/hr). Five out of nine tested dual culture mixtures showed rises in MC degradation rates than their corresponding monocultures; the highest rate reached 0.40 µg/mL/hr for the pair LEw-(1132 + 2029). PCR amplification of mlrA genes yielded negative results for all isolates; subsequent enzyme assay-Mass Spectrum analysis identified no product associated with the mlr gene-based MC degradation pathway. Collectively, our results demonstrated that a diversity of indigenous Lake Erie bacteria can degrade MCs via a novel mlr-independent pathway. Obtained MC degraders, especially Pseudomonas sp. LEw-2029, may serve as candidates for the development of biological filters to remove cyanotoxins in water treatment systems.
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Affiliation(s)
- Anjali Krishnan
- Biological Science Department, Kent State University, Kent Ohio 44242, U.S.A
| | - Yuqin Zhang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, 1 Tiantan Xi Li, Beiing 100050, China
| | - Meaghan Balaban
- Biological Science Department, Kent State University, Kent Ohio 44242, U.S.A
| | - Youngwoo Seo
- Department of Civil and Environmental Engineering, University of Toledo, Mail stop 307, 3006 Nitschke Hall, Toledo, OH, 43606, U.S.A
| | - Xiaozhen Mou
- Biological Science Department, Kent State University, Kent Ohio 44242, U.S.A..
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Yang F, Huang F, Feng H, Wei J, Massey IY, Liang G, Zhang F, Yin L, Kacew S, Zhang X, Pu Y. A complete route for biodegradation of potentially carcinogenic cyanotoxin microcystin-LR in a novel indigenous bacterium. WATER RESEARCH 2020; 174:115638. [PMID: 32145555 DOI: 10.1016/j.watres.2020.115638] [Citation(s) in RCA: 91] [Impact Index Per Article: 22.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2019] [Revised: 02/12/2020] [Accepted: 02/20/2020] [Indexed: 06/10/2023]
Abstract
Microcystin-leucine-arginine (MC-LR), a cyclic potentially carcinogenic hepatotoxin, occurs frequently in aquatic habitats worldwide and seriously threatens ecosystem and public health. Limited effectiveness of physicochemical treatments to remove MC-LR from drinking water has led to a search for alternative cost-effective and environment friendly biodegradation strategies. Obtaining MC-degrading bacteria and understanding their MC-degrading mechanisms are outstanding challenges. Here, a novel indigenous bacterium named Sphingopyxis sp. YF1 with a high efficient capacity for MC-degradation was successfully isolated from eutrophic Lake Taihu. Through integrating mass spectrometer and multi-omics analyses accompanied by functional verification of certain genes and proteins, a complete MC-degradation pathway was firstly identified, in which MC-LR was sequentially degraded into linearized MC-LR, tetrapeptide, Adda, phenylacetic acid, and finally potential product CO2. Some specific proteins such as microcystinase, linearized-microcystinase, tetrapeptidease and PAAase responsible for this pathway were identified. This study pioneeringly demonstrated that MC-LR can be completely degraded through natural remediation processes and revealed a significant potential for MC-LR biodegradation in both natural environment and engineered systems.
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Affiliation(s)
- Fei Yang
- Department of Occupational and Environmental Health, Xiangya School of Public Health, Central South University, Changsha, China.
| | - Feiyu Huang
- Department of Occupational and Environmental Health, Xiangya School of Public Health, Central South University, Changsha, China
| | - Hai Feng
- Department of Occupational and Environmental Health, Xiangya School of Public Health, Central South University, Changsha, China
| | - Jia Wei
- Department of Occupational and Environmental Health, Xiangya School of Public Health, Central South University, Changsha, China
| | - Isaac Yaw Massey
- Department of Occupational and Environmental Health, Xiangya School of Public Health, Central South University, Changsha, China
| | - Geyu Liang
- Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, China
| | - Fang Zhang
- School of Environment and State Key Joint Laboratory of Environment Simulation and Pollution Control, Tsinghua University, Beijing, China
| | - Lihong Yin
- Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, China
| | - Sam Kacew
- McLauglin Centre for Population Health Risk Assessment, Institute of Population Health, University of Ottawa, Ontario, Canada
| | - Xian Zhang
- Department of Occupational and Environmental Health, Xiangya School of Public Health, Central South University, Changsha, China.
| | - Yuepu Pu
- Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, China.
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A Mini Review on Microcystins and Bacterial Degradation. Toxins (Basel) 2020; 12:toxins12040268. [PMID: 32326338 PMCID: PMC7232508 DOI: 10.3390/toxins12040268] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2020] [Revised: 04/08/2020] [Accepted: 04/11/2020] [Indexed: 02/02/2023] Open
Abstract
Microcystins (MCs) classified as hepatotoxic and carcinogenic are the most commonly reported cyanobacterial toxins found in the environment. Microcystis sp. possessing a series of MC synthesis genes (mcyA-mcyJ) are well documented for their excessive abundance, numerous bloom occurrences and MC producing capacity. About 246 variants of MC which exert severe animal and human health hazards through the inhibition of protein phosphatases (PP1 and PP2A) have been characterized. To minimize and prevent MC health consequences, the World Health Organization proposed 1 µg/L MC guidelines for safe drinking water quality. Further the utilization of bacteria that represent a promising biological treatment approach to degrade and remove MC from water bodies without harming the environment has gained global attention. Thus the present review described toxic effects and bacterial degradation of MCs.
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Chun SJ, Cui Y, Lee JJ, Choi IC, Oh HM, Ahn CY. Network analysis reveals succession of Microcystis genotypes accompanying distinctive microbial modules with recurrent patterns. WATER RESEARCH 2020; 170:115326. [PMID: 31838363 DOI: 10.1016/j.watres.2019.115326] [Citation(s) in RCA: 46] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Revised: 11/08/2019] [Accepted: 11/18/2019] [Indexed: 05/26/2023]
Abstract
Every member of the ecological community is connected via a network of vital and complex relationships, called the web of life. To elucidate the ecological network and interactions among producers, consumers, and decomposers in the Daechung Reservoir, Korea, during cyanobacterial harmful algal blooms (cyanoHAB), especially those involving Microcystis, we investigated the diversity and compositions of the cyanobacterial (16S rRNA gene), including the genotypes of Microcystis (cpcBA-IGS gene), non-cyanobacterial (16S), and eukaryotic (18S) communities through high-throughput sequencing. Microcystis blooms were divided into the Summer Major Bloom and Autumn Minor Bloom with different dominant genotypes of Microcystis. Network analysis demonstrated that the modules involved in the different phases of the Microcystis blooms were categorized into the Pre-Bloom, Bloom, Post-Bloom, and Non-Bloom Groups at all sampling stations. In addition, the non-cyanobacterial components of each Group were classified, while the same Group showed similarity across all stations, suggesting that Microcystis and other microbes were highly interdependent and organized into cyanoHAB-related module units. Importantly, the Microcystis genotype-based sub-network uncovered that Pirellula, Pseudanabaena, and Vampirovibrionales preferred to interact with specific Microcystis genotypes in the Summer Major Bloom than with other genotypes in the Autumn Minor Bloom, while the copepod Skistodiaptomus exhibited the opposite pattern. In conclusion, the transition patterns of cyanoHAB-related modules and their key components could be crucial in the succession of Microcystis genotypes and to enhance the understanding of microbial ecology in an aquatic environment.
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Affiliation(s)
- Seong-Jun Chun
- Cell Factory Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 34141, Republic of Korea; Department of Environmental Biotechnology, KRIBB School of Biotechnology - Korea University of Science and Technology (UST), Daejeon 34113, Republic of Korea
| | - Yingshun Cui
- Cell Factory Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 34141, Republic of Korea
| | - Jay Jung Lee
- Geum River Environment Research Center, National Institute of Environmental Research, Chungbuk 29027, Republic of Korea
| | - In-Chan Choi
- Geum River Environment Research Center, National Institute of Environmental Research, Chungbuk 29027, Republic of Korea
| | - Hee-Mock Oh
- Cell Factory Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 34141, Republic of Korea; Department of Environmental Biotechnology, KRIBB School of Biotechnology - Korea University of Science and Technology (UST), Daejeon 34113, Republic of Korea.
| | - Chi-Yong Ahn
- Cell Factory Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 34141, Republic of Korea; Department of Environmental Biotechnology, KRIBB School of Biotechnology - Korea University of Science and Technology (UST), Daejeon 34113, Republic of Korea.
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Silva MOD, Pernthaler J. Priming of microcystin degradation in carbon-amended membrane biofilm communities is promoted by oxygen-limited conditions. FEMS Microbiol Ecol 2019; 95:5582606. [PMID: 31589311 PMCID: PMC6804753 DOI: 10.1093/femsec/fiz157] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Accepted: 10/04/2019] [Indexed: 01/09/2023] Open
Abstract
Microbial biofilms are an important element of gravity-driven membrane (GDM) filtration systems for decentralized drinking water production. Mature biofilms fed with biomass from the toxic cyanobacterium Microcystis aeruginosa efficiently remove the cyanotoxin microcystin (MC). MC degradation can be ‘primed’ by prior addition of biomass from a non-toxic M. aeruginosa strain. Increased proportions of bacteria with an anaerobic metabolism in M. aeruginosa-fed biofilms suggest that this ‘priming’ could be due to higher productivity and the resulting changes in habitat conditions. We, therefore, investigated GDM systems amended with the biomass of toxic (WT) or non-toxic (MUT) M. aeruginosa strains, of diatoms (DT), or with starch solution (ST). After 25 days, these treatments were changed to receiving toxic cyanobacterial biomass. MC degradation established significantly more rapidly in MUT and ST than in DT. Oxygen measurements suggested that this was due to oxygen-limited conditions in MUT and ST already prevailing before addition of MC-containing biomass. Moreover, the microbial communities in the initial ST biofilms featured high proportions of facultative anaerobic taxa, whereas aerobes dominated in DT biofilms. Thus, the ‘priming’ of MC degradation in mature GDM biofilms seems to be related to the prior establishment of oxygen-limited conditions mediated by higher productivity.
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Affiliation(s)
- Marisa O D Silva
- Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Seestrasse 187, CH-8802 Kilchberg, Switzerland
| | - Jakob Pernthaler
- Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Seestrasse 187, CH-8802 Kilchberg, Switzerland
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Xu Q, Ma H, Fan J, Yan H, Zhang H, Yin C, Liu X, Liu Y, Wang H. Cloning and Expression of Genes for Biodegrading Nodularin by Sphingopyxis sp. USTB-05. Toxins (Basel) 2019; 11:E549. [PMID: 31547007 PMCID: PMC6832836 DOI: 10.3390/toxins11100549] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2019] [Revised: 09/16/2019] [Accepted: 09/17/2019] [Indexed: 01/08/2023] Open
Abstract
Biodegradation is efficient for removing cyanobacterial toxins, such as microcystins (MCs) and nodularin (NOD). However, not all the microbial strains with the microcystin-biodegrading enzymes MlrA and MlrC could biodegrade NOD. Studies on genes and enzymes for biodegrading NOD can reveal the function and the biodegradation pathway of NOD. Based on successful cloning and expression of the USTB-05-A and USTB-05-C genes from Sphingopyxis sp. USTB-05, which are responsible for the biodegradation of MCs, the pathway for biodegrading NOD by these two enzymes was investigated in this study. The findings showed that the enzyme USTB-05-A converted cyclic NOD (m/z 825.4516) into its linear type as the first product by hydrolyzing the arginine and Adda peptide bond, and that USTB-05-C cut off the Adda and glutamic acid peptide bond of linearized NOD (m/z 843.4616) and produced dimeric Adda (m/z 663.4377) as the second product. Further, based on the homology modeling of enzyme USTB-05-A, site-directed mutants of USTB-05-A were constructed and seven crucial sites for enzyme USTB-05-A activity were found. A complete enzymatic mechanism for NOD biodegradation by USTB-05-A in the first step was proposed: glutamic acid 172 and histidine 205 activate a water molecule facilitating a nucleophilic attack on the arginine and Adda peptide bond of NOD; tryptophan 176 and tryptophan 201 contact the carboxylate side chain of glutamic acid 172 and accelerate the reaction rates; and histidine 260 and asparagine 264 function as an oxyanion hole to stabilize the transition states.
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Affiliation(s)
- Qianqian Xu
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Hongfei Ma
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Jinhui Fan
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Hai Yan
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Haiyang Zhang
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Chunhua Yin
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Xiaolu Liu
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Yang Liu
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
| | - Huasheng Wang
- School of Architectural and Surveying & Mapping Engineering, Jiangxi University of Science and Technology, Ganzhou 341000, China.
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Zhang W, Li J, Wang C, Zhou X, Gao Y, Jia Z. Stable-isotope probing of bacterial community for dissolved inorganic carbon utilization in Microcystis aeruginosa-dominated eutrophic water. J Environ Sci (China) 2019; 79:264-272. [PMID: 30784450 DOI: 10.1016/j.jes.2018.11.006] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Revised: 11/02/2018] [Accepted: 11/07/2018] [Indexed: 06/09/2023]
Abstract
Dissolved inorganic carbon (DIC) is an important source of carbon in aquatic ecosystems, especially under conditions of increased frequency of cyanobacterial bloom. However, the importance of bacteria in direct or indirect utilization of DIC has been widely overlooked in eutrophic freshwater. To identify the functional bacteria that can actively utilize DIC in eutrophic freshwater during cyanobacterial bloom, stable-isotope probing (SIP) experiments were conducted on eutrophic river water with or without inoculation with cyanobacteria (Microcystis aeruginosa). Our 16S rRNA sequencing results revealed the significance of Betaproteobacteria, with similar relative abundance as Alphaproteobacteria, in the active assimilation of H13CO3- into their DNA directly or indirectly, which include autotrophic genera Betaproteobacterial ammonia-oxidizing bacteria. Other bacterial groups containing autotrophic members, e.g. Planctomycetes and Nitrospira, also presented higher abundance among free-living bacteria in water without cyanobacteria. Microcystis aggregates showed a preference for some specific bacterial members that may utilize H13CO3- metabolized by Microcystis as organic matter, e.g. Bacteroidetes (Cytophagales, Sphingobacteriales), and microcystin-degrading bacteria Betaproteobacteria (Paucibacter/Burkholderiaceae). This study provides some valuable information regarding the functional bacteria that can actively utilize DIC in eutrophic freshwater.
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Affiliation(s)
- Weiguo Zhang
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China; Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Nanjing 210014, China; China Ministry of Agriculture Key Laboratory at Yangtze River Plain for Agricultural Environment, Nanjing 210014, China.
| | - Jiangye Li
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China.
| | - Chengcheng Wang
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China; College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Xue Zhou
- College of Water Conservancy and Hydropower Engineering, Hohai University, Nanjing 210098, China
| | - Yan Gao
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China; Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Nanjing 210014, China; China Ministry of Agriculture Key Laboratory at Yangtze River Plain for Agricultural Environment, Nanjing 210014, China.
| | - Zhongjun Jia
- Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
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Silva MOD, Desmond P, Derlon N, Morgenroth E, Pernthaler J. Source Community and Assembly Processes Affect the Efficiency of Microbial Microcystin Degradation on Drinking Water Filtration Membranes. Front Microbiol 2019; 10:843. [PMID: 31057530 PMCID: PMC6482319 DOI: 10.3389/fmicb.2019.00843] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Accepted: 04/02/2019] [Indexed: 01/14/2023] Open
Abstract
Microbial biofilms in gravity-driven membrane (GDM) filtration systems can efficiently degrade the cyanotoxin microcystin (MC), but it is unclear if this function depends on the presence of MC-producing cyanobacteria in the source water habitat. We assessed the removal of MC from added Microcystis aeruginosa biomass in GDMs fed with water from a lake with regular blooms of toxic cyanobacteria (ExpL) or from a stream without such background (ExpS). While initial MC removal was exclusively due to abiotic processes, significantly higher biological MC removal was observed in ExpL. By contrast, there was no difference in MC degradation capacity between lake and stream bacteria in separately conducted liquid enrichments on pure MC. Co-occurrence network analysis revealed a pronounced modularity of the biofilm communities, with a clear hierarchic distinction according to feed water origin and treatment type. Genotypes in the network modules associated with ExpS had significantly more links to each other, indicating that these biofilms had assembled from a more coherent source community. In turn, signals for stochastic community assembly were stronger in ExpL biofilms. We propose that the less "tightly knit" ExpL biofilm assemblages allowed for the better establishment of facultatively MC degrading bacteria, and thus for higher overall functional efficiency.
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Affiliation(s)
- Marisa O. D. Silva
- Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Zurich, Switzerland
| | - Peter Desmond
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
- Institute of Environmental Engineering, ETH Zurich, Institute of Environmental Engineering, Zurich, Switzerland
| | - Nicolas Derlon
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
| | - Eberhard Morgenroth
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
- Institute of Environmental Engineering, ETH Zurich, Institute of Environmental Engineering, Zurich, Switzerland
| | - Jakob Pernthaler
- Limnological Station, Department of Plant and Microbial Biology, University of Zurich, Zurich, Switzerland
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Massey IY, Zhang X, Yang F. Importance of bacterial biodegradation and detoxification processes of microcystins for environmental health. JOURNAL OF TOXICOLOGY AND ENVIRONMENTAL HEALTH. PART B, CRITICAL REVIEWS 2018; 21:357-369. [PMID: 30373489 DOI: 10.1080/10937404.2018.1532701] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Microcystins (MC) the most frequently reported cyanobacterial harmful algal bloom toxins primarily found in some species of freshwater genera pose a serious threat to human and animal health. To reduce health risks associated with MC exposure it is important to remove these toxins found in drinking and recreational waterbodies. Since the physical and chemical water treatment methods are inefficient in completely degrading MC, alternative approaches to effectively detoxify MC have become the focus of global research. The aim of this review was to provide the current approach to cost-effective biological treatment methods which utilize bacteria to degrade MC without generation of harmful by-products. In addition, the catabolic pathways involved in MC-degradation involving proteins encoded mlr gene cluster, intermediate products and efficiencies of bacteria strain/bacteria community are presented and compared.
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Affiliation(s)
- Isaac Yaw Massey
- a Department of Occupational and Environmental Health, Xiangya School of Public Health , Central South University , Changsha , China
| | - Xian Zhang
- a Department of Occupational and Environmental Health, Xiangya School of Public Health , Central South University , Changsha , China
| | - Fei Yang
- a Department of Occupational and Environmental Health, Xiangya School of Public Health , Central South University , Changsha , China
- b Key Laboratory of Environmental Medicine Engineering, Ministry of Education , School of Public Health Southeast University , Nanjing , China
- c Key laboratory of Hunan Province for Water Environment and Agriculture Product Safety , Central South University , Changsha , China
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Draft Genome Sequence of Paucibacter aquatile CR182 T, a Strain with Antimicrobial Activity Isolated from Freshwater of Nakdong River in South Korea. GENOME ANNOUNCEMENTS 2018; 6:6/17/e00194-18. [PMID: 29700134 PMCID: PMC5920192 DOI: 10.1128/genomea.00194-18] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
This report details a draft genome sequence of Paucibacter aquatile CR182T, isolated from river water, which contains 5,523,543 bp, has a G+C content of 66.3%, and harbors 4,544 protein-coding genes in 4 contigs. These genome data provide insights into the genetic basis of this strain’s antibacterial activity and adaptive mechanisms.
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Nam YH, Choi A, Hwang JM, Yim KJ, Kim JH, Choi GG, Chung EJ. Paucibacter aquatile sp. nov. isolated from freshwater of the Nakdong River, Republic of Korea. Arch Microbiol 2018; 200:877-882. [PMID: 29468317 DOI: 10.1007/s00203-018-1494-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2017] [Revised: 01/18/2018] [Accepted: 02/09/2018] [Indexed: 10/18/2022]
Abstract
A Gram-negative, aerobic, motile, and rod-shaped bacterial strain designated CR182T was isolated from freshwater of the Nakdong River, Republic of Korea. Optimal growth conditions for this novel strain were found to be: 25-30 °C, pH 6.5-8.5, and 3% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequence indicates that the strain CR182T belongs to type strains of genus Paucibacter. Strain CR182T showed 98.0% 16S rRNA gene sequence similarity with Paucibacter oligotrophus CHU3T and formed a robust phylogenetic clade with this species. The average nucleotide identity value between strain CR182T and P. oligotrophus CHU3T was 78.4% and the genome-to-genome distance was 22.2% on average. The genomic DNA G+C content calculated from the genome sequence was 66.3 mol%. Predominant cellular fatty acids of strain CR182T were summed feature 3 (C16:1 ω7c and/or C16:1 ω6c) (31.2%) and C16:0 (16.0%). Its major respiratory quinine was ubiquinone Q-8. Its polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, and two unidentified phospholipids. Its genomic DNA G+C content was 66.3%. Based on data obtained from this polyphasic taxonomic study, strain CR182T represents a novel species belonging to genus Paucibacter, for which a name of P. aquatile sp. nov. is proposed. The type strain is CR182T (= KCCM 90284T = NBRC 113032T).
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Affiliation(s)
- Young Ho Nam
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea
| | - Ahyoung Choi
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea
| | - Jung Moon Hwang
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea
| | - Kyung June Yim
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea
| | - Jee-Hwan Kim
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea
| | - Gang-Guk Choi
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea
| | - Eu Jin Chung
- Freshwater Bioresources Culture Research Bureau, Nakdonggang National Institute of Biological Resources (NNIBR), 137, Donam 2-gil, Sangju-si, Gyeongsangbuk-do, 37242, Republic of Korea.
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37
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Font Nájera A, Serwecińska LE, Gągała-Borowska I, Jurczak TE, Mankiewicz-Boczek JD. The characterization of a novel bacterial strain capable of microcystin degradation from the Jeziorsko reservoir, Poland: a preliminary study. Biologia (Bratisl) 2017. [DOI: 10.1515/biolog-2017-0172] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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38
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Morón-López J, Nieto-Reyes L, El-Shehawy R. Assessment of the influence of key abiotic factors on the alternative microcystin degradation pathway(s) (mlr -): A detailed comparison with the mlr route (mlr +). THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 599-600:1945-1953. [PMID: 28549370 DOI: 10.1016/j.scitotenv.2017.04.042] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2017] [Revised: 04/06/2017] [Accepted: 04/06/2017] [Indexed: 06/07/2023]
Abstract
Cyanobacterial proliferation and toxin production in water bodies around the world have led to global concern about the control of these issues. Indigenous bacteria have been shown to degrade the cyanotoxin microcystin (MC) in natural environments. The mlr cluster has been widely used as a marker for microcystin biodegradation; however, recent studies have shown that alternative pathway(s) also contribute to the natural removal of MCs in the ecosystem. The main objective of this study is to provide initial insights concerning how key abiotic factors affect the rate of MC biodegradation via alternative pathway(s) and to provide a detailed comparison with the mlr+ pathway. Our results show that nutrient inputs and previous exposure to MCs trigger changes in the rate of MC degradation via alternative pathway(s), while temperature does not produce any significant change. Our results further indicate that the alternative pathway(s) may be less efficient at degrading MCs than the mlr+ pathway, suggesting the importance of microbial diversity in determining the half-life of MCs in the water column.
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Lezcano MÁ, Velázquez D, Quesada A, El-Shehawy R. Diversity and temporal shifts of the bacterial community associated with a toxic cyanobacterial bloom: An interplay between microcystin producers and degraders. WATER RESEARCH 2017; 125:52-61. [PMID: 28829999 DOI: 10.1016/j.watres.2017.08.025] [Citation(s) in RCA: 72] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Revised: 08/05/2017] [Accepted: 08/10/2017] [Indexed: 06/07/2023]
Abstract
The biodegradation of microcystins (MCs) by bacteria constitutes an important process in freshwater ecosystems to prevent the accumulation of toxins. However, little is known about the diversity and the seasonal dynamics of the bacterial community composition (BCC) involved in the degradation of MCs in nature. To explore these BCC shifts, high-throughput sequencing was used to analyse the 16S rRNA, mcyE and mlrA genes during a year in a freshwater reservoir with a toxic cyanobacterial bloom episode. The analysis of the mcyE and mlrA genes from water samples revealed the coexistence of different MC-producing and MC-degrading genotypes, respectively. The patchy temporal distribution of the mlrA genotypes (from the families Sphingomonadaceae and Xanthomonadaceae) suggests their dissimilar response to environmental conditions and the influence of other factors besides the MCs that may control their presence and relative abundance. During the maximum toxic cyanobacterial biomass and cell lysis, other bacterial taxa that lack mlr genes increased their relative abundance. Among these bacteria, those with a recognized role in the degradation of xenobiotic and other complex organic compounds (e.g., orders Myxococcales, Ellin6067, Spirobacillales and Cytophagales) were the most representative and suggest their possible involvement in the removal of MCs in the environment.
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Affiliation(s)
- María Ángeles Lezcano
- IMDEA Water Institute, Av. Punto Com, 2, Alcalá de Henares, Madrid, 28805, Spain; Departamento de Biología, C. Darwin 2, Universidad Autónoma de Madrid, Cantoblanco, 28049, Spain
| | - David Velázquez
- Departamento de Biología, C. Darwin 2, Universidad Autónoma de Madrid, Cantoblanco, 28049, Spain
| | - Antonio Quesada
- Departamento de Biología, C. Darwin 2, Universidad Autónoma de Madrid, Cantoblanco, 28049, Spain
| | - Rehab El-Shehawy
- IMDEA Water Institute, Av. Punto Com, 2, Alcalá de Henares, Madrid, 28805, Spain.
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Dziga D, Maksylewicz A, Maroszek M, Budzyńska A, Napiorkowska-Krzebietke A, Toporowska M, Grabowska M, Kozak A, Rosińska J, Meriluoto J. The biodegradation of microcystins in temperate freshwater bodies with previous cyanobacterial history. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2017; 145:420-430. [PMID: 28772230 DOI: 10.1016/j.ecoenv.2017.07.046] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Revised: 07/17/2017] [Accepted: 07/18/2017] [Indexed: 06/07/2023]
Abstract
Cyanobacterial blooms and cyanotoxins occur in freshwater lakes and reservoirs all over the world. Bacterial degradation of microcystins (MC), hepatotoxins produced by several cyanobacterial species, has also been broadly documented. However, information regarding MC biodegradation in European water bodies is very limited. In this paper, the occurrence and identification of MC biodegradation products was documented for 21 European lakes and reservoirs, many of which have well-documented cyanobacterial bloom histories. Varying cyanobacterial abundance and taxonomical composition were documented and MC producers were found in all the analysed samples. Planktothrix agardhii was the most common cyanobacterial species and it formed mass occurrences in four lakes. MC biodegradation was observed in 86% of the samples (18 out of 21), and four products of dmMC-LR decomposition were detected by HPLC and LC-MS methods. The two main products were cyclic dmMC-LR with modifications in the Arg-Asp-Leu region; additionally one product was recognized as the tetrapeptide Adda-Glu-Mdha-Ala. The composition of the detected products suggested a new biochemical pathway of MC degradation. The results confirmed the hypothesis that microcystin biodegradation is a common phenomenon in central European waters and that it may occur by a mechanism which is different from the one previously reported. Such a finding implies the necessity to develop a more accurate methodology for screening bacteria with MC biodegradation ability. Furthermore, it warrants new basic and applied studies on the characterization and utilization of new MC-degrading strains and biodegradation pathways.
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Affiliation(s)
- Dariusz Dziga
- Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30387 Krakow, Poland.
| | - Anna Maksylewicz
- Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30387 Krakow, Poland
| | - Magdalena Maroszek
- Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30387 Krakow, Poland
| | - Agnieszka Budzyńska
- Department of Water Protection, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61614 Poznań, Poland
| | | | - Magdalena Toporowska
- Department of Hydrobiology, University of Life Sciences in Lublin, Dobrzańskiego 37, 20262 Lublin, Poland
| | - Magdalena Grabowska
- Department of Hydrobiology, University of Białystok, Ciołkowskiego 1J, 15245 Białystok, Poland
| | - Anna Kozak
- Department of Water Protection, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61614 Poznań, Poland
| | - Joanna Rosińska
- Department of Water Protection, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61614 Poznań, Poland
| | - Jussi Meriluoto
- Biochemistry, Faculty of Science and Engineering, Åbo Akademi University, Tykistökatu 6A, 20520 Turku, Finland
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Li J, Li R, Li J. Current research scenario for microcystins biodegradation - A review on fundamental knowledge, application prospects and challenges. THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 595:615-632. [PMID: 28407581 DOI: 10.1016/j.scitotenv.2017.03.285] [Citation(s) in RCA: 154] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Revised: 03/26/2017] [Accepted: 03/31/2017] [Indexed: 05/20/2023]
Abstract
Microcystins (MCs) are common cyanotoxins produced by harmful cyanobacterial blooms (HCBs) and severely threaten human and ecosystems health. Biodegradation is an efficient and sustainable biological strategy for MCs removal. Many novel findings in fundamental knowledge and application potential of MC-biodegradation have been documented. Little effort has devoted to summarize and comment recent research progress on MC-biodegradation, and discuss the research problems and gaps. This review deals with current research scenario in aerobic and anaerobic biodegradation for MCs. Diverse organisms capable of degrading MCs are encapsulated. Enzymatic mechanisms and influence factors regulating aerobic and anaerobic MC-biodegradation are summarized and discussed, which are essential for assessing and reducing MC-risks during HCBs episodes. Also, we propose some ideas to solve the challenges and bottleneck problems in practical application of MC-biodegradation, and discuss research gaps and promising research methods which deserve special attention. This review may provide new insights on future direction of MC-biodegradation research, in order to further broaden its application prospects for bioremediation.
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Affiliation(s)
- Jieming Li
- College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China.
| | - Renhui Li
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, Hubei 430072, China
| | - Ji Li
- College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
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42
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Hosen JD, Febria CM, Crump BC, Palmer MA. Watershed Urbanization Linked to Differences in Stream Bacterial Community Composition. Front Microbiol 2017; 8:1452. [PMID: 28824582 PMCID: PMC5539594 DOI: 10.3389/fmicb.2017.01452] [Citation(s) in RCA: 71] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2017] [Accepted: 07/18/2017] [Indexed: 11/13/2022] Open
Abstract
Urbanization strongly influences headwater stream chemistry and hydrology, but little is known about how these conditions impact bacterial community composition. We predicted that urbanization would impact bacterial community composition, but that stream water column bacterial communities would be most strongly linked to urbanization at a watershed-scale, as measured by impervious cover, while sediment bacterial communities would correlate with environmental conditions at the scale of stream reaches. To test this hypothesis, we determined bacterial community composition in the water column and sediment of headwater streams located across a gradient of watershed impervious cover using high-throughput 16S rRNA gene amplicon sequencing. Alpha diversity metrics did not show a strong response to catchment urbanization, but beta diversity was significantly related to watershed impervious cover with significant differences also found between water column and sediment samples. Samples grouped primarily according to habitat—water column vs. sediment—with a significant response to watershed impervious cover nested within each habitat type. Compositional shifts for communities in urbanized streams indicated an increase in taxa associated with human activity including bacteria from the genus Polynucleobacter, which is widespread, but has been associated with eutrophic conditions in larger water bodies. Another indicator of communities in urbanized streams was an OTU from the genus Gallionella, which is linked to corrosion of water distribution systems. To identify changes in bacterial community interactions, bacterial co-occurrence networks were generated from urban and forested samples. The urbanized co-occurrence network was much smaller and had fewer co-occurrence events per taxon than forested equivalents, indicating a loss of keystone taxa with urbanization. Our results suggest that urbanization has significant impacts on the community composition of headwater streams, and suggest that processes driving these changes in urbanized water column vs. sediment environments are distinct.
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Affiliation(s)
- Jacob D Hosen
- Chesapeake Biological LaboratorySolomons, MD, United States.,Department of Entomology, University of MarylandCollege Park, MD, United States.,College of Earth, Ocean, and Atmospheric Sciences, Oregon State UniversityCorvallis, OR, United States
| | - Catherine M Febria
- Chesapeake Biological LaboratorySolomons, MD, United States.,School of Biological Sciences, University of CanterburyChristchurch, New Zealand
| | - Byron C Crump
- School of Forestry and Environmental Studies, Yale UniversityNew Haven, CT, United States
| | - Margaret A Palmer
- Chesapeake Biological LaboratorySolomons, MD, United States.,Department of Entomology, University of MarylandCollege Park, MD, United States.,National Socio-Environmental Synthesis CenterAnnapolis, MD, United States
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43
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Pheng S, Lee JJ, Eom MK, Lee KH, Kim SG. Paucibacter oligotrophus sp. nov., isolated from fresh water, and emended description of the genus Paucibacter. Int J Syst Evol Microbiol 2017; 67:2231-2235. [PMID: 28671521 DOI: 10.1099/ijsem.0.001931] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, rod-shaped, non-spore forming, motile and strictly oxidative bacterium, strain CHU3T, was isolated from fresh water in the Daecheong Reservoir, South Korea. A comparison of the 16S rRNA gene sequence showed that the novel bacterium is closely related to Paucibacter toxinivorans 2C20T (=KCTC 42569T) with a sequence similarity value of 97.8 %, Pelomonas saccharophila DSM 654T (=KCTC 52256T) with 97.4 % similarity and Pelomonas aquatica CCUG 52575T (=KCTC 42961T) with 97.3 % similarity, respectively. The major fatty acids (>10 %) of the isolate were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. Ubiquinone-8 was detected as the respiratory quinone. The polar lipids contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylserine and an unidentified aminolipid. The DNA G+C content was 62.5 mol%. DNA-DNA hybridization experiments with PaucibactertoxinivoransKCTC 42569T (=2C20T), PelomonassaccharophilaKCTC 52256T (=DSM 654T) and PelomonasaquaticaKCTC 42961T (=CCUG 52575T) resulted in relatedness values of 20 % (reciprocal 11 %), 16 % (reciprocal 17 %) and 15 % (reciprocal 19 %), respectively. The phylogenetic analysis, DNA-DNA hybridization value, polar lipids, fatty acid composition and other physiological characteristics confirmed that strain CHU3T represents a novel species in the genus Paucibacter for which the name Paucibacter oligotrophus sp. nov. is proposed. The type strain is CHU3T (=KCTC 42519T=CICC 24092T). An emended description of the genus Paucibacter is also proposed on the basis of new data obtained in this study.
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Affiliation(s)
- Sophea Pheng
- Biological Resource Center/Korean Collection for Type Cultures (KCTC), Korea Research Institute of Bioscience and Biotechnology, 181 Ipsingil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.,University of Science and Technology (UST), 217 Gajeongro, Yuseong, Daejeon 34113, Republic of Korea
| | - Jay Jung Lee
- Geum River Environment Research Center, National Institute of Environmental Research, 182-18 Jiyong-ro Okcheon-gun, Chungbuk 29027, Republic of Korea
| | - Mi Kyung Eom
- Biological Resource Center/Korean Collection for Type Cultures (KCTC), Korea Research Institute of Bioscience and Biotechnology, 181 Ipsingil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea
| | - Kang Hyun Lee
- Biological Resource Center/Korean Collection for Type Cultures (KCTC), Korea Research Institute of Bioscience and Biotechnology, 181 Ipsingil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea
| | - Song-Gun Kim
- Biological Resource Center/Korean Collection for Type Cultures (KCTC), Korea Research Institute of Bioscience and Biotechnology, 181 Ipsingil, Jeongeup-si, Jeollabuk-do 56212, Republic of Korea.,University of Science and Technology (UST), 217 Gajeongro, Yuseong, Daejeon 34113, Republic of Korea
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Vandermaesen J, Lievens B, Springael D. Isolation and identification of culturable bacteria, capable of heterotrophic growth, from rapid sand filters of drinking water treatment plants. Res Microbiol 2017; 168:594-607. [DOI: 10.1016/j.resmic.2017.03.008] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2016] [Revised: 03/08/2017] [Accepted: 03/29/2017] [Indexed: 10/19/2022]
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Grazing of Nuclearia thermophila and Nuclearia delicatula (Nucleariidae, Opisthokonta) on the toxic cyanobacterium Planktothrix rubescens. Eur J Protistol 2017; 60:87-101. [PMID: 28675820 DOI: 10.1016/j.ejop.2017.05.009] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2017] [Revised: 05/29/2017] [Accepted: 05/31/2017] [Indexed: 02/03/2023]
Abstract
During the last decades, the planktonic cyanobacterium Planktothrix rubescens became a dominant primary producer in many deep pre-alpine lakes. While altered physiochemical conditions due to lake warming seem to favour this cyanobacterial species, its dominance is partly attributed to factors conferring grazing resistance. The rigid structure of the cyanobacterial filaments and toxic secondary metabolites (e.g. microcystins) protect against diverse grazers. Nonetheless, species of the protistan genus Nuclearia (Nucleariidae, Opisthokonta) are able to overcome this grazing protection. Time lapse video documentation served as tool to record slow feeding processes of N. thermophila and N. delicatula. Three different feeding strategies could be distinguished: (i) Phagocytosis of small fragments, (ii) serial break-ups of cyanobacterial cells and (iii) bending and breaking of filaments. While observations revealed mechanical manipulation to be important for the efficient breakdown of P. rubescens filaments, the toxin microcystin had no pronounced negative effects on nucleariid cells. Growth experiments with N. thermophila/N. delicatula and different accompanying bacterial assemblages pointed to a pivotal role of distinct prokaryotic species for toxin degradation and for the growth success of the protists. Thus, the synergistic effect of nucleariids and specific bacteria favours an efficient degradation of P. rubescens along with its toxin.
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Parulekar NN, Kolekar P, Jenkins A, Kleiven S, Utkilen H, Johansen A, Sawant S, Kulkarni-Kale U, Kale M, Sæbø M. Characterization of bacterial community associated with phytoplankton bloom in a eutrophic lake in South Norway using 16S rRNA gene amplicon sequence analysis. PLoS One 2017; 12:e0173408. [PMID: 28282404 PMCID: PMC5345797 DOI: 10.1371/journal.pone.0173408] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2016] [Accepted: 02/19/2017] [Indexed: 11/19/2022] Open
Abstract
Interactions between different phytoplankton taxa and heterotrophic bacterial communities within aquatic environments can differentially support growth of various heterotrophic bacterial species. In this study, phytoplankton diversity was studied using traditional microscopic techniques and the bacterial communities associated with phytoplankton bloom were studied using High Throughput Sequencing (HTS) analysis of 16S rRNA gene amplicons from the V1-V3 and V3-V4 hypervariable regions. Samples were collected from Lake Akersvannet, a eutrophic lake in South Norway, during the growth season from June to August 2013. Microscopic examination revealed that the phytoplankton community was mostly represented by Cyanobacteria and the dinoflagellate Ceratium hirundinella. The HTS results revealed that Proteobacteria (Alpha, Beta, and Gamma), Bacteriodetes, Cyanobacteria, Actinobacteria and Verrucomicrobia dominated the bacterial community, with varying relative abundances throughout the sampling season. Species level identification of Cyanobacteria showed a mixed population of Aphanizomenon flos-aquae, Microcystis aeruginosa and Woronichinia naegeliana. A significant proportion of the microbial community was composed of unclassified taxa which might represent locally adapted freshwater bacterial groups. Comparison of cyanobacterial species composition from HTS and microscopy revealed quantitative discrepancies, indicating a need for cross validation of results. To our knowledge, this is the first study that uses HTS methods for studying the bacterial community associated with phytoplankton blooms in a Norwegian lake. The study demonstrates the value of considering results from multiple methods when studying bacterial communities.
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MESH Headings
- Bacteria/genetics
- Bacteria/isolation & purification
- Bacteria/metabolism
- Cyanobacteria/genetics
- DNA, Bacterial/chemistry
- DNA, Bacterial/isolation & purification
- DNA, Bacterial/metabolism
- Enzyme-Linked Immunosorbent Assay
- High-Throughput Nucleotide Sequencing
- Lakes/microbiology
- Microcystins/analysis
- Microcystis/genetics
- Microcystis/metabolism
- Norway
- Phytoplankton/genetics
- Phytoplankton/growth & development
- Proteobacteria/genetics
- RNA, Ribosomal, 16S/chemistry
- RNA, Ribosomal, 16S/genetics
- RNA, Ribosomal, 16S/metabolism
- Sequence Analysis, DNA
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Affiliation(s)
- Niranjan Nitin Parulekar
- Department of Natural Sciences and Environmental Health, Faculty of Technology, Natural Sciences and Maritime Sciences, University College of Southeast Norway, Bø i Telemark, Norway
- * E-mail:
| | - Pandurang Kolekar
- Bioinformatics Centre, Savitribai Phule Pune University (formerly University of Pune), Pune, India
| | - Andrew Jenkins
- Department of Natural Sciences and Environmental Health, Faculty of Technology, Natural Sciences and Maritime Sciences, University College of Southeast Norway, Bø i Telemark, Norway
| | - Synne Kleiven
- Department of Natural Sciences and Environmental Health, Faculty of Technology, Natural Sciences and Maritime Sciences, University College of Southeast Norway, Bø i Telemark, Norway
| | - Hans Utkilen
- Department of Natural Sciences and Environmental Health, Faculty of Technology, Natural Sciences and Maritime Sciences, University College of Southeast Norway, Bø i Telemark, Norway
| | - Anette Johansen
- Department of Natural Sciences and Environmental Health, Faculty of Technology, Natural Sciences and Maritime Sciences, University College of Southeast Norway, Bø i Telemark, Norway
| | - Sangeeta Sawant
- Bioinformatics Centre, Savitribai Phule Pune University (formerly University of Pune), Pune, India
| | - Urmila Kulkarni-Kale
- Bioinformatics Centre, Savitribai Phule Pune University (formerly University of Pune), Pune, India
| | - Mohan Kale
- Department of Statistics, Savitribai Phule Pune University (formerly University of Pune), Pune, India
| | - Mona Sæbø
- Department of Natural Sciences and Environmental Health, Faculty of Technology, Natural Sciences and Maritime Sciences, University College of Southeast Norway, Bø i Telemark, Norway
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Lee J, Lee S, Jiang X. Cyanobacterial Toxins in Freshwater and Food: Important Sources of Exposure to Humans. Annu Rev Food Sci Technol 2017; 8:281-304. [PMID: 28245155 DOI: 10.1146/annurev-food-030216-030116] [Citation(s) in RCA: 60] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
A recent ecological study demonstrated a significant association between an increased risk of nonalcoholic liver disease mortality and freshwater cyanobacterial blooms. Moreover, previous epidemiology studies highlighted a relationship between cyanotoxins in drinking water with liver cancer and damage and colorectal cancer. These associations identified cyanobacterial blooms as a global public health and environmental problem, affecting freshwater bodies that are important sources for drinking water, agriculture, and aquafarms. Furthermore, as a result of climate change, it is expected that our freshwater environments will become more favorable for producing harmful blooms that produce various cyanotoxins. Food is an important source of cyanotoxin exposure to humans, but it has been less addressed. This paper synthesizes information from the studies that have investigated cyanotoxins in freshwater and food on a global scale. We also review and summarize the health effects and exposure routes of cyanotoxins and candidates for cyanotoxin treatment methods that can be applied to food.
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Affiliation(s)
- Jiyoung Lee
- Division of Environmental Health Sciences, College of Public Health, The Ohio State University, Columbus, OH 43210; .,Department of Food Science and Technology, The Ohio State University, Columbus, OH 43210; .,Environmental Science Graduate Program, The Ohio State University, Columbus, OH 43210;
| | - Seungjun Lee
- Environmental Science Graduate Program, The Ohio State University, Columbus, OH 43210;
| | - Xuewen Jiang
- Department of Food Science and Technology, The Ohio State University, Columbus, OH 43210;
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Maghsoudi E, Fortin N, Greer C, Maynard C, Pagé A, Duy SV, Sauvé S, Prévost M, Dorner S. Cyanotoxin degradation activity and mlr gene expression profiles of a Sphingopyxis sp. isolated from Lake Champlain, Canada. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2016; 18:1417-1426. [PMID: 27711837 DOI: 10.1039/c6em00001k] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
A bacterium capable of degrading five microcystin (MC) variants, microcystin-LR, YR, LY, LW and LF at an initial total concentration of 50 μg l-1 in less than 16 hours was isolated from Missisquoi Bay, in the south of Quebec, Canada. Phylogenetic analysis of the 16S rRNA gene sequence identified the bacterium as Sphingopyxis sp., designated strain MB-E. It was shown that microcystin biodegradation activity was reduced at acidic and basic pH values. Even though no biodegradation occurred at pH values of 5.05 and 10.23, strain MB-E was able to degrade MCLR and MCYR at pH 9.12 and all five MCs variants tested at pH 6.1. Genomic sequencing revealed that strain MB-E contained the microcystin degrading gene cluster, including the mlrA, mlrB, mlrC and mlrD genes, and transcriptomic analysis demonstrated that all of these genes were induced during the degradation of MCLR alone or in the mixture of all five MCs. This novel transcriptomic analysis showed that the expression of the mlr gene cluster was similar for MCLR alone, or the mixture of MCs, and appeared to be related to the total concentration of substrate. The results suggested that the bacterium used the same pathway for the degradation of all MC variants.
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Affiliation(s)
- Ehsan Maghsoudi
- Polytechnique Montreal, Civil, Mineral and Mining Engineering Department, P.O. Box 6079, Station Centre-Ville, Montreal, Quebec, Canada H3C 3A7.
| | - Nathalie Fortin
- National Research Council Canada, Energy, Mining and Environment, 6100 Royalmount Ave., Montreal, QC, Canada H4P 2R2
| | - Charles Greer
- National Research Council Canada, Energy, Mining and Environment, 6100 Royalmount Ave., Montreal, QC, Canada H4P 2R2
| | - Christine Maynard
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore, Ste-Anne-de-Bellevue, QC, Canada
| | - Antoine Pagé
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore, Ste-Anne-de-Bellevue, QC, Canada
| | - Sung Vo Duy
- Department of Chemistry, Université de Montreal, C.P. 6128, Centre-Ville, Montreal, QC, Canada H3C 3J7
| | - Sébastien Sauvé
- Department of Chemistry, Université de Montreal, C.P. 6128, Centre-Ville, Montreal, QC, Canada H3C 3J7
| | - Michèle Prévost
- Polytechnique Montreal, Civil, Mineral and Mining Engineering Department, P.O. Box 6079, Station Centre-Ville, Montreal, Quebec, Canada H3C 3A7.
| | - Sarah Dorner
- Polytechnique Montreal, Civil, Mineral and Mining Engineering Department, P.O. Box 6079, Station Centre-Ville, Montreal, Quebec, Canada H3C 3A7.
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49
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Lezcano MÁ, Morón-López J, Agha R, López-Heras I, Nozal L, Quesada A, El-Shehawy R. Presence or Absence of mlr Genes and Nutrient Concentrations Co-Determine the Microcystin Biodegradation Efficiency of a Natural Bacterial Community. Toxins (Basel) 2016; 8:toxins8110318. [PMID: 27827872 PMCID: PMC5127115 DOI: 10.3390/toxins8110318] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2016] [Revised: 10/26/2016] [Accepted: 10/28/2016] [Indexed: 11/16/2022] Open
Abstract
The microcystin biodegradation potential of a natural bacterial community coexisting with a toxic cyanobacterial bloom was investigated in a water reservoir from central Spain. The biodegradation capacity was confirmed in all samples during the bloom and an increase of mlrA gene copies was found with increasing microcystin concentrations. Among the 24 microcystin degrading strains isolated from the bacterial community, only 28% showed presence of mlrA gene, strongly supporting the existence and abundance of alternative microcystin degradation pathways in nature. In vitro degradation assays with both mlr+ and mlr− bacterial genotypes (with presence and absence of the complete mlr gene cluster, respectively) were performed with four isolated strains (Sphingopyxis sp. IM-1, IM-2 and IM-3; Paucibacter toxinivorans IM-4) and two bacterial degraders from the culture collection (Sphingosinicella microcystinivorans Y2; Paucibacter toxinivorans 2C20). Differences in microcystin degradation efficiencies between genotypes were found under different total organic carbon and total nitrogen concentrations. While mlr+ strains significantly improved microcystin degradation rates when exposed to other carbon and nitrogen sources, mlr− strains showed lower degradation efficiencies. This suggests that the presence of alternative carbon and nitrogen sources possibly competes with microcystins and impairs putative non-mlr microcystin degradation pathways. Considering the abundance of the mlr− bacterial population and the increasing frequency of eutrophic conditions in aquatic systems, further research on the diversity of this population and the characterization and conditions affecting non-mlr degradation pathways deserves special attention.
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Affiliation(s)
| | | | - Ramsy Agha
- Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin 12587, Germany.
| | | | - Leonor Nozal
- IMDEA Water Institute, Alcalá de Henares, Madrid 28805, Spain.
| | - Antonio Quesada
- Departamento de Biología, Universidad Autónoma de Madrid, Cantoblanco 28049, Spain.
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50
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Papadimitriou T, Kormas K, Dionysiou DD, Laspidou C. Using H 2O 2 treatments for the degradation of cyanobacteria and microcystins in a shallow hypertrophic reservoir. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:21523-21535. [PMID: 27515523 DOI: 10.1007/s11356-016-7418-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2016] [Accepted: 08/04/2016] [Indexed: 06/06/2023]
Abstract
Toxins produced by cyanobacteria in freshwater ecosystems constitute a serious health risk worldwide for humans that may use the affected water bodies for recreation, drinking water, and/or irrigation. Cyanotoxins have also been deemed responsible for loss of animal life in many places around the world. This paper explores the effect of H2O2 treatments on cyanobacteria and microcystins in natural samples from a hypertrophic reservoir in microcosm experiments. According to the results, cyanobacteria were more easily affected by H2O2 than by other phytoplanktonic groups. This was shown by the increase in the fractions of chlorophyll-a (a proxy for phytoplankton) and chlorophyll-b (a proxy for green algae) over total phytoplankton pigments and the decrease in the fraction of phycocyanin (a proxy for cyanobacteria) over total phytoplankton pigments. Thus, while an overall increase in phytoplankton occurred, a preferential decrease in cyanobacteria was observed with H2O2 treatments over a few hours. Moreover, significant degradation of total microcystins was observed under H2O2 treatments, while more microcystins were degraded when UV radiation was used in combination with H2O2. The combination of H2O2 and ultraviolet (UV) treatment in natural samples resulted in total microcystin concentrations that were below the World Health Organization limit for safe consumption of drinking water of 1 μg/L. Although further investigation into the effects of H2O2 addition on ecosystem function must be performed, our results show that the application of H2O2 could be a promising method for the degradation of microcystins in reservoirs and the reduction of public health risks related to the occurrence of harmful algal blooms.
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Affiliation(s)
| | - Konstantinos Kormas
- Department of Ichthyology and Aquatic Environment, University of Thessaly, Volos, Greece
| | - Dionysios D Dionysiou
- Environmental Engineering and Science Program, Department of Biomedical, Chemical and Environmental Engineering, University of Cincinnati, Cincinnati, OH, USA
| | - Chrysi Laspidou
- Department of Civil Engineering, University of Thessaly, Volos, Greece.
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