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The potential of mineral weathering of halophilic-endophytic bacteria isolated from Suaeda salsa and Spartina anglica. Arch Microbiol 2022; 204:561. [PMID: 35978053 PMCID: PMC9385829 DOI: 10.1007/s00203-022-03129-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Revised: 06/02/2022] [Accepted: 06/13/2022] [Indexed: 11/02/2022]
Abstract
Bacteria have the abilities of salt tolerant, mineral weathering and plant growth promoting can promote the growth of plants in saline lands. However, few reports of the mineral weathering capacity of halophilic-endophytic bacteria, raising the question of whether the halophilic-endophytic weathering bacteria are fundamentally distinct from those in plants communities. In this study, we isolated and characterized halophilic bacterial strains from the roots and leaves of Suaeda salsa and Spartina anglica with respect to their mineral weathering pattern, role in the promoting plant growth, community structure, and their changes in these two plants. Using improved Gibbson medium, we obtained 156 halophilic bacterial strains, among which 92 and 64 strains were isolated from the S. salsa and S. anglica samples, respectively. The rock weathering patterns of the isolates were characterized using batch cultures that measure the quantity of Si, Al, K, and Fe released from crystal biotite under aerobic conditions. Significantly, the biomass and capacity of the mineral weathering of the halophilic-endophytic bacteria were different in the plants. The abundance of the halophilic-endophytic bacterials in the Suaeda salsa was significantly greater than Spartina anglica, whereas the mineral weathering bacterial in the Suaeda salsa was similar to the Spartina anglica. Furthermore, the proportion of plant growth-promoting bacteria in the Suaeda salsa was higher than Spartina anglica. Phylogenetic analyses show that the weathered minerals were inhabited by specific functional groups of bacteria (Halomonas, Acinetobacter, Burkholderia, Alcaligenes, Sphingobium, Arthrobacter, Chryseobacterium, Paenibacillus, Microbacterium, Ensifer, Ralstonia and Enterobacter) that contribute to the mineral weathering. The changes in halophilic endophytes weathering communities between the two plants were attributable not only to major bacterial groups but also to a change in the minor population structure.
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Santos VHJMD, Engelmann PDM, Marconatto L, Borge LGDA, Palhano PDL, Augustin AH, Rodrigues LF, Ketzer JMM, Giongo A. Exploratory analysis of the microbial community profile of the municipal solid waste leachate treatment system: A case study. WASTE MANAGEMENT (NEW YORK, N.Y.) 2022; 141:125-135. [PMID: 35114563 DOI: 10.1016/j.wasman.2022.01.014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2021] [Revised: 12/11/2021] [Accepted: 01/13/2022] [Indexed: 06/14/2023]
Abstract
Studies on the degradation dynamics of landfill leachate indicate that the microbial community profile is a valuable and sensitive tool for landfill monitoring programs. Although knowledge about the microbial community can improve the efficiency of leachate treatment systems, little is known about the microbial profile changes that occur throughout the leachate attenuation process. In the present work, an exploratory analysis of the microbial community profile of the MSW leachate treatment system in the municipality of Osório (Brazil) was conducted. In this way, a comprehensive analysis of chemical parameters, isotopic signature and microbial profile data were applied to monitor the changes in the structure of the microbial community throughout the leachate attenuation process and to describe the relationship between the microbial community structure and the attenuation of chemical and isotopic parameters. From data analysis, it was possible to assess the microbial community structure and relate it to the attenuation of chemical and isotopic parameters. Based on massive parallel 16S rRNA gene sequencing, it was possible to observe that each leachate treatment unit has a specific microbial consortium, reflecting the adaptation of different microorganisms to changes in leachate characteristics throughout treatment. From our results, we concluded that the structure of the microbial community is sensitive to the leachate composition and can be applied to study the municipal solid waste management system.
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Affiliation(s)
- Victor Hugo Jacks Mendes Dos Santos
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil; Pontifical Catholic University of Rio Grande do Sul, PUCRS, Materials Engineering and Technology Graduate Program, 6681 Ipiranga Avenue, Building 32, 90619-900 Porto Alegre, Brazil.
| | - Pâmela de Medeiros Engelmann
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil; Pontifical Catholic University of Rio Grande do Sul, PUCRS, Materials Engineering and Technology Graduate Program, 6681 Ipiranga Avenue, Building 32, 90619-900 Porto Alegre, Brazil.
| | - Letícia Marconatto
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil
| | - Luiz Gustavo Dos Anjos Borge
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil
| | - Pâmela de Lara Palhano
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil
| | - Adolpho Herbert Augustin
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil
| | - Luiz Frederico Rodrigues
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil
| | - João Marcelo Medina Ketzer
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil; Linnaeus University, Department of Biology and Environmental Sciences, 391 82 Kalmar, Sweden
| | - Adriana Giongo
- Pontifical Catholic University of Rio Grande do Sul, PUCRS, Institute of Petroleum and Natural Resources, 6681 Ipiranga Avenue, TECNOPUC, Building 96J, 90619-900 Porto Alegre, Brazil; Regional University of Blumenau, Environmental Engineering Graduate Program, Blumenau, Brazil.
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Mai Z, Ye M, Wang Y, Foong SY, Wang L, Sun F, Cheng H. Characteristics of Microbial Community and Function With the Succession of Mangroves. Front Microbiol 2021; 12:764974. [PMID: 34950118 PMCID: PMC8689078 DOI: 10.3389/fmicb.2021.764974] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Accepted: 11/05/2021] [Indexed: 12/02/2022] Open
Abstract
In this study, 16S high-throughput and metagenomic sequencing analyses were employed to explore the changes in microbial community and function with the succession of mangroves (Sonneratia alba, Rhizophora apiculata, and Bruguiera parviflora) along the Merbok river estuary in Malaysia. The sediments of the three mangroves harbored their own unique dominant microbial taxa, whereas R. apiculata exhibited the highest microbial diversity. In general, Gammaproteobacteria, Actinobacteria, Alphaproteobacteria, Deltaproteobacteria, and Anaerolineae were the dominant microbial classes, but their abundances varied significantly among the three mangroves. Principal coordinates and redundancy analyses revealed that the specificity of the microbial community was highly correlated with mangrove populations and environmental factors. The results further showed that R. apiculata exhibited the highest carbon-related metabolism, coinciding with the highest organic carbon and microbial diversity. In addition, specific microbial taxa, such as Desulfobacterales and Rhizobiales, contributed the highest functional activities related to carbon metabolism, prokaryote carbon fixation, and methane metabolism. The present results provide a comprehensive understanding of the adaptations and functions of microbes in relation to environmental transition and mangrove succession in intertidal regions. High microbial diversity and carbon metabolism in R. apiculata might in turn facilitate and maintain the formation of climax mangroves in the middle region of the Merbok river estuary.
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Affiliation(s)
- Zhimao Mai
- State Key Laboratory of Tropical Oceanography, Key Laboratory of Tropical Marine Bio-Resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, China
| | - Mai Ye
- State Key Laboratory of Tropical Oceanography, Key Laboratory of Tropical Marine Bio-Resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,Guangdong Provincial Academy of Environmental Science, Guangzhou, China
| | - Youshao Wang
- State Key Laboratory of Tropical Oceanography, Key Laboratory of Tropical Marine Bio-Resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, China
| | - Swee Yeok Foong
- School of Biological Sciences, Universiti Sains Malaysia, Penang, Malaysia
| | - Lin Wang
- State Key Laboratory of Tropical Oceanography, Key Laboratory of Tropical Marine Bio-Resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, China
| | - Fulin Sun
- State Key Laboratory of Tropical Oceanography, Key Laboratory of Tropical Marine Bio-Resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, China.,Daya Bay Marine Biology Research Station, Chinese Academy of Sciences, Shenzhen, China
| | - Hao Cheng
- State Key Laboratory of Tropical Oceanography, Key Laboratory of Tropical Marine Bio-Resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, China
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Li R, Wu S, Chai M, Xie S. Denitrifier communities differ in mangrove wetlands across China. MARINE POLLUTION BULLETIN 2020; 155:111160. [PMID: 32469777 DOI: 10.1016/j.marpolbul.2020.111160] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2020] [Revised: 04/04/2020] [Accepted: 04/06/2020] [Indexed: 06/11/2023]
Abstract
To explore the geographical variations in the nosZ-denitrifier community and the underlying influential factors, surface sediments were collected from six mangroves across China, including Yunxiao (YX), Futian (FT), Fangchenggang (FCG), Zhanjiang (ZJ), Dongzhaigang (DZG), and Dongfang (DF). The nosZ gene abundance in mangrove sediments were 1.60 × 105-1.17 × 106 copies g-1 dry sediment, with a higher density in Avicennia marina forest than the mudflat. Denitrifier community richness and diversity increased with decreasing latitude based on the Chao1 richness and Shannon diversity index, with the highest diversity being observed in the DF mangrove. The denitrifier communities could be classified into three groups including south DF mangrove, middle FCG, ZJ and DZG mangroves, and north YX and FT mangroves based on HCA and PCoA analysis. The nosZ OTUs could be divided into seven distinct clusters with different proportionality characteristics among mangroves. Environmental factors (TN, TOC, and salinity) collectively shape denitrifier communities in mangrove sediments.
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Affiliation(s)
- Ruili Li
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, Guangdong, PR China
| | - Sijie Wu
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, Guangdong, PR China
| | - Minwei Chai
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, Guangdong, PR China
| | - Shuguang Xie
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, Guangdong, PR China.
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Microbial ecology and biogeochemistry of hypersaline sediments in Orca Basin. PLoS One 2020; 15:e0231676. [PMID: 32315331 PMCID: PMC7173876 DOI: 10.1371/journal.pone.0231676] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2019] [Accepted: 03/28/2020] [Indexed: 11/21/2022] Open
Abstract
In deep ocean hypersaline basins, the combination of high salinity, unusual ionic composition and anoxic conditions represents significant challenges for microbial life. We used geochemical porewater characterization and DNA sequencing based taxonomic surveys to enable environmental and microbial characterization of anoxic hypersaline sediments and brines in the Orca Basin, the largest brine basin in the Gulf of Mexico. Full-length bacterial 16S rRNA gene clone libraries from hypersaline sediments and the overlying brine were dominated by the uncultured halophilic KB1 lineage, Deltaproteobacteria related to cultured sulfate-reducing halophilic genera, and specific lineages of heterotrophic Bacteroidetes. Archaeal clones were dominated by members of the halophilic methanogen genus Methanohalophilus, and the ammonia-oxidizing Marine Group I (MG-I) within the Thaumarchaeota. Illumina sequencing revealed higher phylum- and subphylum-level complexity, especially in lower-salinity sediments from the Orca Basin slope. Illumina and clone library surveys consistently detected MG-I Thaumarchaeota and halotolerant Deltaproteobacteria in the hypersaline anoxic sediments, but relative abundances of the KB1 lineage differed between the two sequencing methods. The stable isotopic composition of dissolved inorganic carbon and methane in porewater, and sulfate concentrations decreasing downcore indicated methanogenesis and sulfate reduction in the anoxic sediments. While anaerobic microbial processes likely occur at low rates near their maximal salinity thresholds in Orca Basin, long-term accumulation of reaction products leads to high methane concentrations and reducing conditions within the Orca Basin brine and sediments.
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Tong T, Li R, Wu S, Xie S. The distribution of sediment bacterial community in mangroves across China was governed by geographic location and eutrophication. MARINE POLLUTION BULLETIN 2019; 140:198-203. [PMID: 30803635 DOI: 10.1016/j.marpolbul.2019.01.046] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2018] [Revised: 01/22/2019] [Accepted: 01/22/2019] [Indexed: 06/09/2023]
Abstract
Bacterial community is an important component of mangrove ecosystem and can participate in the cycling of elements and promote plant growth. However, the biogeographic distribution pattern of mangrove bacterial community and the associated factors remain poorly known. The present study explored the biogeographic distribution of sediment bacterial community in six mangroves across China. At each mangrove, sediments were collected from both Avicennia marina-planted zones and intertidal mudflats. The community abundance, richness, diversity and structure of sediment bacteria differed greatly among mangrove wetlands. Plantation showed a positive influence on sediment bacterial abundance, richness and diversity. Proteobacteria was the largest bacterial phylum in sediments. The biogeographic distribution of bacterial community in mangroves across China was driven by the variables associated with the wetland trophic status as well as other physicochemical factors (e.g., salinity).
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Affiliation(s)
- Tianli Tong
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China; School of Environment and Energy, Shenzhen Graduate School of Peking University, Shenzhen 518055, Guangdong, China
| | - Ruili Li
- School of Environment and Energy, Shenzhen Graduate School of Peking University, Shenzhen 518055, Guangdong, China.
| | - Sijie Wu
- School of Environment and Energy, Shenzhen Graduate School of Peking University, Shenzhen 518055, Guangdong, China
| | - Shuguang Xie
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China; School of Environment and Energy, Shenzhen Graduate School of Peking University, Shenzhen 518055, Guangdong, China.
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Rzeznik-Orignac J, Puisay A, Derelle E, Peru E, Le Bris N, Galand PE. Co-occurring nematodes and bacteria in submarine canyon sediments. PeerJ 2018; 6:e5396. [PMID: 30083476 PMCID: PMC6074754 DOI: 10.7717/peerj.5396] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Accepted: 07/17/2018] [Indexed: 01/17/2023] Open
Abstract
In submarine canyon sediments, bacteria and nematodes dominate the benthic biomass and play a key role in nutrient cycling and energy transfer. The diversity of these communities remains, however, poorly studied. This work aims at describing the composition of bacteria and nematode communities in the Lacaze-Duthiers submarine canyon in the north-western Mediterranean Sea. We targeted three sediment depths for two consecutive years and investigated the communities using nuclear markers (18S rRNA and 16S rRNA genes). High throughput sequencing combined to maximal information coefficient (MIC) statistical analysis allowed us to identify, for the first time, at the same small scale, the community structures and the co-occurrence of nematodes and bacteria Operational Taxonomic Units across the sediment cores. The associations detected by MIC revealed marked patterns of co-occurrences between the bacteria and nematodes in the sediment of the canyon and could be linked to the ecological requirements of individual bacteria and nematodes. For the bacterial community, Delta- and Gammaproteobacteria sequences were the most abundant, as seen in some canyons earlier, although Acidobacteria, Actinobacteria and Planctomycetes have been prevalent in other canyon sediments. The 20 identified nematode genera included bacteria feeders as Terschellingia, Eubostrichus, Geomonhystera, Desmoscolex and Leptolaimus. The present study provides new data on the diversity of bacterial and nematodes communities in the Lacaze-Duthiers canyon and further highlights the importance of small-scale sampling for an accurate vision of deep-sea communities.
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Affiliation(s)
- Jadwiga Rzeznik-Orignac
- Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, CNRS, Banyuls-sur-Mer, France
| | - Antoine Puisay
- Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, CNRS, Banyuls-sur-Mer, France.,Criobe, Laboratoire d'Excellence "Corail", PSL Research University: EPHE-UPVD-CNRS, Papetoai, French Polynesia
| | - Evelyne Derelle
- Laboratoire de Biologie Intégrative des Organismes Marins, Sorbonne Université, CNRS, Banyuls-sur-Mer, France.,LEMAR UMR 6539 CNRS/UBO/IRD/Ifremer, IUEM, Plouzané, France
| | - Erwan Peru
- Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, CNRS, Banyuls-sur-Mer, France
| | - Nadine Le Bris
- Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, CNRS, Banyuls-sur-Mer, France
| | - Pierre E Galand
- Laboratoire d'Ecogéochimie des Environnements Benthiques, LECOB, Sorbonne Université, CNRS, Banyuls-sur-Mer, France
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