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Mazzoni C, Piacentini A, Di Bella L, Aldega L, Perinelli C, Conte AM, Ingrassia M, Ruspandini T, Bonfanti A, Caraba B, Falese FG, Chiocci FL, Fazi S. Carbonate precipitation and phosphate trapping by microbialite isolates from an alkaline insular lake (Bagno dell'Acqua, Pantelleria Island, Italy). Front Microbiol 2024; 15:1391968. [PMID: 38841062 PMCID: PMC11150794 DOI: 10.3389/fmicb.2024.1391968] [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: 02/26/2024] [Accepted: 05/08/2024] [Indexed: 06/07/2024] Open
Abstract
The Bagno dell'Acqua lake is characterized by CO2 emissions, alkaline waters (pH = 9) and Eh values which indicate strongly oxidizing conditions. A typical feature of the lake is the presence of actively growing microbialites rich in calcium carbonates and silica precipitates. Mineralogy, petrography and morphology analyses of the microbialites were coupled with the analysis of the microbial community, combining molecular and cultivation approaches. The DNA sequencing revealed distinct patterns of microbial diversity, showing pronounced differences between emerged and submerged microbialite, with the upper layer of emerged samples exhibiting the most distinctive composition, both in terms of prokaryotes and eukaryotes. In particular, the most representative phyla in the microbial community were Proteobacteria, Actinobacteriota, and Bacteroidota, while Cyanobacteria were present only with an average of 5%, with the highest concentration in the submerged intermediate layer (12%). The role of microorganisms in carbonate mineral formation was clearly demonstrated as most of the isolates were able to precipitate calcium carbonate and five of them were characterized at molecular level. Interestingly, when microbial isolates were cultivated only in filtered water, the precipitation of hazenite was observed (up to 85%), opening new prospective in P (phosphate) recovery from P depleted environments.
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Affiliation(s)
- Cristina Mazzoni
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, Rome, Italy
- Water Research Institute, National Research Council (IRSA-CNR), Montelibretti, Rome, Italy
| | - Agnese Piacentini
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, Rome, Italy
- Water Research Institute, National Research Council (IRSA-CNR), Montelibretti, Rome, Italy
| | - Letizia Di Bella
- Department of Earth Sciences, Sapienza University of Rome, Rome, Italy
| | - Luca Aldega
- Department of Earth Sciences, Sapienza University of Rome, Rome, Italy
| | | | - Aida Maria Conte
- Institute of Environmental Geology and Geoengineering, National Research Council (IGAG-CNR), Department of Earth Sciences, Sapienza University of Rome, Rome, Italy
| | - Michela Ingrassia
- Institute of Environmental Geology and Geoengineering, National Research Council (IGAG-CNR), Department of Earth Sciences, Sapienza University of Rome, Rome, Italy
| | - Tania Ruspandini
- Department of Earth Sciences, Sapienza University of Rome, Rome, Italy
| | - Andrea Bonfanti
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, Rome, Italy
| | - Benedetta Caraba
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, Rome, Italy
| | - Francesco Giuseppe Falese
- Institute of Environmental Geology and Geoengineering, National Research Council (IGAG-CNR), Department of Earth Sciences, Sapienza University of Rome, Rome, Italy
| | | | - Stefano Fazi
- Department of Biology and Biotechnology “C. Darwin”, Sapienza University of Rome, Rome, Italy
- Water Research Institute, National Research Council (IRSA-CNR), Montelibretti, Rome, Italy
- National Biodiversity Future Center (NBFC), Palermo, Italy
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2
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Mao Y, Lin T, Li H, He R, Ye K, Yu W, He Q. Aerobic methane production by phytoplankton as an important methane source of aquatic ecosystems: Reconsidering the global methane budget. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 907:167864. [PMID: 37866611 DOI: 10.1016/j.scitotenv.2023.167864] [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: 08/10/2023] [Revised: 10/09/2023] [Accepted: 10/13/2023] [Indexed: 10/24/2023]
Abstract
Biological methane, a major source of global methane budget, is traditionally thought to be produced in anaerobic environments. However, the recent reports about methane supersaturation occurring in oxygenated water layer, termed as "methane paradox", have challenged this prevailing paradigm. Significantly, growing evidence has indicated that phytoplankton including prokaryotic cyanobacteria and eukaryotic algae are capable of generating methane under aerobic conditions. In this regard, a systematic review of aerobic methane production by phytoplankton is expected to arouse the public attention, contributing to the understanding of methane paradox. Here, we comprehensively summarize the widespread phenomena of methane supersaturation in oxic layers. The remarkable correlation relationships between methane concentration and several key indicators (depth, chlorophyll a level and organic sulfide concentration) indicate the significance of phytoplankton in in-situ methane accumulation. Subsequently, four mechanisms of aerobic methane production by phytoplankton are illustrated in detail, including photosynthesis-driven metabolism, reactive oxygen species (ROS)-driven demethylation of methyl donors, methanogenesis catalyzed by nitrogenase and demethylation of phosphonates catalyzed by CP lyase. The first two pathways occur in various phytoplankton, while the latter two have been specially discovered in cyanobacteria. Additionally, the effects of four crucial factors on aerobic methane production by phytoplankton are also discussed, including phytoplankton species, light, temperature and crucial nutrients. Finally, the measures to control global methane emissions from phytoplankton, the precise intracellular mechanisms of methane production and a more complete global methane budget model are definitely required in the future research on methane production by phytoplankton. This review would provide guidance for future studies of aerobic methane production by phytoplankton and emphasize the potential contribution of aquatic ecosystems to global methane budget.
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Affiliation(s)
- Yufeng Mao
- Key Laboratory of Eco-Environment of Three Gorges Region, Ministry of Education, Chongqing University, Chongqing 400044, China; Key Laboratory of Hydraulic and Waterway Engineering, Ministry of Education, Chongqing Jiaotong University, Chongqing 400074, China; Lingzhi Environmental Protection Co., Ltd, Wuxi 214200, China
| | - Tong Lin
- Key Laboratory of Eco-Environment of Three Gorges Region, Ministry of Education, Chongqing University, Chongqing 400044, China
| | - Hong Li
- Key Laboratory of Eco-Environment of Three Gorges Region, Ministry of Education, Chongqing University, Chongqing 400044, China
| | - Ruixu He
- Key Laboratory of Hydraulic and Waterway Engineering, Ministry of Education, Chongqing Jiaotong University, Chongqing 400074, China
| | - Kailai Ye
- Key Laboratory of Hydraulic and Waterway Engineering, Ministry of Education, Chongqing Jiaotong University, Chongqing 400074, China
| | - Weiwei Yu
- Key Laboratory of Hydraulic and Waterway Engineering, Ministry of Education, Chongqing Jiaotong University, Chongqing 400074, China
| | - Qiang He
- Key Laboratory of Eco-Environment of Three Gorges Region, Ministry of Education, Chongqing University, Chongqing 400044, China.
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3
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Carvalho CR, Souza BCE, Bieluczyk W, Feitosa YB, Delbaje E, Camargo PB, Tsai SM, Fiore MF. Phosphonate consumers potentially contributing to methane production in Brazilian soda lakes. Extremophiles 2023; 28:4. [PMID: 37987855 DOI: 10.1007/s00792-023-01318-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Accepted: 09/26/2023] [Indexed: 11/22/2023]
Abstract
Oxic methane production (OMP) has been reported to significantly contribute to methane emissions from oxic surface waters. Demethylation of organic compounds, photosynthesis-associated methane production, and (bacterio)chlorophyll reduction activity are some of the investigated mechanisms as potential OMP sources related to photosynthetic organisms. Recently, cyanobacteria have often been correlated with methane accumulation and emission in freshwater, marine, and saline systems. The Brazilian Pantanal is the world's largest wetland system, with approximately 10,000 shallow lakes, most of which are highly alkaline and saline extreme environments. We initiated this study with an overall investigation using genetic markers, from which we explored metagenomic and limnological data from the Pantanal soda for five potential OMP pathways. Our results showed a strong positive correlation between dissolved methane concentrations and bloom events. Metagenomic data and nutrients, mainly orthophosphate, nitrogen, iron, and methane concentrations, suggest that the organic phosphorous demethylation pathway has the most potential to drive OMP in lakes with blooms. A specialized bacterial community was identified, including the Cyanobacteria Raphidiopsis, although the bloom does not contain the genes to carry out this process. These data showed enough evidence to infer the occurrence of an OMP pathway at Pantanal soda lakes, including the microbial sources and their relation to the cyanobacterial blooms.
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Affiliation(s)
- C R Carvalho
- College of Agriculture 'Luiz de Queiroz', University of São Paulo, Piracicaba, São Paulo, Brazil
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - B C E Souza
- Department of Biological Sciences, State University of Feira de Santana, Feira de Santana, Bahia, Brazil
| | - W Bieluczyk
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - Y B Feitosa
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - E Delbaje
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - P B Camargo
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - S M Tsai
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - Marli F Fiore
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, São Paulo, Brazil.
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4
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Wang T, Zhumabieke M, Zhang N, Liu C, Zhong J, Liao Q, Zhang L. Variable promotion of algae and macrophyte organic matter on methanogenesis in anaerobic lake sediment. ENVIRONMENTAL RESEARCH 2023; 237:116922. [PMID: 37598844 DOI: 10.1016/j.envres.2023.116922] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Revised: 07/29/2023] [Accepted: 08/17/2023] [Indexed: 08/22/2023]
Abstract
Shallow lakes are an important natural source of atmospheric methane (CH4), and the input of autochthonous organic matter (OM) into their sediments encourages methanogenesis. Although algal- and macrophytic-originated OM in these lakes are expected to have different impacts on methanogenesis and methanogenic archaeal communities in lake sediments owing to their various properties, their specific influence and role in sediment remain unclear. In this study, a 148-day incubation was carried out by adding algal- and macrophytic-OM to the sediments of shallow eutrophic Lake Chaohu and Lake Taihu in China. CH4 was periodically monitored, while the methanogens were examined via qPCR and high-throughput sequencing at the end of incubation. Algal-OM stimulated CH4 production more than macrophytic-OM in both sediments, with the rates initially increasing and then decreasing before reaching a relative constant. Macrophytic-OM promoted CH4 production to a comparable extent in both lakes, while algal-OM promoted greater CH4 in Lake Chaohu than in Lake Taihu. However, algal-OM did not significantly increase mcrA gene copies, while macrophytic-OM did by 17.0-20.1-fold. Algal-OM potentially promoted the methylotrophic pathway in Lake Taihu but did not change the methanogenic structure in Lake Chaohu. Comparatively, macrophytic-OM promoted CH4 production mainly by acetoclastic methanogen proliferation in both lakes. More CH4 release with algal-OM compared to macrophytic-OM deserves further attention owing to the prevailing increasing algal blooms and the declining macrophyte population in lakes.
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Affiliation(s)
- Tong Wang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, PR China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Maidina Zhumabieke
- Department of Environmental Science, China Pharmaceutical University, Nanjing, 211198, PR China
| | - Nan Zhang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, PR China; School of Environmental Science and Engineering, Nanjing University of Information Science & Technology, Nanjing, 210044, PR China
| | - Cheng Liu
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, PR China
| | - Jicheng Zhong
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, PR China
| | - Qianjiahua Liao
- Department of Environmental Science, China Pharmaceutical University, Nanjing, 211198, PR China.
| | - Lei Zhang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, PR China.
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5
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Kalamaras SD, Christou ML, Tzenos CA, Vasileiadis S, Karpouzas DG, Kotsopoulos TA. Investigation of the Critical Biomass of Acclimated Microbial Communities to High Ammonia Concentrations for a Successful Bioaugmentation of Biogas Anaerobic Reactors with Ammonia Inhibition. Microorganisms 2023; 11:1710. [PMID: 37512885 PMCID: PMC10386354 DOI: 10.3390/microorganisms11071710] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2023] [Revised: 06/19/2023] [Accepted: 06/27/2023] [Indexed: 07/30/2023] Open
Abstract
This study aimed to investigate the role of the bioaugmented critical biomass that should be injected for successful bioaugmentation for addressing ammonia inhibition in anaerobic reactors used for biogas production. Cattle manure was used as a feedstock for anaerobic digestion (AD). A mixed microbial culture was acclimated to high concentrations of ammonia and used as a bioaugmented culture. Different volumes of bioaugmented culture were injected in batch anaerobic reactors under ammonia toxicity levels i.e., 4 g of NH4+-N L-1. The results showed that injecting a volume equal to 65.62% of the total working reactor volume yielded the best methane production. Specifically, this volume of bioaugmented culture resulted in methane production rates of 196.18 mL g-1 Volatile Solids (VS) and 245.88 mL g-1 VS after 30 and 60 days of AD, respectively. These rates were not significantly different from the control reactors (30d: 205.94 mL CH4 g-1 VS and 60d: 230.26 mL CH4 g-1 VS) operating without ammonia toxicity. Analysis of the microbial community using 16S rRNA gene sequencing revealed the dominance of acetoclastic methanogen members from the genus Methanosaeta in all reactors.
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Affiliation(s)
- Sotirios D Kalamaras
- Department of Hydraulics, Soil Science and Agricultural Engineering, School of Agriculture, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
| | - Maria Lida Christou
- Department of Hydraulics, Soil Science and Agricultural Engineering, School of Agriculture, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
| | - Christos A Tzenos
- Department of Hydraulics, Soil Science and Agricultural Engineering, School of Agriculture, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
| | - Sotirios Vasileiadis
- Department of Biochemistry and Biotechnology, University of Thessaly, 41500 Larissa, Greece
| | - Dimitrios G Karpouzas
- Department of Biochemistry and Biotechnology, University of Thessaly, 41500 Larissa, Greece
| | - Thomas A Kotsopoulos
- Department of Hydraulics, Soil Science and Agricultural Engineering, School of Agriculture, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
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6
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Wang B, Ma B, Stirling E, He Z, Zhang H, Yan Q. Freshwater trophic status mediates microbial community assembly and interdomain network complexity. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 316:120690. [PMID: 36403871 DOI: 10.1016/j.envpol.2022.120690] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 10/18/2022] [Accepted: 11/15/2022] [Indexed: 06/16/2023]
Abstract
Freshwater microorganisms and their interactions are important drivers of nutrient cycling that are in turn affected by nutrient status, causing shifts in microbial community diversity, composition, and interactions. However, the impact of water trophic status on bacterial-archaeal interdomain interactions remains poorly understood. This study focused on the impact of trophic status, as characterized by trophic state index (TSI), on the interdomain interactions of freshwater microbial communities from 45 ponds in Hangzhou. Our results showed that the mesotrophic wetland bordering on lightly eutrophic (Hemu: TSI of 49; lightly eutrophic is defined as 50 ≤ TSI <60) harbored a much more complex bacterial-archaeal interdomain network, which showed significantly (P < 0.05) higher connectivity than the wetlands with lower (TSI of 38) or higher (TSI of 57) trophic levels. Notably, light eutrophication strengthened the network modules' negative associations with organic carbon through some network hubs, which could trigger carbon loss in wetlands. We also detected a non-linear response of interdomain network complexity to the increasing of nutrients with a turning point of approximately TSI 50. Quantitative estimates of community assembly processes and structural equation modelling analysis indicated that chlorophyll-a, total nitrogen, and total phosphorus could regulate interdomain network complexity (50% of the variation explanation rate) by driving microbial community assembly. This study demonstrates that microbial interdomain network complexity could be used as a bioindicator for ecological changes, which would helpful for improving ecological assessment of the freshwater eutrophication.
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Affiliation(s)
- Binhao Wang
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China; ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, 310058, China
| | - Bin Ma
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Erinne Stirling
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China; Acid Sulfate Soils Centre, School of Biological Sciences, The University of Adelaide, Adelaide, 5005, Australia
| | - Zhili He
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China; College of Agronomy, Hunan Agricultural University, Changsha, 410128, China
| | - Hangjun Zhang
- College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036, China
| | - Qingyun Yan
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China.
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7
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Jeilu O, Gessesse A, Simachew A, Johansson E, Alexandersson E. Prokaryotic and eukaryotic microbial diversity from three soda lakes in the East African Rift Valley determined by amplicon sequencing. Front Microbiol 2022; 13:999876. [PMID: 36569062 PMCID: PMC9772273 DOI: 10.3389/fmicb.2022.999876] [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: 07/21/2022] [Accepted: 11/11/2022] [Indexed: 12/12/2022] Open
Abstract
Soda lakes are unique poly-extreme environments with high alkalinity and salinity that support diverse microbial communities despite their extreme nature. In this study, prokaryotic and eukaryotic microbial diversity in samples of the three soda lakes, Lake Abijata, Lake Chitu and Lake Shala in the East African Rift Valley, were determined using amplicon sequencing. Culture-independent analysis showed higher diversity of prokaryotic and eukaryotic microbial communities in all three soda lakes than previously reported. A total of 3,603 prokaryotic and 898 eukaryotic operational taxonomic units (OTUs) were found through culture-independent amplicon sequencing, whereas only 134 bacterial OTUs, which correspond to 3%, were obtained by enrichment cultures. This shows that only a fraction of the microorganisms from these habitats can be cultured under laboratory conditions. Of the three soda lakes, samples from Lake Chitu showed the highest prokaryotic diversity, while samples from Lake Shala showed the lowest diversity. Pseudomonadota (Halomonas), Bacillota (Bacillus, Clostridia), Bacteroidota (Bacteroides), Euryarchaeota (Thermoplasmata, Thermococci, Methanomicrobia, Halobacter), and Nanoarchaeota (Woesearchaeia) were the most common prokaryotic microbes in the three soda lakes. A high diversity of eukaryotic organisms were identified, primarily represented by Ascomycota and Basidiomycota. Compared to the other two lakes, a higher number of eukaryotic OTUs were found in Lake Abijata. The present study showed that these unique habitats harbour diverse microbial genetic resources with possible use in biotechnological applications, which should be further investigated by functional metagenomics.
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Affiliation(s)
- Oliyad Jeilu
- Institute of Biotechnology, Addis Ababa University, Addis Ababa, Ethiopia,Department of Plant Breeding, Swedish University of Agricultural Sciences, Lomma, Sweden,*Correspondence: Oliyad Jeilu,
| | - Amare Gessesse
- Institute of Biotechnology, Addis Ababa University, Addis Ababa, Ethiopia,Department of Biological Sciences and Biotechnology, Botswana International University of Science and Technology, Palapye, Botswana
| | - Addis Simachew
- Institute of Biotechnology, Addis Ababa University, Addis Ababa, Ethiopia
| | - Eva Johansson
- Department of Plant Breeding, Swedish University of Agricultural Sciences, Lomma, Sweden
| | - Erik Alexandersson
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Lomma, Sweden
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Thottathil SD, Reis PCJ, Prairie YT. Magnitude and Drivers of Oxic Methane Production in Small Temperate Lakes. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:11041-11050. [PMID: 35820110 DOI: 10.1021/acs.est.2c01730] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Methanogenesis is traditionally considered as a strictly anaerobic process. Recent evidence suggests instead that the ubiquitous methane (CH4) oversaturation found in freshwater lakes is sustained, at least partially, by methanogenesis in oxic conditions. Although this paradigm shift is rapidly gaining acceptance, the magnitude and regulation of oxic CH4 production (OMP) have remained ambiguous. Based on the summer CH4 mass balance in the surface mixed layer (SML) of five small temperate lakes (surface area, SA, of 0.008-0.44 km2), we show that OMP (range of 0.01 ± 0.01 to 0.52 ± 0.04 μmol L-1 day-1) is linked to the concentrations of chlorophyll-a, total phosphorus, and dissolved organic carbon. The stable carbon isotopic mass balance of CH4 (δ13C-CH4) indicates direct photoautotrophic release as the most likely source of oxic CH4. Furthermore, we show that the oxic CH4 contribution to the SML CH4 saturation and emission is an inverse function of the ratio of the sediment area to the SML volume in lakes as small as 0.06 km2. Given that global lake CH4 emissions are dominated by small lakes (SA of <1 km2), the large contribution of oxic CH4 production (up to 76%) observed in this study suggests that OMP can contribute significantly to global CH4 emissions.
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Affiliation(s)
- Shoji D Thottathil
- Department of Environmental Science, SRM University AP, Amaravati, Mangalagiri, Andhra Pradesh 522 502, India
| | - Paula C J Reis
- Département des Sciences Biologiques, Groupe de Recherche Interuniversitaire en Limnologie, Université du Québec à Montréal, Montréal, QC H2X 1Y4, Canada
| | - Yves T Prairie
- Département des Sciences Biologiques, Groupe de Recherche Interuniversitaire en Limnologie, Université du Québec à Montréal, Montréal, QC H2X 1Y4, Canada
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9
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Butturini A, Herzsprung P, Lechtenfeld OJ, Alcorlo P, Benaiges-Fernandez R, Berlanga M, Boadella J, Freixinos Campillo Z, Gomez RM, Sanchez-Montoya MM, Urmeneta J, Romaní AM. Origin, accumulation and fate of dissolved organic matter in an extreme hypersaline shallow lake. WATER RESEARCH 2022; 221:118727. [PMID: 35797818 DOI: 10.1016/j.watres.2022.118727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Revised: 05/19/2022] [Accepted: 06/06/2022] [Indexed: 06/15/2023]
Abstract
Hypersaline endorheic aquatic systems (H-SEAS) are lakes/shallow playas in arid and semiarid regions that undergo extreme oscillations in salinity and severe drought episodes. Although their geochemical uniqueness and microbiome have been deeply studied, very little is known about the availability and quality of dissolved organic matter (DOM) in the water column.. A H-SEAS from the Monegros Desert (Zaragoza, NE Spain) was studied during a hydrological wetting-drying-rewetting cycle. DOM analysis included: (i) a dissolved organic carbon (DOC) mass balance; (ii) spectroscopy (absorbance and fluorescence) and (iii) a molecular characterization with Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR-MS). The studied system stored a large amount of DOC and under the highest salinity conditions, salt-saturated waters (i.e., brines with salinity > 30%) accumulated a disproportionate quantity of DOC, indicating a significant in-situ net DOM production. Simultaneously, during the hydrological transition from wet to dry, the DOM pool showed strong alterations of it molecular composition. Spectroscopic methods indicated that aromatic and degraded DOM was rapidly replaced by fresher, relatively small, microbial-derived moieties with a large C/N ratio. FT-ICR-MS highlighted the accumulation of small, saturated and oxidized molecules (molecular O/C > 0.5), with a remarkable increase in the relative contribution of highly oxygenated (molecular O/C>0.9) compounds and a decrease of aliphatic and carboxyl-rich alicyclic moleculesThese results indicated that H-SEAS are extremely active in accumulating and processing DOM, with the notable release of organic solutes probably originated from decaying microplankton under large osmotic stress at extremely high salinities.
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Affiliation(s)
- A Butturini
- Department de Biologia Evolutiva, Ecologia y Ciencies Ambientals, Universitat de Barcelona, Diagonal 643, Barcelona, Catalonia 08028, Spain.
| | - P Herzsprung
- Department of Lake Research, Helmholtz Centre for Environmental Research (UZF), Magdeburg, Germany
| | - O J Lechtenfeld
- Department of Analytical Chemistry, Research Group BioGeoOmics, Helmholtz Centre for Environmental Research (UZF), Leipzig, Germany
| | - P Alcorlo
- Departamento de Ecología, Centro de Investigación en Biodiversidad y Cambio Global (CIBC), Universidad Autónoma de Madrid, Madrid, Spain
| | - R Benaiges-Fernandez
- Mineralogia Aplicada, Geoquímica i Geomicrobiologia (MAiMA), Departament de Mineralogia, Petrologia i Geologia Aplicada, Institut de Recerca de l'Aigua (IdRA), Universitat de Barcelona (UB), Barcelona, Spain; Department de Genética, Microbiología i Estadística, Universitat de Barcelona, Diagonal 643, Barcelona, Catalonia 08028, Spain
| | - M Berlanga
- Departament de Biologia, Sanitat i Medi Ambient, Universitat de Barcelona, Diagonal 643, Barcelona, Catalonia 08028, Spain
| | - J Boadella
- Institute of Aquatic Ecology, University of Girona, Spain
| | - Z Freixinos Campillo
- Department of Ecology and Hydrology, Faculty of Biology, University of Murcia, Campus de Espinardo, Murcia 30100, Spain
| | - R M Gomez
- Department of Ecology and Hydrology, Faculty of Biology, University of Murcia, Campus de Espinardo, Murcia 30100, Spain
| | - M M Sanchez-Montoya
- Department of Ecology and Hydrology, Faculty of Biology, University of Murcia, Campus de Espinardo, Murcia 30100, Spain; Department of Biodiversity, Ecology, and Evolution, Faculty of Biological Sciences, Complutense University of Madrid, Calle Jose Antonio Novais, 12, Madrid 28040, Spain
| | - J Urmeneta
- Department de Genética, Microbiología i Estadística, Universitat de Barcelona, Diagonal 643, Barcelona, Catalonia 08028, Spain; Biodiversity Research Institute, University of Barcelona, Spain
| | - A M Romaní
- Institute of Aquatic Ecology, University of Girona, Spain
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Pawlowski J, Bruce K, Panksep K, Aguirre FI, Amalfitano S, Apothéloz-Perret-Gentil L, Baussant T, Bouchez A, Carugati L, Cermakova K, Cordier T, Corinaldesi C, Costa FO, Danovaro R, Dell'Anno A, Duarte S, Eisendle U, Ferrari BJD, Frontalini F, Frühe L, Haegerbaeumer A, Kisand V, Krolicka A, Lanzén A, Leese F, Lejzerowicz F, Lyautey E, Maček I, Sagova-Marečková M, Pearman JK, Pochon X, Stoeck T, Vivien R, Weigand A, Fazi S. Environmental DNA metabarcoding for benthic monitoring: A review of sediment sampling and DNA extraction methods. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 818:151783. [PMID: 34801504 DOI: 10.1016/j.scitotenv.2021.151783] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Revised: 11/06/2021] [Accepted: 11/14/2021] [Indexed: 06/13/2023]
Abstract
Environmental DNA (eDNA) metabarcoding (parallel sequencing of DNA/RNA for identification of whole communities within a targeted group) is revolutionizing the field of aquatic biomonitoring. To date, most metabarcoding studies aiming to assess the ecological status of aquatic ecosystems have focused on water eDNA and macroinvertebrate bulk samples. However, the eDNA metabarcoding has also been applied to soft sediment samples, mainly for assessing microbial or meiofaunal biota. Compared to classical methodologies based on manual sorting and morphological identification of benthic taxa, eDNA metabarcoding offers potentially important advantages for assessing the environmental quality of sediments. The methods and protocols utilized for sediment eDNA metabarcoding can vary considerably among studies, and standardization efforts are needed to improve their robustness, comparability and use within regulatory frameworks. Here, we review the available information on eDNA metabarcoding applied to sediment samples, with a focus on sampling, preservation, and DNA extraction steps. We discuss challenges specific to sediment eDNA analysis, including the variety of different sources and states of eDNA and its persistence in the sediment. This paper aims to identify good-practice strategies and facilitate method harmonization for routine use of sediment eDNA in future benthic monitoring.
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Affiliation(s)
- J Pawlowski
- Department of Genetics and Evolution, University of Geneva, Geneva, Switzerland; Institute of Oceanology, Polish Academy of Sciences, 81-712 Sopot, Poland; ID-Gene Ecodiagnostics, 1202 Geneva, Switzerland
| | - K Bruce
- NatureMetrics Ltd, CABI Site, Bakeham Lane, Egham TW20 9TY, UK
| | - K Panksep
- Institute of Technology, University of Tartu, Tartu 50411, Estonia; Chair of Hydrobiology and Fishery, Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Tartu, Estonia; Chair of Aquaculture, Institute of Veterinary Medicine and Animal Sciences, Estonian University of Life Sciences, Estonia
| | - F I Aguirre
- Water Research Institute, National Research Council of Italy (IRSA-CNR), Monterotondo, Rome, Italy
| | - S Amalfitano
- Water Research Institute, National Research Council of Italy (IRSA-CNR), Monterotondo, Rome, Italy
| | - L Apothéloz-Perret-Gentil
- Department of Genetics and Evolution, University of Geneva, Geneva, Switzerland; ID-Gene Ecodiagnostics, 1202 Geneva, Switzerland
| | - T Baussant
- Norwegian Research Center AS, NORCE Environment, Marine Ecology Group, Mekjarvik 12, 4070 Randaberg, Norway
| | - A Bouchez
- INRAE, CARRTEL, 74200 Thonon-les-Bains, France
| | - L Carugati
- Department of Life and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche, Ancona 60131, Italy
| | - K Cermakova
- ID-Gene Ecodiagnostics, 1202 Geneva, Switzerland
| | - T Cordier
- Department of Genetics and Evolution, University of Geneva, Geneva, Switzerland; NORCE Climate, NORCE Norwegian Research Centre AS, Bjerknes Centre for Climate Research, Jahnebakken 5, 5007 Bergen, Norway
| | - C Corinaldesi
- Department of Materials, Environmental Sciences and Urban Planning, Polytechnic University of Marche, Via Brecce Bianche, Ancona 60131, Italy
| | - F O Costa
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal; Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal
| | - R Danovaro
- Department of Life and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche, Ancona 60131, Italy
| | - A Dell'Anno
- Department of Life and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche, Ancona 60131, Italy
| | - S Duarte
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal; Institute of Science and Innovation for Bio-Sustainability (IB-S), University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal
| | - U Eisendle
- University of Salzburg, Dept. of Biosciences, 5020 Salzburg, Austria
| | - B J D Ferrari
- Swiss Centre for Applied Ecotoxicology (Ecotox Centre), EPFL ENAC IIE-GE, 1015 Lausanne, Switzerland
| | - F Frontalini
- Department of Pure and Applied Sciences, Urbino University, Urbino, Italy
| | - L Frühe
- Technische Universität Kaiserslautern, Ecology Group, D-67663 Kaiserslautern, Germany
| | - A Haegerbaeumer
- Bielefeld University, Animal Ecology, 33615 Bielefeld, Germany
| | - V Kisand
- Institute of Technology, University of Tartu, Tartu 50411, Estonia
| | - A Krolicka
- Norwegian Research Center AS, NORCE Environment, Marine Ecology Group, Mekjarvik 12, 4070 Randaberg, Norway
| | - A Lanzén
- AZTI, Marine Research, Basque Research and Technology Alliance (BRTA), Pasaia, Gipuzkoa, Spain; IKERBASQUE, Basque Foundation for Science, Bilbao, Bizkaia, Spain
| | - F Leese
- University of Duisburg-Essen, Faculty of Biology, Aquatic Ecosystem Research, Germany
| | - F Lejzerowicz
- Center for Microbiome Innovation, University of California, San Diego, La Jolla, CA, USA
| | - E Lyautey
- Univ. Savoie Mont Blanc, INRAE, CARRTEL, 74200 Thonon-les-Bains, France
| | - I Maček
- Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, 1000 Ljubljana, Slovenia; Faculty of Mathematics, Natural Sciences and Information Technologies (FAMNIT), University of Primorska, Glagoljaška 8, 6000 Koper, Slovenia
| | - M Sagova-Marečková
- Czech University of Life Sciences, Dept. of Microbiology, Nutrition and Dietetics, Prague, Czech Republic
| | - J K Pearman
- Coastal and Freshwater Group, Cawthron Institute, Private Bag 2, Nelson 7042, New Zealand
| | - X Pochon
- Coastal and Freshwater Group, Cawthron Institute, Private Bag 2, Nelson 7042, New Zealand; Institute of Marine Science, University of Auckland, Warkworth 0941, New Zealand
| | - T Stoeck
- Technische Universität Kaiserslautern, Ecology Group, D-67663 Kaiserslautern, Germany
| | - R Vivien
- Swiss Centre for Applied Ecotoxicology (Ecotox Centre), EPFL ENAC IIE-GE, 1015 Lausanne, Switzerland
| | - A Weigand
- National Museum of Natural History Luxembourg, 25 Rue Münster, L-2160 Luxembourg, Luxembourg
| | - S Fazi
- Water Research Institute, National Research Council of Italy (IRSA-CNR), Monterotondo, Rome, Italy.
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Water Quality Chl-a Inversion Based on Spatio-Temporal Fusion and Convolutional Neural Network. REMOTE SENSING 2022. [DOI: 10.3390/rs14051267] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
The combination of remote sensing technology and traditional field sampling provides a convenient way to monitor inland water. However, limited by the resolution of remote sensing images and cloud contamination, the current water quality inversion products do not provide both high temporal resolution and high spatial resolution. By using the spatio-temporal fusion (STF) method, high spatial resolution and temporal fusion images were generated with Landsat, Sentinel-2, and GaoFen-2 data. Then, a Chl-a inversion model was designed based on a convolutional neural network (CNN) with the structure of 4-(136-236-340)-1-1. Finally, the results of the Chl-a concentrations were corrected using a pixel correction algorithm. The images generated from STF can maintain the spectral characteristics of the low-resolution images with the R2 between 0.7 and 0.9. The Chl-a inversion results based on the spatio-temporal fused images and CNN were verified with measured data (R2 = 0.803), and then the results were improved (R2 = 0.879) after further combining them with the pixel correction algorithm. The correlation R2 between the Chl-a results of GF2-like and Sentinel-2 were both greater than 0.8. The differences in the spatial distribution of Chl-a concentrations in the BYD lake gradually increased from July to August. Remote sensing water quality inversion based on STF and CNN can effectively achieve high frequency in time and fine resolution in space, which provide a stronger scientific basis for rapid diagnosis of eutrophication in inland lakes.
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